Multiple sequence alignment - TraesCS5D01G394400

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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 TraesCS5D01G394400 chr5D 100.000 3027 0 0 1 3027 462363449 462360423 0.000000e+00 5590.0
1 TraesCS5D01G394400 chr5D 90.287 731 57 11 1074 1800 462092580 462091860 0.000000e+00 944.0
2 TraesCS5D01G394400 chr5D 86.667 495 31 18 531 1000 462093176 462092692 1.610000e-142 516.0
3 TraesCS5D01G394400 chr5D 84.046 351 30 11 47 385 462346335 462345999 6.300000e-82 315.0
4 TraesCS5D01G394400 chr5A 85.060 1419 109 41 483 1834 582609262 582607880 0.000000e+00 1351.0
5 TraesCS5D01G394400 chr5A 85.100 1302 103 52 544 1800 582401802 582400547 0.000000e+00 1245.0
6 TraesCS5D01G394400 chr5A 83.737 578 38 18 1845 2396 582607756 582607209 2.100000e-136 496.0
7 TraesCS5D01G394400 chr5A 83.030 330 31 11 47 362 582551969 582551651 2.970000e-70 276.0
8 TraesCS5D01G394400 chr5A 95.349 43 2 0 438 480 394747988 394748030 5.420000e-08 69.4
9 TraesCS5D01G394400 chr5B 93.298 761 41 6 1073 1832 568734189 568733438 0.000000e+00 1114.0
10 TraesCS5D01G394400 chr5B 89.315 730 57 8 1074 1800 568421246 568420535 0.000000e+00 896.0
11 TraesCS5D01G394400 chr5B 86.345 476 24 13 536 993 568734644 568734192 5.870000e-132 481.0
12 TraesCS5D01G394400 chr5B 82.768 354 36 12 44 385 568515528 568515188 2.950000e-75 292.0
13 TraesCS5D01G394400 chr5B 78.980 490 45 33 1933 2396 568733283 568732826 6.390000e-72 281.0
14 TraesCS5D01G394400 chr5B 85.542 249 22 6 163 397 568737769 568737521 6.480000e-62 248.0
15 TraesCS5D01G394400 chr5B 87.907 215 3 14 812 1019 568421543 568421345 6.530000e-57 231.0
16 TraesCS5D01G394400 chr5B 82.353 255 21 9 558 796 568428302 568428056 1.840000e-47 200.0
17 TraesCS5D01G394400 chr5B 88.652 141 10 3 26 166 568738175 568738041 1.870000e-37 167.0
18 TraesCS5D01G394400 chr5B 95.238 63 3 0 483 545 568735126 568735064 1.920000e-17 100.0
19 TraesCS5D01G394400 chr7D 93.223 664 16 12 2393 3027 573387766 573388429 0.000000e+00 950.0
20 TraesCS5D01G394400 chr7D 91.339 127 8 3 2400 2524 573392307 573392182 1.440000e-38 171.0
21 TraesCS5D01G394400 chr4B 91.167 634 38 15 2397 3025 438342142 438342762 0.000000e+00 845.0
22 TraesCS5D01G394400 chr4B 91.837 49 2 2 431 479 105711520 105711566 1.950000e-07 67.6
23 TraesCS5D01G394400 chr6B 85.446 639 41 28 2397 3027 631132723 631133317 4.290000e-173 617.0
24 TraesCS5D01G394400 chr6B 85.849 212 15 8 2818 3027 32297877 32297679 8.500000e-51 211.0
25 TraesCS5D01G394400 chr6B 97.561 41 1 0 440 480 439066056 439066016 1.510000e-08 71.3
26 TraesCS5D01G394400 chr6B 97.561 41 1 0 440 480 678330100 678330060 1.510000e-08 71.3
27 TraesCS5D01G394400 chrUn 86.818 220 19 2 2818 3027 96187106 96187325 1.400000e-58 237.0
28 TraesCS5D01G394400 chr1D 83.645 214 25 2 2824 3027 132306151 132306364 3.080000e-45 193.0
29 TraesCS5D01G394400 chr3D 97.619 42 1 0 438 479 13489524 13489483 4.190000e-09 73.1
30 TraesCS5D01G394400 chr3D 97.561 41 1 0 439 479 57388012 57387972 1.510000e-08 71.3
31 TraesCS5D01G394400 chr3D 97.561 41 1 0 440 480 605031970 605032010 1.510000e-08 71.3
32 TraesCS5D01G394400 chr4D 91.837 49 2 2 431 479 72677844 72677890 1.950000e-07 67.6
33 TraesCS5D01G394400 chr7A 97.368 38 1 0 448 485 724298137 724298100 7.000000e-07 65.8
34 TraesCS5D01G394400 chr2D 100.000 30 0 0 1480 1509 623330308 623330337 4.220000e-04 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 TraesCS5D01G394400 chr5D 462360423 462363449 3026 True 5590.0 5590 100.000000 1 3027 1 chr5D.!!$R2 3026
1 TraesCS5D01G394400 chr5D 462091860 462093176 1316 True 730.0 944 88.477000 531 1800 2 chr5D.!!$R3 1269
2 TraesCS5D01G394400 chr5A 582400547 582401802 1255 True 1245.0 1245 85.100000 544 1800 1 chr5A.!!$R1 1256
3 TraesCS5D01G394400 chr5A 582607209 582609262 2053 True 923.5 1351 84.398500 483 2396 2 chr5A.!!$R3 1913
4 TraesCS5D01G394400 chr5B 568420535 568421543 1008 True 563.5 896 88.611000 812 1800 2 chr5B.!!$R3 988
5 TraesCS5D01G394400 chr5B 568732826 568738175 5349 True 398.5 1114 88.009167 26 2396 6 chr5B.!!$R4 2370
6 TraesCS5D01G394400 chr7D 573387766 573388429 663 False 950.0 950 93.223000 2393 3027 1 chr7D.!!$F1 634
7 TraesCS5D01G394400 chr4B 438342142 438342762 620 False 845.0 845 91.167000 2397 3025 1 chr4B.!!$F2 628
8 TraesCS5D01G394400 chr6B 631132723 631133317 594 False 617.0 617 85.446000 2397 3027 1 chr6B.!!$F1 630

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
77 78 0.034896 GACCAATCTGACCCACACGT 59.965 55.0 0.00 0.0 0.0 4.49 F
185 461 0.251297 CACCCAAATCAGGCTGGTCA 60.251 55.0 15.73 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1839 5003 0.101759 TCTTCTTATCGTTCCGGCCG 59.898 55.0 21.04 21.04 0.0 6.13 R
2160 5474 0.250901 AGCCATCCTGTGACACCAAC 60.251 55.0 2.45 0.00 0.0 3.77 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
21 22 2.632987 AGGCACGTAAAAAGACACCT 57.367 45.000 0.00 0.00 0.00 4.00
22 23 2.218603 AGGCACGTAAAAAGACACCTG 58.781 47.619 0.00 0.00 0.00 4.00
23 24 2.158871 AGGCACGTAAAAAGACACCTGA 60.159 45.455 0.00 0.00 0.00 3.86
24 25 2.812011 GGCACGTAAAAAGACACCTGAT 59.188 45.455 0.00 0.00 0.00 2.90
25 26 3.252458 GGCACGTAAAAAGACACCTGATT 59.748 43.478 0.00 0.00 0.00 2.57
26 27 4.453136 GGCACGTAAAAAGACACCTGATTA 59.547 41.667 0.00 0.00 0.00 1.75
27 28 5.379827 GCACGTAAAAAGACACCTGATTAC 58.620 41.667 0.00 0.00 0.00 1.89
28 29 5.605327 CACGTAAAAAGACACCTGATTACG 58.395 41.667 12.61 12.61 44.48 3.18
29 30 4.151157 ACGTAAAAAGACACCTGATTACGC 59.849 41.667 13.74 0.00 43.71 4.42
30 31 4.435121 CGTAAAAAGACACCTGATTACGCC 60.435 45.833 0.00 0.00 39.06 5.68
31 32 1.722011 AAAGACACCTGATTACGCCG 58.278 50.000 0.00 0.00 0.00 6.46
32 33 0.892755 AAGACACCTGATTACGCCGA 59.107 50.000 0.00 0.00 0.00 5.54
33 34 0.456221 AGACACCTGATTACGCCGAG 59.544 55.000 0.00 0.00 0.00 4.63
34 35 1.146358 GACACCTGATTACGCCGAGC 61.146 60.000 0.00 0.00 0.00 5.03
35 36 1.141881 CACCTGATTACGCCGAGCT 59.858 57.895 0.00 0.00 0.00 4.09
36 37 0.384309 CACCTGATTACGCCGAGCTA 59.616 55.000 0.00 0.00 0.00 3.32
41 42 3.493272 CTGATTACGCCGAGCTATACTG 58.507 50.000 0.00 0.00 0.00 2.74
42 43 2.251893 GATTACGCCGAGCTATACTGC 58.748 52.381 0.00 0.00 0.00 4.40
55 56 1.068121 ATACTGCCTGCCTTATCCCC 58.932 55.000 0.00 0.00 0.00 4.81
59 60 3.546543 CCTGCCTTATCCCCGCGA 61.547 66.667 8.23 0.00 0.00 5.87
61 62 3.809374 CTGCCTTATCCCCGCGACC 62.809 68.421 8.23 0.00 0.00 4.79
77 78 0.034896 GACCAATCTGACCCACACGT 59.965 55.000 0.00 0.00 0.00 4.49
78 79 1.274167 GACCAATCTGACCCACACGTA 59.726 52.381 0.00 0.00 0.00 3.57
79 80 1.695242 ACCAATCTGACCCACACGTAA 59.305 47.619 0.00 0.00 0.00 3.18
80 81 2.105134 ACCAATCTGACCCACACGTAAA 59.895 45.455 0.00 0.00 0.00 2.01
91 92 3.160545 CCACACGTAAAAACGCATCATC 58.839 45.455 0.00 0.00 36.44 2.92
185 461 0.251297 CACCCAAATCAGGCTGGTCA 60.251 55.000 15.73 0.00 0.00 4.02
188 464 1.064166 CCCAAATCAGGCTGGTCAGAT 60.064 52.381 15.73 0.00 0.00 2.90
232 508 2.662527 GTTTTCCGGACGTGGCGA 60.663 61.111 1.83 0.00 0.00 5.54
237 520 4.477975 CCGGACGTGGCGAGAGAC 62.478 72.222 0.00 0.00 42.12 3.36
246 529 2.179517 GCGAGAGACGACTGGGTG 59.820 66.667 0.00 0.00 45.77 4.61
247 530 2.878429 CGAGAGACGACTGGGTGG 59.122 66.667 0.00 0.00 45.77 4.61
248 531 1.972223 CGAGAGACGACTGGGTGGT 60.972 63.158 0.00 0.00 45.77 4.16
249 532 1.587054 GAGAGACGACTGGGTGGTG 59.413 63.158 0.00 0.00 0.00 4.17
250 533 0.894184 GAGAGACGACTGGGTGGTGA 60.894 60.000 0.00 0.00 0.00 4.02
251 534 0.469331 AGAGACGACTGGGTGGTGAA 60.469 55.000 0.00 0.00 0.00 3.18
255 538 1.071471 CGACTGGGTGGTGAAGCTT 59.929 57.895 0.00 0.00 0.00 3.74
256 539 1.230635 CGACTGGGTGGTGAAGCTTG 61.231 60.000 2.10 0.00 0.00 4.01
257 540 1.518903 GACTGGGTGGTGAAGCTTGC 61.519 60.000 2.10 0.00 0.00 4.01
258 541 2.203480 TGGGTGGTGAAGCTTGCC 60.203 61.111 2.10 6.71 0.00 4.52
311 604 4.377760 ACGGCGGAGAAGGGAGGA 62.378 66.667 13.24 0.00 0.00 3.71
319 612 2.163509 GGAGAAGGGAGGAAAGCAAAC 58.836 52.381 0.00 0.00 0.00 2.93
330 623 3.113322 GGAAAGCAAACGGTTCTTGTTC 58.887 45.455 0.00 0.00 0.00 3.18
332 625 4.035909 GGAAAGCAAACGGTTCTTGTTCTA 59.964 41.667 0.00 0.00 0.00 2.10
378 671 2.028925 GCAAGCAAACGGTTGGGG 59.971 61.111 16.31 0.00 41.23 4.96
387 680 1.201424 AACGGTTGGGGATAGGAGAC 58.799 55.000 0.00 0.00 0.00 3.36
390 683 1.413077 CGGTTGGGGATAGGAGACTTC 59.587 57.143 0.00 0.00 43.67 3.01
391 684 2.765502 GGTTGGGGATAGGAGACTTCT 58.234 52.381 0.00 0.00 43.67 2.85
392 685 3.690438 CGGTTGGGGATAGGAGACTTCTA 60.690 52.174 0.00 0.00 43.67 2.10
393 686 3.642377 GGTTGGGGATAGGAGACTTCTAC 59.358 52.174 0.00 0.00 43.67 2.59
394 687 4.548669 GTTGGGGATAGGAGACTTCTACT 58.451 47.826 0.00 0.00 43.67 2.57
395 688 4.456662 TGGGGATAGGAGACTTCTACTC 57.543 50.000 0.00 0.00 43.67 2.59
409 725 7.863722 AGACTTCTACTCCTGAGTATAAGACA 58.136 38.462 26.36 8.62 44.32 3.41
412 728 8.908903 ACTTCTACTCCTGAGTATAAGACATTG 58.091 37.037 26.36 10.36 44.32 2.82
420 736 8.467598 TCCTGAGTATAAGACATTGTAAGTCAC 58.532 37.037 0.00 0.00 38.46 3.67
448 3034 7.091443 AGTTTTCATTCTTGACTACTACTCCG 58.909 38.462 0.00 0.00 28.82 4.63
450 3036 5.814764 TCATTCTTGACTACTACTCCGTC 57.185 43.478 0.00 0.00 0.00 4.79
451 3037 4.639310 TCATTCTTGACTACTACTCCGTCC 59.361 45.833 0.00 0.00 0.00 4.79
452 3038 2.996631 TCTTGACTACTACTCCGTCCC 58.003 52.381 0.00 0.00 0.00 4.46
453 3039 2.306805 TCTTGACTACTACTCCGTCCCA 59.693 50.000 0.00 0.00 0.00 4.37
455 3041 4.164796 TCTTGACTACTACTCCGTCCCATA 59.835 45.833 0.00 0.00 0.00 2.74
457 3043 5.057843 TGACTACTACTCCGTCCCATAAT 57.942 43.478 0.00 0.00 0.00 1.28
458 3044 4.825634 TGACTACTACTCCGTCCCATAATG 59.174 45.833 0.00 0.00 0.00 1.90
459 3045 4.801164 ACTACTACTCCGTCCCATAATGT 58.199 43.478 0.00 0.00 0.00 2.71
461 3047 6.367983 ACTACTACTCCGTCCCATAATGTAA 58.632 40.000 0.00 0.00 0.00 2.41
462 3048 5.786264 ACTACTCCGTCCCATAATGTAAG 57.214 43.478 0.00 0.00 0.00 2.34
464 3050 4.667519 ACTCCGTCCCATAATGTAAGAC 57.332 45.455 0.00 0.00 0.00 3.01
468 3054 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
469 3055 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
470 3056 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
471 3057 6.019152 CGTCCCATAATGTAAGACGTTTTTG 58.981 40.000 0.00 0.00 43.89 2.44
472 3058 5.798434 GTCCCATAATGTAAGACGTTTTTGC 59.202 40.000 0.00 0.00 0.00 3.68
473 3059 5.473846 TCCCATAATGTAAGACGTTTTTGCA 59.526 36.000 0.00 1.87 0.00 4.08
474 3060 6.016192 TCCCATAATGTAAGACGTTTTTGCAA 60.016 34.615 0.00 0.00 0.00 4.08
475 3061 6.642950 CCCATAATGTAAGACGTTTTTGCAAA 59.357 34.615 8.05 8.05 0.00 3.68
476 3062 7.358848 CCCATAATGTAAGACGTTTTTGCAAAC 60.359 37.037 12.39 0.58 39.24 2.93
479 3065 9.953697 ATAATGTAAGACGTTTTTGCAAACTAA 57.046 25.926 12.39 1.24 40.31 2.24
480 3066 7.908193 ATGTAAGACGTTTTTGCAAACTAAG 57.092 32.000 12.39 8.01 40.31 2.18
481 3067 6.259638 TGTAAGACGTTTTTGCAAACTAAGG 58.740 36.000 12.39 12.43 40.31 2.69
487 3090 4.438148 GTTTTTGCAAACTAAGGGAGCAA 58.562 39.130 12.39 0.00 42.74 3.91
534 3137 4.541973 AGAAATGGGCCAATCAAAGAAC 57.458 40.909 11.89 0.00 0.00 3.01
589 3625 2.889170 TCAATTCGAACAATGGGGGA 57.111 45.000 0.00 0.00 0.00 4.81
615 3652 6.005823 TCAATGATTGAATCTTGTGTGACCT 58.994 36.000 5.21 0.00 36.59 3.85
632 3670 2.046796 TAGCACCGCGAATTGGCA 60.047 55.556 8.23 0.00 0.00 4.92
640 3678 0.729116 CGCGAATTGGCAGATTCTGT 59.271 50.000 14.90 0.00 34.58 3.41
652 3690 1.002134 ATTCTGTTGCACCTCCCGG 60.002 57.895 0.00 0.00 0.00 5.73
731 3793 2.674747 GCTAATTGGGTACGGTTCGTCA 60.675 50.000 0.00 0.00 41.54 4.35
802 3880 2.681152 ACTGAAAACGATCGCAAACC 57.319 45.000 16.60 1.55 0.00 3.27
1039 4157 2.626780 CCGGTGACACTCGAGAGCA 61.627 63.158 21.68 10.93 0.00 4.26
1046 4164 2.300152 TGACACTCGAGAGCAAAGGAAT 59.700 45.455 21.68 0.00 0.00 3.01
1048 4166 3.851098 ACACTCGAGAGCAAAGGAATAC 58.149 45.455 21.68 0.00 0.00 1.89
1076 4195 4.554163 GCTTGAGCTTGCTTGCTG 57.446 55.556 8.64 0.00 44.17 4.41
1150 4299 5.485620 CTCTTGACATGTTCAGATCCAAGA 58.514 41.667 17.80 17.80 36.99 3.02
1662 4826 0.793250 GCGTCAAGAACAAGAGCTCC 59.207 55.000 10.93 0.00 0.00 4.70
1806 4970 1.298413 CCGCGTGGTAGACTCATCG 60.298 63.158 6.91 0.00 0.00 3.84
1834 4998 3.604875 GGTGATTACCACGGAGAAGAA 57.395 47.619 0.88 0.00 46.62 2.52
1835 4999 3.522553 GGTGATTACCACGGAGAAGAAG 58.477 50.000 0.88 0.00 46.62 2.85
1836 5000 3.194968 GGTGATTACCACGGAGAAGAAGA 59.805 47.826 0.88 0.00 46.62 2.87
1837 5001 4.141914 GGTGATTACCACGGAGAAGAAGAT 60.142 45.833 0.88 0.00 46.62 2.40
1838 5002 4.806247 GTGATTACCACGGAGAAGAAGATG 59.194 45.833 0.00 0.00 35.86 2.90
1839 5003 2.961526 TACCACGGAGAAGAAGATGC 57.038 50.000 0.00 0.00 0.00 3.91
1840 5004 0.108615 ACCACGGAGAAGAAGATGCG 60.109 55.000 0.00 0.00 36.24 4.73
1870 5171 6.922247 ACGATAAGAAGATCACGAAGTAGA 57.078 37.500 0.00 0.00 41.61 2.59
1924 5226 1.180029 GTCCTAGTCCCTGCGTTGTA 58.820 55.000 0.00 0.00 0.00 2.41
1930 5232 1.024579 GTCCCTGCGTTGTACCATGG 61.025 60.000 11.19 11.19 0.00 3.66
1936 5238 0.676782 GCGTTGTACCATGGGAAGCT 60.677 55.000 18.09 0.00 0.00 3.74
1970 5272 9.492973 CAAGGAAGGAATGTATTGACAAAATTT 57.507 29.630 0.00 0.00 39.59 1.82
1972 5274 9.492973 AGGAAGGAATGTATTGACAAAATTTTG 57.507 29.630 25.73 25.73 39.59 2.44
1998 5300 2.443416 AGGTTCGGCTACCATTTTTCC 58.557 47.619 8.16 0.00 40.82 3.13
2001 5303 2.122783 TCGGCTACCATTTTTCCTGG 57.877 50.000 0.00 0.00 39.80 4.45
2003 5305 2.017049 CGGCTACCATTTTTCCTGGAG 58.983 52.381 0.00 0.00 37.22 3.86
2005 5307 3.685550 CGGCTACCATTTTTCCTGGAGAT 60.686 47.826 0.00 0.00 37.22 2.75
2006 5308 4.444306 CGGCTACCATTTTTCCTGGAGATA 60.444 45.833 0.00 0.00 37.22 1.98
2007 5309 5.445964 GGCTACCATTTTTCCTGGAGATAA 58.554 41.667 0.00 0.00 37.22 1.75
2008 5310 6.071320 GGCTACCATTTTTCCTGGAGATAAT 58.929 40.000 0.00 0.00 37.22 1.28
2010 5312 7.724061 GGCTACCATTTTTCCTGGAGATAATTA 59.276 37.037 0.00 0.00 37.22 1.40
2057 5360 2.351210 GTCGAAATGCCGCGATGC 60.351 61.111 8.23 3.39 38.91 3.91
2058 5361 3.572539 TCGAAATGCCGCGATGCC 61.573 61.111 8.23 0.00 0.00 4.40
2106 5420 6.038161 TGTGACTTGGAATGTTGACTTACAAG 59.962 38.462 6.49 6.49 39.30 3.16
2108 5422 6.038161 TGACTTGGAATGTTGACTTACAAGTG 59.962 38.462 16.18 0.00 44.74 3.16
2115 5429 5.554822 TGTTGACTTACAAGTGGTTGTTC 57.445 39.130 0.00 0.00 45.00 3.18
2129 5443 5.071250 AGTGGTTGTTCATCTACACCAAGTA 59.929 40.000 0.00 0.00 33.84 2.24
2158 5472 4.007659 GTCGGGTTGAATCTACACCAAAT 58.992 43.478 0.00 0.00 0.00 2.32
2160 5474 4.457603 TCGGGTTGAATCTACACCAAATTG 59.542 41.667 0.00 0.00 0.00 2.32
2161 5475 4.217550 CGGGTTGAATCTACACCAAATTGT 59.782 41.667 0.00 0.00 0.00 2.71
2163 5477 5.925969 GGGTTGAATCTACACCAAATTGTTG 59.074 40.000 0.00 0.00 34.25 3.33
2182 5496 1.915489 TGGTGTCACAGGATGGCTTAT 59.085 47.619 5.12 0.00 43.62 1.73
2218 5541 8.668510 TTACTATCAGATTCTTGGAGAATTGC 57.331 34.615 4.81 0.00 44.41 3.56
2244 5571 2.040544 CCCTGATTGCTTCGCCGTT 61.041 57.895 0.00 0.00 0.00 4.44
2260 5611 1.652563 GTTGTCCCTTTGCCGTGAC 59.347 57.895 0.00 0.00 0.00 3.67
2261 5612 1.890041 TTGTCCCTTTGCCGTGACG 60.890 57.895 0.00 0.00 0.00 4.35
2262 5613 2.280592 GTCCCTTTGCCGTGACGT 60.281 61.111 3.64 0.00 0.00 4.34
2263 5614 2.280524 TCCCTTTGCCGTGACGTG 60.281 61.111 3.64 0.00 0.00 4.49
2264 5615 2.280524 CCCTTTGCCGTGACGTGA 60.281 61.111 3.64 0.00 0.00 4.35
2265 5616 1.671054 CCCTTTGCCGTGACGTGAT 60.671 57.895 3.64 0.00 0.00 3.06
2266 5617 1.635663 CCCTTTGCCGTGACGTGATC 61.636 60.000 3.64 0.00 0.00 2.92
2267 5618 0.670546 CCTTTGCCGTGACGTGATCT 60.671 55.000 3.64 0.00 0.00 2.75
2268 5619 0.716108 CTTTGCCGTGACGTGATCTC 59.284 55.000 3.64 0.00 0.00 2.75
2269 5620 0.669318 TTTGCCGTGACGTGATCTCC 60.669 55.000 3.64 0.00 0.00 3.71
2270 5621 2.579787 GCCGTGACGTGATCTCCG 60.580 66.667 3.64 0.00 0.00 4.63
2271 5622 3.047718 GCCGTGACGTGATCTCCGA 62.048 63.158 3.64 0.00 0.00 4.55
2272 5623 1.728069 CCGTGACGTGATCTCCGAT 59.272 57.895 3.64 0.00 0.00 4.18
2273 5624 0.942252 CCGTGACGTGATCTCCGATA 59.058 55.000 3.64 0.00 0.00 2.92
2274 5625 1.069838 CCGTGACGTGATCTCCGATAG 60.070 57.143 3.64 1.92 0.00 2.08
2286 5637 4.554960 TCTCCGATAGTCCGATATGACT 57.445 45.455 1.72 1.72 46.90 3.41
2423 5777 8.406172 GCAAAATCACTGTTTTGACTCTTTTA 57.594 30.769 14.28 0.00 46.78 1.52
2487 5843 4.152402 CACGAATCTGACCTTTTTCATCGT 59.848 41.667 0.00 0.00 38.60 3.73
2527 5912 1.720805 CACCACACTATAGCGCAACA 58.279 50.000 11.47 0.00 0.00 3.33
2530 5915 2.093711 ACCACACTATAGCGCAACATGA 60.094 45.455 11.47 0.00 0.00 3.07
2595 6015 1.000843 CATACCATAGCGCCACTAGCA 59.999 52.381 2.29 0.00 44.04 3.49
2596 6016 1.116308 TACCATAGCGCCACTAGCAA 58.884 50.000 2.29 0.00 44.04 3.91
2597 6017 0.179073 ACCATAGCGCCACTAGCAAG 60.179 55.000 2.29 0.00 44.04 4.01
2598 6018 0.882042 CCATAGCGCCACTAGCAAGG 60.882 60.000 2.29 0.00 44.04 3.61
2599 6019 0.882042 CATAGCGCCACTAGCAAGGG 60.882 60.000 2.29 0.00 44.04 3.95
2600 6020 2.666596 ATAGCGCCACTAGCAAGGGC 62.667 60.000 2.29 7.87 44.04 5.19
2609 6029 1.228124 TAGCAAGGGCGTTGTGCTT 60.228 52.632 19.80 7.47 46.25 3.91
2610 6030 1.234615 TAGCAAGGGCGTTGTGCTTC 61.235 55.000 19.80 4.37 46.25 3.86
2611 6031 2.844451 GCAAGGGCGTTGTGCTTCA 61.844 57.895 19.80 0.00 45.43 3.02
2612 6032 1.959085 CAAGGGCGTTGTGCTTCAT 59.041 52.632 11.60 0.00 45.43 2.57
2613 6033 1.164411 CAAGGGCGTTGTGCTTCATA 58.836 50.000 11.60 0.00 45.43 2.15
2614 6034 1.135689 CAAGGGCGTTGTGCTTCATAC 60.136 52.381 11.60 0.00 45.43 2.39
2615 6035 0.676782 AGGGCGTTGTGCTTCATACC 60.677 55.000 0.00 0.00 45.43 2.73
2616 6036 0.958382 GGGCGTTGTGCTTCATACCA 60.958 55.000 0.00 0.00 45.43 3.25
2617 6037 0.168128 GGCGTTGTGCTTCATACCAC 59.832 55.000 0.00 0.00 45.43 4.16
2618 6038 0.871722 GCGTTGTGCTTCATACCACA 59.128 50.000 0.00 0.00 41.73 4.17
2619 6039 1.135972 GCGTTGTGCTTCATACCACAG 60.136 52.381 0.00 0.00 42.29 3.66
2620 6040 1.135972 CGTTGTGCTTCATACCACAGC 60.136 52.381 0.00 0.00 42.29 4.40
2621 6041 1.135972 GTTGTGCTTCATACCACAGCG 60.136 52.381 0.00 0.00 42.29 5.18
2622 6042 1.298157 TGTGCTTCATACCACAGCGC 61.298 55.000 0.00 0.00 43.12 5.92
2623 6043 1.745115 TGCTTCATACCACAGCGCC 60.745 57.895 2.29 0.00 36.24 6.53
2624 6044 1.745115 GCTTCATACCACAGCGCCA 60.745 57.895 2.29 0.00 0.00 5.69
2625 6045 1.097547 GCTTCATACCACAGCGCCAT 61.098 55.000 2.29 0.00 0.00 4.40
2626 6046 0.659427 CTTCATACCACAGCGCCATG 59.341 55.000 2.29 1.83 0.00 3.66
2627 6047 1.375853 TTCATACCACAGCGCCATGC 61.376 55.000 2.29 0.00 46.98 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.069872 TCAGGTGTCTTTTTACGTGCCTA 59.930 43.478 0.00 0.00 33.89 3.93
3 4 2.215196 TCAGGTGTCTTTTTACGTGCC 58.785 47.619 0.00 0.00 33.89 5.01
4 5 4.483476 AATCAGGTGTCTTTTTACGTGC 57.517 40.909 0.00 0.00 33.89 5.34
6 7 4.151157 GCGTAATCAGGTGTCTTTTTACGT 59.849 41.667 12.70 0.00 40.12 3.57
7 8 4.435121 GGCGTAATCAGGTGTCTTTTTACG 60.435 45.833 8.25 8.25 40.49 3.18
10 11 2.482721 CGGCGTAATCAGGTGTCTTTTT 59.517 45.455 0.00 0.00 0.00 1.94
11 12 2.073816 CGGCGTAATCAGGTGTCTTTT 58.926 47.619 0.00 0.00 0.00 2.27
12 13 1.274167 TCGGCGTAATCAGGTGTCTTT 59.726 47.619 6.85 0.00 0.00 2.52
13 14 0.892755 TCGGCGTAATCAGGTGTCTT 59.107 50.000 6.85 0.00 0.00 3.01
14 15 0.456221 CTCGGCGTAATCAGGTGTCT 59.544 55.000 6.85 0.00 0.00 3.41
15 16 1.146358 GCTCGGCGTAATCAGGTGTC 61.146 60.000 6.85 0.00 0.00 3.67
16 17 1.153628 GCTCGGCGTAATCAGGTGT 60.154 57.895 6.85 0.00 0.00 4.16
17 18 0.384309 TAGCTCGGCGTAATCAGGTG 59.616 55.000 6.85 0.00 0.00 4.00
18 19 1.329256 ATAGCTCGGCGTAATCAGGT 58.671 50.000 6.85 4.48 0.00 4.00
19 20 2.488545 AGTATAGCTCGGCGTAATCAGG 59.511 50.000 6.85 0.00 0.00 3.86
20 21 3.493272 CAGTATAGCTCGGCGTAATCAG 58.507 50.000 6.85 0.00 0.00 2.90
21 22 2.351447 GCAGTATAGCTCGGCGTAATCA 60.351 50.000 6.85 0.00 0.00 2.57
22 23 2.251893 GCAGTATAGCTCGGCGTAATC 58.748 52.381 6.85 0.00 0.00 1.75
23 24 1.067776 GGCAGTATAGCTCGGCGTAAT 60.068 52.381 6.85 0.00 34.17 1.89
24 25 0.313043 GGCAGTATAGCTCGGCGTAA 59.687 55.000 6.85 0.00 34.17 3.18
25 26 0.536687 AGGCAGTATAGCTCGGCGTA 60.537 55.000 6.85 0.00 34.17 4.42
26 27 1.828660 AGGCAGTATAGCTCGGCGT 60.829 57.895 6.85 0.00 34.17 5.68
27 28 1.372251 CAGGCAGTATAGCTCGGCG 60.372 63.158 0.00 0.00 34.17 6.46
28 29 1.666234 GCAGGCAGTATAGCTCGGC 60.666 63.158 0.00 0.00 34.17 5.54
29 30 1.005630 GGCAGGCAGTATAGCTCGG 60.006 63.158 0.00 0.00 34.17 4.63
30 31 0.390860 AAGGCAGGCAGTATAGCTCG 59.609 55.000 0.00 0.00 34.17 5.03
31 32 3.368948 GGATAAGGCAGGCAGTATAGCTC 60.369 52.174 0.00 0.00 34.17 4.09
32 33 2.569404 GGATAAGGCAGGCAGTATAGCT 59.431 50.000 0.00 0.00 34.17 3.32
33 34 2.355209 GGGATAAGGCAGGCAGTATAGC 60.355 54.545 0.00 0.00 0.00 2.97
34 35 2.237392 GGGGATAAGGCAGGCAGTATAG 59.763 54.545 0.00 0.00 0.00 1.31
35 36 2.266279 GGGGATAAGGCAGGCAGTATA 58.734 52.381 0.00 0.00 0.00 1.47
36 37 1.068121 GGGGATAAGGCAGGCAGTAT 58.932 55.000 0.00 0.00 0.00 2.12
42 43 3.546543 TCGCGGGGATAAGGCAGG 61.547 66.667 6.13 0.00 0.00 4.85
55 56 2.100631 GTGGGTCAGATTGGTCGCG 61.101 63.158 0.00 0.00 0.00 5.87
58 59 0.034896 ACGTGTGGGTCAGATTGGTC 59.965 55.000 0.00 0.00 0.00 4.02
59 60 1.344065 TACGTGTGGGTCAGATTGGT 58.656 50.000 0.00 0.00 0.00 3.67
61 62 4.533222 GTTTTTACGTGTGGGTCAGATTG 58.467 43.478 0.00 0.00 0.00 2.67
77 78 7.261829 TGATGATGATGATGATGCGTTTTTA 57.738 32.000 0.00 0.00 0.00 1.52
78 79 6.139048 TGATGATGATGATGATGCGTTTTT 57.861 33.333 0.00 0.00 0.00 1.94
79 80 5.761165 TGATGATGATGATGATGCGTTTT 57.239 34.783 0.00 0.00 0.00 2.43
80 81 5.959618 ATGATGATGATGATGATGCGTTT 57.040 34.783 0.00 0.00 0.00 3.60
91 92 9.218359 CGTGTTTCTTTTCTAATGATGATGATG 57.782 33.333 0.00 0.00 0.00 3.07
160 161 0.451783 GCCTGATTTGGGTGCTAACG 59.548 55.000 0.00 0.00 0.00 3.18
232 508 0.469331 TTCACCACCCAGTCGTCTCT 60.469 55.000 0.00 0.00 0.00 3.10
237 520 1.071471 AAGCTTCACCACCCAGTCG 59.929 57.895 0.00 0.00 0.00 4.18
297 580 1.450491 GCTTTCCTCCCTTCTCCGC 60.450 63.158 0.00 0.00 0.00 5.54
311 604 5.767816 ATAGAACAAGAACCGTTTGCTTT 57.232 34.783 0.00 0.00 0.00 3.51
319 612 6.968131 TCATCTCAAATAGAACAAGAACCG 57.032 37.500 0.00 0.00 37.89 4.44
330 623 8.857216 GTTTGCTTGTGAATTCATCTCAAATAG 58.143 33.333 12.12 1.48 40.08 1.73
332 625 7.211573 TGTTTGCTTGTGAATTCATCTCAAAT 58.788 30.769 12.12 0.00 40.08 2.32
369 662 0.338814 AGTCTCCTATCCCCAACCGT 59.661 55.000 0.00 0.00 0.00 4.83
388 681 8.824756 ACAATGTCTTATACTCAGGAGTAGAA 57.175 34.615 13.91 13.91 45.94 2.10
391 684 9.696572 ACTTACAATGTCTTATACTCAGGAGTA 57.303 33.333 11.27 11.27 46.68 2.59
392 685 8.596781 ACTTACAATGTCTTATACTCAGGAGT 57.403 34.615 7.18 7.18 45.02 3.85
393 686 8.687242 TGACTTACAATGTCTTATACTCAGGAG 58.313 37.037 0.00 0.00 35.63 3.69
394 687 8.467598 GTGACTTACAATGTCTTATACTCAGGA 58.532 37.037 0.00 0.00 35.63 3.86
395 688 8.470805 AGTGACTTACAATGTCTTATACTCAGG 58.529 37.037 0.00 0.00 35.63 3.86
412 728 9.865484 GTCAAGAATGAAAACTTAGTGACTTAC 57.135 33.333 0.00 0.00 37.30 2.34
424 740 6.867293 ACGGAGTAGTAGTCAAGAATGAAAAC 59.133 38.462 7.30 0.00 41.94 2.43
425 741 6.989659 ACGGAGTAGTAGTCAAGAATGAAAA 58.010 36.000 7.30 0.00 41.94 2.29
426 742 6.585695 ACGGAGTAGTAGTCAAGAATGAAA 57.414 37.500 7.30 0.00 41.94 2.69
448 3034 5.798434 GCAAAAACGTCTTACATTATGGGAC 59.202 40.000 0.00 1.75 0.00 4.46
450 3036 5.704888 TGCAAAAACGTCTTACATTATGGG 58.295 37.500 0.00 0.00 0.00 4.00
451 3037 7.381139 AGTTTGCAAAAACGTCTTACATTATGG 59.619 33.333 14.67 0.00 37.71 2.74
452 3038 8.280909 AGTTTGCAAAAACGTCTTACATTATG 57.719 30.769 14.67 0.00 37.71 1.90
453 3039 9.953697 TTAGTTTGCAAAAACGTCTTACATTAT 57.046 25.926 14.67 0.00 37.71 1.28
455 3041 7.434013 CCTTAGTTTGCAAAAACGTCTTACATT 59.566 33.333 14.67 0.00 37.71 2.71
457 3043 6.259638 CCTTAGTTTGCAAAAACGTCTTACA 58.740 36.000 14.67 0.00 37.71 2.41
458 3044 5.684184 CCCTTAGTTTGCAAAAACGTCTTAC 59.316 40.000 14.67 0.00 37.71 2.34
459 3045 5.589452 TCCCTTAGTTTGCAAAAACGTCTTA 59.411 36.000 14.67 0.00 37.71 2.10
461 3047 3.949113 TCCCTTAGTTTGCAAAAACGTCT 59.051 39.130 14.67 8.91 37.71 4.18
462 3048 4.287720 CTCCCTTAGTTTGCAAAAACGTC 58.712 43.478 14.67 0.55 37.71 4.34
464 3050 3.049912 GCTCCCTTAGTTTGCAAAAACG 58.950 45.455 14.67 3.00 37.71 3.60
465 3051 4.053469 TGCTCCCTTAGTTTGCAAAAAC 57.947 40.909 14.67 2.88 0.00 2.43
468 3054 3.957497 TCTTTGCTCCCTTAGTTTGCAAA 59.043 39.130 8.05 8.05 46.75 3.68
469 3055 3.561143 TCTTTGCTCCCTTAGTTTGCAA 58.439 40.909 0.00 0.00 41.10 4.08
470 3056 3.149196 CTCTTTGCTCCCTTAGTTTGCA 58.851 45.455 0.00 0.00 0.00 4.08
471 3057 3.412386 TCTCTTTGCTCCCTTAGTTTGC 58.588 45.455 0.00 0.00 0.00 3.68
472 3058 4.457257 CCTTCTCTTTGCTCCCTTAGTTTG 59.543 45.833 0.00 0.00 0.00 2.93
473 3059 4.507512 CCCTTCTCTTTGCTCCCTTAGTTT 60.508 45.833 0.00 0.00 0.00 2.66
474 3060 3.009584 CCCTTCTCTTTGCTCCCTTAGTT 59.990 47.826 0.00 0.00 0.00 2.24
475 3061 2.573915 CCCTTCTCTTTGCTCCCTTAGT 59.426 50.000 0.00 0.00 0.00 2.24
476 3062 2.840651 TCCCTTCTCTTTGCTCCCTTAG 59.159 50.000 0.00 0.00 0.00 2.18
479 3065 1.203364 TCTCCCTTCTCTTTGCTCCCT 60.203 52.381 0.00 0.00 0.00 4.20
480 3066 1.280457 TCTCCCTTCTCTTTGCTCCC 58.720 55.000 0.00 0.00 0.00 4.30
481 3067 3.078097 GTTTCTCCCTTCTCTTTGCTCC 58.922 50.000 0.00 0.00 0.00 4.70
487 3090 2.326428 TCGGTGTTTCTCCCTTCTCTT 58.674 47.619 0.00 0.00 0.00 2.85
589 3625 7.177921 AGGTCACACAAGATTCAATCATTGATT 59.822 33.333 0.00 6.06 39.84 2.57
615 3652 2.046796 TGCCAATTCGCGGTGCTA 60.047 55.556 6.13 0.00 0.00 3.49
632 3670 0.036010 CGGGAGGTGCAACAGAATCT 60.036 55.000 3.64 0.00 39.98 2.40
652 3690 0.517316 GTGGATTTGCTGTCGACCAC 59.483 55.000 14.12 7.47 40.33 4.16
731 3793 3.994392 GAGTTTGTGTCATCGTGTATGGT 59.006 43.478 0.00 0.00 36.15 3.55
735 3797 3.799963 GTGTGAGTTTGTGTCATCGTGTA 59.200 43.478 0.00 0.00 0.00 2.90
740 3804 4.614555 TGTTGTGTGAGTTTGTGTCATC 57.385 40.909 0.00 0.00 0.00 2.92
780 3858 3.420904 GGTTTGCGATCGTTTTCAGTTTC 59.579 43.478 17.81 0.00 0.00 2.78
1039 4157 3.777522 AGCTAGCTGGTGAGTATTCCTTT 59.222 43.478 18.57 0.00 0.00 3.11
1046 4164 1.478510 GCTCAAGCTAGCTGGTGAGTA 59.521 52.381 32.30 11.50 39.50 2.59
1048 4166 3.062585 GCTCAAGCTAGCTGGTGAG 57.937 57.895 30.06 30.06 39.50 3.51
1794 4958 0.175760 TGCAAGCCGATGAGTCTACC 59.824 55.000 0.00 0.00 0.00 3.18
1797 4961 1.220206 CCTGCAAGCCGATGAGTCT 59.780 57.895 0.00 0.00 0.00 3.24
1806 4970 0.811281 GTGGTAATCACCTGCAAGCC 59.189 55.000 0.00 0.00 45.98 4.35
1834 4998 2.023414 TTATCGTTCCGGCCGCATCT 62.023 55.000 22.85 3.89 0.00 2.90
1835 4999 1.557443 CTTATCGTTCCGGCCGCATC 61.557 60.000 22.85 2.42 0.00 3.91
1836 5000 1.594293 CTTATCGTTCCGGCCGCAT 60.594 57.895 22.85 8.28 0.00 4.73
1837 5001 2.202824 CTTATCGTTCCGGCCGCA 60.203 61.111 22.85 0.00 0.00 5.69
1838 5002 1.488261 CTTCTTATCGTTCCGGCCGC 61.488 60.000 22.85 5.18 0.00 6.53
1839 5003 0.101759 TCTTCTTATCGTTCCGGCCG 59.898 55.000 21.04 21.04 0.00 6.13
1840 5004 2.223971 TGATCTTCTTATCGTTCCGGCC 60.224 50.000 0.00 0.00 0.00 6.13
1862 5163 1.996191 GGCAAGCAAGAGTCTACTTCG 59.004 52.381 5.56 4.17 0.00 3.79
1867 5168 0.686789 TGCAGGCAAGCAAGAGTCTA 59.313 50.000 1.98 0.00 42.46 2.59
1889 5191 3.234630 GACCTGTGGCGTGGCACTA 62.235 63.158 24.28 11.87 0.00 2.74
1898 5200 1.306226 AGGGACTAGGACCTGTGGC 60.306 63.158 3.53 0.00 36.02 5.01
1924 5226 1.203441 TGCTCTCAGCTTCCCATGGT 61.203 55.000 11.73 0.00 42.97 3.55
1930 5232 0.322975 TCCTTGTGCTCTCAGCTTCC 59.677 55.000 0.00 0.00 42.97 3.46
1936 5238 2.373169 ACATTCCTTCCTTGTGCTCTCA 59.627 45.455 0.00 0.00 0.00 3.27
1970 5272 2.097825 GGTAGCCGAACCTACTCTCAA 58.902 52.381 7.47 0.00 38.18 3.02
1972 5274 1.760192 TGGTAGCCGAACCTACTCTC 58.240 55.000 2.54 0.00 40.44 3.20
1998 5300 6.541641 AGCAGCTTCTGTTTAATTATCTCCAG 59.458 38.462 0.00 0.00 33.43 3.86
2001 5303 9.928236 CTTAAGCAGCTTCTGTTTAATTATCTC 57.072 33.333 12.07 0.00 42.78 2.75
2003 5305 8.553817 GCTTAAGCAGCTTCTGTTTAATTATC 57.446 34.615 22.59 4.12 42.78 1.75
2066 5372 5.221028 CCAAGTCACAGCTCACAAATTTACA 60.221 40.000 0.00 0.00 0.00 2.41
2106 5420 4.134563 ACTTGGTGTAGATGAACAACCAC 58.865 43.478 0.00 0.00 36.17 4.16
2129 5443 1.971357 AGATTCAACCCGACTCACACT 59.029 47.619 0.00 0.00 0.00 3.55
2138 5452 4.217550 ACAATTTGGTGTAGATTCAACCCG 59.782 41.667 0.78 0.00 0.00 5.28
2158 5472 1.979855 CCATCCTGTGACACCAACAA 58.020 50.000 2.45 0.00 0.00 2.83
2160 5474 0.250901 AGCCATCCTGTGACACCAAC 60.251 55.000 2.45 0.00 0.00 3.77
2161 5475 0.478072 AAGCCATCCTGTGACACCAA 59.522 50.000 2.45 0.00 0.00 3.67
2163 5477 2.565841 GATAAGCCATCCTGTGACACC 58.434 52.381 2.45 0.00 0.00 4.16
2182 5496 7.772166 AGAATCTGATAGTAATTGTCACACGA 58.228 34.615 0.00 0.00 0.00 4.35
2217 5540 0.107945 AGCAATCAGGGAAGACGAGC 60.108 55.000 0.00 0.00 0.00 5.03
2218 5541 2.275318 GAAGCAATCAGGGAAGACGAG 58.725 52.381 0.00 0.00 0.00 4.18
2244 5571 2.280524 CGTCACGGCAAAGGGACA 60.281 61.111 8.75 0.00 44.40 4.02
2260 5611 1.509703 TCGGACTATCGGAGATCACG 58.490 55.000 0.00 0.00 45.12 4.35
2261 5612 4.876679 TCATATCGGACTATCGGAGATCAC 59.123 45.833 0.00 0.00 45.12 3.06
2262 5613 4.876679 GTCATATCGGACTATCGGAGATCA 59.123 45.833 0.00 0.00 36.62 2.92
2263 5614 5.007234 CAGTCATATCGGACTATCGGAGATC 59.993 48.000 0.00 0.00 46.05 2.75
2264 5615 4.878971 CAGTCATATCGGACTATCGGAGAT 59.121 45.833 0.00 0.00 46.05 2.75
2265 5616 4.254492 CAGTCATATCGGACTATCGGAGA 58.746 47.826 0.00 0.00 46.05 3.71
2266 5617 3.181505 GCAGTCATATCGGACTATCGGAG 60.182 52.174 0.00 0.00 46.05 4.63
2267 5618 2.747989 GCAGTCATATCGGACTATCGGA 59.252 50.000 0.00 0.00 46.05 4.55
2268 5619 2.476352 CGCAGTCATATCGGACTATCGG 60.476 54.545 0.00 0.00 46.05 4.18
2269 5620 2.476352 CCGCAGTCATATCGGACTATCG 60.476 54.545 0.00 0.00 46.05 2.92
2270 5621 2.732597 GCCGCAGTCATATCGGACTATC 60.733 54.545 3.91 0.00 46.05 2.08
2271 5622 1.202582 GCCGCAGTCATATCGGACTAT 59.797 52.381 3.91 0.00 46.05 2.12
2272 5623 0.596577 GCCGCAGTCATATCGGACTA 59.403 55.000 3.91 0.00 46.05 2.59
2274 5625 2.016704 CGCCGCAGTCATATCGGAC 61.017 63.158 3.91 0.00 45.53 4.79
2286 5637 3.876589 GAACCTTGTCCTCGCCGCA 62.877 63.158 0.00 0.00 0.00 5.69
2423 5777 6.041637 GGGGTCAAATCCTGTTTAACTTTTCT 59.958 38.462 0.00 0.00 0.00 2.52
2595 6015 1.165270 GTATGAAGCACAACGCCCTT 58.835 50.000 0.00 0.00 44.04 3.95
2596 6016 0.676782 GGTATGAAGCACAACGCCCT 60.677 55.000 0.00 0.00 44.04 5.19
2597 6017 0.958382 TGGTATGAAGCACAACGCCC 60.958 55.000 0.00 0.00 44.04 6.13
2598 6018 2.550487 TGGTATGAAGCACAACGCC 58.450 52.632 0.00 0.00 44.04 5.68
2605 6025 1.745115 GGCGCTGTGGTATGAAGCA 60.745 57.895 7.64 0.00 36.73 3.91
2606 6026 1.097547 ATGGCGCTGTGGTATGAAGC 61.098 55.000 7.64 0.00 0.00 3.86
2607 6027 0.659427 CATGGCGCTGTGGTATGAAG 59.341 55.000 7.64 0.00 0.00 3.02
2608 6028 1.375853 GCATGGCGCTGTGGTATGAA 61.376 55.000 7.64 0.00 37.77 2.57
2609 6029 1.819208 GCATGGCGCTGTGGTATGA 60.819 57.895 7.64 0.00 37.77 2.15
2610 6030 2.717485 GCATGGCGCTGTGGTATG 59.283 61.111 7.64 4.32 37.77 2.39
2627 6047 0.179111 TGAACCATAGCGCCTCTTCG 60.179 55.000 2.29 0.00 0.00 3.79
2628 6048 2.246719 ATGAACCATAGCGCCTCTTC 57.753 50.000 2.29 0.00 0.00 2.87
2629 6049 2.224305 GGTATGAACCATAGCGCCTCTT 60.224 50.000 2.29 0.00 45.98 2.85


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

AutoCloner maintained by Alex Coulton.