Multiple sequence alignment - TraesCS7D01G265700

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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 TraesCS7D01G265700 chr7D 100.000 5614 0 0 1 5614 247317670 247312057 0.000000e+00 10368.0
1 TraesCS7D01G265700 chr7B 96.833 3315 70 14 576 3874 223715893 223712598 0.000000e+00 5507.0
2 TraesCS7D01G265700 chr7B 94.386 855 42 4 3934 4783 223712579 223711726 0.000000e+00 1308.0
3 TraesCS7D01G265700 chr7B 91.128 789 43 12 2363 3151 606360286 606361047 0.000000e+00 1044.0
4 TraesCS7D01G265700 chr7B 93.348 466 22 5 5156 5614 223702693 223702230 0.000000e+00 680.0
5 TraesCS7D01G265700 chr7B 95.238 378 17 1 204 581 223716300 223715924 1.040000e-166 597.0
6 TraesCS7D01G265700 chr7B 89.849 463 18 3 2363 2823 621336696 621337131 8.160000e-158 568.0
7 TraesCS7D01G265700 chr7B 90.256 195 5 3 4823 5004 223702870 223702677 5.620000e-60 243.0
8 TraesCS7D01G265700 chr7A 98.704 2160 28 0 579 2738 264850086 264847927 0.000000e+00 3834.0
9 TraesCS7D01G265700 chr7A 95.120 2295 66 26 2736 5005 264847824 264845551 0.000000e+00 3576.0
10 TraesCS7D01G265700 chr7A 92.493 373 16 2 1 361 264851004 264850632 1.790000e-144 523.0
11 TraesCS7D01G265700 chr7A 90.040 251 6 1 350 581 264850370 264850120 1.960000e-79 307.0
12 TraesCS7D01G265700 chr7A 80.734 109 15 4 5393 5501 634451378 634451480 4.660000e-11 80.5
13 TraesCS7D01G265700 chr6B 90.621 789 50 11 2363 3151 560659214 560659978 0.000000e+00 1026.0
14 TraesCS7D01G265700 chr6B 90.196 510 22 2 2363 2870 560636568 560637051 1.710000e-179 640.0
15 TraesCS7D01G265700 chr6B 93.624 298 17 2 2854 3151 560638765 560639060 1.440000e-120 444.0
16 TraesCS7D01G265700 chr6B 93.878 98 6 0 3056 3153 330958553 330958650 1.260000e-31 148.0
17 TraesCS7D01G265700 chr3B 90.621 789 49 12 2363 3151 510796075 510795312 0.000000e+00 1024.0
18 TraesCS7D01G265700 chr3B 89.849 463 18 3 2363 2823 733428184 733427749 8.160000e-158 568.0
19 TraesCS7D01G265700 chr3B 91.667 48 3 1 5257 5304 143073568 143073614 1.310000e-06 65.8
20 TraesCS7D01G265700 chr3A 87.975 790 47 16 2364 3153 575759378 575760119 0.000000e+00 889.0
21 TraesCS7D01G265700 chr3A 87.264 793 39 9 2363 3153 556337913 556338645 0.000000e+00 848.0
22 TraesCS7D01G265700 chr3A 89.103 156 15 2 5005 5159 601382890 601382736 5.740000e-45 193.0
23 TraesCS7D01G265700 chr3A 89.333 150 15 1 5006 5154 694963555 694963406 2.670000e-43 187.0
24 TraesCS7D01G265700 chr2A 87.611 791 50 16 2363 3153 746820554 746819812 0.000000e+00 874.0
25 TraesCS7D01G265700 chr2A 87.358 791 52 16 2363 3153 676167847 676167105 0.000000e+00 863.0
26 TraesCS7D01G265700 chr2A 84.848 66 10 0 5239 5304 416913871 416913806 3.630000e-07 67.6
27 TraesCS7D01G265700 chr4A 89.853 680 45 11 2363 3042 730752760 730752105 0.000000e+00 852.0
28 TraesCS7D01G265700 chr4A 94.531 128 7 0 3026 3153 730752087 730751960 1.230000e-46 198.0
29 TraesCS7D01G265700 chr4A 86.207 87 10 2 5469 5553 740268461 740268375 5.990000e-15 93.5
30 TraesCS7D01G265700 chr4A 86.207 87 10 2 5469 5553 740345866 740345780 5.990000e-15 93.5
31 TraesCS7D01G265700 chr4A 89.130 46 1 4 5253 5296 742450316 742450359 3.000000e-03 54.7
32 TraesCS7D01G265700 chr5A 88.913 460 21 3 2363 2818 324689097 324689530 1.780000e-149 540.0
33 TraesCS7D01G265700 chr5A 92.784 291 21 0 2863 3153 324689530 324689820 6.720000e-114 422.0
34 TraesCS7D01G265700 chr5A 76.959 217 32 12 5392 5597 487669673 487669464 2.140000e-19 108.0
35 TraesCS7D01G265700 chr5D 89.172 157 14 3 5005 5160 380078775 380078929 5.740000e-45 193.0
36 TraesCS7D01G265700 chr5D 88.387 155 16 2 5005 5158 76972625 76972472 9.600000e-43 185.0
37 TraesCS7D01G265700 chr5D 77.682 233 46 6 5313 5540 120787568 120787337 2.730000e-28 137.0
38 TraesCS7D01G265700 chr4D 88.679 159 15 3 4998 5154 447293818 447293661 2.060000e-44 191.0
39 TraesCS7D01G265700 chr4D 88.742 151 16 1 5005 5154 351463646 351463796 3.450000e-42 183.0
40 TraesCS7D01G265700 chr3D 88.889 153 16 1 5004 5155 529127160 529127312 2.670000e-43 187.0
41 TraesCS7D01G265700 chr3D 95.833 48 2 0 3890 3937 112723432 112723385 1.680000e-10 78.7
42 TraesCS7D01G265700 chr1D 87.898 157 18 1 5003 5158 325676748 325676904 3.450000e-42 183.0
43 TraesCS7D01G265700 chr1D 87.742 155 17 2 5002 5154 452901853 452901699 4.470000e-41 180.0
44 TraesCS7D01G265700 chr1D 78.838 241 43 5 5349 5587 372522782 372522548 7.530000e-34 156.0
45 TraesCS7D01G265700 chr1A 78.039 255 41 9 5349 5597 471933156 471932911 4.530000e-31 147.0
46 TraesCS7D01G265700 chr1A 81.034 116 14 4 5239 5346 66726588 66726703 1.000000e-12 86.1
47 TraesCS7D01G265700 chr6D 80.380 158 22 6 5239 5387 57466748 57466591 1.650000e-20 111.0
48 TraesCS7D01G265700 chr6D 90.000 60 6 0 5237 5296 263488263 263488204 1.680000e-10 78.7
49 TraesCS7D01G265700 chr2D 76.233 223 45 6 5322 5540 629506016 629505798 1.650000e-20 111.0
50 TraesCS7D01G265700 chr4B 96.154 52 1 1 3887 3937 195465684 195465735 3.600000e-12 84.2
51 TraesCS7D01G265700 chr1B 79.439 107 15 6 5251 5350 671254038 671253932 1.010000e-07 69.4
52 TraesCS7D01G265700 chr6A 86.538 52 7 0 5239 5290 70968386 70968437 2.180000e-04 58.4
53 TraesCS7D01G265700 chrUn 94.286 35 2 0 5270 5304 7481352 7481318 3.000000e-03 54.7


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 TraesCS7D01G265700 chr7D 247312057 247317670 5613 True 10368.000000 10368 100.000000 1 5614 1 chr7D.!!$R1 5613
1 TraesCS7D01G265700 chr7B 223711726 223716300 4574 True 2470.666667 5507 95.485667 204 4783 3 chr7B.!!$R2 4579
2 TraesCS7D01G265700 chr7B 606360286 606361047 761 False 1044.000000 1044 91.128000 2363 3151 1 chr7B.!!$F1 788
3 TraesCS7D01G265700 chr7B 223702230 223702870 640 True 461.500000 680 91.802000 4823 5614 2 chr7B.!!$R1 791
4 TraesCS7D01G265700 chr7A 264845551 264851004 5453 True 2060.000000 3834 94.089250 1 5005 4 chr7A.!!$R1 5004
5 TraesCS7D01G265700 chr6B 560659214 560659978 764 False 1026.000000 1026 90.621000 2363 3151 1 chr6B.!!$F2 788
6 TraesCS7D01G265700 chr6B 560636568 560639060 2492 False 542.000000 640 91.910000 2363 3151 2 chr6B.!!$F3 788
7 TraesCS7D01G265700 chr3B 510795312 510796075 763 True 1024.000000 1024 90.621000 2363 3151 1 chr3B.!!$R1 788
8 TraesCS7D01G265700 chr3A 575759378 575760119 741 False 889.000000 889 87.975000 2364 3153 1 chr3A.!!$F2 789
9 TraesCS7D01G265700 chr3A 556337913 556338645 732 False 848.000000 848 87.264000 2363 3153 1 chr3A.!!$F1 790
10 TraesCS7D01G265700 chr2A 746819812 746820554 742 True 874.000000 874 87.611000 2363 3153 1 chr2A.!!$R3 790
11 TraesCS7D01G265700 chr2A 676167105 676167847 742 True 863.000000 863 87.358000 2363 3153 1 chr2A.!!$R2 790
12 TraesCS7D01G265700 chr4A 730751960 730752760 800 True 525.000000 852 92.192000 2363 3153 2 chr4A.!!$R3 790
13 TraesCS7D01G265700 chr5A 324689097 324689820 723 False 481.000000 540 90.848500 2363 3153 2 chr5A.!!$F1 790


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
620 961 0.179181 CGGCATGATCTGTTGTGCAC 60.179 55.000 10.75 10.75 39.27 4.57 F
1192 1548 0.251386 TCGCTCACTCTCCTCAGGTT 60.251 55.000 0.00 0.00 0.00 3.50 F
1644 2000 1.467734 GGAAAGCTCTGTCATGCACTG 59.532 52.381 0.00 0.00 0.00 3.66 F
3142 5417 0.182061 CAGCAGGGTATCATGTGCCT 59.818 55.000 0.50 0.00 36.54 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1644 2000 4.681744 TCTCAAAACCATTTGTCACAAGC 58.318 39.130 0.00 0.00 45.02 4.01 R
3142 5417 1.970640 ACACAGTGATACAGGTGAGCA 59.029 47.619 7.81 0.00 35.33 4.26 R
3407 5682 0.689055 AGACAATGGAGCTGACAGCA 59.311 50.000 28.43 9.35 45.56 4.41 R
5084 7396 0.039074 AAGAGACTTCGTGAGCACCG 60.039 55.000 0.00 0.00 0.00 4.94 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
34 35 2.267324 GCCTCCAGTCAGCAGTCC 59.733 66.667 0.00 0.00 0.00 3.85
38 39 4.087892 CCAGTCAGCAGTCCCCCG 62.088 72.222 0.00 0.00 0.00 5.73
143 152 3.256558 ACTAACCGTCAAGGCGTATTTC 58.743 45.455 0.00 0.00 46.52 2.17
163 172 9.074576 GTATTTCCTATTGGTGGTAAATAAGGG 57.925 37.037 0.00 0.00 34.23 3.95
186 195 1.340114 CCCTAGCTTTCCCAGGTTGTC 60.340 57.143 0.00 0.00 34.13 3.18
195 204 1.666872 CCAGGTTGTCGTTCGTCCC 60.667 63.158 0.00 0.00 0.00 4.46
259 272 6.254281 TCAATATCGTCGATCATTAGCTCA 57.746 37.500 11.82 0.00 0.00 4.26
496 801 9.358872 GCTTCCATAAAGAAAAGAAATCGAATT 57.641 29.630 0.00 0.00 37.12 2.17
620 961 0.179181 CGGCATGATCTGTTGTGCAC 60.179 55.000 10.75 10.75 39.27 4.57
766 1122 3.864243 ACTCTTGTCGGTGTGTTGTTTA 58.136 40.909 0.00 0.00 0.00 2.01
793 1149 9.791820 CATTCTCTGTGTGCAAAAATATAATCA 57.208 29.630 0.00 0.00 0.00 2.57
811 1167 9.985730 ATATAATCATGGTTTTGTTATTGCTGG 57.014 29.630 0.00 0.00 0.00 4.85
1066 1422 6.091123 CTTTCCCTGAAAGTAAATACGTCG 57.909 41.667 8.13 0.00 42.61 5.12
1192 1548 0.251386 TCGCTCACTCTCCTCAGGTT 60.251 55.000 0.00 0.00 0.00 3.50
1644 2000 1.467734 GGAAAGCTCTGTCATGCACTG 59.532 52.381 0.00 0.00 0.00 3.66
1968 2324 3.758554 ACTGTGACATTCATGGTTTAGGC 59.241 43.478 0.00 0.00 0.00 3.93
2664 3022 5.409643 ACGAGTCACATTTTGAAACTGAG 57.590 39.130 2.14 0.00 35.39 3.35
2895 5088 3.221771 AGCCACTTAATGTGCAACTGAA 58.778 40.909 0.00 0.00 44.92 3.02
3096 5371 3.259902 CCGAACTTACTAACCCAGCTTC 58.740 50.000 0.00 0.00 0.00 3.86
3142 5417 0.182061 CAGCAGGGTATCATGTGCCT 59.818 55.000 0.50 0.00 36.54 4.75
3188 5463 4.021544 GTCATGGGAATGTAAAACCAGCAA 60.022 41.667 0.00 0.00 36.27 3.91
3356 5631 3.585862 TGTCATCTCACTAAAACTCGGC 58.414 45.455 0.00 0.00 0.00 5.54
3407 5682 8.571336 CAAGTGATTGTTGAATTTCTAGAGGTT 58.429 33.333 0.00 0.00 0.00 3.50
3479 5754 7.347252 AGGATTCCTCTCCCTTTTGTATTTAC 58.653 38.462 0.00 0.00 35.79 2.01
3490 5765 5.571357 CCTTTTGTATTTACGTCACATTGGC 59.429 40.000 0.00 0.00 0.00 4.52
3579 5854 7.733773 TTTGAGAGGAGAAGGTACATGAATA 57.266 36.000 0.00 0.00 0.00 1.75
3634 5909 3.131933 GCTGACTACATCCACTCTGTGAT 59.868 47.826 0.00 0.00 35.23 3.06
3880 6164 8.428852 TGGCTCTTGTGTCTTATAGCATTATTA 58.571 33.333 0.00 0.00 0.00 0.98
3916 6200 3.118592 TGTTTGGTTGGGCTTTTACTTGG 60.119 43.478 0.00 0.00 0.00 3.61
3917 6201 1.044611 TGGTTGGGCTTTTACTTGGC 58.955 50.000 0.00 0.00 0.00 4.52
3923 6207 3.040147 GGGCTTTTACTTGGCCTTTTC 57.960 47.619 3.32 0.00 44.70 2.29
3924 6208 2.367241 GGGCTTTTACTTGGCCTTTTCA 59.633 45.455 3.32 0.00 44.70 2.69
3925 6209 3.390135 GGCTTTTACTTGGCCTTTTCAC 58.610 45.455 3.32 0.00 42.31 3.18
3975 6259 5.512753 TTCAAGCTTCAGCAACAATGTTA 57.487 34.783 0.00 0.00 45.16 2.41
4156 6440 2.565210 TTGTGTTCAAGCTTGCAGTG 57.435 45.000 21.99 0.00 0.00 3.66
4246 6530 2.600769 ACCGTCGCTGGACCTCTT 60.601 61.111 0.00 0.00 40.17 2.85
4261 6545 1.354368 CCTCTTACAAAGCCCCTTCCA 59.646 52.381 0.00 0.00 0.00 3.53
4286 6570 3.193691 AGGTAGTCGACACCATCTCTTTG 59.806 47.826 27.63 0.00 38.62 2.77
4317 6601 6.561902 CGATTTCAGCATCTCGAGATTTTCTC 60.562 42.308 25.25 13.60 40.06 2.87
4343 6627 1.893808 CAACAGCCAGCGGTGACTT 60.894 57.895 17.83 0.00 40.02 3.01
4344 6628 1.152963 AACAGCCAGCGGTGACTTT 60.153 52.632 17.83 0.00 40.02 2.66
4369 6653 1.402896 CCGGGAGAGCTTATGAGGCA 61.403 60.000 0.00 0.00 0.00 4.75
4372 6656 0.249657 GGAGAGCTTATGAGGCACCG 60.250 60.000 0.00 0.00 0.00 4.94
4479 6767 3.781770 GAGGCTCGGCTGTGGATCG 62.782 68.421 0.00 0.00 0.00 3.69
4536 6824 4.478317 AGATAACCCCCATCAAGTCAATGA 59.522 41.667 0.00 0.00 0.00 2.57
4691 6987 7.560991 AGAACATAATCTGATATTTGTGGGCAA 59.439 33.333 0.00 0.00 0.00 4.52
4752 7049 2.937519 TGTGGCTGTTGTTATGGTGAA 58.062 42.857 0.00 0.00 0.00 3.18
4797 7095 0.616679 TTCTTGAGTAGACCCGGGGG 60.617 60.000 27.92 5.70 42.03 5.40
4834 7133 4.225042 AGCAGAGGTGGTTATGTAATGTGA 59.775 41.667 0.00 0.00 0.00 3.58
4898 7197 1.739067 ATGCAAGACGCTAAGAACCC 58.261 50.000 0.00 0.00 43.06 4.11
4977 7289 0.166814 CTGTTTCAACGCTAGCCTGC 59.833 55.000 9.66 0.00 0.00 4.85
4978 7290 0.533978 TGTTTCAACGCTAGCCTGCA 60.534 50.000 9.66 0.00 0.00 4.41
4995 7307 1.467920 GCAGCTGCACTTAATTCCCT 58.532 50.000 33.36 0.00 41.59 4.20
4996 7308 1.403323 GCAGCTGCACTTAATTCCCTC 59.597 52.381 33.36 0.00 41.59 4.30
4997 7309 2.943199 GCAGCTGCACTTAATTCCCTCT 60.943 50.000 33.36 0.00 41.59 3.69
4998 7310 3.350833 CAGCTGCACTTAATTCCCTCTT 58.649 45.455 0.00 0.00 0.00 2.85
4999 7311 3.760684 CAGCTGCACTTAATTCCCTCTTT 59.239 43.478 0.00 0.00 0.00 2.52
5000 7312 4.219288 CAGCTGCACTTAATTCCCTCTTTT 59.781 41.667 0.00 0.00 0.00 2.27
5001 7313 4.835056 AGCTGCACTTAATTCCCTCTTTTT 59.165 37.500 1.02 0.00 0.00 1.94
5002 7314 4.925646 GCTGCACTTAATTCCCTCTTTTTG 59.074 41.667 0.00 0.00 0.00 2.44
5003 7315 4.881920 TGCACTTAATTCCCTCTTTTTGC 58.118 39.130 0.00 0.00 0.00 3.68
5004 7316 3.920412 GCACTTAATTCCCTCTTTTTGCG 59.080 43.478 0.00 0.00 0.00 4.85
5005 7317 4.320935 GCACTTAATTCCCTCTTTTTGCGA 60.321 41.667 0.00 0.00 0.00 5.10
5006 7318 5.393962 CACTTAATTCCCTCTTTTTGCGAG 58.606 41.667 0.00 0.00 0.00 5.03
5007 7319 4.459337 ACTTAATTCCCTCTTTTTGCGAGG 59.541 41.667 0.00 0.00 46.11 4.63
5013 7325 1.098050 CTCTTTTTGCGAGGATGGGG 58.902 55.000 0.00 0.00 0.00 4.96
5014 7326 0.965363 TCTTTTTGCGAGGATGGGGC 60.965 55.000 0.00 0.00 0.00 5.80
5015 7327 2.270297 CTTTTTGCGAGGATGGGGCG 62.270 60.000 0.00 0.00 0.00 6.13
5016 7328 3.561120 TTTTGCGAGGATGGGGCGT 62.561 57.895 0.00 0.00 0.00 5.68
5017 7329 3.561120 TTTGCGAGGATGGGGCGTT 62.561 57.895 0.00 0.00 0.00 4.84
5018 7330 4.776322 TGCGAGGATGGGGCGTTG 62.776 66.667 0.00 0.00 0.00 4.10
5019 7331 4.467084 GCGAGGATGGGGCGTTGA 62.467 66.667 0.00 0.00 0.00 3.18
5020 7332 2.505982 CGAGGATGGGGCGTTGAT 59.494 61.111 0.00 0.00 0.00 2.57
5021 7333 1.595382 CGAGGATGGGGCGTTGATC 60.595 63.158 0.00 0.00 0.00 2.92
5022 7334 1.227973 GAGGATGGGGCGTTGATCC 60.228 63.158 0.00 0.00 36.63 3.36
5023 7335 2.591715 GGATGGGGCGTTGATCCG 60.592 66.667 0.00 0.00 0.00 4.18
5024 7336 2.189521 GATGGGGCGTTGATCCGT 59.810 61.111 0.00 0.00 0.00 4.69
5025 7337 1.451387 GATGGGGCGTTGATCCGTT 60.451 57.895 0.00 0.00 0.00 4.44
5026 7338 1.714899 GATGGGGCGTTGATCCGTTG 61.715 60.000 0.00 0.00 0.00 4.10
5027 7339 3.131478 GGGGCGTTGATCCGTTGG 61.131 66.667 0.00 0.00 0.00 3.77
5028 7340 2.359478 GGGCGTTGATCCGTTGGT 60.359 61.111 0.00 0.00 0.00 3.67
5029 7341 1.969589 GGGCGTTGATCCGTTGGTT 60.970 57.895 0.00 0.00 0.00 3.67
5030 7342 1.209127 GGCGTTGATCCGTTGGTTG 59.791 57.895 0.00 0.00 0.00 3.77
5031 7343 1.209127 GCGTTGATCCGTTGGTTGG 59.791 57.895 0.00 0.00 0.00 3.77
5032 7344 1.873165 CGTTGATCCGTTGGTTGGG 59.127 57.895 0.00 0.00 0.00 4.12
5033 7345 1.584495 GTTGATCCGTTGGTTGGGC 59.416 57.895 0.00 0.00 0.00 5.36
5034 7346 1.151679 TTGATCCGTTGGTTGGGCA 59.848 52.632 0.00 0.00 0.00 5.36
5035 7347 0.251564 TTGATCCGTTGGTTGGGCAT 60.252 50.000 0.00 0.00 0.00 4.40
5036 7348 0.679640 TGATCCGTTGGTTGGGCATC 60.680 55.000 0.00 0.00 0.00 3.91
5037 7349 1.379843 ATCCGTTGGTTGGGCATCC 60.380 57.895 0.00 0.00 0.00 3.51
5038 7350 2.148723 ATCCGTTGGTTGGGCATCCA 62.149 55.000 0.00 0.00 42.25 3.41
5046 7358 2.853316 TGGGCATCCAAGGTTGCT 59.147 55.556 18.60 0.00 40.73 3.91
5047 7359 1.607178 TGGGCATCCAAGGTTGCTG 60.607 57.895 18.60 0.00 40.73 4.41
5048 7360 2.575461 GGCATCCAAGGTTGCTGC 59.425 61.111 18.60 7.09 39.84 5.25
5049 7361 2.575461 GCATCCAAGGTTGCTGCC 59.425 61.111 13.52 0.00 37.71 4.85
5050 7362 2.277591 GCATCCAAGGTTGCTGCCA 61.278 57.895 13.52 0.00 37.71 4.92
5051 7363 1.888018 CATCCAAGGTTGCTGCCAG 59.112 57.895 0.00 0.00 0.00 4.85
5052 7364 1.980772 ATCCAAGGTTGCTGCCAGC 60.981 57.895 10.45 10.45 42.82 4.85
5053 7365 3.688159 CCAAGGTTGCTGCCAGCC 61.688 66.667 15.29 0.00 41.51 4.85
5054 7366 3.688159 CAAGGTTGCTGCCAGCCC 61.688 66.667 15.29 9.16 42.79 5.19
5055 7367 4.223125 AAGGTTGCTGCCAGCCCA 62.223 61.111 15.29 0.00 42.79 5.36
5056 7368 4.982701 AGGTTGCTGCCAGCCCAC 62.983 66.667 15.29 10.81 42.79 4.61
5065 7377 4.760047 CCAGCCCACCCGAGTTCG 62.760 72.222 0.00 0.00 39.44 3.95
5066 7378 3.691342 CAGCCCACCCGAGTTCGA 61.691 66.667 2.59 0.00 43.02 3.71
5067 7379 3.382832 AGCCCACCCGAGTTCGAG 61.383 66.667 2.59 0.00 43.02 4.04
5068 7380 3.692406 GCCCACCCGAGTTCGAGT 61.692 66.667 2.59 0.00 43.02 4.18
5069 7381 2.572284 CCCACCCGAGTTCGAGTC 59.428 66.667 2.59 0.00 43.02 3.36
5070 7382 2.572284 CCACCCGAGTTCGAGTCC 59.428 66.667 2.59 0.00 43.02 3.85
5071 7383 2.572284 CACCCGAGTTCGAGTCCC 59.428 66.667 2.59 0.00 43.02 4.46
5072 7384 3.060615 ACCCGAGTTCGAGTCCCG 61.061 66.667 2.59 0.00 43.02 5.14
5073 7385 3.823330 CCCGAGTTCGAGTCCCGG 61.823 72.222 2.59 0.00 43.02 5.73
5074 7386 4.493747 CCGAGTTCGAGTCCCGGC 62.494 72.222 0.00 0.00 43.02 6.13
5075 7387 3.744719 CGAGTTCGAGTCCCGGCA 61.745 66.667 0.00 0.00 43.02 5.69
5076 7388 2.893398 GAGTTCGAGTCCCGGCAT 59.107 61.111 0.00 0.00 39.14 4.40
5077 7389 1.519455 GAGTTCGAGTCCCGGCATG 60.519 63.158 0.00 0.00 39.14 4.06
5078 7390 2.511600 GTTCGAGTCCCGGCATGG 60.512 66.667 0.00 0.00 39.14 3.66
5079 7391 2.682136 TTCGAGTCCCGGCATGGA 60.682 61.111 0.00 0.00 42.00 3.41
5099 7411 3.470567 CGCGGTGCTCACGAAGTC 61.471 66.667 0.00 0.00 41.61 3.01
5100 7412 2.049063 GCGGTGCTCACGAAGTCT 60.049 61.111 0.00 0.00 41.61 3.24
5101 7413 2.089349 GCGGTGCTCACGAAGTCTC 61.089 63.158 0.00 0.00 41.61 3.36
5102 7414 1.581954 CGGTGCTCACGAAGTCTCT 59.418 57.895 0.00 0.00 41.61 3.10
5103 7415 0.039074 CGGTGCTCACGAAGTCTCTT 60.039 55.000 0.00 0.00 41.61 2.85
5104 7416 1.704070 GGTGCTCACGAAGTCTCTTC 58.296 55.000 0.00 0.03 41.61 2.87
5105 7417 1.271102 GGTGCTCACGAAGTCTCTTCT 59.729 52.381 7.70 0.00 41.61 2.85
5106 7418 2.488545 GGTGCTCACGAAGTCTCTTCTA 59.511 50.000 7.70 0.00 41.61 2.10
5107 7419 3.129638 GGTGCTCACGAAGTCTCTTCTAT 59.870 47.826 7.70 0.00 41.61 1.98
5108 7420 4.335874 GGTGCTCACGAAGTCTCTTCTATA 59.664 45.833 7.70 0.00 41.61 1.31
5109 7421 5.163642 GGTGCTCACGAAGTCTCTTCTATAA 60.164 44.000 7.70 0.00 41.61 0.98
5110 7422 6.323266 GTGCTCACGAAGTCTCTTCTATAAA 58.677 40.000 7.70 0.00 41.61 1.40
5111 7423 6.470877 GTGCTCACGAAGTCTCTTCTATAAAG 59.529 42.308 7.70 0.00 41.61 1.85
5112 7424 6.374613 TGCTCACGAAGTCTCTTCTATAAAGA 59.625 38.462 7.70 0.00 41.61 2.52
5113 7425 7.094334 TGCTCACGAAGTCTCTTCTATAAAGAA 60.094 37.037 7.70 0.00 41.61 2.52
5114 7426 7.755822 GCTCACGAAGTCTCTTCTATAAAGAAA 59.244 37.037 7.70 0.00 41.61 2.52
5115 7427 9.627395 CTCACGAAGTCTCTTCTATAAAGAAAA 57.373 33.333 7.70 0.00 41.61 2.29
5116 7428 9.627395 TCACGAAGTCTCTTCTATAAAGAAAAG 57.373 33.333 7.70 0.00 41.61 2.27
5117 7429 8.376942 CACGAAGTCTCTTCTATAAAGAAAAGC 58.623 37.037 7.70 0.00 41.61 3.51
5118 7430 7.546316 ACGAAGTCTCTTCTATAAAGAAAAGCC 59.454 37.037 7.70 0.00 37.49 4.35
5119 7431 7.545965 CGAAGTCTCTTCTATAAAGAAAAGCCA 59.454 37.037 7.70 0.00 41.19 4.75
5120 7432 9.220767 GAAGTCTCTTCTATAAAGAAAAGCCAA 57.779 33.333 2.71 0.00 41.19 4.52
5121 7433 8.554835 AGTCTCTTCTATAAAGAAAAGCCAAC 57.445 34.615 0.00 0.00 41.19 3.77
5122 7434 8.157476 AGTCTCTTCTATAAAGAAAAGCCAACA 58.843 33.333 0.00 0.00 41.19 3.33
5123 7435 8.784043 GTCTCTTCTATAAAGAAAAGCCAACAA 58.216 33.333 0.00 0.00 41.19 2.83
5124 7436 9.003658 TCTCTTCTATAAAGAAAAGCCAACAAG 57.996 33.333 0.00 0.00 41.19 3.16
5125 7437 8.110860 TCTTCTATAAAGAAAAGCCAACAAGG 57.889 34.615 0.00 0.00 41.19 3.61
5126 7438 7.942341 TCTTCTATAAAGAAAAGCCAACAAGGA 59.058 33.333 0.00 0.00 41.19 3.36
5127 7439 8.650143 TTCTATAAAGAAAAGCCAACAAGGAT 57.350 30.769 0.00 0.00 38.81 3.24
5128 7440 9.747898 TTCTATAAAGAAAAGCCAACAAGGATA 57.252 29.630 0.00 0.00 38.81 2.59
5129 7441 9.396022 TCTATAAAGAAAAGCCAACAAGGATAG 57.604 33.333 0.00 0.00 41.22 2.08
5130 7442 4.790765 AAGAAAAGCCAACAAGGATAGC 57.209 40.909 0.00 0.00 41.22 2.97
5131 7443 3.092301 AGAAAAGCCAACAAGGATAGCC 58.908 45.455 0.00 0.00 41.22 3.93
5132 7444 1.852633 AAAGCCAACAAGGATAGCCC 58.147 50.000 0.00 0.00 41.22 5.19
5141 7453 2.321720 AGGATAGCCCTTGGGTTGG 58.678 57.895 7.61 0.00 44.85 3.77
5142 7454 0.552615 AGGATAGCCCTTGGGTTGGT 60.553 55.000 7.61 0.00 44.85 3.67
5143 7455 0.106669 GGATAGCCCTTGGGTTGGTC 60.107 60.000 7.61 4.70 34.28 4.02
5144 7456 0.919710 GATAGCCCTTGGGTTGGTCT 59.080 55.000 7.61 0.00 34.28 3.85
5145 7457 1.285078 GATAGCCCTTGGGTTGGTCTT 59.715 52.381 7.61 0.00 34.28 3.01
5146 7458 2.047769 TAGCCCTTGGGTTGGTCTTA 57.952 50.000 7.61 0.00 34.28 2.10
5147 7459 1.382914 AGCCCTTGGGTTGGTCTTAT 58.617 50.000 7.61 0.00 0.00 1.73
5148 7460 1.716503 AGCCCTTGGGTTGGTCTTATT 59.283 47.619 7.61 0.00 0.00 1.40
5149 7461 2.111792 AGCCCTTGGGTTGGTCTTATTT 59.888 45.455 7.61 0.00 0.00 1.40
5150 7462 2.903784 GCCCTTGGGTTGGTCTTATTTT 59.096 45.455 7.61 0.00 0.00 1.82
5151 7463 3.326588 GCCCTTGGGTTGGTCTTATTTTT 59.673 43.478 7.61 0.00 0.00 1.94
5247 7559 2.314323 GCCAACCATTAGGGCATTTG 57.686 50.000 0.00 0.00 46.92 2.32
5249 7561 1.471327 CCAACCATTAGGGCATTTGCG 60.471 52.381 0.00 0.00 43.26 4.85
5252 7564 0.029300 CCATTAGGGCATTTGCGACG 59.971 55.000 0.00 0.00 43.26 5.12
5279 7591 1.798813 CGCAAAAATCCTTCCGCATCC 60.799 52.381 0.00 0.00 0.00 3.51
5300 7612 3.072468 CGCGGACAGGGGGACTAA 61.072 66.667 0.00 0.00 0.00 2.24
5366 7685 9.892130 ATATTTTTAACAACTCAAACCAACCAA 57.108 25.926 0.00 0.00 0.00 3.67
5391 7710 6.869315 TGAAATTCGTGTAAACTGGATGAA 57.131 33.333 0.00 0.00 0.00 2.57
5392 7711 7.447374 TGAAATTCGTGTAAACTGGATGAAT 57.553 32.000 0.00 0.00 0.00 2.57
5512 7831 1.883084 CTCATACGCTTGTCCGCCC 60.883 63.158 0.00 0.00 0.00 6.13
5561 7880 2.177518 TGGTCCCTCCAGTCCCTCT 61.178 63.158 0.00 0.00 41.93 3.69
5580 7899 2.724358 GCGACAAAACAACGCCGG 60.724 61.111 0.00 0.00 45.35 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 2.124570 CCCCTTCGCCTGGTGATG 60.125 66.667 11.31 13.09 0.00 3.07
143 152 5.070685 GCTCCCTTATTTACCACCAATAGG 58.929 45.833 0.00 0.00 42.21 2.57
244 257 8.575565 TTAAACTACATGAGCTAATGATCGAC 57.424 34.615 18.56 0.00 0.00 4.20
284 297 9.103861 CAAAAATTACCAAAAGGCTTTCTACAA 57.896 29.630 13.76 6.26 0.00 2.41
347 360 3.198068 GCATATCAAAGGTCAAGCTCGA 58.802 45.455 0.00 0.00 0.00 4.04
496 801 3.162858 ACGGGGTTTCGTGTGGGA 61.163 61.111 0.00 0.00 42.21 4.37
620 961 6.334102 ACATAGCCTAAGAATAACGAGGAG 57.666 41.667 0.00 0.00 0.00 3.69
766 1122 9.793252 GATTATATTTTTGCACACAGAGAATGT 57.207 29.630 0.00 0.00 45.43 2.71
793 1149 3.900601 TCCACCAGCAATAACAAAACCAT 59.099 39.130 0.00 0.00 0.00 3.55
811 1167 1.482182 GGGGCAATTCTCCATTTCCAC 59.518 52.381 0.00 0.00 29.95 4.02
1066 1422 1.915983 GGGAGATTGGGACAGGGAC 59.084 63.158 0.00 0.00 42.39 4.46
1644 2000 4.681744 TCTCAAAACCATTTGTCACAAGC 58.318 39.130 0.00 0.00 45.02 4.01
2664 3022 7.732996 TCCCTAAAAGAGTGTTGTATATAGCC 58.267 38.462 0.00 0.00 0.00 3.93
2700 3060 4.873010 TCAGGAAGGACTCTGCTACTAAT 58.127 43.478 0.00 0.00 0.00 1.73
2895 5088 7.886629 ATAAAATCAGGATAACAGTGTGCAT 57.113 32.000 0.00 0.00 0.00 3.96
3053 5246 7.798071 TCGGGGTAAAAATATAACTGTCAGAT 58.202 34.615 6.91 0.00 0.00 2.90
3096 5371 5.875359 AGATTAGTTTAAGCCAGAGAAACCG 59.125 40.000 0.00 0.00 34.31 4.44
3142 5417 1.970640 ACACAGTGATACAGGTGAGCA 59.029 47.619 7.81 0.00 35.33 4.26
3188 5463 3.202151 TCTGGAGTTTGGAACTTTCAGGT 59.798 43.478 17.08 0.00 43.03 4.00
3356 5631 5.526846 TGCAATTTGACCTTTTAAAGCCAAG 59.473 36.000 0.00 0.00 0.00 3.61
3407 5682 0.689055 AGACAATGGAGCTGACAGCA 59.311 50.000 28.43 9.35 45.56 4.41
3479 5754 2.490328 ACAAAGTTGCCAATGTGACG 57.510 45.000 0.00 0.00 0.00 4.35
3490 5765 9.904647 CAAAGAACATGACAAATAACAAAGTTG 57.095 29.630 0.00 0.00 39.09 3.16
3579 5854 3.077359 GCACAGCTTTCTGGACAACTAT 58.923 45.455 0.00 0.00 44.54 2.12
3634 5909 5.486063 TGTATGAAAGGTAGAAGGCCAGTAA 59.514 40.000 5.01 0.00 0.00 2.24
3880 6164 2.090999 ACCAAACACCCCCATAGTTTGT 60.091 45.455 13.95 2.88 46.43 2.83
3917 6201 9.657419 AAATTGATATAAGCCAAAGTGAAAAGG 57.343 29.630 0.00 0.00 0.00 3.11
3920 6204 8.934825 GCAAAATTGATATAAGCCAAAGTGAAA 58.065 29.630 0.00 0.00 0.00 2.69
3921 6205 8.093307 TGCAAAATTGATATAAGCCAAAGTGAA 58.907 29.630 0.00 0.00 0.00 3.18
3922 6206 7.545265 GTGCAAAATTGATATAAGCCAAAGTGA 59.455 33.333 0.00 0.00 0.00 3.41
3923 6207 7.546667 AGTGCAAAATTGATATAAGCCAAAGTG 59.453 33.333 0.00 0.00 0.00 3.16
3924 6208 7.614494 AGTGCAAAATTGATATAAGCCAAAGT 58.386 30.769 0.00 0.00 0.00 2.66
3925 6209 8.385111 CAAGTGCAAAATTGATATAAGCCAAAG 58.615 33.333 0.00 0.00 0.00 2.77
4156 6440 1.416401 TCGGAGCCATAGGATTGGTTC 59.584 52.381 0.00 0.00 43.94 3.62
4246 6530 1.284785 CCTGATGGAAGGGGCTTTGTA 59.715 52.381 0.00 0.00 33.28 2.41
4261 6545 2.952978 GAGATGGTGTCGACTACCTGAT 59.047 50.000 26.61 17.87 39.01 2.90
4286 6570 2.029728 CGAGATGCTGAAATCGTCCAAC 59.970 50.000 0.00 0.00 0.00 3.77
4343 6627 3.964688 TCATAAGCTCTCCCGGTGATAAA 59.035 43.478 0.00 0.00 0.00 1.40
4344 6628 3.572642 TCATAAGCTCTCCCGGTGATAA 58.427 45.455 0.00 0.00 0.00 1.75
4369 6653 2.515057 TCACAAGGCAAACGCGGT 60.515 55.556 12.47 0.00 0.00 5.68
4372 6656 0.593128 ATCTGTCACAAGGCAAACGC 59.407 50.000 0.00 0.00 0.00 4.84
4536 6824 3.245016 TGCATCTTCAAAGGATCACACCT 60.245 43.478 0.00 0.00 42.69 4.00
4624 6912 1.003573 AACCAGGGAGGGAGGCTAG 59.996 63.158 0.00 0.00 43.89 3.42
4691 6987 1.675641 GTTCGCAACTGGGCCAGAT 60.676 57.895 38.99 26.17 35.18 2.90
4752 7049 1.352352 CAACCTGTCCCTTGTCCAGAT 59.648 52.381 0.00 0.00 0.00 2.90
4797 7095 3.704061 ACCTCTGCTCTATGTCTTCCTTC 59.296 47.826 0.00 0.00 0.00 3.46
4834 7133 3.691609 GGGATGCTCTTCTTCATCGTTTT 59.308 43.478 0.00 0.00 39.84 2.43
4947 7246 0.592637 TTGAAACAGCAGCCACATCG 59.407 50.000 0.00 0.00 0.00 3.84
4977 7289 2.996631 AGAGGGAATTAAGTGCAGCTG 58.003 47.619 10.11 10.11 0.00 4.24
4978 7290 3.728385 AAGAGGGAATTAAGTGCAGCT 57.272 42.857 0.00 0.00 0.00 4.24
4995 7307 0.965363 GCCCCATCCTCGCAAAAAGA 60.965 55.000 0.00 0.00 0.00 2.52
4996 7308 1.512694 GCCCCATCCTCGCAAAAAG 59.487 57.895 0.00 0.00 0.00 2.27
4997 7309 2.339556 CGCCCCATCCTCGCAAAAA 61.340 57.895 0.00 0.00 0.00 1.94
4998 7310 2.749839 CGCCCCATCCTCGCAAAA 60.750 61.111 0.00 0.00 0.00 2.44
4999 7311 3.561120 AACGCCCCATCCTCGCAAA 62.561 57.895 0.00 0.00 0.00 3.68
5000 7312 4.028490 AACGCCCCATCCTCGCAA 62.028 61.111 0.00 0.00 0.00 4.85
5001 7313 4.776322 CAACGCCCCATCCTCGCA 62.776 66.667 0.00 0.00 0.00 5.10
5002 7314 3.757248 ATCAACGCCCCATCCTCGC 62.757 63.158 0.00 0.00 0.00 5.03
5003 7315 1.595382 GATCAACGCCCCATCCTCG 60.595 63.158 0.00 0.00 0.00 4.63
5004 7316 1.227973 GGATCAACGCCCCATCCTC 60.228 63.158 0.00 0.00 34.31 3.71
5005 7317 2.919043 GGATCAACGCCCCATCCT 59.081 61.111 0.00 0.00 34.31 3.24
5006 7318 2.591715 CGGATCAACGCCCCATCC 60.592 66.667 0.00 0.00 33.85 3.51
5007 7319 1.451387 AACGGATCAACGCCCCATC 60.451 57.895 0.00 0.00 37.37 3.51
5008 7320 1.748879 CAACGGATCAACGCCCCAT 60.749 57.895 0.00 0.00 37.37 4.00
5009 7321 2.359354 CAACGGATCAACGCCCCA 60.359 61.111 0.00 0.00 37.37 4.96
5010 7322 3.131478 CCAACGGATCAACGCCCC 61.131 66.667 0.00 0.00 37.37 5.80
5011 7323 1.969589 AACCAACGGATCAACGCCC 60.970 57.895 0.00 0.00 37.37 6.13
5012 7324 1.209127 CAACCAACGGATCAACGCC 59.791 57.895 0.00 0.00 37.37 5.68
5013 7325 1.209127 CCAACCAACGGATCAACGC 59.791 57.895 0.00 0.00 37.37 4.84
5014 7326 1.873165 CCCAACCAACGGATCAACG 59.127 57.895 0.00 0.00 40.31 4.10
5015 7327 1.175983 TGCCCAACCAACGGATCAAC 61.176 55.000 0.00 0.00 0.00 3.18
5016 7328 0.251564 ATGCCCAACCAACGGATCAA 60.252 50.000 0.00 0.00 0.00 2.57
5017 7329 0.679640 GATGCCCAACCAACGGATCA 60.680 55.000 0.00 0.00 0.00 2.92
5018 7330 1.384222 GGATGCCCAACCAACGGATC 61.384 60.000 0.00 0.00 0.00 3.36
5019 7331 1.379843 GGATGCCCAACCAACGGAT 60.380 57.895 0.00 0.00 0.00 4.18
5020 7332 2.034999 GGATGCCCAACCAACGGA 59.965 61.111 0.00 0.00 0.00 4.69
5021 7333 1.876497 CTTGGATGCCCAACCAACGG 61.876 60.000 5.97 0.00 46.94 4.44
5022 7334 1.586028 CTTGGATGCCCAACCAACG 59.414 57.895 5.97 0.75 46.94 4.10
5023 7335 0.831711 ACCTTGGATGCCCAACCAAC 60.832 55.000 5.97 0.00 46.94 3.77
5024 7336 0.105246 AACCTTGGATGCCCAACCAA 60.105 50.000 9.28 9.28 46.94 3.67
5025 7337 0.831288 CAACCTTGGATGCCCAACCA 60.831 55.000 0.00 0.00 46.94 3.67
5026 7338 1.974543 CAACCTTGGATGCCCAACC 59.025 57.895 0.00 0.00 46.94 3.77
5027 7339 1.187567 AGCAACCTTGGATGCCCAAC 61.188 55.000 16.51 0.00 46.94 3.77
5029 7341 1.607178 CAGCAACCTTGGATGCCCA 60.607 57.895 16.51 0.00 43.57 5.36
5030 7342 3.010413 GCAGCAACCTTGGATGCCC 62.010 63.158 16.51 6.40 43.57 5.36
5031 7343 2.575461 GCAGCAACCTTGGATGCC 59.425 61.111 16.51 1.15 43.57 4.40
5032 7344 2.221906 CTGGCAGCAACCTTGGATGC 62.222 60.000 13.05 13.05 42.87 3.91
5033 7345 1.888018 CTGGCAGCAACCTTGGATG 59.112 57.895 0.00 0.00 0.00 3.51
5034 7346 1.980772 GCTGGCAGCAACCTTGGAT 60.981 57.895 33.33 0.00 41.89 3.41
5035 7347 2.598394 GCTGGCAGCAACCTTGGA 60.598 61.111 33.33 0.00 41.89 3.53
5036 7348 3.688159 GGCTGGCAGCAACCTTGG 61.688 66.667 37.49 0.50 44.75 3.61
5037 7349 3.688159 GGGCTGGCAGCAACCTTG 61.688 66.667 37.49 1.32 44.75 3.61
5038 7350 4.223125 TGGGCTGGCAGCAACCTT 62.223 61.111 37.49 0.00 44.75 3.50
5039 7351 4.982701 GTGGGCTGGCAGCAACCT 62.983 66.667 37.49 0.00 44.75 3.50
5048 7360 4.760047 CGAACTCGGGTGGGCTGG 62.760 72.222 0.00 0.00 35.37 4.85
5049 7361 3.649277 CTCGAACTCGGGTGGGCTG 62.649 68.421 0.00 0.00 40.29 4.85
5050 7362 3.382832 CTCGAACTCGGGTGGGCT 61.383 66.667 0.00 0.00 40.29 5.19
5056 7368 3.823330 CCGGGACTCGAACTCGGG 61.823 72.222 18.93 0.00 46.21 5.14
5058 7370 3.064987 ATGCCGGGACTCGAACTCG 62.065 63.158 2.18 4.83 42.43 4.18
5059 7371 1.519455 CATGCCGGGACTCGAACTC 60.519 63.158 2.18 0.00 42.43 3.01
5060 7372 2.579201 CATGCCGGGACTCGAACT 59.421 61.111 2.18 0.00 42.43 3.01
5061 7373 2.511600 CCATGCCGGGACTCGAAC 60.512 66.667 2.18 0.00 42.43 3.95
5062 7374 2.682136 TCCATGCCGGGACTCGAA 60.682 61.111 2.18 0.00 42.43 3.71
5083 7395 2.049063 AGACTTCGTGAGCACCGC 60.049 61.111 0.00 0.00 0.00 5.68
5084 7396 0.039074 AAGAGACTTCGTGAGCACCG 60.039 55.000 0.00 0.00 0.00 4.94
5085 7397 1.271102 AGAAGAGACTTCGTGAGCACC 59.729 52.381 0.00 0.00 0.00 5.01
5086 7398 2.715737 AGAAGAGACTTCGTGAGCAC 57.284 50.000 0.00 0.00 0.00 4.40
5087 7399 6.374613 TCTTTATAGAAGAGACTTCGTGAGCA 59.625 38.462 0.00 0.00 0.00 4.26
5088 7400 6.787225 TCTTTATAGAAGAGACTTCGTGAGC 58.213 40.000 0.00 0.00 0.00 4.26
5089 7401 9.627395 TTTTCTTTATAGAAGAGACTTCGTGAG 57.373 33.333 0.00 0.00 41.25 3.51
5090 7402 9.627395 CTTTTCTTTATAGAAGAGACTTCGTGA 57.373 33.333 7.45 0.00 42.39 4.35
5091 7403 8.376942 GCTTTTCTTTATAGAAGAGACTTCGTG 58.623 37.037 14.92 0.00 42.39 4.35
5092 7404 7.546316 GGCTTTTCTTTATAGAAGAGACTTCGT 59.454 37.037 14.92 0.00 43.82 3.85
5093 7405 7.545965 TGGCTTTTCTTTATAGAAGAGACTTCG 59.454 37.037 16.73 0.00 46.11 3.79
5094 7406 8.779354 TGGCTTTTCTTTATAGAAGAGACTTC 57.221 34.615 16.73 0.00 46.11 3.01
5095 7407 9.004717 GTTGGCTTTTCTTTATAGAAGAGACTT 57.995 33.333 16.73 0.00 46.11 3.01
5096 7408 8.157476 TGTTGGCTTTTCTTTATAGAAGAGACT 58.843 33.333 16.73 0.00 46.11 3.24
5097 7409 8.324163 TGTTGGCTTTTCTTTATAGAAGAGAC 57.676 34.615 14.92 13.05 46.13 3.36
5098 7410 8.918202 TTGTTGGCTTTTCTTTATAGAAGAGA 57.082 30.769 14.92 0.00 42.39 3.10
5099 7411 8.239998 CCTTGTTGGCTTTTCTTTATAGAAGAG 58.760 37.037 8.53 8.53 42.58 2.85
5100 7412 7.942341 TCCTTGTTGGCTTTTCTTTATAGAAGA 59.058 33.333 0.00 0.00 37.44 2.87
5101 7413 8.110860 TCCTTGTTGGCTTTTCTTTATAGAAG 57.889 34.615 0.00 0.00 37.44 2.85
5102 7414 8.650143 ATCCTTGTTGGCTTTTCTTTATAGAA 57.350 30.769 0.00 0.00 35.71 2.10
5103 7415 9.396022 CTATCCTTGTTGGCTTTTCTTTATAGA 57.604 33.333 0.00 0.00 35.26 1.98
5104 7416 8.131731 GCTATCCTTGTTGGCTTTTCTTTATAG 58.868 37.037 0.00 0.00 35.26 1.31
5105 7417 7.068226 GGCTATCCTTGTTGGCTTTTCTTTATA 59.932 37.037 0.00 0.00 35.26 0.98
5106 7418 6.127338 GGCTATCCTTGTTGGCTTTTCTTTAT 60.127 38.462 0.00 0.00 35.26 1.40
5107 7419 5.185056 GGCTATCCTTGTTGGCTTTTCTTTA 59.815 40.000 0.00 0.00 35.26 1.85
5108 7420 4.021104 GGCTATCCTTGTTGGCTTTTCTTT 60.021 41.667 0.00 0.00 35.26 2.52
5109 7421 3.511540 GGCTATCCTTGTTGGCTTTTCTT 59.488 43.478 0.00 0.00 35.26 2.52
5110 7422 3.092301 GGCTATCCTTGTTGGCTTTTCT 58.908 45.455 0.00 0.00 35.26 2.52
5111 7423 2.166459 GGGCTATCCTTGTTGGCTTTTC 59.834 50.000 0.00 0.00 35.26 2.29
5112 7424 2.179427 GGGCTATCCTTGTTGGCTTTT 58.821 47.619 0.00 0.00 35.26 2.27
5113 7425 1.359130 AGGGCTATCCTTGTTGGCTTT 59.641 47.619 0.00 0.00 45.47 3.51
5114 7426 1.002857 AGGGCTATCCTTGTTGGCTT 58.997 50.000 0.00 0.00 45.47 4.35
5115 7427 2.715295 AGGGCTATCCTTGTTGGCT 58.285 52.632 0.00 0.00 45.47 4.75
5123 7435 4.876630 AGACCAACCCAAGGGCTATCCT 62.877 54.545 4.70 0.00 44.68 3.24
5124 7436 0.106669 GACCAACCCAAGGGCTATCC 60.107 60.000 4.70 0.00 39.32 2.59
5125 7437 0.919710 AGACCAACCCAAGGGCTATC 59.080 55.000 4.70 0.00 44.68 2.08
5126 7438 1.382914 AAGACCAACCCAAGGGCTAT 58.617 50.000 4.70 0.00 46.21 2.97
5127 7439 2.047769 TAAGACCAACCCAAGGGCTA 57.952 50.000 4.70 0.00 46.21 3.93
5129 7441 2.231716 AATAAGACCAACCCAAGGGC 57.768 50.000 4.70 0.00 39.32 5.19
5149 7461 9.054922 CAATGCAAAAAGAGGGAATTAGAAAAA 57.945 29.630 0.00 0.00 0.00 1.94
5150 7462 8.428063 TCAATGCAAAAAGAGGGAATTAGAAAA 58.572 29.630 0.00 0.00 0.00 2.29
5151 7463 7.961351 TCAATGCAAAAAGAGGGAATTAGAAA 58.039 30.769 0.00 0.00 0.00 2.52
5152 7464 7.537596 TCAATGCAAAAAGAGGGAATTAGAA 57.462 32.000 0.00 0.00 0.00 2.10
5153 7465 7.722949 ATCAATGCAAAAAGAGGGAATTAGA 57.277 32.000 0.00 0.00 0.00 2.10
5154 7466 9.305925 GTAATCAATGCAAAAAGAGGGAATTAG 57.694 33.333 0.00 0.00 0.00 1.73
5155 7467 8.811017 TGTAATCAATGCAAAAAGAGGGAATTA 58.189 29.630 0.00 0.00 0.00 1.40
5156 7468 7.678837 TGTAATCAATGCAAAAAGAGGGAATT 58.321 30.769 0.00 0.00 0.00 2.17
5157 7469 7.243604 TGTAATCAATGCAAAAAGAGGGAAT 57.756 32.000 0.00 0.00 0.00 3.01
5158 7470 6.662865 TGTAATCAATGCAAAAAGAGGGAA 57.337 33.333 0.00 0.00 0.00 3.97
5159 7471 6.855763 ATGTAATCAATGCAAAAAGAGGGA 57.144 33.333 0.00 0.00 0.00 4.20
5160 7472 8.253113 AGTTATGTAATCAATGCAAAAAGAGGG 58.747 33.333 0.00 0.00 0.00 4.30
5191 7503 5.596836 AAGGTGCAAGAAACAAGATTGAA 57.403 34.783 0.00 0.00 0.00 2.69
5192 7504 6.707440 TTAAGGTGCAAGAAACAAGATTGA 57.293 33.333 0.00 0.00 0.00 2.57
5236 7548 2.403378 GCCGTCGCAAATGCCCTAA 61.403 57.895 0.00 0.00 37.91 2.69
5252 7564 2.270923 GAAGGATTTTTGCGGATTGCC 58.729 47.619 0.00 0.00 45.60 4.52
5263 7575 1.379527 GACGGATGCGGAAGGATTTT 58.620 50.000 12.44 0.00 44.47 1.82
5300 7612 0.032813 CAACCTCCTGCATTGGGGAT 60.033 55.000 9.18 0.00 0.00 3.85
5304 7616 1.747355 GATGTCAACCTCCTGCATTGG 59.253 52.381 0.00 0.00 0.00 3.16
5305 7617 1.747355 GGATGTCAACCTCCTGCATTG 59.253 52.381 0.00 0.00 0.00 2.82
5306 7618 1.355381 TGGATGTCAACCTCCTGCATT 59.645 47.619 0.33 0.00 32.67 3.56
5307 7619 0.994247 TGGATGTCAACCTCCTGCAT 59.006 50.000 0.33 0.00 32.67 3.96
5308 7620 0.770499 TTGGATGTCAACCTCCTGCA 59.230 50.000 0.33 0.00 32.67 4.41
5309 7621 1.457346 CTTGGATGTCAACCTCCTGC 58.543 55.000 0.33 0.00 32.67 4.85
5310 7622 1.952367 GCCTTGGATGTCAACCTCCTG 60.952 57.143 0.33 0.49 32.67 3.86
5311 7623 0.329596 GCCTTGGATGTCAACCTCCT 59.670 55.000 0.33 0.00 32.67 3.69
5366 7685 7.447374 TCATCCAGTTTACACGAATTTCATT 57.553 32.000 0.00 0.00 0.00 2.57
5462 7781 4.162888 CCGGTATAGGGTTTAGTTGTTCCT 59.837 45.833 0.00 0.00 0.00 3.36
5464 7783 5.111989 GTCCGGTATAGGGTTTAGTTGTTC 58.888 45.833 0.00 0.00 0.00 3.18
5467 7786 3.381272 TCGTCCGGTATAGGGTTTAGTTG 59.619 47.826 0.00 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.