Multiple sequence alignment - TraesCS6B01G334400

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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 TraesCS6B01G334400 chr6B 100.000 6862 0 0 1 6862 587381921 587388782 0.000000e+00 12672.0
1 TraesCS6B01G334400 chr6D 94.777 3657 129 25 2766 6389 392897138 392900765 0.000000e+00 5638.0
2 TraesCS6B01G334400 chr6D 93.698 1920 80 16 882 2767 392895064 392896976 0.000000e+00 2837.0
3 TraesCS6B01G334400 chr6D 86.696 917 48 29 1 891 392894237 392895105 0.000000e+00 950.0
4 TraesCS6B01G334400 chr6D 89.506 324 21 6 6551 6862 392901034 392901356 1.390000e-106 398.0
5 TraesCS6B01G334400 chr6A 94.231 3467 120 38 2766 6195 539706778 539710201 0.000000e+00 5221.0
6 TraesCS6B01G334400 chr6A 91.797 2804 136 29 2 2767 539703936 539706683 0.000000e+00 3818.0
7 TraesCS6B01G334400 chr1D 81.616 495 70 16 341 823 32777589 32778074 2.320000e-104 390.0
8 TraesCS6B01G334400 chr1D 77.978 445 67 13 382 822 389242102 389241685 4.110000e-62 250.0
9 TraesCS6B01G334400 chr1D 79.231 130 20 7 576 700 65845480 65845353 4.410000e-12 84.2
10 TraesCS6B01G334400 chr1A 76.654 801 110 50 86 822 40145475 40146262 8.410000e-99 372.0
11 TraesCS6B01G334400 chr1A 78.125 256 44 10 382 630 483650150 483650400 1.190000e-32 152.0
12 TraesCS6B01G334400 chr4D 81.356 472 71 14 363 821 414059709 414060176 1.090000e-97 368.0
13 TraesCS6B01G334400 chr5A 80.000 470 53 12 363 823 705786116 705785679 6.680000e-80 309.0
14 TraesCS6B01G334400 chr5A 77.736 265 34 21 238 487 643026795 643026541 9.280000e-29 139.0
15 TraesCS6B01G334400 chr4B 79.873 472 55 13 363 823 665824087 665823645 6.680000e-80 309.0
16 TraesCS6B01G334400 chr4B 78.933 356 50 21 234 576 640336958 640336615 1.160000e-52 219.0
17 TraesCS6B01G334400 chr4B 80.315 254 40 9 363 610 67738635 67738884 4.230000e-42 183.0
18 TraesCS6B01G334400 chr4A 78.327 526 72 26 309 817 49895749 49895249 1.120000e-77 302.0
19 TraesCS6B01G334400 chr7A 79.323 266 37 12 549 811 167842273 167842523 3.290000e-38 171.0
20 TraesCS6B01G334400 chr7A 78.879 232 42 5 378 603 724363333 724363563 4.290000e-32 150.0
21 TraesCS6B01G334400 chr7A 76.639 244 43 11 395 630 553045539 553045302 9.350000e-24 122.0
22 TraesCS6B01G334400 chr3A 76.276 333 55 22 310 629 506468879 506469200 9.210000e-34 156.0
23 TraesCS6B01G334400 chr3A 78.138 247 43 8 363 601 557505535 557505778 5.550000e-31 147.0
24 TraesCS6B01G334400 chr2B 79.144 187 27 9 423 600 651562911 651563094 1.210000e-22 119.0
25 TraesCS6B01G334400 chr5B 72.208 403 86 19 313 699 408389374 408389766 4.380000e-17 100.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G334400 chr6B 587381921 587388782 6861 False 12672.00 12672 100.00000 1 6862 1 chr6B.!!$F1 6861
1 TraesCS6B01G334400 chr6D 392894237 392901356 7119 False 2455.75 5638 91.16925 1 6862 4 chr6D.!!$F1 6861
2 TraesCS6B01G334400 chr6A 539703936 539710201 6265 False 4519.50 5221 93.01400 2 6195 2 chr6A.!!$F1 6193
3 TraesCS6B01G334400 chr1A 40145475 40146262 787 False 372.00 372 76.65400 86 822 1 chr1A.!!$F1 736
4 TraesCS6B01G334400 chr4A 49895249 49895749 500 True 302.00 302 78.32700 309 817 1 chr4A.!!$R1 508

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
776 915 0.877649 ATATGCTCGCGTGCTTCAGG 60.878 55.000 30.29 3.31 0.00 3.86 F
1366 1511 0.404040 ACCCAATTTCGAGCTTCCCA 59.596 50.000 0.00 0.00 0.00 4.37 F
2195 2362 0.472471 GGAGTCTTGGTGGTGGTTGA 59.528 55.000 0.00 0.00 0.00 3.18 F
3122 3463 1.147376 CTCACGACCCCAAACCACA 59.853 57.895 0.00 0.00 0.00 4.17 F
3483 3843 3.548587 CAATCAAAGAGCACTGTGTTCG 58.451 45.455 17.14 5.54 32.57 3.95 F
5234 5598 1.834540 AGTTGGAGAAGAAGGGGGTT 58.165 50.000 0.00 0.00 0.00 4.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2338 2507 1.070914 GAGTACCTCCCTGCCATAAGC 59.929 57.143 0.0 0.0 44.14 3.09 R
2989 3329 0.321122 AAGAAGCAGCCCACTCTTCG 60.321 55.000 0.0 0.0 40.65 3.79 R
3273 3614 0.539669 AGGCCCCACGAAAGGAAAAG 60.540 55.000 0.0 0.0 0.00 2.27 R
4090 4454 1.687612 CCAGCCAAGGGATGACAGT 59.312 57.895 1.4 0.0 42.34 3.55 R
5331 5695 2.706890 TGTTTTTCAGATAGTCCCGGC 58.293 47.619 0.0 0.0 0.00 6.13 R
6498 7094 0.035739 TAGGGTTTGCGTTGGAGGTC 59.964 55.000 0.0 0.0 0.00 3.85 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
82 83 1.474320 CCAAGGTTTGATCCGCGGATA 60.474 52.381 39.08 23.37 34.60 2.59
95 96 1.033574 GCGGATACTGCTACCACTCT 58.966 55.000 0.00 0.00 34.09 3.24
96 97 2.228059 GCGGATACTGCTACCACTCTA 58.772 52.381 0.00 0.00 34.09 2.43
559 663 5.969741 TCAAGTACTCGTTCGACATTTTTG 58.030 37.500 0.00 0.00 0.00 2.44
562 666 6.211664 AGTACTCGTTCGACATTTTTGAAG 57.788 37.500 0.00 0.00 0.00 3.02
776 915 0.877649 ATATGCTCGCGTGCTTCAGG 60.878 55.000 30.29 3.31 0.00 3.86
868 1013 1.683629 CCTACAGCTCTCCGTTCCTCT 60.684 57.143 0.00 0.00 0.00 3.69
870 1015 1.254284 ACAGCTCTCCGTTCCTCTGG 61.254 60.000 0.00 0.00 0.00 3.86
871 1016 0.967887 CAGCTCTCCGTTCCTCTGGA 60.968 60.000 0.00 0.00 0.00 3.86
955 1100 2.745884 TGATTGCCTTCGCCGGTG 60.746 61.111 9.28 9.28 0.00 4.94
1013 1158 3.810896 CAAACCCTAAGCCGCGGC 61.811 66.667 42.34 42.34 42.33 6.53
1350 1495 3.721035 GCAAATGCTCATGGAATTACCC 58.279 45.455 0.00 0.00 36.52 3.69
1364 1509 4.202020 GGAATTACCCAATTTCGAGCTTCC 60.202 45.833 0.00 0.00 34.44 3.46
1366 1511 0.404040 ACCCAATTTCGAGCTTCCCA 59.596 50.000 0.00 0.00 0.00 4.37
1384 1529 2.369860 CCCAAGCTGACATATCCTGCTA 59.630 50.000 0.00 0.00 34.01 3.49
1386 1531 3.181462 CCAAGCTGACATATCCTGCTACA 60.181 47.826 0.00 0.00 34.01 2.74
1411 1556 4.065789 GCTGTAATTCTATTTCTCGGGGG 58.934 47.826 0.00 0.00 0.00 5.40
1486 1632 4.748798 CTCCCTCCCCTGGCCACT 62.749 72.222 0.00 0.00 0.00 4.00
1529 1675 3.130693 GGTTAGAGATTACGCTGGTGAGT 59.869 47.826 0.00 0.00 0.00 3.41
1532 1678 6.206243 GGTTAGAGATTACGCTGGTGAGTATA 59.794 42.308 0.00 0.00 0.00 1.47
1662 1808 7.008810 GGTTATGTTTGTTTACGCATAATGTGG 59.991 37.037 0.00 0.00 36.57 4.17
1801 1961 7.966753 GCTGTTTGGTTAGGTTAATAGTTAAGC 59.033 37.037 4.05 4.05 42.37 3.09
1938 2098 3.696051 TGGATCTATGAGTTGCCTTTTGC 59.304 43.478 0.00 0.00 41.77 3.68
1943 2103 0.480690 TGAGTTGCCTTTTGCCCCTA 59.519 50.000 0.00 0.00 40.16 3.53
2195 2362 0.472471 GGAGTCTTGGTGGTGGTTGA 59.528 55.000 0.00 0.00 0.00 3.18
2456 2626 1.969923 CTTCTTGTTTTCCCATGGCCA 59.030 47.619 8.56 8.56 0.00 5.36
2472 2642 1.933853 GGCCAGTACTTTGCGATAGTG 59.066 52.381 0.00 0.00 39.35 2.74
2530 2700 3.193263 CAGATGGTGCTAGTTACTGCTG 58.807 50.000 0.00 0.00 0.00 4.41
2574 2744 3.625764 GTCAGCCAGTCACTGTTTTACAA 59.374 43.478 3.56 0.00 36.50 2.41
2586 2756 8.730680 GTCACTGTTTTACAAGATTGATACCAT 58.269 33.333 0.00 0.00 0.00 3.55
2647 2817 4.788100 CGCTCCTCAATTTGTTTGTTATCG 59.212 41.667 0.00 0.00 36.65 2.92
2657 2827 6.452494 TTTGTTTGTTATCGGGAGTTCAAA 57.548 33.333 0.00 0.00 0.00 2.69
2712 2887 4.481368 TTGGTCTAGTCTGTTTGTGTGT 57.519 40.909 0.00 0.00 0.00 3.72
2811 3150 5.543507 TTTTGGCAAAGAATGTACCACAT 57.456 34.783 13.04 0.00 41.31 3.21
2814 3153 3.758023 TGGCAAAGAATGTACCACATCTG 59.242 43.478 0.00 0.00 37.97 2.90
2872 3212 7.263100 TGGGATCATCAAGAAATAAATGTCG 57.737 36.000 0.00 0.00 0.00 4.35
2918 3258 6.119536 TCTGTGGTTATCAAGTCACAAAAGT 58.880 36.000 0.00 0.00 39.26 2.66
2920 3260 5.650266 TGTGGTTATCAAGTCACAAAAGTGT 59.350 36.000 0.00 0.00 37.22 3.55
3068 3408 3.195610 ACTCCACTCGATTCATTACAGCA 59.804 43.478 0.00 0.00 0.00 4.41
3077 3417 4.143115 CGATTCATTACAGCACGAGTTTGT 60.143 41.667 0.00 0.00 0.00 2.83
3122 3463 1.147376 CTCACGACCCCAAACCACA 59.853 57.895 0.00 0.00 0.00 4.17
3142 3483 5.178797 CACAGCTAAGTTGTAGTTATGGCT 58.821 41.667 0.00 0.00 0.00 4.75
3169 3510 5.070446 GCTTTATTGGGGCTATTTTTAGGCT 59.930 40.000 6.54 0.00 41.73 4.58
3329 3671 6.127897 ACACCATTCAGAATTTTCGGATTCTC 60.128 38.462 4.58 0.00 42.84 2.87
3339 3699 7.667635 AGAATTTTCGGATTCTCCTTTCTTTCT 59.332 33.333 4.47 0.00 41.33 2.52
3483 3843 3.548587 CAATCAAAGAGCACTGTGTTCG 58.451 45.455 17.14 5.54 32.57 3.95
3524 3884 6.367161 TGGAGCATTAGGATGATGAATTGAA 58.633 36.000 0.00 0.00 35.16 2.69
3538 3899 7.937649 TGATGAATTGAATGGAGCTAATTGAG 58.062 34.615 0.00 0.00 0.00 3.02
3544 3905 5.809001 TGAATGGAGCTAATTGAGTTGACT 58.191 37.500 0.00 0.00 0.00 3.41
3617 3978 9.740710 AACTTTTGTAGATTAGATGGCTTTAGT 57.259 29.630 0.00 0.00 0.00 2.24
4090 4454 6.766429 AGCTATTGTTGATCATCATGCTCTA 58.234 36.000 16.73 1.58 0.00 2.43
4345 4709 6.294620 GGGTGATAGAGGAGTTAGTAAATCCG 60.295 46.154 20.58 0.00 38.20 4.18
5115 5479 2.618241 TGGCCGATGATAATGCTTTGAC 59.382 45.455 0.00 0.00 0.00 3.18
5233 5597 2.267192 GTAGTTGGAGAAGAAGGGGGT 58.733 52.381 0.00 0.00 0.00 4.95
5234 5598 1.834540 AGTTGGAGAAGAAGGGGGTT 58.165 50.000 0.00 0.00 0.00 4.11
5331 5695 1.386533 AGGGCTTTTGATGCTCGATG 58.613 50.000 0.00 0.00 35.78 3.84
5419 5783 4.222588 GCCATCATAGAGTCTTCAGGCTAT 59.777 45.833 0.00 0.00 36.72 2.97
5738 6102 2.130821 TTGGCTGCGGGAACATGGTA 62.131 55.000 0.00 0.00 0.00 3.25
5782 6146 9.140286 GGTGAGGCAGAAAAGATAATTAAAAAC 57.860 33.333 0.00 0.00 0.00 2.43
5865 6232 5.556006 ATGAATTGCCTTATTGGAATGGG 57.444 39.130 0.00 0.00 38.35 4.00
5869 6236 3.678965 TGCCTTATTGGAATGGGCTTA 57.321 42.857 14.80 0.01 38.51 3.09
5872 6239 3.704061 GCCTTATTGGAATGGGCTTACAA 59.296 43.478 9.52 0.00 41.93 2.41
5910 6277 8.321353 ACTCTATACAAATTTGTGTCATCCTCA 58.679 33.333 29.72 10.16 42.31 3.86
5956 6350 6.976088 TGTTGATTGGTGTAATAAGGTTGTG 58.024 36.000 0.00 0.00 0.00 3.33
5957 6351 6.547880 TGTTGATTGGTGTAATAAGGTTGTGT 59.452 34.615 0.00 0.00 0.00 3.72
5958 6352 6.811253 TGATTGGTGTAATAAGGTTGTGTC 57.189 37.500 0.00 0.00 0.00 3.67
5959 6353 5.410132 TGATTGGTGTAATAAGGTTGTGTCG 59.590 40.000 0.00 0.00 0.00 4.35
5960 6354 4.339872 TGGTGTAATAAGGTTGTGTCGT 57.660 40.909 0.00 0.00 0.00 4.34
5961 6355 4.309099 TGGTGTAATAAGGTTGTGTCGTC 58.691 43.478 0.00 0.00 0.00 4.20
5962 6356 3.681417 GGTGTAATAAGGTTGTGTCGTCC 59.319 47.826 0.00 0.00 0.00 4.79
5963 6357 4.562143 GGTGTAATAAGGTTGTGTCGTCCT 60.562 45.833 0.00 0.00 0.00 3.85
5964 6358 4.624452 GTGTAATAAGGTTGTGTCGTCCTC 59.376 45.833 0.00 0.00 0.00 3.71
5965 6359 4.281435 TGTAATAAGGTTGTGTCGTCCTCA 59.719 41.667 0.00 0.00 0.00 3.86
5966 6360 4.553330 AATAAGGTTGTGTCGTCCTCAT 57.447 40.909 0.00 0.00 0.00 2.90
5967 6361 2.930826 AAGGTTGTGTCGTCCTCATT 57.069 45.000 0.00 0.00 0.00 2.57
5968 6362 2.457366 AGGTTGTGTCGTCCTCATTC 57.543 50.000 0.00 0.00 0.00 2.67
5969 6363 1.691976 AGGTTGTGTCGTCCTCATTCA 59.308 47.619 0.00 0.00 0.00 2.57
5970 6364 2.303022 AGGTTGTGTCGTCCTCATTCAT 59.697 45.455 0.00 0.00 0.00 2.57
5971 6365 3.074412 GGTTGTGTCGTCCTCATTCATT 58.926 45.455 0.00 0.00 0.00 2.57
5972 6366 3.125316 GGTTGTGTCGTCCTCATTCATTC 59.875 47.826 0.00 0.00 0.00 2.67
5979 6373 6.978659 GTGTCGTCCTCATTCATTCAATAGTA 59.021 38.462 0.00 0.00 0.00 1.82
6000 6394 7.949690 AGTAAGTTTTCCCTTTTGTAACAGT 57.050 32.000 0.00 0.00 0.00 3.55
6019 6417 3.247648 CAGTAAACTGTTCTGTTGACGGG 59.752 47.826 1.81 0.25 36.62 5.28
6061 6459 6.538381 CCAAGAAAGCAGCCTTTTTCTTTTTA 59.462 34.615 15.01 0.00 46.14 1.52
6062 6460 7.227314 CCAAGAAAGCAGCCTTTTTCTTTTTAT 59.773 33.333 15.01 0.00 46.14 1.40
6063 6461 9.260002 CAAGAAAGCAGCCTTTTTCTTTTTATA 57.740 29.630 15.01 0.00 46.14 0.98
6221 6619 4.083537 TCGCATTATTGTGGTTTGACAGAC 60.084 41.667 0.00 0.00 34.03 3.51
6222 6620 4.320129 CGCATTATTGTGGTTTGACAGACA 60.320 41.667 0.00 0.00 0.00 3.41
6226 6624 3.342377 TTGTGGTTTGACAGACAGACA 57.658 42.857 0.00 0.00 35.65 3.41
6243 6644 1.205064 CAGACTTTGAACGGCGCAG 59.795 57.895 10.83 8.25 0.00 5.18
6246 6647 0.028902 GACTTTGAACGGCGCAGTTT 59.971 50.000 26.23 10.76 34.00 2.66
6265 6666 3.679824 TTCTTTCTCTTTCTCGGTCCC 57.320 47.619 0.00 0.00 0.00 4.46
6274 6675 0.677098 TTCTCGGTCCCTCTCACTCG 60.677 60.000 0.00 0.00 0.00 4.18
6278 6679 2.680352 GTCCCTCTCACTCGGCCA 60.680 66.667 2.24 0.00 0.00 5.36
6307 6708 2.914289 CAGAGGGGCTAGGGCAAG 59.086 66.667 0.00 0.00 40.87 4.01
6309 6710 1.997874 AGAGGGGCTAGGGCAAGTG 60.998 63.158 0.00 0.00 40.87 3.16
6310 6711 1.995626 GAGGGGCTAGGGCAAGTGA 60.996 63.158 0.00 0.00 40.87 3.41
6312 6713 1.378646 GGGGCTAGGGCAAGTGAAC 60.379 63.158 0.00 0.00 40.87 3.18
6313 6714 1.685820 GGGCTAGGGCAAGTGAACT 59.314 57.895 0.00 0.00 40.87 3.01
6314 6715 0.393132 GGGCTAGGGCAAGTGAACTC 60.393 60.000 0.00 0.00 40.87 3.01
6317 6718 1.271379 GCTAGGGCAAGTGAACTCCAA 60.271 52.381 0.00 0.00 38.54 3.53
6318 6719 2.704572 CTAGGGCAAGTGAACTCCAAG 58.295 52.381 0.00 0.00 0.00 3.61
6319 6720 0.538287 AGGGCAAGTGAACTCCAAGC 60.538 55.000 0.00 0.00 0.00 4.01
6320 6721 1.576421 GGCAAGTGAACTCCAAGCG 59.424 57.895 0.00 0.00 0.00 4.68
6321 6722 1.576421 GCAAGTGAACTCCAAGCGG 59.424 57.895 0.00 0.00 0.00 5.52
6322 6723 0.884704 GCAAGTGAACTCCAAGCGGA 60.885 55.000 0.00 0.00 39.79 5.54
6323 6724 1.813513 CAAGTGAACTCCAAGCGGAT 58.186 50.000 0.00 0.00 41.79 4.18
6324 6725 1.734465 CAAGTGAACTCCAAGCGGATC 59.266 52.381 0.00 0.00 41.79 3.36
6325 6726 0.976641 AGTGAACTCCAAGCGGATCA 59.023 50.000 0.00 0.00 41.79 2.92
6326 6727 1.556911 AGTGAACTCCAAGCGGATCAT 59.443 47.619 0.00 0.00 41.79 2.45
6327 6728 1.936547 GTGAACTCCAAGCGGATCATC 59.063 52.381 0.00 0.00 41.79 2.92
6343 6744 5.466728 CGGATCATCAATGTTTAGACCGAAT 59.533 40.000 0.00 0.00 39.11 3.34
6365 6768 3.008157 TGGTTCCGACACTTTTAGCCATA 59.992 43.478 0.00 0.00 0.00 2.74
6379 6782 0.458889 GCCATACGACACGGCTAACA 60.459 55.000 0.00 0.00 42.78 2.41
6391 6987 2.159435 ACGGCTAACAAAATTCATCGGC 60.159 45.455 0.00 0.00 0.00 5.54
6396 6992 1.923356 ACAAAATTCATCGGCCACCT 58.077 45.000 2.24 0.00 0.00 4.00
6397 6993 1.545582 ACAAAATTCATCGGCCACCTG 59.454 47.619 2.24 0.00 0.00 4.00
6398 6994 0.532115 AAAATTCATCGGCCACCTGC 59.468 50.000 2.24 0.00 40.16 4.85
6416 7012 3.371487 CCTGCCAACCTGTATTCATGGTA 60.371 47.826 0.00 0.00 33.17 3.25
6420 7016 4.464008 CCAACCTGTATTCATGGTAGCAT 58.536 43.478 0.40 0.40 33.17 3.79
6423 7019 3.459598 ACCTGTATTCATGGTAGCATGGT 59.540 43.478 29.33 21.48 33.61 3.55
6441 7037 5.426504 CATGGTGATTGAGAAGCTTACTCT 58.573 41.667 19.77 6.77 35.66 3.24
6460 7056 2.277591 GGCTGCCCACATTGAAGCA 61.278 57.895 7.66 0.00 35.55 3.91
6463 7059 1.179152 CTGCCCACATTGAAGCATCA 58.821 50.000 0.00 0.00 34.16 3.07
6464 7060 0.889994 TGCCCACATTGAAGCATCAC 59.110 50.000 0.00 0.00 34.61 3.06
6465 7061 0.174162 GCCCACATTGAAGCATCACC 59.826 55.000 0.00 0.00 34.61 4.02
6466 7062 0.452987 CCCACATTGAAGCATCACCG 59.547 55.000 0.00 0.00 34.61 4.94
6467 7063 0.452987 CCACATTGAAGCATCACCGG 59.547 55.000 0.00 0.00 34.61 5.28
6468 7064 1.167851 CACATTGAAGCATCACCGGT 58.832 50.000 0.00 0.00 34.61 5.28
6469 7065 1.131126 CACATTGAAGCATCACCGGTC 59.869 52.381 2.59 0.00 34.61 4.79
6470 7066 1.003580 ACATTGAAGCATCACCGGTCT 59.996 47.619 2.59 0.00 34.61 3.85
6471 7067 1.399440 CATTGAAGCATCACCGGTCTG 59.601 52.381 2.59 6.74 34.61 3.51
6472 7068 0.955428 TTGAAGCATCACCGGTCTGC 60.955 55.000 24.67 24.67 34.61 4.26
6473 7069 2.045926 AAGCATCACCGGTCTGCC 60.046 61.111 27.09 14.34 36.56 4.85
6474 7070 3.628646 AAGCATCACCGGTCTGCCC 62.629 63.158 27.09 7.66 36.56 5.36
6488 7084 2.424302 GCCCGCCTCGGCTATTTA 59.576 61.111 6.35 0.00 46.86 1.40
6489 7085 1.227734 GCCCGCCTCGGCTATTTAA 60.228 57.895 6.35 0.00 46.86 1.52
6490 7086 0.816421 GCCCGCCTCGGCTATTTAAA 60.816 55.000 6.35 0.00 46.86 1.52
6491 7087 1.226746 CCCGCCTCGGCTATTTAAAG 58.773 55.000 6.35 0.00 46.86 1.85
6492 7088 1.474498 CCCGCCTCGGCTATTTAAAGT 60.474 52.381 6.35 0.00 46.86 2.66
6493 7089 1.865340 CCGCCTCGGCTATTTAAAGTC 59.135 52.381 6.35 0.00 41.17 3.01
6494 7090 1.865340 CGCCTCGGCTATTTAAAGTCC 59.135 52.381 6.35 0.00 39.32 3.85
6495 7091 2.740580 CGCCTCGGCTATTTAAAGTCCA 60.741 50.000 6.35 0.00 39.32 4.02
6496 7092 2.612672 GCCTCGGCTATTTAAAGTCCAC 59.387 50.000 0.00 0.00 38.26 4.02
6497 7093 3.203716 CCTCGGCTATTTAAAGTCCACC 58.796 50.000 0.00 0.00 0.00 4.61
6498 7094 2.864343 CTCGGCTATTTAAAGTCCACCG 59.136 50.000 10.10 10.10 40.70 4.94
6499 7095 2.496871 TCGGCTATTTAAAGTCCACCGA 59.503 45.455 13.37 13.37 45.40 4.69
6500 7096 2.606272 CGGCTATTTAAAGTCCACCGAC 59.394 50.000 10.62 0.00 41.86 4.79
6501 7097 2.941064 GGCTATTTAAAGTCCACCGACC 59.059 50.000 0.00 0.00 40.12 4.79
6502 7098 3.370209 GGCTATTTAAAGTCCACCGACCT 60.370 47.826 0.00 0.00 40.12 3.85
6503 7099 3.869832 GCTATTTAAAGTCCACCGACCTC 59.130 47.826 0.00 0.00 40.12 3.85
6504 7100 2.845363 TTTAAAGTCCACCGACCTCC 57.155 50.000 0.00 0.00 40.12 4.30
6505 7101 1.719529 TTAAAGTCCACCGACCTCCA 58.280 50.000 0.00 0.00 40.12 3.86
6506 7102 1.719529 TAAAGTCCACCGACCTCCAA 58.280 50.000 0.00 0.00 40.12 3.53
6507 7103 0.108019 AAAGTCCACCGACCTCCAAC 59.892 55.000 0.00 0.00 40.12 3.77
6508 7104 2.048503 GTCCACCGACCTCCAACG 60.049 66.667 0.00 0.00 32.40 4.10
6509 7105 3.998672 TCCACCGACCTCCAACGC 61.999 66.667 0.00 0.00 0.00 4.84
6510 7106 4.308458 CCACCGACCTCCAACGCA 62.308 66.667 0.00 0.00 0.00 5.24
6511 7107 2.280524 CACCGACCTCCAACGCAA 60.281 61.111 0.00 0.00 0.00 4.85
6512 7108 1.890041 CACCGACCTCCAACGCAAA 60.890 57.895 0.00 0.00 0.00 3.68
6513 7109 1.890510 ACCGACCTCCAACGCAAAC 60.891 57.895 0.00 0.00 0.00 2.93
6514 7110 2.613506 CCGACCTCCAACGCAAACC 61.614 63.158 0.00 0.00 0.00 3.27
6515 7111 2.613506 CGACCTCCAACGCAAACCC 61.614 63.158 0.00 0.00 0.00 4.11
6516 7112 1.228154 GACCTCCAACGCAAACCCT 60.228 57.895 0.00 0.00 0.00 4.34
6517 7113 0.035739 GACCTCCAACGCAAACCCTA 59.964 55.000 0.00 0.00 0.00 3.53
6518 7114 0.696501 ACCTCCAACGCAAACCCTAT 59.303 50.000 0.00 0.00 0.00 2.57
6519 7115 1.339727 ACCTCCAACGCAAACCCTATC 60.340 52.381 0.00 0.00 0.00 2.08
6520 7116 1.379527 CTCCAACGCAAACCCTATCC 58.620 55.000 0.00 0.00 0.00 2.59
6521 7117 0.988832 TCCAACGCAAACCCTATCCT 59.011 50.000 0.00 0.00 0.00 3.24
6522 7118 1.065709 TCCAACGCAAACCCTATCCTC 60.066 52.381 0.00 0.00 0.00 3.71
6523 7119 1.379527 CAACGCAAACCCTATCCTCC 58.620 55.000 0.00 0.00 0.00 4.30
6524 7120 0.255033 AACGCAAACCCTATCCTCCC 59.745 55.000 0.00 0.00 0.00 4.30
6525 7121 0.912487 ACGCAAACCCTATCCTCCCA 60.912 55.000 0.00 0.00 0.00 4.37
6526 7122 0.463833 CGCAAACCCTATCCTCCCAC 60.464 60.000 0.00 0.00 0.00 4.61
6527 7123 0.919710 GCAAACCCTATCCTCCCACT 59.080 55.000 0.00 0.00 0.00 4.00
6528 7124 1.134068 GCAAACCCTATCCTCCCACTC 60.134 57.143 0.00 0.00 0.00 3.51
6529 7125 1.490910 CAAACCCTATCCTCCCACTCC 59.509 57.143 0.00 0.00 0.00 3.85
6530 7126 1.027815 AACCCTATCCTCCCACTCCT 58.972 55.000 0.00 0.00 0.00 3.69
6531 7127 0.266152 ACCCTATCCTCCCACTCCTG 59.734 60.000 0.00 0.00 0.00 3.86
6532 7128 0.266152 CCCTATCCTCCCACTCCTGT 59.734 60.000 0.00 0.00 0.00 4.00
6533 7129 1.710816 CCTATCCTCCCACTCCTGTC 58.289 60.000 0.00 0.00 0.00 3.51
6534 7130 1.219213 CCTATCCTCCCACTCCTGTCT 59.781 57.143 0.00 0.00 0.00 3.41
6535 7131 2.593026 CTATCCTCCCACTCCTGTCTC 58.407 57.143 0.00 0.00 0.00 3.36
6536 7132 0.712979 ATCCTCCCACTCCTGTCTCA 59.287 55.000 0.00 0.00 0.00 3.27
6537 7133 0.487325 TCCTCCCACTCCTGTCTCAA 59.513 55.000 0.00 0.00 0.00 3.02
6538 7134 1.132849 TCCTCCCACTCCTGTCTCAAA 60.133 52.381 0.00 0.00 0.00 2.69
6539 7135 1.277557 CCTCCCACTCCTGTCTCAAAG 59.722 57.143 0.00 0.00 0.00 2.77
6540 7136 0.687354 TCCCACTCCTGTCTCAAAGC 59.313 55.000 0.00 0.00 0.00 3.51
6541 7137 0.322008 CCCACTCCTGTCTCAAAGCC 60.322 60.000 0.00 0.00 0.00 4.35
6542 7138 0.671781 CCACTCCTGTCTCAAAGCCG 60.672 60.000 0.00 0.00 0.00 5.52
6543 7139 1.004440 ACTCCTGTCTCAAAGCCGC 60.004 57.895 0.00 0.00 0.00 6.53
6544 7140 1.743252 CTCCTGTCTCAAAGCCGCC 60.743 63.158 0.00 0.00 0.00 6.13
6545 7141 3.121030 CCTGTCTCAAAGCCGCCG 61.121 66.667 0.00 0.00 0.00 6.46
6546 7142 3.793144 CTGTCTCAAAGCCGCCGC 61.793 66.667 0.00 0.00 0.00 6.53
6547 7143 4.617520 TGTCTCAAAGCCGCCGCA 62.618 61.111 0.00 0.00 37.52 5.69
6548 7144 4.090057 GTCTCAAAGCCGCCGCAC 62.090 66.667 0.00 0.00 37.52 5.34
6549 7145 4.617520 TCTCAAAGCCGCCGCACA 62.618 61.111 0.00 0.00 37.52 4.57
6567 7163 0.823356 CACCACCACACCTGGGAAAG 60.823 60.000 0.00 0.00 42.74 2.62
6588 7184 2.240493 AGTCTGACACCGAAAAGTGG 57.760 50.000 10.88 0.00 42.28 4.00
6595 7191 2.281208 CCGAAAAGTGGTGGCCGA 60.281 61.111 0.00 0.00 0.00 5.54
6615 7211 3.369147 CGATGCGACTATGGATCCAATTC 59.631 47.826 20.67 13.89 33.58 2.17
6624 7220 3.870538 TGGATCCAATTCTGCATAGCT 57.129 42.857 13.46 0.00 0.00 3.32
6646 7242 1.668294 CACGGTCTCTGGAGCTGTT 59.332 57.895 0.00 0.00 37.77 3.16
6683 7279 4.101448 GCCTGGTCATGGCGGAGT 62.101 66.667 0.00 0.00 41.03 3.85
6763 7368 1.079819 CACGCGACAGGTGGAGATT 60.080 57.895 15.93 0.00 0.00 2.40
6769 7374 1.364626 GACAGGTGGAGATTGCGCTG 61.365 60.000 9.73 0.00 0.00 5.18
6770 7375 1.376424 CAGGTGGAGATTGCGCTGT 60.376 57.895 9.73 0.00 0.00 4.40
6773 7378 1.672356 GTGGAGATTGCGCTGTGGT 60.672 57.895 9.73 0.00 0.00 4.16
6777 7382 1.228245 AGATTGCGCTGTGGTGGTT 60.228 52.632 9.73 0.00 0.00 3.67
6820 7425 1.678970 GCCTTCCCCTTCACGCAAT 60.679 57.895 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 2.180276 CTTGGGTAGAGTGGTAGCAGT 58.820 52.381 0.88 0.88 0.00 4.40
95 96 7.549147 ACTTATCACTAACTTGACTTGGGTA 57.451 36.000 0.00 0.00 0.00 3.69
96 97 6.435292 ACTTATCACTAACTTGACTTGGGT 57.565 37.500 0.00 0.00 0.00 4.51
150 151 6.715344 AAAAACTCAAAGAAAACCGGTTTC 57.285 33.333 31.69 23.14 45.23 2.78
501 603 9.325198 GAACAAGTATTTGGAAAAAGGTTGAAT 57.675 29.630 2.81 0.00 38.66 2.57
540 644 5.970879 ACTTCAAAAATGTCGAACGAGTAC 58.029 37.500 0.00 0.00 0.00 2.73
752 891 2.588596 CACGCGAGCATATGGGCA 60.589 61.111 15.93 0.00 35.83 5.36
955 1100 4.111053 GGGGAAGCGGGGAGGAAC 62.111 72.222 0.00 0.00 0.00 3.62
1017 1162 3.118454 CTTCCATGGCGCGAACGT 61.118 61.111 12.10 0.00 42.83 3.99
1349 1494 2.927553 CTTGGGAAGCTCGAAATTGG 57.072 50.000 0.00 0.00 0.00 3.16
1364 1509 2.634815 AGCAGGATATGTCAGCTTGG 57.365 50.000 3.35 0.00 34.78 3.61
1366 1511 4.760530 TTGTAGCAGGATATGTCAGCTT 57.239 40.909 12.53 0.67 38.01 3.74
1384 1529 6.316390 CCCGAGAAATAGAATTACAGCTTTGT 59.684 38.462 0.00 0.00 0.00 2.83
1386 1531 5.823045 CCCCGAGAAATAGAATTACAGCTTT 59.177 40.000 0.00 0.00 0.00 3.51
1406 1551 0.835276 CTAACCCCTAGAAACCCCCG 59.165 60.000 0.00 0.00 0.00 5.73
1411 1556 6.342111 CACATCTTCTCTAACCCCTAGAAAC 58.658 44.000 0.00 0.00 36.17 2.78
1486 1632 2.596338 TCCACTCTCGCCACGTCA 60.596 61.111 0.00 0.00 0.00 4.35
1651 1797 6.148315 ACTCATGAATCATACCACATTATGCG 59.852 38.462 0.00 0.00 30.60 4.73
1662 1808 5.236047 GCTGGTCTCAACTCATGAATCATAC 59.764 44.000 0.00 0.00 37.67 2.39
1801 1961 6.154203 TGAGCTAGATCTGTATCAACCAAG 57.846 41.667 9.79 0.00 34.28 3.61
1938 2098 9.338622 CCACAAATTTCTAGTTAACTATAGGGG 57.661 37.037 15.57 5.76 0.00 4.79
1943 2103 6.605995 GCCCCCACAAATTTCTAGTTAACTAT 59.394 38.462 15.57 0.00 0.00 2.12
2214 2381 5.576447 ATTTCTCAAGTGTGGTCGTTTTT 57.424 34.783 0.00 0.00 0.00 1.94
2310 2479 8.093307 TGCTTTCACTCATTAATTTGGCATTTA 58.907 29.630 0.00 0.00 0.00 1.40
2338 2507 1.070914 GAGTACCTCCCTGCCATAAGC 59.929 57.143 0.00 0.00 44.14 3.09
2358 2527 7.439655 AGAATTAAAAGATTCTGCTAGTAGCCG 59.560 37.037 19.41 13.29 43.02 5.52
2439 2609 1.341080 ACTGGCCATGGGAAAACAAG 58.659 50.000 15.13 1.18 0.00 3.16
2456 2626 5.584253 AGATCACACTATCGCAAAGTACT 57.416 39.130 0.00 0.00 0.00 2.73
2530 2700 2.102588 TGCCTCGGTTAAGGAGATTAGC 59.897 50.000 5.28 1.81 38.87 3.09
2574 2744 9.765795 GCAGTAGTTTAGTTATGGTATCAATCT 57.234 33.333 0.00 0.00 0.00 2.40
2586 2756 6.727697 ACTTTCCCCTAGCAGTAGTTTAGTTA 59.272 38.462 0.00 0.00 0.00 2.24
2679 2854 7.227156 ACAGACTAGACCAAAATGTGAGAATT 58.773 34.615 0.00 0.00 0.00 2.17
2792 3131 3.758023 CAGATGTGGTACATTCTTTGCCA 59.242 43.478 0.00 0.00 44.52 4.92
2830 3170 7.774134 TGATCCCAACAATTTGAATATCAGTG 58.226 34.615 2.79 0.00 34.24 3.66
2989 3329 0.321122 AAGAAGCAGCCCACTCTTCG 60.321 55.000 0.00 0.00 40.65 3.79
3068 3408 0.753262 AGGACTCAGCACAAACTCGT 59.247 50.000 0.00 0.00 0.00 4.18
3077 3417 2.822643 ATCCCGGGAAGGACTCAGCA 62.823 60.000 30.84 0.00 45.00 4.41
3122 3463 4.384208 CCCAGCCATAACTACAACTTAGCT 60.384 45.833 0.00 0.00 0.00 3.32
3142 3483 3.413105 AAATAGCCCCAATAAAGCCCA 57.587 42.857 0.00 0.00 0.00 5.36
3224 3565 4.558226 ATCTCAAGTCAGCAATACCACA 57.442 40.909 0.00 0.00 0.00 4.17
3273 3614 0.539669 AGGCCCCACGAAAGGAAAAG 60.540 55.000 0.00 0.00 0.00 2.27
3283 3625 2.437002 TGGGTTTAAGGCCCCACG 59.563 61.111 0.00 0.00 46.06 4.94
3329 3671 8.093927 AGTCTTGATCAGAGTAAGAAAGAAAGG 58.906 37.037 0.00 0.00 32.84 3.11
3339 3699 9.507329 AAAGCAAATAAGTCTTGATCAGAGTAA 57.493 29.630 0.00 0.00 33.57 2.24
3456 3816 3.244078 ACAGTGCTCTTTGATTGGTACGA 60.244 43.478 0.00 0.00 0.00 3.43
3483 3843 3.841643 CTCCATGATGAACCACTTTTGC 58.158 45.455 0.00 0.00 0.00 3.68
3524 3884 5.188555 TCAGAGTCAACTCAATTAGCTCCAT 59.811 40.000 12.43 0.00 45.21 3.41
3538 3899 3.376546 GCTTCCATTCCATCAGAGTCAAC 59.623 47.826 0.00 0.00 0.00 3.18
3544 3905 5.824624 GTCAATTAGCTTCCATTCCATCAGA 59.175 40.000 0.00 0.00 0.00 3.27
3617 3978 7.623089 GCAAAACAATGAAACTGTGCTAAACAA 60.623 33.333 0.00 0.00 38.67 2.83
4083 4447 2.437281 CCAAGGGATGACAGTAGAGCAT 59.563 50.000 0.00 0.00 0.00 3.79
4090 4454 1.687612 CCAGCCAAGGGATGACAGT 59.312 57.895 1.40 0.00 42.34 3.55
5115 5479 7.490840 TGCATTAATGGATTGTGATACTTTGG 58.509 34.615 17.02 0.00 0.00 3.28
5233 5597 7.828717 TGATTTATCTCTTGCTGGAATACACAA 59.171 33.333 0.00 0.00 0.00 3.33
5234 5598 7.337938 TGATTTATCTCTTGCTGGAATACACA 58.662 34.615 0.00 0.00 0.00 3.72
5331 5695 2.706890 TGTTTTTCAGATAGTCCCGGC 58.293 47.619 0.00 0.00 0.00 6.13
5419 5783 4.097418 GCCTAGATAGCCTCCCTTGAATA 58.903 47.826 0.00 0.00 0.00 1.75
5550 5914 1.378762 CTTTCCACCCCACCGTCAT 59.621 57.895 0.00 0.00 0.00 3.06
5552 5916 2.033602 CCTTTCCACCCCACCGTC 59.966 66.667 0.00 0.00 0.00 4.79
5696 6060 8.630037 CCAATTTTTATCTGTAACCATCCTACC 58.370 37.037 0.00 0.00 0.00 3.18
5738 6102 0.107456 CCGGCTGTCAGATGCCTAAT 59.893 55.000 3.32 0.00 46.42 1.73
5782 6146 8.206189 TGTATATATCATGCATCATACACCCTG 58.794 37.037 0.00 0.00 0.00 4.45
5820 6185 1.795768 TGACATTCAAGCCTGACGAC 58.204 50.000 0.00 0.00 0.00 4.34
5910 6277 4.500389 AGGGGAGGATACATCTCTGAAT 57.500 45.455 0.00 0.00 41.41 2.57
5956 6350 7.707035 ACTTACTATTGAATGAATGAGGACGAC 59.293 37.037 0.00 0.00 0.00 4.34
5957 6351 7.782049 ACTTACTATTGAATGAATGAGGACGA 58.218 34.615 0.00 0.00 0.00 4.20
5958 6352 8.425577 AACTTACTATTGAATGAATGAGGACG 57.574 34.615 0.00 0.00 0.00 4.79
5963 6357 9.753674 AGGGAAAACTTACTATTGAATGAATGA 57.246 29.630 0.00 0.00 0.00 2.57
5968 6362 9.981114 ACAAAAGGGAAAACTTACTATTGAATG 57.019 29.630 0.00 0.00 0.00 2.67
5979 6373 8.809066 AGTTTACTGTTACAAAAGGGAAAACTT 58.191 29.630 0.00 0.00 0.00 2.66
6000 6394 2.841215 CCCCGTCAACAGAACAGTTTA 58.159 47.619 0.00 0.00 0.00 2.01
6009 6407 2.009774 CATAGAAAGCCCCGTCAACAG 58.990 52.381 0.00 0.00 0.00 3.16
6012 6410 0.988832 ACCATAGAAAGCCCCGTCAA 59.011 50.000 0.00 0.00 0.00 3.18
6061 6459 9.988815 CTTTCTCTGCTAGTACACCATTTATAT 57.011 33.333 0.00 0.00 0.00 0.86
6062 6460 7.926555 GCTTTCTCTGCTAGTACACCATTTATA 59.073 37.037 0.00 0.00 0.00 0.98
6063 6461 6.763610 GCTTTCTCTGCTAGTACACCATTTAT 59.236 38.462 0.00 0.00 0.00 1.40
6064 6462 6.070767 AGCTTTCTCTGCTAGTACACCATTTA 60.071 38.462 0.00 0.00 39.21 1.40
6221 6619 0.508641 CGCCGTTCAAAGTCTGTCTG 59.491 55.000 0.00 0.00 0.00 3.51
6222 6620 1.222115 GCGCCGTTCAAAGTCTGTCT 61.222 55.000 0.00 0.00 0.00 3.41
6226 6624 0.814010 AACTGCGCCGTTCAAAGTCT 60.814 50.000 11.72 0.00 0.00 3.24
6243 6644 3.747010 GGGACCGAGAAAGAGAAAGAAAC 59.253 47.826 0.00 0.00 0.00 2.78
6246 6647 2.826725 GAGGGACCGAGAAAGAGAAAGA 59.173 50.000 0.00 0.00 0.00 2.52
6265 6666 2.279120 GCGATGGCCGAGTGAGAG 60.279 66.667 0.00 0.00 41.76 3.20
6278 6679 1.147824 CCCTCTGCATTCAGGCGAT 59.852 57.895 0.00 0.00 40.69 4.58
6314 6715 3.788333 AAACATTGATGATCCGCTTGG 57.212 42.857 0.00 0.00 0.00 3.61
6317 6718 4.130118 GGTCTAAACATTGATGATCCGCT 58.870 43.478 0.00 0.00 0.00 5.52
6318 6719 3.059597 CGGTCTAAACATTGATGATCCGC 60.060 47.826 0.00 0.00 0.00 5.54
6319 6720 4.368315 TCGGTCTAAACATTGATGATCCG 58.632 43.478 0.00 0.00 36.30 4.18
6320 6721 6.293626 CCATTCGGTCTAAACATTGATGATCC 60.294 42.308 0.00 0.00 0.00 3.36
6321 6722 6.260936 ACCATTCGGTCTAAACATTGATGATC 59.739 38.462 0.00 0.00 44.71 2.92
6322 6723 6.122277 ACCATTCGGTCTAAACATTGATGAT 58.878 36.000 0.00 0.00 44.71 2.45
6323 6724 5.496556 ACCATTCGGTCTAAACATTGATGA 58.503 37.500 0.00 0.00 44.71 2.92
6324 6725 5.818136 ACCATTCGGTCTAAACATTGATG 57.182 39.130 0.00 0.00 44.71 3.07
6343 6744 1.141254 TGGCTAAAAGTGTCGGAACCA 59.859 47.619 0.00 0.00 0.00 3.67
6348 6749 2.601763 GTCGTATGGCTAAAAGTGTCGG 59.398 50.000 0.00 0.00 0.00 4.79
6365 6768 2.873472 TGAATTTTGTTAGCCGTGTCGT 59.127 40.909 0.00 0.00 0.00 4.34
6379 6782 0.532115 GCAGGTGGCCGATGAATTTT 59.468 50.000 0.00 0.00 36.11 1.82
6391 6987 1.271871 TGAATACAGGTTGGCAGGTGG 60.272 52.381 0.00 0.00 0.00 4.61
6396 6992 2.897271 ACCATGAATACAGGTTGGCA 57.103 45.000 0.00 0.00 29.58 4.92
6397 6993 2.618709 GCTACCATGAATACAGGTTGGC 59.381 50.000 0.00 0.00 36.87 4.52
6398 6994 3.884895 TGCTACCATGAATACAGGTTGG 58.115 45.455 0.00 0.00 36.87 3.77
6416 7012 2.803030 AGCTTCTCAATCACCATGCT 57.197 45.000 0.00 0.00 0.00 3.79
6420 7016 4.323028 CCAGAGTAAGCTTCTCAATCACCA 60.323 45.833 20.71 0.00 34.73 4.17
6423 7019 3.517100 AGCCAGAGTAAGCTTCTCAATCA 59.483 43.478 20.71 0.00 35.22 2.57
6441 7037 2.277591 GCTTCAATGTGGGCAGCCA 61.278 57.895 15.19 0.00 0.00 4.75
6475 7071 2.612672 GTGGACTTTAAATAGCCGAGGC 59.387 50.000 5.89 5.89 42.33 4.70
6476 7072 3.203716 GGTGGACTTTAAATAGCCGAGG 58.796 50.000 0.00 0.00 0.00 4.63
6477 7073 2.864343 CGGTGGACTTTAAATAGCCGAG 59.136 50.000 9.64 0.00 40.27 4.63
6478 7074 2.496871 TCGGTGGACTTTAAATAGCCGA 59.503 45.455 12.31 12.31 43.66 5.54
6479 7075 2.606272 GTCGGTGGACTTTAAATAGCCG 59.394 50.000 0.00 0.00 40.15 5.52
6480 7076 2.941064 GGTCGGTGGACTTTAAATAGCC 59.059 50.000 0.00 0.00 42.97 3.93
6481 7077 3.869832 GAGGTCGGTGGACTTTAAATAGC 59.130 47.826 0.00 0.00 42.97 2.97
6482 7078 4.081309 TGGAGGTCGGTGGACTTTAAATAG 60.081 45.833 0.00 0.00 42.97 1.73
6483 7079 3.839490 TGGAGGTCGGTGGACTTTAAATA 59.161 43.478 0.00 0.00 42.97 1.40
6484 7080 2.640826 TGGAGGTCGGTGGACTTTAAAT 59.359 45.455 0.00 0.00 42.97 1.40
6485 7081 2.048601 TGGAGGTCGGTGGACTTTAAA 58.951 47.619 0.00 0.00 42.97 1.52
6486 7082 1.719529 TGGAGGTCGGTGGACTTTAA 58.280 50.000 0.00 0.00 42.97 1.52
6487 7083 1.345415 GTTGGAGGTCGGTGGACTTTA 59.655 52.381 0.00 0.00 42.97 1.85
6488 7084 0.108019 GTTGGAGGTCGGTGGACTTT 59.892 55.000 0.00 0.00 42.97 2.66
6489 7085 1.752833 GTTGGAGGTCGGTGGACTT 59.247 57.895 0.00 0.00 42.97 3.01
6490 7086 2.571216 CGTTGGAGGTCGGTGGACT 61.571 63.158 0.00 0.00 42.97 3.85
6491 7087 2.048503 CGTTGGAGGTCGGTGGAC 60.049 66.667 0.00 0.00 42.66 4.02
6492 7088 3.998672 GCGTTGGAGGTCGGTGGA 61.999 66.667 0.00 0.00 0.00 4.02
6493 7089 3.818121 TTGCGTTGGAGGTCGGTGG 62.818 63.158 0.00 0.00 0.00 4.61
6494 7090 1.890041 TTTGCGTTGGAGGTCGGTG 60.890 57.895 0.00 0.00 0.00 4.94
6495 7091 1.890510 GTTTGCGTTGGAGGTCGGT 60.891 57.895 0.00 0.00 0.00 4.69
6496 7092 2.613506 GGTTTGCGTTGGAGGTCGG 61.614 63.158 0.00 0.00 0.00 4.79
6497 7093 2.613506 GGGTTTGCGTTGGAGGTCG 61.614 63.158 0.00 0.00 0.00 4.79
6498 7094 0.035739 TAGGGTTTGCGTTGGAGGTC 59.964 55.000 0.00 0.00 0.00 3.85
6499 7095 0.696501 ATAGGGTTTGCGTTGGAGGT 59.303 50.000 0.00 0.00 0.00 3.85
6500 7096 1.379527 GATAGGGTTTGCGTTGGAGG 58.620 55.000 0.00 0.00 0.00 4.30
6501 7097 1.065418 AGGATAGGGTTTGCGTTGGAG 60.065 52.381 0.00 0.00 0.00 3.86
6502 7098 0.988832 AGGATAGGGTTTGCGTTGGA 59.011 50.000 0.00 0.00 0.00 3.53
6503 7099 1.379527 GAGGATAGGGTTTGCGTTGG 58.620 55.000 0.00 0.00 0.00 3.77
6504 7100 1.379527 GGAGGATAGGGTTTGCGTTG 58.620 55.000 0.00 0.00 0.00 4.10
6505 7101 0.255033 GGGAGGATAGGGTTTGCGTT 59.745 55.000 0.00 0.00 0.00 4.84
6506 7102 0.912487 TGGGAGGATAGGGTTTGCGT 60.912 55.000 0.00 0.00 0.00 5.24
6507 7103 0.463833 GTGGGAGGATAGGGTTTGCG 60.464 60.000 0.00 0.00 0.00 4.85
6508 7104 0.919710 AGTGGGAGGATAGGGTTTGC 59.080 55.000 0.00 0.00 0.00 3.68
6509 7105 1.490910 GGAGTGGGAGGATAGGGTTTG 59.509 57.143 0.00 0.00 0.00 2.93
6510 7106 1.369983 AGGAGTGGGAGGATAGGGTTT 59.630 52.381 0.00 0.00 0.00 3.27
6511 7107 1.027815 AGGAGTGGGAGGATAGGGTT 58.972 55.000 0.00 0.00 0.00 4.11
6512 7108 0.266152 CAGGAGTGGGAGGATAGGGT 59.734 60.000 0.00 0.00 0.00 4.34
6513 7109 0.266152 ACAGGAGTGGGAGGATAGGG 59.734 60.000 0.00 0.00 0.00 3.53
6514 7110 1.219213 AGACAGGAGTGGGAGGATAGG 59.781 57.143 0.00 0.00 0.00 2.57
6515 7111 2.091610 TGAGACAGGAGTGGGAGGATAG 60.092 54.545 0.00 0.00 0.00 2.08
6516 7112 1.930204 TGAGACAGGAGTGGGAGGATA 59.070 52.381 0.00 0.00 0.00 2.59
6517 7113 0.712979 TGAGACAGGAGTGGGAGGAT 59.287 55.000 0.00 0.00 0.00 3.24
6518 7114 0.487325 TTGAGACAGGAGTGGGAGGA 59.513 55.000 0.00 0.00 0.00 3.71
6519 7115 1.277557 CTTTGAGACAGGAGTGGGAGG 59.722 57.143 0.00 0.00 0.00 4.30
6520 7116 1.338579 GCTTTGAGACAGGAGTGGGAG 60.339 57.143 0.00 0.00 0.00 4.30
6521 7117 0.687354 GCTTTGAGACAGGAGTGGGA 59.313 55.000 0.00 0.00 0.00 4.37
6522 7118 0.322008 GGCTTTGAGACAGGAGTGGG 60.322 60.000 0.00 0.00 0.00 4.61
6523 7119 0.671781 CGGCTTTGAGACAGGAGTGG 60.672 60.000 0.00 0.00 0.00 4.00
6524 7120 1.294659 GCGGCTTTGAGACAGGAGTG 61.295 60.000 0.00 0.00 0.00 3.51
6525 7121 1.004440 GCGGCTTTGAGACAGGAGT 60.004 57.895 0.00 0.00 0.00 3.85
6526 7122 1.743252 GGCGGCTTTGAGACAGGAG 60.743 63.158 0.00 0.00 0.00 3.69
6527 7123 2.347490 GGCGGCTTTGAGACAGGA 59.653 61.111 0.00 0.00 0.00 3.86
6528 7124 3.121030 CGGCGGCTTTGAGACAGG 61.121 66.667 7.61 0.00 0.00 4.00
6529 7125 3.793144 GCGGCGGCTTTGAGACAG 61.793 66.667 9.78 0.00 35.83 3.51
6530 7126 4.617520 TGCGGCGGCTTTGAGACA 62.618 61.111 17.76 0.00 40.82 3.41
6531 7127 4.090057 GTGCGGCGGCTTTGAGAC 62.090 66.667 17.76 2.11 40.82 3.36
6532 7128 4.617520 TGTGCGGCGGCTTTGAGA 62.618 61.111 17.76 0.00 40.82 3.27
6533 7129 4.389576 GTGTGCGGCGGCTTTGAG 62.390 66.667 17.76 0.00 40.82 3.02
6543 7139 4.562425 AGGTGTGGTGGTGTGCGG 62.562 66.667 0.00 0.00 0.00 5.69
6544 7140 3.279116 CAGGTGTGGTGGTGTGCG 61.279 66.667 0.00 0.00 0.00 5.34
6545 7141 2.906897 CCAGGTGTGGTGGTGTGC 60.907 66.667 0.00 0.00 39.30 4.57
6546 7142 2.203337 CCCAGGTGTGGTGGTGTG 60.203 66.667 0.00 0.00 43.23 3.82
6547 7143 1.576368 TTTCCCAGGTGTGGTGGTGT 61.576 55.000 0.00 0.00 43.23 4.16
6548 7144 0.823356 CTTTCCCAGGTGTGGTGGTG 60.823 60.000 0.00 0.00 43.23 4.17
6549 7145 0.991355 TCTTTCCCAGGTGTGGTGGT 60.991 55.000 0.00 0.00 43.23 4.16
6559 7155 2.772287 GGTGTCAGACTTCTTTCCCAG 58.228 52.381 1.31 0.00 0.00 4.45
6567 7163 2.544267 CCACTTTTCGGTGTCAGACTTC 59.456 50.000 1.31 0.00 35.63 3.01
6588 7184 1.956170 CCATAGTCGCATCGGCCAC 60.956 63.158 2.24 0.00 36.38 5.01
6595 7191 4.321718 CAGAATTGGATCCATAGTCGCAT 58.678 43.478 17.06 0.44 0.00 4.73
6624 7220 2.997315 CTCCAGAGACCGTGGGCA 60.997 66.667 0.00 0.00 35.58 5.36
6646 7242 2.571757 GACGAGCCATGGACGACA 59.428 61.111 28.96 0.00 0.00 4.35
6763 7368 2.439338 AACAACCACCACAGCGCA 60.439 55.556 11.47 0.00 0.00 6.09
6769 7374 1.441732 GGTCGACCAACAACCACCAC 61.442 60.000 29.75 0.00 35.64 4.16
6770 7375 1.153127 GGTCGACCAACAACCACCA 60.153 57.895 29.75 0.00 35.64 4.17
6773 7378 2.589442 GCGGTCGACCAACAACCA 60.589 61.111 32.80 0.00 35.14 3.67
6777 7382 4.651008 GACCGCGGTCGACCAACA 62.651 66.667 39.77 0.00 38.10 3.33
6796 7401 2.346365 GAAGGGGAAGGCGACGTT 59.654 61.111 0.00 0.00 0.00 3.99
6797 7402 2.920912 TGAAGGGGAAGGCGACGT 60.921 61.111 0.00 0.00 0.00 4.34
6800 7405 4.388499 GCGTGAAGGGGAAGGCGA 62.388 66.667 0.00 0.00 0.00 5.54
6805 7410 2.038269 GCGATTGCGTGAAGGGGAA 61.038 57.895 0.00 0.00 40.36 3.97
6806 7411 2.435938 GCGATTGCGTGAAGGGGA 60.436 61.111 0.00 0.00 40.36 4.81
6820 7425 1.127766 CATTCAATTTGGACGACGCGA 59.872 47.619 15.93 0.00 0.00 5.87


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

AutoCloner maintained by Alex Coulton.