Multiple sequence alignment - TraesCS5D01G527000

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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 TraesCS5D01G527000 chr5D 100.000 3505 0 0 1 3505 544531448 544534952 0.000000e+00 6473.0
1 TraesCS5D01G527000 chr5D 84.207 1545 209 19 1062 2580 544459871 544461406 0.000000e+00 1469.0
2 TraesCS5D01G527000 chr5D 76.823 1152 250 13 1068 2213 544231468 544232608 1.780000e-177 632.0
3 TraesCS5D01G527000 chr5D 78.098 1041 199 19 1062 2093 544278061 544279081 1.780000e-177 632.0
4 TraesCS5D01G527000 chr5D 75.526 903 160 36 1794 2662 543830902 543831777 1.530000e-103 387.0
5 TraesCS5D01G527000 chr5D 87.727 220 18 6 539 753 544459242 544459457 7.510000e-62 248.0
6 TraesCS5D01G527000 chr5D 82.609 253 44 0 1794 2046 543817471 543817723 1.270000e-54 224.0
7 TraesCS5D01G527000 chr5D 95.652 115 5 0 757 871 544459579 544459693 5.970000e-43 185.0
8 TraesCS5D01G527000 chr5B 94.139 2184 95 12 515 2690 686849432 686851590 0.000000e+00 3293.0
9 TraesCS5D01G527000 chr5B 95.165 786 30 4 2724 3505 686851589 686852370 0.000000e+00 1234.0
10 TraesCS5D01G527000 chr5B 89.674 184 12 2 105 287 686847611 686847788 9.790000e-56 228.0
11 TraesCS5D01G527000 chr5B 91.617 167 10 2 286 448 686847818 686847984 9.790000e-56 228.0
12 TraesCS5D01G527000 chr5B 89.674 184 12 2 105 287 686914946 686915123 9.790000e-56 228.0
13 TraesCS5D01G527000 chr5B 91.617 167 10 2 286 448 686915153 686915319 9.790000e-56 228.0
14 TraesCS5D01G527000 chr5B 74.354 542 124 9 1808 2339 711714978 711714442 2.120000e-52 217.0
15 TraesCS5D01G527000 chrUn 94.093 2184 96 12 515 2690 252495419 252493261 0.000000e+00 3288.0
16 TraesCS5D01G527000 chrUn 95.165 786 30 4 2724 3505 252493262 252492481 0.000000e+00 1234.0
17 TraesCS5D01G527000 chr4A 78.602 1159 226 16 1062 2210 624992946 624991800 0.000000e+00 747.0
18 TraesCS5D01G527000 chr4A 77.083 1152 244 15 1068 2213 625077620 625076483 0.000000e+00 647.0
19 TraesCS5D01G527000 chr4A 74.384 933 173 42 1794 2689 625264916 625264013 4.330000e-89 339.0
20 TraesCS5D01G527000 chr4A 89.076 238 21 3 516 753 624345708 624345940 1.230000e-74 291.0
21 TraesCS5D01G527000 chr4A 88.525 244 20 5 514 753 624349856 624350095 4.430000e-74 289.0
22 TraesCS5D01G527000 chr4A 76.989 465 104 3 1794 2256 625372439 625371976 2.680000e-66 263.0
23 TraesCS5D01G527000 chr4A 93.182 176 7 2 289 461 624345535 624345708 1.610000e-63 254.0
24 TraesCS5D01G527000 chr4A 92.778 180 6 3 285 459 624349679 624349856 1.610000e-63 254.0
25 TraesCS5D01G527000 chr4A 77.670 309 40 16 117 422 624368619 624368901 1.010000e-35 161.0
26 TraesCS5D01G527000 chr4A 90.435 115 4 1 757 871 624350217 624350324 1.010000e-30 145.0
27 TraesCS5D01G527000 chr4A 96.000 50 2 0 5 54 624345285 624345334 8.060000e-12 82.4
28 TraesCS5D01G527000 chr2D 81.682 535 65 21 2820 3337 640358459 640357941 7.000000e-112 414.0
29 TraesCS5D01G527000 chr7D 77.528 712 110 32 2822 3505 259831398 259830709 1.970000e-102 383.0
30 TraesCS5D01G527000 chr6A 76.184 718 121 32 2822 3496 502113876 502113166 2.020000e-87 333.0
31 TraesCS5D01G527000 chr4B 78.970 233 42 5 2818 3044 151757058 151757289 6.060000e-33 152.0
32 TraesCS5D01G527000 chr3D 88.889 63 4 2 2817 2876 92288965 92289027 1.350000e-09 75.0
33 TraesCS5D01G527000 chr6D 90.909 55 4 1 459 512 319665770 319665716 4.850000e-09 73.1
34 TraesCS5D01G527000 chr5A 89.831 59 3 2 2821 2876 362372272 362372214 4.850000e-09 73.1
35 TraesCS5D01G527000 chr3B 93.617 47 1 1 404 448 662381203 662381157 6.280000e-08 69.4
36 TraesCS5D01G527000 chr2B 100.000 37 0 0 404 440 444800418 444800382 6.280000e-08 69.4
37 TraesCS5D01G527000 chr2B 100.000 37 0 0 404 440 795565736 795565772 6.280000e-08 69.4
38 TraesCS5D01G527000 chr3A 87.719 57 7 0 461 517 712576372 712576428 2.260000e-07 67.6


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 TraesCS5D01G527000 chr5D 544531448 544534952 3504 False 6473.000000 6473 100.000000 1 3505 1 chr5D.!!$F5 3504
1 TraesCS5D01G527000 chr5D 544459242 544461406 2164 False 634.000000 1469 89.195333 539 2580 3 chr5D.!!$F6 2041
2 TraesCS5D01G527000 chr5D 544231468 544232608 1140 False 632.000000 632 76.823000 1068 2213 1 chr5D.!!$F3 1145
3 TraesCS5D01G527000 chr5D 544278061 544279081 1020 False 632.000000 632 78.098000 1062 2093 1 chr5D.!!$F4 1031
4 TraesCS5D01G527000 chr5D 543830902 543831777 875 False 387.000000 387 75.526000 1794 2662 1 chr5D.!!$F2 868
5 TraesCS5D01G527000 chr5B 686847611 686852370 4759 False 1245.750000 3293 92.648750 105 3505 4 chr5B.!!$F1 3400
6 TraesCS5D01G527000 chr5B 711714442 711714978 536 True 217.000000 217 74.354000 1808 2339 1 chr5B.!!$R1 531
7 TraesCS5D01G527000 chrUn 252492481 252495419 2938 True 2261.000000 3288 94.629000 515 3505 2 chrUn.!!$R1 2990
8 TraesCS5D01G527000 chr4A 624991800 624992946 1146 True 747.000000 747 78.602000 1062 2210 1 chr4A.!!$R1 1148
9 TraesCS5D01G527000 chr4A 625076483 625077620 1137 True 647.000000 647 77.083000 1068 2213 1 chr4A.!!$R2 1145
10 TraesCS5D01G527000 chr4A 625264013 625264916 903 True 339.000000 339 74.384000 1794 2689 1 chr4A.!!$R3 895
11 TraesCS5D01G527000 chr4A 624345285 624350324 5039 False 219.233333 291 91.666000 5 871 6 chr4A.!!$F2 866
12 TraesCS5D01G527000 chr2D 640357941 640358459 518 True 414.000000 414 81.682000 2820 3337 1 chr2D.!!$R1 517
13 TraesCS5D01G527000 chr7D 259830709 259831398 689 True 383.000000 383 77.528000 2822 3505 1 chr7D.!!$R1 683
14 TraesCS5D01G527000 chr6A 502113166 502113876 710 True 333.000000 333 76.184000 2822 3496 1 chr6A.!!$R1 674

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
504 4687 0.036483 TTATCTGCACCAGCGCTGAA 60.036 50.0 38.06 18.74 46.23 3.02 F
505 4688 0.460811 TATCTGCACCAGCGCTGAAG 60.461 55.0 38.06 28.09 46.23 3.02 F
1385 7146 0.034896 GCTCCAACTCTTTCACGGGA 59.965 55.0 0.00 0.00 0.00 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1385 7146 0.975040 AGAGCGCCTCAGGAAGTGAT 60.975 55.000 2.29 0.0 33.51 3.06 R
1427 7188 1.472878 TCGTTGGATTCGAGTGAGAGG 59.527 52.381 0.00 0.0 33.38 3.69 R
2548 8563 0.983467 TCTACATCAGTTGCAGGCCA 59.017 50.000 5.01 0.0 0.00 5.36 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
46 47 5.660533 AGCCTTAAGGATAGATTAGCTCCT 58.339 41.667 26.21 4.70 41.19 3.69
60 61 8.368962 AGATTAGCTCCTTGTTATATACTCCC 57.631 38.462 0.00 0.00 0.00 4.30
61 62 8.180844 AGATTAGCTCCTTGTTATATACTCCCT 58.819 37.037 0.00 0.00 0.00 4.20
62 63 7.778185 TTAGCTCCTTGTTATATACTCCCTC 57.222 40.000 0.00 0.00 0.00 4.30
63 64 5.088026 AGCTCCTTGTTATATACTCCCTCC 58.912 45.833 0.00 0.00 0.00 4.30
64 65 4.223255 GCTCCTTGTTATATACTCCCTCCC 59.777 50.000 0.00 0.00 0.00 4.30
65 66 5.656420 CTCCTTGTTATATACTCCCTCCCT 58.344 45.833 0.00 0.00 0.00 4.20
66 67 5.652324 TCCTTGTTATATACTCCCTCCCTC 58.348 45.833 0.00 0.00 0.00 4.30
67 68 4.778427 CCTTGTTATATACTCCCTCCCTCC 59.222 50.000 0.00 0.00 0.00 4.30
68 69 4.043608 TGTTATATACTCCCTCCCTCCG 57.956 50.000 0.00 0.00 0.00 4.63
69 70 3.400322 TGTTATATACTCCCTCCCTCCGT 59.600 47.826 0.00 0.00 0.00 4.69
70 71 2.903375 ATATACTCCCTCCCTCCGTC 57.097 55.000 0.00 0.00 0.00 4.79
71 72 1.830486 TATACTCCCTCCCTCCGTCT 58.170 55.000 0.00 0.00 0.00 4.18
72 73 1.830486 ATACTCCCTCCCTCCGTCTA 58.170 55.000 0.00 0.00 0.00 2.59
73 74 1.600058 TACTCCCTCCCTCCGTCTAA 58.400 55.000 0.00 0.00 0.00 2.10
74 75 0.708802 ACTCCCTCCCTCCGTCTAAA 59.291 55.000 0.00 0.00 0.00 1.85
75 76 1.112950 CTCCCTCCCTCCGTCTAAAC 58.887 60.000 0.00 0.00 0.00 2.01
76 77 0.708802 TCCCTCCCTCCGTCTAAACT 59.291 55.000 0.00 0.00 0.00 2.66
77 78 1.925255 TCCCTCCCTCCGTCTAAACTA 59.075 52.381 0.00 0.00 0.00 2.24
78 79 2.091994 TCCCTCCCTCCGTCTAAACTAG 60.092 54.545 0.00 0.00 0.00 2.57
79 80 2.357986 CCCTCCCTCCGTCTAAACTAGT 60.358 54.545 0.00 0.00 0.00 2.57
80 81 2.688958 CCTCCCTCCGTCTAAACTAGTG 59.311 54.545 0.00 0.00 0.00 2.74
81 82 3.354467 CTCCCTCCGTCTAAACTAGTGT 58.646 50.000 0.00 0.00 0.00 3.55
82 83 3.762823 CTCCCTCCGTCTAAACTAGTGTT 59.237 47.826 0.00 0.00 38.16 3.32
83 84 4.922206 TCCCTCCGTCTAAACTAGTGTTA 58.078 43.478 0.00 0.00 34.96 2.41
84 85 5.324409 TCCCTCCGTCTAAACTAGTGTTAA 58.676 41.667 0.00 0.00 34.96 2.01
85 86 5.774690 TCCCTCCGTCTAAACTAGTGTTAAA 59.225 40.000 0.00 0.00 34.96 1.52
86 87 6.267471 TCCCTCCGTCTAAACTAGTGTTAAAA 59.733 38.462 0.00 0.00 34.96 1.52
87 88 6.930722 CCCTCCGTCTAAACTAGTGTTAAAAA 59.069 38.462 0.00 0.00 34.96 1.94
146 147 1.068895 CAAGCAGATTTTGTGTGGCCA 59.931 47.619 0.00 0.00 0.00 5.36
159 160 5.798125 TGTGTGGCCATTTATTTTCTCAA 57.202 34.783 9.72 0.00 0.00 3.02
246 4391 1.743772 GCATAGCAGGGTCGTTCATGT 60.744 52.381 0.00 0.00 0.00 3.21
252 4398 2.069273 CAGGGTCGTTCATGTGAAGAC 58.931 52.381 12.71 12.71 34.27 3.01
309 4486 2.877168 CTCTTGGTATCTTGGAGCATGC 59.123 50.000 10.51 10.51 0.00 4.06
355 4533 5.127519 CCTGGGATAATTTGATTCAGCAACA 59.872 40.000 0.00 0.00 0.00 3.33
469 4652 6.989155 AGTAACCATTACTCCGATAATCCA 57.011 37.500 0.00 0.00 42.62 3.41
470 4653 6.756221 AGTAACCATTACTCCGATAATCCAC 58.244 40.000 0.00 0.00 42.62 4.02
471 4654 5.888982 AACCATTACTCCGATAATCCACT 57.111 39.130 0.00 0.00 0.00 4.00
472 4655 5.888982 ACCATTACTCCGATAATCCACTT 57.111 39.130 0.00 0.00 0.00 3.16
473 4656 5.855045 ACCATTACTCCGATAATCCACTTC 58.145 41.667 0.00 0.00 0.00 3.01
474 4657 5.602978 ACCATTACTCCGATAATCCACTTCT 59.397 40.000 0.00 0.00 0.00 2.85
475 4658 5.928839 CCATTACTCCGATAATCCACTTCTG 59.071 44.000 0.00 0.00 0.00 3.02
476 4659 6.239317 CCATTACTCCGATAATCCACTTCTGA 60.239 42.308 0.00 0.00 0.00 3.27
477 4660 4.927978 ACTCCGATAATCCACTTCTGAG 57.072 45.455 0.00 0.00 0.00 3.35
479 4662 2.365617 TCCGATAATCCACTTCTGAGCC 59.634 50.000 0.00 0.00 0.00 4.70
480 4663 2.548920 CCGATAATCCACTTCTGAGCCC 60.549 54.545 0.00 0.00 0.00 5.19
482 4665 3.737850 GATAATCCACTTCTGAGCCCAG 58.262 50.000 0.00 0.00 41.74 4.45
483 4666 0.622665 AATCCACTTCTGAGCCCAGG 59.377 55.000 0.00 0.00 40.76 4.45
484 4667 1.919600 ATCCACTTCTGAGCCCAGGC 61.920 60.000 0.00 0.00 40.76 4.85
494 4677 3.833304 GCCCAGGCTTATCTGCAC 58.167 61.111 0.08 0.00 38.26 4.57
495 4678 1.825622 GCCCAGGCTTATCTGCACC 60.826 63.158 0.08 0.00 38.26 5.01
496 4679 1.609239 CCCAGGCTTATCTGCACCA 59.391 57.895 0.00 0.00 33.64 4.17
497 4680 0.465097 CCCAGGCTTATCTGCACCAG 60.465 60.000 0.00 0.00 33.64 4.00
498 4681 1.099879 CCAGGCTTATCTGCACCAGC 61.100 60.000 0.00 0.00 42.57 4.85
499 4682 1.153289 AGGCTTATCTGCACCAGCG 60.153 57.895 0.00 0.00 46.23 5.18
500 4683 2.711924 GCTTATCTGCACCAGCGC 59.288 61.111 0.00 0.00 46.23 5.92
501 4684 1.817099 GCTTATCTGCACCAGCGCT 60.817 57.895 2.64 2.64 46.23 5.92
502 4685 2.012237 CTTATCTGCACCAGCGCTG 58.988 57.895 30.52 30.52 46.23 5.18
503 4686 0.460811 CTTATCTGCACCAGCGCTGA 60.461 55.000 38.06 18.02 46.23 4.26
504 4687 0.036483 TTATCTGCACCAGCGCTGAA 60.036 50.000 38.06 18.74 46.23 3.02
505 4688 0.460811 TATCTGCACCAGCGCTGAAG 60.461 55.000 38.06 28.09 46.23 3.02
506 4689 2.176314 ATCTGCACCAGCGCTGAAGA 62.176 55.000 38.06 29.73 46.23 2.87
507 4690 1.962822 CTGCACCAGCGCTGAAGAA 60.963 57.895 38.06 22.43 46.23 2.52
508 4691 1.509644 CTGCACCAGCGCTGAAGAAA 61.510 55.000 38.06 17.71 46.23 2.52
509 4692 1.081840 GCACCAGCGCTGAAGAAAC 60.082 57.895 38.06 16.71 0.00 2.78
510 4693 1.785041 GCACCAGCGCTGAAGAAACA 61.785 55.000 38.06 0.00 0.00 2.83
511 4694 0.662619 CACCAGCGCTGAAGAAACAA 59.337 50.000 38.06 0.00 0.00 2.83
512 4695 1.065401 CACCAGCGCTGAAGAAACAAA 59.935 47.619 38.06 0.00 0.00 2.83
590 6154 1.971481 TGGCTACATGGTGCATCATC 58.029 50.000 10.21 0.00 0.00 2.92
615 6179 5.043248 AGTGTGTGCTTTGTGCTAATTTTC 58.957 37.500 0.00 0.00 43.37 2.29
616 6180 5.043248 GTGTGTGCTTTGTGCTAATTTTCT 58.957 37.500 0.00 0.00 43.37 2.52
618 6182 5.748152 TGTGTGCTTTGTGCTAATTTTCTTC 59.252 36.000 0.00 0.00 43.37 2.87
619 6183 5.748152 GTGTGCTTTGTGCTAATTTTCTTCA 59.252 36.000 0.00 0.00 43.37 3.02
623 6192 8.006027 GTGCTTTGTGCTAATTTTCTTCATTTC 58.994 33.333 0.00 0.00 43.37 2.17
635 6204 7.538303 TTTTCTTCATTTCTTTTGCTTCCAC 57.462 32.000 0.00 0.00 0.00 4.02
638 6207 6.042143 TCTTCATTTCTTTTGCTTCCACAAC 58.958 36.000 0.00 0.00 0.00 3.32
658 6230 6.705381 CACAACTTCCTTCATTTTTAATGGCA 59.295 34.615 0.00 0.00 0.00 4.92
663 6235 6.617782 TCCTTCATTTTTAATGGCATCCAA 57.382 33.333 0.00 0.00 36.95 3.53
730 6302 3.469008 TTCTATGGTCCGTAGCAATGG 57.531 47.619 12.73 0.00 36.53 3.16
796 6493 4.634199 ACATGCCTGAAAATCAAGTTTGG 58.366 39.130 0.00 0.00 0.00 3.28
797 6494 3.110447 TGCCTGAAAATCAAGTTTGGC 57.890 42.857 0.00 0.00 37.08 4.52
798 6495 2.433604 TGCCTGAAAATCAAGTTTGGCA 59.566 40.909 6.25 6.25 41.45 4.92
799 6496 3.062042 GCCTGAAAATCAAGTTTGGCAG 58.938 45.455 0.00 0.00 36.74 4.85
800 6497 3.062042 CCTGAAAATCAAGTTTGGCAGC 58.938 45.455 0.00 0.00 34.35 5.25
801 6498 3.243975 CCTGAAAATCAAGTTTGGCAGCT 60.244 43.478 0.00 0.00 34.35 4.24
802 6499 3.719924 TGAAAATCAAGTTTGGCAGCTG 58.280 40.909 10.11 10.11 0.00 4.24
829 6526 1.135170 GTGGGCACGGACTAGTACTTC 60.135 57.143 0.00 0.00 0.00 3.01
877 6574 2.431942 CGGACAGCACCGTGTACC 60.432 66.667 0.00 0.00 46.70 3.34
879 6576 1.295423 GGACAGCACCGTGTACCAT 59.705 57.895 0.00 0.00 0.00 3.55
881 6578 1.138266 GGACAGCACCGTGTACCATAT 59.862 52.381 0.00 0.00 0.00 1.78
882 6579 2.470821 GACAGCACCGTGTACCATATC 58.529 52.381 0.00 0.00 0.00 1.63
883 6580 2.100916 GACAGCACCGTGTACCATATCT 59.899 50.000 0.00 0.00 0.00 1.98
894 6645 5.009310 CGTGTACCATATCTAGCACCACTTA 59.991 44.000 0.00 0.00 0.00 2.24
895 6646 6.294564 CGTGTACCATATCTAGCACCACTTAT 60.295 42.308 0.00 0.00 0.00 1.73
896 6647 7.442656 GTGTACCATATCTAGCACCACTTATT 58.557 38.462 0.00 0.00 0.00 1.40
898 6649 6.500589 ACCATATCTAGCACCACTTATTGT 57.499 37.500 0.00 0.00 0.00 2.71
899 6650 6.900194 ACCATATCTAGCACCACTTATTGTT 58.100 36.000 0.00 0.00 0.00 2.83
900 6651 7.346471 ACCATATCTAGCACCACTTATTGTTT 58.654 34.615 0.00 0.00 0.00 2.83
901 6652 7.834181 ACCATATCTAGCACCACTTATTGTTTT 59.166 33.333 0.00 0.00 0.00 2.43
904 6655 7.759489 ATCTAGCACCACTTATTGTTTTTGA 57.241 32.000 0.00 0.00 0.00 2.69
905 6656 7.202016 TCTAGCACCACTTATTGTTTTTGAG 57.798 36.000 0.00 0.00 0.00 3.02
906 6657 4.620982 AGCACCACTTATTGTTTTTGAGC 58.379 39.130 0.00 0.00 0.00 4.26
907 6658 3.740832 GCACCACTTATTGTTTTTGAGCC 59.259 43.478 0.00 0.00 0.00 4.70
911 6662 4.744631 CCACTTATTGTTTTTGAGCCACAC 59.255 41.667 0.00 0.00 0.00 3.82
914 6665 2.270275 TTGTTTTTGAGCCACACGTG 57.730 45.000 15.48 15.48 0.00 4.49
917 6668 2.353269 TGTTTTTGAGCCACACGTGTAG 59.647 45.455 22.90 16.17 0.00 2.74
919 6670 0.753867 TTTGAGCCACACGTGTAGGA 59.246 50.000 29.50 13.99 0.00 2.94
996 6747 0.670854 GTCACTCGACCAAAGCCTCC 60.671 60.000 0.00 0.00 36.02 4.30
1001 6752 2.328099 CGACCAAAGCCTCCTGCAC 61.328 63.158 0.00 0.00 44.83 4.57
1011 6762 1.894978 GCCTCCTGCACCCCAAAATTA 60.895 52.381 0.00 0.00 40.77 1.40
1024 6775 4.436332 CCCAAAATTATTTCCTGCTGAGC 58.564 43.478 0.00 0.00 0.00 4.26
1029 6780 3.550437 TTATTTCCTGCTGAGCTCTCC 57.450 47.619 16.19 6.26 0.00 3.71
1053 6804 5.300034 CCGTCTGTGTACCCATAGTTACATA 59.700 44.000 0.00 0.00 32.13 2.29
1054 6805 6.015688 CCGTCTGTGTACCCATAGTTACATAT 60.016 42.308 0.00 0.00 32.13 1.78
1055 6806 7.175467 CCGTCTGTGTACCCATAGTTACATATA 59.825 40.741 0.00 0.00 32.13 0.86
1056 6807 8.019669 CGTCTGTGTACCCATAGTTACATATAC 58.980 40.741 0.00 0.00 32.13 1.47
1057 6808 8.302438 GTCTGTGTACCCATAGTTACATATACC 58.698 40.741 0.00 0.00 32.13 2.73
1058 6809 8.005976 TCTGTGTACCCATAGTTACATATACCA 58.994 37.037 0.00 0.00 32.13 3.25
1059 6810 8.185506 TGTGTACCCATAGTTACATATACCAG 57.814 38.462 0.00 0.00 0.00 4.00
1060 6811 7.785985 TGTGTACCCATAGTTACATATACCAGT 59.214 37.037 0.00 0.00 0.00 4.00
1080 6831 2.435372 ATACCACCATGGCGAAATGT 57.565 45.000 13.04 2.70 42.67 2.71
1250 7011 2.450502 AGCTGGGAAGGTGTGGGT 60.451 61.111 0.00 0.00 0.00 4.51
1385 7146 0.034896 GCTCCAACTCTTTCACGGGA 59.965 55.000 0.00 0.00 0.00 5.14
1427 7188 2.328099 CCTCGTTGGGCTGCAGAAC 61.328 63.158 20.43 12.29 0.00 3.01
1484 7245 4.314440 TCGCGCCTCCACAAGCTT 62.314 61.111 0.00 0.00 0.00 3.74
1550 7314 1.386533 GCCTCCCAGATGATGTGTTG 58.613 55.000 0.00 0.00 0.00 3.33
1559 7323 3.817084 CAGATGATGTGTTGTGTGACCTT 59.183 43.478 0.00 0.00 0.00 3.50
1935 7699 1.079543 CTGCTCAAGGGTCTCACCG 60.080 63.158 0.00 0.00 39.83 4.94
1992 7759 9.546909 CTAACATGTCATTTTATGTGAAGTGTC 57.453 33.333 0.00 0.00 37.57 3.67
2006 7773 5.985530 TGTGAAGTGTCATAGAAGAACACTG 59.014 40.000 8.03 0.00 40.92 3.66
2418 8413 2.260869 CCAAGTTCAGTGTGGCCCG 61.261 63.158 0.00 0.00 0.00 6.13
2548 8563 1.873591 GTTGACCTGAACAGCAACGAT 59.126 47.619 8.61 0.00 32.44 3.73
2582 8597 0.788391 GTAGACCAAGCGTGTTTCCG 59.212 55.000 0.00 0.00 0.00 4.30
2600 8615 1.003972 CCGTATGTACCGCTTTGCATG 60.004 52.381 0.00 0.00 0.00 4.06
2601 8616 1.003972 CGTATGTACCGCTTTGCATGG 60.004 52.381 0.00 0.00 0.00 3.66
2631 8651 7.500992 TGTCTAGATGTGGTGATTTTCTATCC 58.499 38.462 0.00 0.00 0.00 2.59
2645 8665 6.945636 TTTTCTATCCCCTTCTCTGTGTTA 57.054 37.500 0.00 0.00 0.00 2.41
2689 8709 5.484998 TGCTGACTGGGCTATGAATCATATA 59.515 40.000 3.12 0.00 0.00 0.86
2690 8710 5.814705 GCTGACTGGGCTATGAATCATATAC 59.185 44.000 3.12 0.00 0.00 1.47
2691 8711 6.299805 TGACTGGGCTATGAATCATATACC 57.700 41.667 3.12 9.38 0.00 2.73
2692 8712 5.189736 TGACTGGGCTATGAATCATATACCC 59.810 44.000 24.05 24.05 40.29 3.69
2693 8713 5.100811 ACTGGGCTATGAATCATATACCCA 58.899 41.667 28.17 28.17 43.82 4.51
2694 8714 5.733154 ACTGGGCTATGAATCATATACCCAT 59.267 40.000 29.27 21.10 44.37 4.00
2695 8715 6.126652 ACTGGGCTATGAATCATATACCCATC 60.127 42.308 29.27 13.39 44.37 3.51
2696 8716 5.730697 TGGGCTATGAATCATATACCCATCA 59.269 40.000 27.22 14.00 42.51 3.07
2697 8717 6.217280 TGGGCTATGAATCATATACCCATCAA 59.783 38.462 27.22 13.75 42.51 2.57
2698 8718 7.091856 TGGGCTATGAATCATATACCCATCAAT 60.092 37.037 27.22 0.00 42.51 2.57
2699 8719 7.230108 GGGCTATGAATCATATACCCATCAATG 59.770 40.741 25.08 5.43 39.95 2.82
2700 8720 7.776969 GGCTATGAATCATATACCCATCAATGT 59.223 37.037 3.12 0.00 0.00 2.71
2701 8721 8.834465 GCTATGAATCATATACCCATCAATGTC 58.166 37.037 3.12 0.00 0.00 3.06
2702 8722 9.895138 CTATGAATCATATACCCATCAATGTCA 57.105 33.333 3.12 0.00 0.00 3.58
2704 8724 8.993404 TGAATCATATACCCATCAATGTCAAA 57.007 30.769 0.00 0.00 0.00 2.69
2705 8725 9.590828 TGAATCATATACCCATCAATGTCAAAT 57.409 29.630 0.00 0.00 0.00 2.32
2709 8729 9.418839 TCATATACCCATCAATGTCAAATTTCA 57.581 29.630 0.00 0.00 0.00 2.69
2712 8732 8.951787 ATACCCATCAATGTCAAATTTCAATG 57.048 30.769 0.00 0.00 0.00 2.82
2713 8733 6.771573 ACCCATCAATGTCAAATTTCAATGT 58.228 32.000 0.00 0.00 0.00 2.71
2714 8734 7.225725 ACCCATCAATGTCAAATTTCAATGTT 58.774 30.769 0.00 0.00 0.00 2.71
2715 8735 8.373981 ACCCATCAATGTCAAATTTCAATGTTA 58.626 29.630 0.00 0.00 0.00 2.41
2716 8736 8.875803 CCCATCAATGTCAAATTTCAATGTTAG 58.124 33.333 0.00 0.00 0.00 2.34
2717 8737 9.642327 CCATCAATGTCAAATTTCAATGTTAGA 57.358 29.630 0.00 0.00 0.00 2.10
2720 8740 9.642327 TCAATGTCAAATTTCAATGTTAGATGG 57.358 29.630 0.00 0.00 0.00 3.51
2721 8741 9.642327 CAATGTCAAATTTCAATGTTAGATGGA 57.358 29.630 0.00 0.00 0.00 3.41
2722 8742 9.865321 AATGTCAAATTTCAATGTTAGATGGAG 57.135 29.630 0.00 0.00 0.00 3.86
2754 8774 5.422214 ACAACTACTTAATGCCAGCTAGT 57.578 39.130 0.00 0.00 0.00 2.57
2804 8824 5.369685 TGTTACACGCATCAATGTCAAAT 57.630 34.783 0.00 0.00 0.00 2.32
2940 8963 9.690913 TCTTGAATATGAGATTTGGATGAAACT 57.309 29.630 0.00 0.00 0.00 2.66
3035 9063 4.400251 TGATCTTGTTTTCCTGATCATGGC 59.600 41.667 0.00 0.00 39.91 4.40
3132 9186 7.298122 GTCACATTGTTACTATGTTCTTGGTG 58.702 38.462 9.51 0.00 34.11 4.17
3146 9200 8.986477 ATGTTCTTGGTGTTTTCATATAAAGC 57.014 30.769 0.00 0.00 0.00 3.51
3272 9328 9.822185 AATAAAAGTAACTTACGGGTATACCAG 57.178 33.333 23.33 21.21 40.22 4.00
3371 9430 7.094634 ACTCGGTATTACGGTATCATTATCGTT 60.095 37.037 0.00 0.00 42.38 3.85
3454 9515 8.575649 AGAACAAATCGGTAACAAGGATAAAT 57.424 30.769 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.656587 TCCTTAAGGCTTCTGCTCCA 58.343 50.000 17.32 0.00 39.59 3.86
46 47 4.140853 ACGGAGGGAGGGAGTATATAACAA 60.141 45.833 0.00 0.00 0.00 2.83
54 55 1.600058 TTAGACGGAGGGAGGGAGTA 58.400 55.000 0.00 0.00 0.00 2.59
55 56 0.708802 TTTAGACGGAGGGAGGGAGT 59.291 55.000 0.00 0.00 0.00 3.85
56 57 1.112950 GTTTAGACGGAGGGAGGGAG 58.887 60.000 0.00 0.00 0.00 4.30
57 58 0.708802 AGTTTAGACGGAGGGAGGGA 59.291 55.000 0.00 0.00 0.00 4.20
58 59 2.308690 CTAGTTTAGACGGAGGGAGGG 58.691 57.143 0.00 0.00 0.00 4.30
59 60 2.688958 CACTAGTTTAGACGGAGGGAGG 59.311 54.545 0.00 0.00 0.00 4.30
60 61 3.354467 ACACTAGTTTAGACGGAGGGAG 58.646 50.000 0.00 0.00 0.00 4.30
61 62 3.446442 ACACTAGTTTAGACGGAGGGA 57.554 47.619 0.00 0.00 0.00 4.20
62 63 5.649782 TTAACACTAGTTTAGACGGAGGG 57.350 43.478 0.00 0.00 39.15 4.30
63 64 7.951530 TTTTTAACACTAGTTTAGACGGAGG 57.048 36.000 0.00 0.00 39.15 4.30
85 86 7.798071 TCGGTCCCATAGTGTAAGATATTTTT 58.202 34.615 0.00 0.00 0.00 1.94
86 87 7.369551 TCGGTCCCATAGTGTAAGATATTTT 57.630 36.000 0.00 0.00 0.00 1.82
87 88 6.014499 CCTCGGTCCCATAGTGTAAGATATTT 60.014 42.308 0.00 0.00 0.00 1.40
88 89 5.480772 CCTCGGTCCCATAGTGTAAGATATT 59.519 44.000 0.00 0.00 0.00 1.28
89 90 5.017490 CCTCGGTCCCATAGTGTAAGATAT 58.983 45.833 0.00 0.00 0.00 1.63
90 91 4.404640 CCTCGGTCCCATAGTGTAAGATA 58.595 47.826 0.00 0.00 0.00 1.98
91 92 3.231818 CCTCGGTCCCATAGTGTAAGAT 58.768 50.000 0.00 0.00 0.00 2.40
92 93 2.662866 CCTCGGTCCCATAGTGTAAGA 58.337 52.381 0.00 0.00 0.00 2.10
93 94 1.687123 CCCTCGGTCCCATAGTGTAAG 59.313 57.143 0.00 0.00 0.00 2.34
94 95 1.288633 TCCCTCGGTCCCATAGTGTAA 59.711 52.381 0.00 0.00 0.00 2.41
95 96 0.928505 TCCCTCGGTCCCATAGTGTA 59.071 55.000 0.00 0.00 0.00 2.90
96 97 0.397254 CTCCCTCGGTCCCATAGTGT 60.397 60.000 0.00 0.00 0.00 3.55
97 98 0.397254 ACTCCCTCGGTCCCATAGTG 60.397 60.000 0.00 0.00 0.00 2.74
98 99 1.133544 GTACTCCCTCGGTCCCATAGT 60.134 57.143 0.00 0.00 0.00 2.12
99 100 1.133575 TGTACTCCCTCGGTCCCATAG 60.134 57.143 0.00 0.00 0.00 2.23
100 101 0.928505 TGTACTCCCTCGGTCCCATA 59.071 55.000 0.00 0.00 0.00 2.74
101 102 0.042131 TTGTACTCCCTCGGTCCCAT 59.958 55.000 0.00 0.00 0.00 4.00
102 103 0.178926 TTTGTACTCCCTCGGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
103 104 1.201424 ATTTGTACTCCCTCGGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
108 109 4.693566 TGCTTGTAAATTTGTACTCCCTCG 59.306 41.667 0.00 0.00 0.00 4.63
159 160 7.563556 TGGAAAGAAACAAGGAAAACCTAGATT 59.436 33.333 0.00 0.00 0.00 2.40
222 4367 0.108138 AACGACCCTGCTATGCTCAC 60.108 55.000 0.00 0.00 0.00 3.51
246 4391 3.071023 AGAGAAACCAATCCACGTCTTCA 59.929 43.478 0.00 0.00 0.00 3.02
252 4398 6.683974 AATATCAAGAGAAACCAATCCACG 57.316 37.500 0.00 0.00 0.00 4.94
287 4433 3.474600 CATGCTCCAAGATACCAAGAGG 58.525 50.000 0.00 0.00 42.21 3.69
320 4497 2.127297 TCCCAGGGGAAGAAGGGG 59.873 66.667 5.33 0.00 42.05 4.79
355 4533 2.000447 GCGTCCTGAAATAAGCGAAGT 59.000 47.619 0.00 0.00 0.00 3.01
458 4641 2.365617 GGCTCAGAAGTGGATTATCGGA 59.634 50.000 0.00 0.00 0.00 4.55
461 4644 3.495806 CCTGGGCTCAGAAGTGGATTATC 60.496 52.174 17.43 0.00 43.49 1.75
462 4645 2.441001 CCTGGGCTCAGAAGTGGATTAT 59.559 50.000 17.43 0.00 43.49 1.28
463 4646 1.839994 CCTGGGCTCAGAAGTGGATTA 59.160 52.381 17.43 0.00 43.49 1.75
464 4647 0.622665 CCTGGGCTCAGAAGTGGATT 59.377 55.000 17.43 0.00 43.49 3.01
467 4650 2.045536 GCCTGGGCTCAGAAGTGG 60.046 66.667 17.43 0.00 43.49 4.00
477 4660 1.825622 GGTGCAGATAAGCCTGGGC 60.826 63.158 3.00 3.00 42.33 5.36
479 4662 1.099879 GCTGGTGCAGATAAGCCTGG 61.100 60.000 0.00 0.00 39.41 4.45
480 4663 1.434622 CGCTGGTGCAGATAAGCCTG 61.435 60.000 0.00 0.00 39.64 4.85
482 4665 2.828128 GCGCTGGTGCAGATAAGCC 61.828 63.158 0.00 0.00 39.64 4.35
483 4666 1.817099 AGCGCTGGTGCAGATAAGC 60.817 57.895 10.39 0.00 39.64 3.09
484 4667 0.460811 TCAGCGCTGGTGCAGATAAG 60.461 55.000 35.36 7.11 39.64 1.73
487 4670 1.744368 CTTCAGCGCTGGTGCAGAT 60.744 57.895 35.36 0.00 39.64 2.90
489 4672 1.509644 TTTCTTCAGCGCTGGTGCAG 61.510 55.000 35.36 24.36 39.64 4.41
490 4673 1.525765 TTTCTTCAGCGCTGGTGCA 60.526 52.632 35.36 15.25 39.64 4.57
491 4674 1.081840 GTTTCTTCAGCGCTGGTGC 60.082 57.895 35.36 16.57 0.00 5.01
492 4675 0.662619 TTGTTTCTTCAGCGCTGGTG 59.337 50.000 35.36 26.52 0.00 4.17
493 4676 1.388547 TTTGTTTCTTCAGCGCTGGT 58.611 45.000 35.36 0.00 0.00 4.00
494 4677 2.712057 ATTTGTTTCTTCAGCGCTGG 57.288 45.000 35.36 21.39 0.00 4.85
495 4678 3.631144 TGAATTTGTTTCTTCAGCGCTG 58.369 40.909 31.53 31.53 35.23 5.18
496 4679 3.893720 CTGAATTTGTTTCTTCAGCGCT 58.106 40.909 2.64 2.64 41.20 5.92
507 4690 9.533253 CCAAGTTGATAAGAAACTGAATTTGTT 57.467 29.630 3.87 0.00 37.90 2.83
508 4691 8.695456 ACCAAGTTGATAAGAAACTGAATTTGT 58.305 29.630 3.87 0.00 37.90 2.83
509 4692 9.533253 AACCAAGTTGATAAGAAACTGAATTTG 57.467 29.630 3.87 0.00 37.90 2.32
510 4693 9.750125 GAACCAAGTTGATAAGAAACTGAATTT 57.250 29.630 3.87 0.00 37.90 1.82
511 4694 9.136323 AGAACCAAGTTGATAAGAAACTGAATT 57.864 29.630 3.87 0.00 37.90 2.17
512 4695 8.697507 AGAACCAAGTTGATAAGAAACTGAAT 57.302 30.769 3.87 0.00 37.90 2.57
528 6092 8.109634 AGACCATCAACAAATATAGAACCAAGT 58.890 33.333 0.00 0.00 0.00 3.16
557 6121 2.168496 GTAGCCATATAGCGTCCTGGA 58.832 52.381 0.00 0.00 38.01 3.86
615 6179 6.044682 AGTTGTGGAAGCAAAAGAAATGAAG 58.955 36.000 0.00 0.00 0.00 3.02
616 6180 5.976458 AGTTGTGGAAGCAAAAGAAATGAA 58.024 33.333 0.00 0.00 0.00 2.57
618 6182 5.234972 GGAAGTTGTGGAAGCAAAAGAAATG 59.765 40.000 0.00 0.00 0.00 2.32
619 6183 5.129320 AGGAAGTTGTGGAAGCAAAAGAAAT 59.871 36.000 0.00 0.00 0.00 2.17
623 6192 4.142182 TGAAGGAAGTTGTGGAAGCAAAAG 60.142 41.667 0.00 0.00 0.00 2.27
635 6204 7.064966 GGATGCCATTAAAAATGAAGGAAGTTG 59.935 37.037 1.23 0.00 0.00 3.16
638 6207 6.642430 TGGATGCCATTAAAAATGAAGGAAG 58.358 36.000 1.23 0.00 0.00 3.46
658 6230 4.934797 TGTCTTTTCCTCCTCATTGGAT 57.065 40.909 0.00 0.00 45.16 3.41
663 6235 6.566079 TCATGTATGTCTTTTCCTCCTCAT 57.434 37.500 0.00 0.00 0.00 2.90
678 6250 7.811713 ACGTCTCTGACAATATGATCATGTATG 59.188 37.037 18.72 15.19 32.09 2.39
730 6302 5.288952 GCTACGAAATAGAAGAATATCCGGC 59.711 44.000 0.00 0.00 31.83 6.13
796 6493 3.677648 CCCACAACTGCCAGCTGC 61.678 66.667 8.66 4.57 41.77 5.25
797 6494 3.677648 GCCCACAACTGCCAGCTG 61.678 66.667 6.78 6.78 0.00 4.24
798 6495 4.208403 TGCCCACAACTGCCAGCT 62.208 61.111 0.00 0.00 0.00 4.24
799 6496 3.982241 GTGCCCACAACTGCCAGC 61.982 66.667 0.00 0.00 0.00 4.85
800 6497 3.663176 CGTGCCCACAACTGCCAG 61.663 66.667 0.00 0.00 0.00 4.85
802 6499 4.947147 TCCGTGCCCACAACTGCC 62.947 66.667 0.00 0.00 0.00 4.85
842 6539 0.388134 CGTCGACTGAATTCGTGGGT 60.388 55.000 14.70 1.24 40.07 4.51
877 6574 9.507280 CAAAAACAATAAGTGGTGCTAGATATG 57.493 33.333 0.00 0.00 0.00 1.78
879 6576 8.856153 TCAAAAACAATAAGTGGTGCTAGATA 57.144 30.769 0.00 0.00 0.00 1.98
881 6578 6.293955 GCTCAAAAACAATAAGTGGTGCTAGA 60.294 38.462 0.00 0.00 0.00 2.43
882 6579 5.858581 GCTCAAAAACAATAAGTGGTGCTAG 59.141 40.000 0.00 0.00 0.00 3.42
883 6580 5.278758 GGCTCAAAAACAATAAGTGGTGCTA 60.279 40.000 0.00 0.00 0.00 3.49
894 6645 2.165437 ACACGTGTGGCTCAAAAACAAT 59.835 40.909 22.71 0.00 34.19 2.71
895 6646 1.542030 ACACGTGTGGCTCAAAAACAA 59.458 42.857 22.71 0.00 34.19 2.83
896 6647 1.169577 ACACGTGTGGCTCAAAAACA 58.830 45.000 22.71 0.00 34.19 2.83
898 6649 1.944024 CCTACACGTGTGGCTCAAAAA 59.056 47.619 30.83 6.65 34.19 1.94
899 6650 1.139256 TCCTACACGTGTGGCTCAAAA 59.861 47.619 30.83 7.42 34.19 2.44
900 6651 0.753867 TCCTACACGTGTGGCTCAAA 59.246 50.000 30.83 8.21 34.19 2.69
901 6652 0.317160 CTCCTACACGTGTGGCTCAA 59.683 55.000 30.83 9.00 34.19 3.02
904 6655 1.848652 ATACTCCTACACGTGTGGCT 58.151 50.000 30.83 17.87 34.19 4.75
905 6656 3.379372 TCTTATACTCCTACACGTGTGGC 59.621 47.826 30.83 0.00 34.19 5.01
906 6657 5.769484 ATCTTATACTCCTACACGTGTGG 57.231 43.478 30.83 27.19 34.19 4.17
907 6658 6.201615 TCGTATCTTATACTCCTACACGTGTG 59.798 42.308 30.83 19.25 0.00 3.82
911 6662 6.128363 TGCATCGTATCTTATACTCCTACACG 60.128 42.308 0.00 0.00 0.00 4.49
914 6665 6.150641 TGGTGCATCGTATCTTATACTCCTAC 59.849 42.308 0.00 0.00 0.00 3.18
917 6668 5.162075 GTGGTGCATCGTATCTTATACTCC 58.838 45.833 0.00 0.00 0.00 3.85
919 6670 4.021368 GGGTGGTGCATCGTATCTTATACT 60.021 45.833 0.00 0.00 0.00 2.12
996 6747 4.506758 CAGGAAATAATTTTGGGGTGCAG 58.493 43.478 0.00 0.00 0.00 4.41
1001 6752 4.681512 GCTCAGCAGGAAATAATTTTGGGG 60.682 45.833 0.00 0.00 0.00 4.96
1011 6762 0.545646 GGGAGAGCTCAGCAGGAAAT 59.454 55.000 17.77 0.00 0.00 2.17
1024 6775 0.611062 TGGGTACACAGACGGGAGAG 60.611 60.000 0.00 0.00 0.00 3.20
1029 6780 3.444742 TGTAACTATGGGTACACAGACGG 59.555 47.826 3.20 0.00 0.00 4.79
1053 6804 2.301870 CGCCATGGTGGTATACTGGTAT 59.698 50.000 18.06 0.00 40.46 2.73
1054 6805 1.689813 CGCCATGGTGGTATACTGGTA 59.310 52.381 18.06 0.00 40.46 3.25
1055 6806 0.468226 CGCCATGGTGGTATACTGGT 59.532 55.000 18.06 0.00 40.46 4.00
1056 6807 0.756294 TCGCCATGGTGGTATACTGG 59.244 55.000 24.82 3.35 40.46 4.00
1057 6808 2.613026 TTCGCCATGGTGGTATACTG 57.387 50.000 24.82 0.00 40.46 2.74
1058 6809 3.118038 ACATTTCGCCATGGTGGTATACT 60.118 43.478 24.82 5.13 40.46 2.12
1059 6810 3.211045 ACATTTCGCCATGGTGGTATAC 58.789 45.455 24.82 0.00 40.46 1.47
1060 6811 3.569194 ACATTTCGCCATGGTGGTATA 57.431 42.857 24.82 8.51 40.46 1.47
1080 6831 0.914644 ATAAGAGGAGCAGCAGCCAA 59.085 50.000 0.00 0.00 43.56 4.52
1250 7011 2.672651 CCGCTGGCACCATCACAA 60.673 61.111 0.00 0.00 0.00 3.33
1385 7146 0.975040 AGAGCGCCTCAGGAAGTGAT 60.975 55.000 2.29 0.00 33.51 3.06
1427 7188 1.472878 TCGTTGGATTCGAGTGAGAGG 59.527 52.381 0.00 0.00 33.38 3.69
1559 7323 3.508402 TGACCAAATGCTCTAGTGACGTA 59.492 43.478 0.00 0.00 0.00 3.57
1992 7759 5.422666 TGTTGTTGCAGTGTTCTTCTATG 57.577 39.130 0.00 0.00 0.00 2.23
2006 7773 5.288543 TGACATTTGGTTTTTGTTGTTGC 57.711 34.783 0.00 0.00 0.00 4.17
2190 8119 5.794687 TTAGATACAACATTGTTGCTCCG 57.205 39.130 25.60 5.94 42.35 4.63
2295 8287 2.112380 TATACGACGTGGTCACTCCA 57.888 50.000 11.56 0.00 45.01 3.86
2418 8413 1.484038 TGGCCCCAATAAGTGATTGC 58.516 50.000 0.00 0.00 43.25 3.56
2548 8563 0.983467 TCTACATCAGTTGCAGGCCA 59.017 50.000 5.01 0.00 0.00 5.36
2582 8597 2.014128 ACCATGCAAAGCGGTACATAC 58.986 47.619 0.00 0.00 0.00 2.39
2600 8615 2.766263 TCACCACATCTAGACATCCACC 59.234 50.000 0.00 0.00 0.00 4.61
2601 8616 4.679373 ATCACCACATCTAGACATCCAC 57.321 45.455 0.00 0.00 0.00 4.02
2631 8651 3.254060 CGTCACATAACACAGAGAAGGG 58.746 50.000 0.00 0.00 0.00 3.95
2645 8665 5.630680 CAGCAAAAATAAGAAAGCGTCACAT 59.369 36.000 0.00 0.00 0.00 3.21
2689 8709 6.771573 ACATTGAAATTTGACATTGATGGGT 58.228 32.000 0.00 0.00 0.00 4.51
2690 8710 7.675962 AACATTGAAATTTGACATTGATGGG 57.324 32.000 0.00 0.00 0.00 4.00
2691 8711 9.642327 TCTAACATTGAAATTTGACATTGATGG 57.358 29.630 0.00 0.00 0.00 3.51
2694 8714 9.642327 CCATCTAACATTGAAATTTGACATTGA 57.358 29.630 0.00 0.00 0.00 2.57
2695 8715 9.642327 TCCATCTAACATTGAAATTTGACATTG 57.358 29.630 0.00 0.00 0.00 2.82
2696 8716 9.865321 CTCCATCTAACATTGAAATTTGACATT 57.135 29.630 0.00 0.00 0.00 2.71
2697 8717 9.028284 ACTCCATCTAACATTGAAATTTGACAT 57.972 29.630 0.00 0.00 0.00 3.06
2698 8718 8.408043 ACTCCATCTAACATTGAAATTTGACA 57.592 30.769 0.00 0.00 0.00 3.58
2699 8719 9.994432 CTACTCCATCTAACATTGAAATTTGAC 57.006 33.333 0.00 0.00 0.00 3.18
2700 8720 8.677300 GCTACTCCATCTAACATTGAAATTTGA 58.323 33.333 0.00 0.00 0.00 2.69
2701 8721 8.461222 TGCTACTCCATCTAACATTGAAATTTG 58.539 33.333 0.00 0.00 0.00 2.32
2702 8722 8.579850 TGCTACTCCATCTAACATTGAAATTT 57.420 30.769 0.00 0.00 0.00 1.82
2703 8723 8.579850 TTGCTACTCCATCTAACATTGAAATT 57.420 30.769 0.00 0.00 0.00 1.82
2704 8724 8.579850 TTTGCTACTCCATCTAACATTGAAAT 57.420 30.769 0.00 0.00 0.00 2.17
2705 8725 7.994425 TTTGCTACTCCATCTAACATTGAAA 57.006 32.000 0.00 0.00 0.00 2.69
2706 8726 8.579850 AATTTGCTACTCCATCTAACATTGAA 57.420 30.769 0.00 0.00 0.00 2.69
2707 8727 9.109393 GTAATTTGCTACTCCATCTAACATTGA 57.891 33.333 0.00 0.00 0.00 2.57
2708 8728 8.892723 TGTAATTTGCTACTCCATCTAACATTG 58.107 33.333 0.00 0.00 0.00 2.82
2709 8729 9.461312 TTGTAATTTGCTACTCCATCTAACATT 57.539 29.630 0.00 0.00 0.00 2.71
2710 8730 8.893727 GTTGTAATTTGCTACTCCATCTAACAT 58.106 33.333 0.00 0.00 0.00 2.71
2711 8731 8.100791 AGTTGTAATTTGCTACTCCATCTAACA 58.899 33.333 0.00 0.00 0.00 2.41
2712 8732 8.494016 AGTTGTAATTTGCTACTCCATCTAAC 57.506 34.615 0.00 0.00 0.00 2.34
2713 8733 9.595823 GTAGTTGTAATTTGCTACTCCATCTAA 57.404 33.333 5.03 0.00 33.17 2.10
2714 8734 8.978472 AGTAGTTGTAATTTGCTACTCCATCTA 58.022 33.333 5.03 0.00 39.69 1.98
2715 8735 7.852263 AGTAGTTGTAATTTGCTACTCCATCT 58.148 34.615 5.03 0.00 39.69 2.90
2716 8736 8.494016 AAGTAGTTGTAATTTGCTACTCCATC 57.506 34.615 5.03 0.00 42.04 3.51
2717 8737 9.953565 TTAAGTAGTTGTAATTTGCTACTCCAT 57.046 29.630 5.03 0.00 42.04 3.41
2718 8738 9.953565 ATTAAGTAGTTGTAATTTGCTACTCCA 57.046 29.630 5.03 0.00 42.04 3.86
2720 8740 9.704098 GCATTAAGTAGTTGTAATTTGCTACTC 57.296 33.333 5.03 0.00 42.04 2.59
2721 8741 8.674607 GGCATTAAGTAGTTGTAATTTGCTACT 58.325 33.333 6.78 6.78 43.96 2.57
2722 8742 8.455682 TGGCATTAAGTAGTTGTAATTTGCTAC 58.544 33.333 0.00 0.00 35.37 3.58
2777 8797 5.049129 TGACATTGATGCGTGTAACATTGAA 60.049 36.000 0.00 0.00 35.74 2.69
2804 8824 5.389520 TCCAACAATACCTTCATCCAAACA 58.610 37.500 0.00 0.00 0.00 2.83
3035 9063 7.169308 GGTGTTCTCATAGTATCGTAACAATGG 59.831 40.741 0.00 0.00 0.00 3.16
3146 9200 8.578769 GTCTAAGGAACTACGTAAATGTTAACG 58.421 37.037 0.26 0.00 38.49 3.18
3159 9213 8.643324 ACAATATCTCATGGTCTAAGGAACTAC 58.357 37.037 0.00 0.00 38.49 2.73
3203 9258 4.202493 ACATTCGGTAACCCCAAAGTAACT 60.202 41.667 0.00 0.00 0.00 2.24
3272 9328 8.240682 AGCTATCGATACTGAGACATACATTTC 58.759 37.037 0.00 0.00 0.00 2.17
3371 9430 5.222079 TCTTAACACATGTGTCTAGCCAA 57.778 39.130 30.64 15.96 44.13 4.52
3415 9475 8.411683 ACCGATTTGTTCTCTTTACTCGTATAT 58.588 33.333 0.00 0.00 0.00 0.86
3416 9476 7.765307 ACCGATTTGTTCTCTTTACTCGTATA 58.235 34.615 0.00 0.00 0.00 1.47
3454 9515 3.379057 TCGACGCTTTGATCACTATACCA 59.621 43.478 0.00 0.00 0.00 3.25


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

AutoCloner maintained by Alex Coulton.