Multiple sequence alignment - TraesCS2D01G442800

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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 TraesCS2D01G442800 chr2D 100.000 6906 0 0 1 6906 553330402 553337307 0.000000e+00 12754.0
1 TraesCS2D01G442800 chr2D 90.347 259 18 3 1921 2177 43970607 43970860 3.990000e-87 333.0
2 TraesCS2D01G442800 chr2D 86.364 110 14 1 6798 6906 575230281 575230390 1.220000e-22 119.0
3 TraesCS2D01G442800 chr2B 95.248 4293 142 27 2648 6906 659067323 659071587 0.000000e+00 6741.0
4 TraesCS2D01G442800 chr2B 95.813 1863 35 12 82 1915 659064521 659066369 0.000000e+00 2968.0
5 TraesCS2D01G442800 chr2B 89.934 1063 76 9 4973 6028 334690970 334689932 0.000000e+00 1341.0
6 TraesCS2D01G442800 chr2B 93.912 887 44 4 3864 4748 334693903 334693025 0.000000e+00 1330.0
7 TraesCS2D01G442800 chr2B 95.433 832 27 3 2735 3566 334695464 334694644 0.000000e+00 1315.0
8 TraesCS2D01G442800 chr2B 90.722 970 38 11 735 1675 334701114 334700168 0.000000e+00 1245.0
9 TraesCS2D01G442800 chr2B 91.499 447 17 6 2222 2649 659066806 659067250 4.610000e-166 595.0
10 TraesCS2D01G442800 chr2B 94.098 305 18 0 3559 3863 334694302 334693998 1.360000e-126 464.0
11 TraesCS2D01G442800 chr2B 89.548 354 27 5 2218 2570 334698854 334698510 2.290000e-119 440.0
12 TraesCS2D01G442800 chr2B 94.677 263 5 6 1667 1920 334699182 334698920 3.880000e-107 399.0
13 TraesCS2D01G442800 chr2B 89.439 303 26 3 1925 2226 659066465 659066762 1.820000e-100 377.0
14 TraesCS2D01G442800 chr2B 96.842 190 6 0 2564 2753 334698449 334698260 1.120000e-82 318.0
15 TraesCS2D01G442800 chr2B 86.780 295 23 7 6099 6380 334667762 334667471 1.450000e-81 315.0
16 TraesCS2D01G442800 chr2B 98.113 106 2 0 4854 4959 334691060 334690955 1.180000e-42 185.0
17 TraesCS2D01G442800 chr2B 79.098 244 38 8 4044 4278 706297954 706298193 9.270000e-34 156.0
18 TraesCS2D01G442800 chr2B 95.506 89 3 1 4768 4855 334692934 334693022 2.600000e-29 141.0
19 TraesCS2D01G442800 chr2B 86.486 111 14 1 6797 6906 439419829 439419719 3.380000e-23 121.0
20 TraesCS2D01G442800 chr2B 87.209 86 11 0 2466 2551 752479774 752479689 1.590000e-16 99.0
21 TraesCS2D01G442800 chr2B 94.737 57 1 2 6410 6465 334667463 334667408 3.430000e-13 87.9
22 TraesCS2D01G442800 chr2B 82.927 82 11 2 2369 2450 64765669 64765747 3.460000e-08 71.3
23 TraesCS2D01G442800 chr2B 100.000 37 0 0 2190 2226 453237316 453237280 1.240000e-07 69.4
24 TraesCS2D01G442800 chr5D 91.954 261 16 2 1921 2180 7038591 7038335 1.830000e-95 361.0
25 TraesCS2D01G442800 chr5D 85.393 89 12 1 2464 2551 89898895 89898807 2.650000e-14 91.6
26 TraesCS2D01G442800 chr5D 87.671 73 7 2 13 84 535501695 535501766 4.440000e-12 84.2
27 TraesCS2D01G442800 chr3D 91.829 257 16 2 1922 2177 452015711 452015963 3.060000e-93 353.0
28 TraesCS2D01G442800 chr3D 90.421 261 20 2 1921 2180 600514403 600514147 8.580000e-89 339.0
29 TraesCS2D01G442800 chr3D 89.695 262 23 3 1919 2179 155675004 155674746 1.440000e-86 331.0
30 TraesCS2D01G442800 chr3D 80.982 326 38 17 119 427 456654135 456654453 3.220000e-58 237.0
31 TraesCS2D01G442800 chr3D 82.587 201 24 5 434 624 456654489 456654688 4.280000e-37 167.0
32 TraesCS2D01G442800 chr3D 96.970 33 1 0 2420 2452 581989805 581989773 1.000000e-03 56.5
33 TraesCS2D01G442800 chr7D 91.473 258 17 2 1921 2177 45518464 45518717 3.960000e-92 350.0
34 TraesCS2D01G442800 chr7D 90.310 258 20 2 1921 2177 598726713 598726966 3.990000e-87 333.0
35 TraesCS2D01G442800 chr7D 81.288 326 37 17 119 427 234344761 234345079 6.920000e-60 243.0
36 TraesCS2D01G442800 chr7D 82.090 201 25 5 434 624 234345115 234345314 1.990000e-35 161.0
37 TraesCS2D01G442800 chr7D 90.361 83 7 1 2367 2449 627215455 627215536 2.630000e-19 108.0
38 TraesCS2D01G442800 chr7A 90.698 258 19 5 1921 2177 100627034 100626781 8.580000e-89 339.0
39 TraesCS2D01G442800 chr7A 88.679 106 10 2 6798 6903 10248272 10248375 2.020000e-25 128.0
40 TraesCS2D01G442800 chr7A 100.000 33 0 0 2417 2449 549748568 549748536 2.080000e-05 62.1
41 TraesCS2D01G442800 chr4B 80.398 352 44 20 96 433 529298184 529297844 1.920000e-60 244.0
42 TraesCS2D01G442800 chr4B 80.427 281 33 12 434 693 529297814 529297535 1.970000e-45 195.0
43 TraesCS2D01G442800 chr4A 80.000 350 42 22 96 427 32462786 32462447 4.160000e-57 233.0
44 TraesCS2D01G442800 chr4A 90.000 130 8 3 514 638 32462321 32462192 5.540000e-36 163.0
45 TraesCS2D01G442800 chr4D 75.478 575 65 38 119 638 430794538 430793985 1.950000e-50 211.0
46 TraesCS2D01G442800 chr6A 77.551 245 45 6 4047 4284 487116478 487116237 9.340000e-29 139.0
47 TraesCS2D01G442800 chr7B 88.073 109 11 2 6799 6906 191891909 191892016 2.020000e-25 128.0
48 TraesCS2D01G442800 chr7B 80.460 87 16 1 2460 2545 124337041 124337127 1.610000e-06 65.8
49 TraesCS2D01G442800 chr3A 88.462 104 11 1 6799 6902 685767240 685767342 2.620000e-24 124.0
50 TraesCS2D01G442800 chr6B 87.156 109 13 1 6799 6906 554659365 554659473 9.410000e-24 122.0
51 TraesCS2D01G442800 chr6B 87.952 83 10 0 2 84 610799725 610799807 1.590000e-16 99.0
52 TraesCS2D01G442800 chr6B 83.333 72 12 0 2483 2554 66702121 66702192 4.470000e-07 67.6
53 TraesCS2D01G442800 chr3B 86.486 111 13 2 6797 6906 807529315 807529206 3.380000e-23 121.0
54 TraesCS2D01G442800 chr3B 92.157 51 3 1 2197 2246 4624996 4625046 3.460000e-08 71.3
55 TraesCS2D01G442800 chr1D 86.667 105 14 0 6798 6902 457784993 457785097 4.380000e-22 117.0
56 TraesCS2D01G442800 chr1D 83.099 71 12 0 2484 2554 430425805 430425875 1.610000e-06 65.8
57 TraesCS2D01G442800 chr5B 94.118 51 1 1 2197 2245 338716811 338716761 7.430000e-10 76.8
58 TraesCS2D01G442800 chr5B 81.395 86 14 2 2467 2551 621884541 621884457 1.240000e-07 69.4
59 TraesCS2D01G442800 chr5B 93.478 46 2 1 2187 2231 450383848 450383803 4.470000e-07 67.6
60 TraesCS2D01G442800 chrUn 92.308 52 3 1 2196 2246 95223379 95223430 9.610000e-09 73.1
61 TraesCS2D01G442800 chr5A 86.364 66 9 0 2 67 536905968 536905903 9.610000e-09 73.1
62 TraesCS2D01G442800 chr5A 93.750 48 2 1 2185 2231 568267642 568267689 3.460000e-08 71.3
63 TraesCS2D01G442800 chr5A 90.385 52 3 2 2177 2226 659866855 659866906 4.470000e-07 67.6
64 TraesCS2D01G442800 chr1A 92.308 52 3 1 2195 2245 478460391 478460442 9.610000e-09 73.1
65 TraesCS2D01G442800 chr1B 90.476 42 4 0 2511 2552 474349480 474349439 1.000000e-03 56.5
66 TraesCS2D01G442800 chr2A 92.308 39 2 1 4056 4094 749956455 749956418 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 TraesCS2D01G442800 chr2D 553330402 553337307 6905 False 12754.000000 12754 100.000000 1 6906 1 chr2D.!!$F2 6905
1 TraesCS2D01G442800 chr2B 659064521 659071587 7066 False 2670.250000 6741 92.999750 82 6906 4 chr2B.!!$F4 6824
2 TraesCS2D01G442800 chr2B 334689932 334701114 11182 True 781.888889 1341 93.697667 735 6028 9 chr2B.!!$R5 5293
3 TraesCS2D01G442800 chr3D 456654135 456654688 553 False 202.000000 237 81.784500 119 624 2 chr3D.!!$F2 505
4 TraesCS2D01G442800 chr7D 234344761 234345314 553 False 202.000000 243 81.689000 119 624 2 chr7D.!!$F4 505
5 TraesCS2D01G442800 chr4B 529297535 529298184 649 True 219.500000 244 80.412500 96 693 2 chr4B.!!$R1 597
6 TraesCS2D01G442800 chr4D 430793985 430794538 553 True 211.000000 211 75.478000 119 638 1 chr4D.!!$R1 519

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
21 22 0.260816 AGGATGGGATTGTGCATGCT 59.739 50.000 20.33 0.00 0.00 3.79 F
61 62 0.313672 CTGATCCAGCTACTCTCCGC 59.686 60.000 0.00 0.00 0.00 5.54 F
709 789 1.001706 TCTCAGTTCGTGACACTTCCG 60.002 52.381 3.68 0.00 0.00 4.30 F
1890 2998 1.001815 CTCTGCCTCGAGTTAGCTAGC 60.002 57.143 12.31 6.62 0.00 3.42 F
3465 7688 0.608035 TTCGGTGGGGCAGAAATGAC 60.608 55.000 0.00 0.00 0.00 3.06 F
4438 9113 1.272425 CCATTTAACAGGGCCAGGTGA 60.272 52.381 6.18 0.00 0.00 4.02 F
5289 11825 2.093216 GCATGAGTGCCACTAGTGC 58.907 57.895 17.86 15.40 45.76 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 2974 0.248296 CTAACTCGAGGCAGAGACGC 60.248 60.000 18.41 0.00 40.57 5.19 R
1917 3030 0.811915 CCTGAATCACGTCTCTCGGT 59.188 55.000 0.00 0.00 44.69 4.69 R
1919 3032 1.202200 GGTCCTGAATCACGTCTCTCG 60.202 57.143 0.00 0.00 46.00 4.04 R
3870 8536 0.468585 ATGGCGGATCAACCATGCAT 60.469 50.000 15.83 0.00 45.03 3.96 R
4614 9290 0.821517 TGATGCGGTATCGGTCTGTT 59.178 50.000 0.00 0.00 38.71 3.16 R
5616 12159 2.089980 AGTTTGATGATGGCTGCTGAC 58.910 47.619 0.00 0.00 0.00 3.51 R
6771 13355 0.179163 GTTTTGAGTATGCAGGCCGC 60.179 55.000 11.92 11.92 42.89 6.53 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
20 21 1.985473 TAGGATGGGATTGTGCATGC 58.015 50.000 11.82 11.82 0.00 4.06
21 22 0.260816 AGGATGGGATTGTGCATGCT 59.739 50.000 20.33 0.00 0.00 3.79
22 23 0.672342 GGATGGGATTGTGCATGCTC 59.328 55.000 20.33 16.39 0.00 4.26
23 24 1.688772 GATGGGATTGTGCATGCTCT 58.311 50.000 20.33 0.00 0.00 4.09
24 25 1.607628 GATGGGATTGTGCATGCTCTC 59.392 52.381 20.33 8.49 0.00 3.20
25 26 0.328926 TGGGATTGTGCATGCTCTCA 59.671 50.000 20.33 11.31 0.00 3.27
26 27 1.272037 TGGGATTGTGCATGCTCTCAA 60.272 47.619 20.33 19.74 0.00 3.02
27 28 1.820519 GGGATTGTGCATGCTCTCAAA 59.179 47.619 20.33 6.36 0.00 2.69
28 29 2.159282 GGGATTGTGCATGCTCTCAAAG 60.159 50.000 20.33 0.00 0.00 2.77
36 37 2.046892 GCTCTCAAAGCCTGCCGA 60.047 61.111 0.00 0.00 45.92 5.54
37 38 2.394563 GCTCTCAAAGCCTGCCGAC 61.395 63.158 0.00 0.00 45.92 4.79
38 39 1.004560 CTCTCAAAGCCTGCCGACA 60.005 57.895 0.00 0.00 0.00 4.35
39 40 1.294659 CTCTCAAAGCCTGCCGACAC 61.295 60.000 0.00 0.00 0.00 3.67
40 41 2.281484 TCAAAGCCTGCCGACACC 60.281 61.111 0.00 0.00 0.00 4.16
41 42 3.726517 CAAAGCCTGCCGACACCG 61.727 66.667 0.00 0.00 0.00 4.94
46 47 4.457496 CCTGCCGACACCGCTGAT 62.457 66.667 0.00 0.00 0.00 2.90
47 48 2.887568 CTGCCGACACCGCTGATC 60.888 66.667 0.00 0.00 0.00 2.92
48 49 4.451150 TGCCGACACCGCTGATCC 62.451 66.667 0.00 0.00 0.00 3.36
49 50 4.451150 GCCGACACCGCTGATCCA 62.451 66.667 0.00 0.00 0.00 3.41
50 51 2.202797 CCGACACCGCTGATCCAG 60.203 66.667 0.00 0.00 34.12 3.86
61 62 0.313672 CTGATCCAGCTACTCTCCGC 59.686 60.000 0.00 0.00 0.00 5.54
62 63 1.109920 TGATCCAGCTACTCTCCGCC 61.110 60.000 0.00 0.00 0.00 6.13
63 64 2.136196 GATCCAGCTACTCTCCGCCG 62.136 65.000 0.00 0.00 0.00 6.46
64 65 2.912987 ATCCAGCTACTCTCCGCCGT 62.913 60.000 0.00 0.00 0.00 5.68
65 66 2.409651 CAGCTACTCTCCGCCGTC 59.590 66.667 0.00 0.00 0.00 4.79
66 67 2.045242 AGCTACTCTCCGCCGTCA 60.045 61.111 0.00 0.00 0.00 4.35
67 68 2.102553 GCTACTCTCCGCCGTCAC 59.897 66.667 0.00 0.00 0.00 3.67
68 69 2.403987 CTACTCTCCGCCGTCACG 59.596 66.667 0.00 0.00 0.00 4.35
78 79 3.423154 CCGTCACGGCCTTCTTGC 61.423 66.667 1.50 0.00 41.17 4.01
79 80 3.777925 CGTCACGGCCTTCTTGCG 61.778 66.667 0.00 0.00 0.00 4.85
80 81 4.090057 GTCACGGCCTTCTTGCGC 62.090 66.667 0.00 0.00 0.00 6.09
88 89 1.078214 CCTTCTTGCGCTCCATGGA 60.078 57.895 15.27 15.27 0.00 3.41
343 364 4.299155 GACGAGGATTAATCTGCGATTCA 58.701 43.478 25.83 0.00 0.00 2.57
453 504 5.874810 TGAGTATTTGCTAGCATCGTCTTTT 59.125 36.000 20.13 0.00 0.00 2.27
493 545 7.837863 ACTGAAGAGTGATTAACGGAATCTTA 58.162 34.615 12.02 0.00 43.90 2.10
709 789 1.001706 TCTCAGTTCGTGACACTTCCG 60.002 52.381 3.68 0.00 0.00 4.30
723 803 1.402259 ACTTCCGATGCTCACTCGTAG 59.598 52.381 0.00 0.00 34.36 3.51
724 804 1.402259 CTTCCGATGCTCACTCGTAGT 59.598 52.381 0.00 0.00 34.36 2.73
725 805 2.320745 TCCGATGCTCACTCGTAGTA 57.679 50.000 0.00 0.00 34.36 1.82
726 806 2.210961 TCCGATGCTCACTCGTAGTAG 58.789 52.381 0.00 0.00 34.36 2.57
727 807 2.159000 TCCGATGCTCACTCGTAGTAGA 60.159 50.000 0.00 0.00 34.36 2.59
728 808 2.032722 CCGATGCTCACTCGTAGTAGAC 60.033 54.545 0.00 0.00 34.36 2.59
729 809 2.867368 CGATGCTCACTCGTAGTAGACT 59.133 50.000 0.00 0.00 0.00 3.24
730 810 4.049869 CGATGCTCACTCGTAGTAGACTA 58.950 47.826 0.00 0.00 0.00 2.59
731 811 4.507021 CGATGCTCACTCGTAGTAGACTAA 59.493 45.833 0.00 0.00 0.00 2.24
732 812 5.556758 CGATGCTCACTCGTAGTAGACTAAC 60.557 48.000 0.00 0.00 0.00 2.34
733 813 3.615937 TGCTCACTCGTAGTAGACTAACG 59.384 47.826 1.07 1.07 0.00 3.18
737 817 5.907207 TCACTCGTAGTAGACTAACGGTAT 58.093 41.667 6.82 0.00 0.00 2.73
761 841 2.202349 GGTGACGCGCATTGCTTC 60.202 61.111 5.73 0.00 43.27 3.86
978 1086 2.124942 CCCGCCCAAGAAGAGCTC 60.125 66.667 5.27 5.27 0.00 4.09
1372 1481 2.980379 TGCATATTCGGGGGTAATACCA 59.020 45.455 12.03 0.00 41.02 3.25
1890 2998 1.001815 CTCTGCCTCGAGTTAGCTAGC 60.002 57.143 12.31 6.62 0.00 3.42
1915 3028 2.838637 AGGTTCCACCCTTTGTCAAA 57.161 45.000 0.00 0.00 39.75 2.69
1916 3029 3.108847 AGGTTCCACCCTTTGTCAAAA 57.891 42.857 0.00 0.00 39.75 2.44
1917 3030 3.445987 AGGTTCCACCCTTTGTCAAAAA 58.554 40.909 0.00 0.00 39.75 1.94
1919 3032 3.527533 GTTCCACCCTTTGTCAAAAACC 58.472 45.455 0.00 0.00 0.00 3.27
1920 3033 1.751924 TCCACCCTTTGTCAAAAACCG 59.248 47.619 0.00 0.00 0.00 4.44
1921 3034 1.751924 CCACCCTTTGTCAAAAACCGA 59.248 47.619 0.00 0.00 0.00 4.69
1922 3035 2.223711 CCACCCTTTGTCAAAAACCGAG 60.224 50.000 0.00 0.00 0.00 4.63
1923 3036 2.685897 CACCCTTTGTCAAAAACCGAGA 59.314 45.455 0.00 0.00 0.00 4.04
1968 3167 1.935300 GCCGAACCTATGGTCTATGCG 60.935 57.143 0.00 0.00 33.12 4.73
1969 3168 1.340248 CCGAACCTATGGTCTATGCGT 59.660 52.381 0.00 0.00 33.12 5.24
1970 3169 2.555325 CCGAACCTATGGTCTATGCGTA 59.445 50.000 0.00 0.00 33.12 4.42
1971 3170 3.192844 CCGAACCTATGGTCTATGCGTAT 59.807 47.826 0.00 0.00 33.12 3.06
1972 3171 4.397103 CCGAACCTATGGTCTATGCGTATA 59.603 45.833 0.00 0.00 33.12 1.47
2002 3202 6.373759 ACATCCTACTACATGTGGATCTGTA 58.626 40.000 16.98 5.15 35.72 2.74
2004 3204 6.710597 TCCTACTACATGTGGATCTGTAAC 57.289 41.667 16.98 0.00 0.00 2.50
2008 3208 8.807118 CCTACTACATGTGGATCTGTAACATAT 58.193 37.037 16.98 0.00 33.31 1.78
2019 3219 9.875691 TGGATCTGTAACATATATATCAACTGC 57.124 33.333 0.00 0.00 0.00 4.40
2097 3297 4.855715 TTTTTAATCAACCATGCACGGA 57.144 36.364 5.45 0.00 0.00 4.69
2100 3300 1.392589 AATCAACCATGCACGGATCC 58.607 50.000 5.45 0.00 0.00 3.36
2117 3317 7.309177 CACGGATCCTTATGAATAGTGTCTAG 58.691 42.308 10.75 0.00 0.00 2.43
2135 3335 6.820656 GTGTCTAGAAATGAATGATGTCCAGT 59.179 38.462 0.00 0.00 0.00 4.00
2136 3336 7.981789 GTGTCTAGAAATGAATGATGTCCAGTA 59.018 37.037 0.00 0.00 0.00 2.74
2137 3337 8.708378 TGTCTAGAAATGAATGATGTCCAGTAT 58.292 33.333 0.00 0.00 0.00 2.12
2150 3350 7.179966 TGATGTCCAGTATATATAGGTTCGGT 58.820 38.462 0.00 0.00 0.00 4.69
2177 3377 5.919755 ACCATGGTTCCGTAAAACATTTTT 58.080 33.333 13.00 0.00 42.86 1.94
2210 3410 4.222366 CCTAATTAATACTCCCTCCGTCCC 59.778 50.000 0.00 0.00 0.00 4.46
2218 3418 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
2238 3486 1.804748 GTGACTCATTTTGGGACGGAC 59.195 52.381 0.00 0.00 0.00 4.79
2267 3515 5.738619 TTATGTAGAGTTGCAAGTGAGGA 57.261 39.130 12.53 0.00 0.00 3.71
2369 3631 6.211584 TGCTCCAATCTGTCTAGTATTATCCC 59.788 42.308 0.00 0.00 0.00 3.85
2371 3633 7.363443 GCTCCAATCTGTCTAGTATTATCCCTC 60.363 44.444 0.00 0.00 0.00 4.30
2878 7101 8.390921 ACCTTTCAATTACCTCTATTGGAGAAA 58.609 33.333 0.00 0.00 44.45 2.52
3465 7688 0.608035 TTCGGTGGGGCAGAAATGAC 60.608 55.000 0.00 0.00 0.00 3.06
3648 8220 2.203584 AGATCAAGGGCCAGAGACATT 58.796 47.619 6.18 0.00 0.00 2.71
3731 8303 1.845664 TGGCAAGGGGAGTAGTGCA 60.846 57.895 0.00 0.00 38.78 4.57
3870 8536 7.282224 AGTGTCACACTCTTTTACTTATTTGCA 59.718 33.333 3.98 0.00 41.21 4.08
4175 8849 9.810545 TTGAATTCGTATTGAAAAAGTTTTCCT 57.189 25.926 12.71 4.60 44.48 3.36
4356 9031 6.957020 TGTTATGATACCAAATTCCCCAAACT 59.043 34.615 0.00 0.00 0.00 2.66
4397 9072 9.322773 GTTCTTCATTCATGAGACTATCATTGA 57.677 33.333 0.00 0.00 46.97 2.57
4438 9113 1.272425 CCATTTAACAGGGCCAGGTGA 60.272 52.381 6.18 0.00 0.00 4.02
4614 9290 7.814107 GCAATACTGAAATTGTTCATCCTTTGA 59.186 33.333 8.49 0.00 42.85 2.69
4798 11130 7.014518 TCTGCAACAATTAATATGAATGGGAGG 59.985 37.037 0.00 0.00 0.00 4.30
4800 11132 6.267471 GCAACAATTAATATGAATGGGAGGGA 59.733 38.462 0.00 0.00 0.00 4.20
4802 11134 7.166758 ACAATTAATATGAATGGGAGGGAGT 57.833 36.000 0.00 0.00 0.00 3.85
4803 11135 8.287904 ACAATTAATATGAATGGGAGGGAGTA 57.712 34.615 0.00 0.00 0.00 2.59
4872 11407 7.609097 TGATATGCCTTAATTAATTTGGGCA 57.391 32.000 30.78 30.78 44.13 5.36
5024 11559 8.863049 GCTTTATGTCCTTAACACATTTTCATG 58.137 33.333 1.51 0.00 41.75 3.07
5164 11699 2.094078 GCCAAGCAGCCAATTATTGTGA 60.094 45.455 4.15 0.00 0.00 3.58
5289 11825 2.093216 GCATGAGTGCCACTAGTGC 58.907 57.895 17.86 15.40 45.76 4.40
5578 12119 8.836268 TTTATAACTTTTTCTAGTTCCTCGCA 57.164 30.769 0.00 0.00 39.08 5.10
5616 12159 5.160607 TGATATAATAAGCCCACCTTCCG 57.839 43.478 0.00 0.00 34.95 4.30
5619 12162 0.988832 AATAAGCCCACCTTCCGTCA 59.011 50.000 0.00 0.00 34.95 4.35
5716 12259 7.994425 TCCATTCACATAACACTATGTTGTT 57.006 32.000 4.46 0.00 44.77 2.83
5766 12310 0.031515 TGGGTACGGTCTGATGGGAT 60.032 55.000 0.00 0.00 0.00 3.85
6035 12606 3.341857 TGTTGTTGTTGTTACCGCATC 57.658 42.857 0.00 0.00 0.00 3.91
6061 12632 9.827411 CGTGAACGAGATATATTTAGAGAATGA 57.173 33.333 0.00 0.00 43.02 2.57
6080 12651 8.302515 AGAATGAGCAATTCATGAGGTTAATT 57.697 30.769 12.93 0.00 45.82 1.40
6110 12681 7.560262 AGTTGTATCTCTGTAACTATAGCCACA 59.440 37.037 0.00 3.37 32.05 4.17
6116 12687 8.357290 TCTCTGTAACTATAGCCACAAGTTAA 57.643 34.615 0.00 0.00 37.43 2.01
6161 12732 3.364549 TGTTGATTGGATCCATGGTTCC 58.635 45.455 28.50 28.50 35.23 3.62
6184 12755 6.773200 TCCTGTAATGTTGTCCATTGTTAACA 59.227 34.615 3.59 3.59 43.63 2.41
6189 12760 4.138290 TGTTGTCCATTGTTAACATCGGT 58.862 39.130 18.44 1.83 0.00 4.69
6193 12764 4.932799 TGTCCATTGTTAACATCGGTACTG 59.067 41.667 18.44 0.00 0.00 2.74
6194 12765 3.936453 TCCATTGTTAACATCGGTACTGC 59.064 43.478 18.44 0.00 0.00 4.40
6219 12790 6.183360 CGTTGATTCTTTCTGCTCTAGAACTG 60.183 42.308 0.00 0.00 44.84 3.16
6225 12796 5.478332 TCTTTCTGCTCTAGAACTGATGTGA 59.522 40.000 3.86 1.53 44.84 3.58
6233 12804 6.150140 GCTCTAGAACTGATGTGACCATTTTT 59.850 38.462 0.00 0.00 0.00 1.94
6306 12877 6.032722 AGATTATACAACGTGTTTCATCGC 57.967 37.500 0.00 0.00 0.00 4.58
6313 12897 1.075542 CGTGTTTCATCGCTGGCTTA 58.924 50.000 0.00 0.00 0.00 3.09
6327 12911 4.436050 CGCTGGCTTAACTTACAGATGTTG 60.436 45.833 0.00 0.00 32.86 3.33
6343 12927 3.291809 TGTTGCATTGCATCTGTTCAG 57.708 42.857 12.95 0.00 38.76 3.02
6352 12936 6.444633 CATTGCATCTGTTCAGGAAATATCC 58.555 40.000 0.00 0.00 46.98 2.59
6376 12960 6.096282 CCCAACTCCACAAAGTAAAGAGAAAA 59.904 38.462 0.00 0.00 0.00 2.29
6498 13082 7.152645 AGCAGTACATATGTATAAAAGTCGGG 58.847 38.462 18.27 4.02 32.54 5.14
6499 13083 6.367969 GCAGTACATATGTATAAAAGTCGGGG 59.632 42.308 18.27 1.96 32.54 5.73
6619 13203 4.418401 CCATTTGCACACCGGCCG 62.418 66.667 21.04 21.04 0.00 6.13
6629 13213 4.344865 ACCGGCCGCAACCTTGAT 62.345 61.111 22.85 0.00 0.00 2.57
6630 13214 3.814268 CCGGCCGCAACCTTGATG 61.814 66.667 22.85 0.00 0.00 3.07
6641 13225 3.798337 GCAACCTTGATGAGTTGTTGTTG 59.202 43.478 4.95 0.00 44.17 3.33
6648 13232 1.034838 TGAGTTGTTGTTGCGGCCTT 61.035 50.000 0.00 0.00 0.00 4.35
6672 13256 3.068064 GTTGACGGGCCCCATTGG 61.068 66.667 18.66 3.65 37.09 3.16
6703 13287 1.943340 GCCAAGTTGCTATAGCCAGTC 59.057 52.381 21.84 9.37 41.18 3.51
6704 13288 2.680805 GCCAAGTTGCTATAGCCAGTCA 60.681 50.000 21.84 0.00 41.18 3.41
6761 13345 3.384532 GGTTGTGCCCATGCCCTG 61.385 66.667 0.00 0.00 36.33 4.45
6835 13419 5.206587 GGTTGGATAGTTAGGAGGACAGTA 58.793 45.833 0.00 0.00 0.00 2.74
6843 13427 4.732957 AGTTAGGAGGACAGTAGTATCCCT 59.267 45.833 0.00 0.00 35.34 4.20
6844 13428 5.915900 AGTTAGGAGGACAGTAGTATCCCTA 59.084 44.000 0.00 0.00 35.34 3.53
6845 13429 6.567260 AGTTAGGAGGACAGTAGTATCCCTAT 59.433 42.308 0.00 0.00 35.34 2.57
6851 13435 4.087907 GACAGTAGTATCCCTATCCCACC 58.912 52.174 0.00 0.00 0.00 4.61
6860 13444 1.212935 CCCTATCCCACCAGGTTTCAG 59.787 57.143 0.00 0.00 36.75 3.02
6865 13449 1.427072 CCCACCAGGTTTCAGGTCCT 61.427 60.000 0.00 0.00 35.52 3.85
6870 13454 0.474184 CAGGTTTCAGGTCCTGGTGT 59.526 55.000 19.11 0.00 45.11 4.16
6885 13469 3.440173 CCTGGTGTTCGCATTTATTCTGT 59.560 43.478 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.109480 AGCATGCACAATCCCATCCTAT 59.891 45.455 21.98 0.00 0.00 2.57
1 2 1.496001 AGCATGCACAATCCCATCCTA 59.504 47.619 21.98 0.00 0.00 2.94
2 3 0.260816 AGCATGCACAATCCCATCCT 59.739 50.000 21.98 0.00 0.00 3.24
3 4 0.672342 GAGCATGCACAATCCCATCC 59.328 55.000 21.98 0.00 0.00 3.51
4 5 1.607628 GAGAGCATGCACAATCCCATC 59.392 52.381 21.98 5.01 0.00 3.51
5 6 1.064240 TGAGAGCATGCACAATCCCAT 60.064 47.619 21.98 0.00 0.00 4.00
6 7 0.328926 TGAGAGCATGCACAATCCCA 59.671 50.000 21.98 2.27 0.00 4.37
7 8 1.466856 TTGAGAGCATGCACAATCCC 58.533 50.000 21.98 0.00 0.00 3.85
8 9 3.146618 CTTTGAGAGCATGCACAATCC 57.853 47.619 21.98 5.29 0.00 3.01
20 21 1.004560 TGTCGGCAGGCTTTGAGAG 60.005 57.895 0.00 0.00 0.00 3.20
21 22 1.301716 GTGTCGGCAGGCTTTGAGA 60.302 57.895 0.00 0.00 0.00 3.27
22 23 2.328099 GGTGTCGGCAGGCTTTGAG 61.328 63.158 0.00 0.00 0.00 3.02
23 24 2.281484 GGTGTCGGCAGGCTTTGA 60.281 61.111 0.00 0.00 0.00 2.69
24 25 3.726517 CGGTGTCGGCAGGCTTTG 61.727 66.667 0.00 0.00 0.00 2.77
29 30 4.457496 ATCAGCGGTGTCGGCAGG 62.457 66.667 15.22 0.00 36.79 4.85
30 31 2.887568 GATCAGCGGTGTCGGCAG 60.888 66.667 15.22 0.00 36.79 4.85
31 32 4.451150 GGATCAGCGGTGTCGGCA 62.451 66.667 15.22 0.00 36.79 5.69
32 33 4.451150 TGGATCAGCGGTGTCGGC 62.451 66.667 15.22 2.63 36.79 5.54
33 34 2.202797 CTGGATCAGCGGTGTCGG 60.203 66.667 15.22 7.09 36.79 4.79
42 43 0.313672 GCGGAGAGTAGCTGGATCAG 59.686 60.000 0.00 0.00 34.12 2.90
43 44 1.109920 GGCGGAGAGTAGCTGGATCA 61.110 60.000 0.00 0.00 0.00 2.92
44 45 1.663173 GGCGGAGAGTAGCTGGATC 59.337 63.158 0.00 0.00 0.00 3.36
45 46 2.196925 CGGCGGAGAGTAGCTGGAT 61.197 63.158 0.00 0.00 36.18 3.41
46 47 2.829003 CGGCGGAGAGTAGCTGGA 60.829 66.667 0.00 0.00 36.18 3.86
47 48 3.127352 GACGGCGGAGAGTAGCTGG 62.127 68.421 13.24 0.00 43.59 4.85
48 49 2.407428 TGACGGCGGAGAGTAGCTG 61.407 63.158 13.24 0.00 44.74 4.24
49 50 2.045242 TGACGGCGGAGAGTAGCT 60.045 61.111 13.24 0.00 0.00 3.32
50 51 2.102553 GTGACGGCGGAGAGTAGC 59.897 66.667 13.24 0.00 0.00 3.58
51 52 2.403987 CGTGACGGCGGAGAGTAG 59.596 66.667 13.24 0.00 0.00 2.57
62 63 3.777925 CGCAAGAAGGCCGTGACG 61.778 66.667 0.00 0.00 43.02 4.35
63 64 4.090057 GCGCAAGAAGGCCGTGAC 62.090 66.667 0.30 0.00 43.02 3.67
64 65 4.314440 AGCGCAAGAAGGCCGTGA 62.314 61.111 11.47 0.00 43.02 4.35
65 66 3.793144 GAGCGCAAGAAGGCCGTG 61.793 66.667 11.47 0.00 43.02 4.94
68 69 2.439156 ATGGAGCGCAAGAAGGCC 60.439 61.111 11.47 0.00 43.02 5.19
69 70 2.768492 CCATGGAGCGCAAGAAGGC 61.768 63.158 11.47 0.00 43.02 4.35
70 71 0.465097 ATCCATGGAGCGCAAGAAGG 60.465 55.000 21.33 5.97 43.02 3.46
71 72 0.661552 CATCCATGGAGCGCAAGAAG 59.338 55.000 21.33 0.00 43.02 2.85
72 73 0.252761 TCATCCATGGAGCGCAAGAA 59.747 50.000 21.33 0.00 43.02 2.52
73 74 0.462581 GTCATCCATGGAGCGCAAGA 60.463 55.000 21.33 7.98 43.02 3.02
74 75 1.769098 CGTCATCCATGGAGCGCAAG 61.769 60.000 21.33 5.53 43.44 4.01
75 76 1.815003 CGTCATCCATGGAGCGCAA 60.815 57.895 21.33 0.37 0.00 4.85
76 77 2.202919 CGTCATCCATGGAGCGCA 60.203 61.111 21.33 0.37 0.00 6.09
77 78 3.643978 GCGTCATCCATGGAGCGC 61.644 66.667 31.02 31.02 36.98 5.92
78 79 3.333189 CGCGTCATCCATGGAGCG 61.333 66.667 25.69 25.69 43.13 5.03
79 80 2.969238 CCGCGTCATCCATGGAGC 60.969 66.667 21.33 16.47 0.00 4.70
80 81 2.969238 GCCGCGTCATCCATGGAG 60.969 66.667 21.33 12.25 0.00 3.86
117 118 3.011085 CAGCTTGAGGTGCTTCACA 57.989 52.632 0.00 0.00 38.92 3.58
312 324 2.908088 TAATCCTCGTCGCGTCGCAC 62.908 60.000 20.62 13.09 0.00 5.34
453 504 7.786030 CACTCTTCAGTGGAAATAGAATAGGA 58.214 38.462 0.00 0.00 45.75 2.94
493 545 5.220662 GCTCGTACAACACAGATTAATGCAT 60.221 40.000 0.00 0.00 0.00 3.96
504 556 1.037493 ACCTCTGCTCGTACAACACA 58.963 50.000 0.00 0.00 0.00 3.72
709 789 5.556758 CGTTAGTCTACTACGAGTGAGCATC 60.557 48.000 0.00 0.00 0.00 3.91
723 803 6.479001 TCACCGTTAGTATACCGTTAGTCTAC 59.521 42.308 0.00 0.00 0.00 2.59
724 804 6.479001 GTCACCGTTAGTATACCGTTAGTCTA 59.521 42.308 0.00 0.00 0.00 2.59
725 805 5.294552 GTCACCGTTAGTATACCGTTAGTCT 59.705 44.000 0.00 0.00 0.00 3.24
726 806 5.502606 GTCACCGTTAGTATACCGTTAGTC 58.497 45.833 0.00 0.00 0.00 2.59
727 807 4.034048 CGTCACCGTTAGTATACCGTTAGT 59.966 45.833 0.00 0.00 0.00 2.24
728 808 4.518217 CGTCACCGTTAGTATACCGTTAG 58.482 47.826 0.00 0.00 0.00 2.34
729 809 3.242608 GCGTCACCGTTAGTATACCGTTA 60.243 47.826 0.00 0.00 36.15 3.18
730 810 2.477863 GCGTCACCGTTAGTATACCGTT 60.478 50.000 0.00 0.00 36.15 4.44
731 811 1.064060 GCGTCACCGTTAGTATACCGT 59.936 52.381 0.00 0.00 36.15 4.83
732 812 1.746760 GCGTCACCGTTAGTATACCG 58.253 55.000 0.00 0.00 36.15 4.02
733 813 1.746760 CGCGTCACCGTTAGTATACC 58.253 55.000 0.00 0.00 36.15 2.73
737 817 0.109179 AATGCGCGTCACCGTTAGTA 60.109 50.000 8.43 0.00 36.15 1.82
761 841 3.478780 TCCTTTCGGGACCTGGTG 58.521 61.111 2.82 0.00 39.58 4.17
978 1086 1.874019 CTACGTACCTGCTGCTGCG 60.874 63.158 11.21 5.84 43.34 5.18
1834 2942 4.946157 AGTCCCTTCTAGATTTGCATTGTG 59.054 41.667 0.00 0.00 0.00 3.33
1866 2974 0.248296 CTAACTCGAGGCAGAGACGC 60.248 60.000 18.41 0.00 40.57 5.19
1915 3028 2.352814 CCTGAATCACGTCTCTCGGTTT 60.353 50.000 0.00 0.00 44.69 3.27
1916 3029 1.202582 CCTGAATCACGTCTCTCGGTT 59.797 52.381 0.00 0.00 44.69 4.44
1917 3030 0.811915 CCTGAATCACGTCTCTCGGT 59.188 55.000 0.00 0.00 44.69 4.69
1919 3032 1.202200 GGTCCTGAATCACGTCTCTCG 60.202 57.143 0.00 0.00 46.00 4.04
1920 3033 1.819288 TGGTCCTGAATCACGTCTCTC 59.181 52.381 0.00 0.00 0.00 3.20
1921 3034 1.924731 TGGTCCTGAATCACGTCTCT 58.075 50.000 0.00 0.00 0.00 3.10
1922 3035 2.544685 CATGGTCCTGAATCACGTCTC 58.455 52.381 0.00 0.00 0.00 3.36
1923 3036 1.208052 CCATGGTCCTGAATCACGTCT 59.792 52.381 2.57 0.00 0.00 4.18
1972 3171 9.561069 GATCCACATGTAGTAGGATGTTAAATT 57.439 33.333 17.66 0.00 37.88 1.82
2038 3238 6.214005 TGCATGTCTATTCATGAGGATCCATA 59.786 38.462 15.82 1.97 45.41 2.74
2094 3294 7.689446 TCTAGACACTATTCATAAGGATCCG 57.311 40.000 5.98 0.00 0.00 4.18
2122 3322 9.737427 CGAACCTATATATACTGGACATCATTC 57.263 37.037 9.17 2.52 0.00 2.67
2127 3327 7.672660 TCAACCGAACCTATATATACTGGACAT 59.327 37.037 9.17 0.00 0.00 3.06
2210 3410 6.582295 CGTCCCAAAATGAGTCACTTATTTTG 59.418 38.462 28.67 28.67 46.95 2.44
2218 3418 1.804748 GTCCGTCCCAAAATGAGTCAC 59.195 52.381 0.00 0.00 0.00 3.67
2238 3486 6.199154 CACTTGCAACTCTACATAATACTCCG 59.801 42.308 0.00 0.00 0.00 4.63
2248 3496 3.005897 GTCTCCTCACTTGCAACTCTACA 59.994 47.826 0.00 0.00 0.00 2.74
2267 3515 9.334947 CTTATGTTGATTCCAATGTGATAGTCT 57.665 33.333 0.00 0.00 34.39 3.24
2421 3683 9.712305 ACTCCCTTCGTATCAAAATATAAGATG 57.288 33.333 0.00 0.00 0.00 2.90
2878 7101 4.660938 GCCGGTGCCCCTGAGTTT 62.661 66.667 1.90 0.00 0.00 2.66
3121 7344 1.443407 CGATGGACCAGTAGCCAGG 59.557 63.158 0.00 0.00 37.64 4.45
3270 7493 3.009115 CCCCCACCCATCTCGTGT 61.009 66.667 0.00 0.00 0.00 4.49
3458 7681 3.078560 GGTCGCGACCGTCATTTC 58.921 61.111 39.77 16.79 42.29 2.17
3648 8220 9.981114 ACAAGTACAATATCATACATCGATCAA 57.019 29.630 0.00 0.00 0.00 2.57
3731 8303 2.661176 TCTTCCCCTTGGTGGATAGT 57.339 50.000 0.00 0.00 38.35 2.12
3849 8421 6.862608 TGCATGCAAATAAGTAAAAGAGTGTG 59.137 34.615 20.30 0.00 0.00 3.82
3870 8536 0.468585 ATGGCGGATCAACCATGCAT 60.469 50.000 15.83 0.00 45.03 3.96
4212 8886 8.272545 TCCAACTCTGATCACAAATTAGATTG 57.727 34.615 0.00 0.00 36.37 2.67
4356 9031 9.058174 TGAATGAAGAACCGACAGTTTAAATTA 57.942 29.630 0.00 0.00 39.40 1.40
4614 9290 0.821517 TGATGCGGTATCGGTCTGTT 59.178 50.000 0.00 0.00 38.71 3.16
4758 9434 8.451908 AATTGTTGCAGACTTAGTAAGACTTT 57.548 30.769 16.89 2.75 31.22 2.66
5024 11559 3.133141 GATGGTAGAAAGCCCTCCATC 57.867 52.381 6.72 6.72 44.59 3.51
5105 11640 6.636705 TCTAACTAATATTGAGTGCGGTTGT 58.363 36.000 0.00 0.00 0.00 3.32
5164 11699 3.269347 GTGGCGCAACACGTGTCT 61.269 61.111 23.61 9.59 46.11 3.41
5289 11825 3.921119 TCCATTACACAAAAGCAGCAG 57.079 42.857 0.00 0.00 0.00 4.24
5616 12159 2.089980 AGTTTGATGATGGCTGCTGAC 58.910 47.619 0.00 0.00 0.00 3.51
5619 12162 3.083122 AGAAGTTTGATGATGGCTGCT 57.917 42.857 0.00 0.00 0.00 4.24
5766 12310 2.499289 GTCTCTGCATCTTCCTTCTCCA 59.501 50.000 0.00 0.00 0.00 3.86
5975 12519 7.897575 ACAACAACAACAACAACAACAATAT 57.102 28.000 0.00 0.00 0.00 1.28
6035 12606 9.827411 TCATTCTCTAAATATATCTCGTTCACG 57.173 33.333 0.00 0.00 41.45 4.35
6061 12632 8.814038 ACTCTAAATTAACCTCATGAATTGCT 57.186 30.769 0.00 0.00 0.00 3.91
6082 12653 7.999545 TGGCTATAGTTACAGAGATACAACTCT 59.000 37.037 0.84 0.00 46.51 3.24
6184 12755 2.961526 AGAATCAACGCAGTACCGAT 57.038 45.000 0.00 0.00 45.00 4.18
6189 12760 3.664107 AGCAGAAAGAATCAACGCAGTA 58.336 40.909 0.00 0.00 45.00 2.74
6193 12764 4.177026 TCTAGAGCAGAAAGAATCAACGC 58.823 43.478 0.00 0.00 0.00 4.84
6194 12765 5.866633 AGTTCTAGAGCAGAAAGAATCAACG 59.133 40.000 9.43 0.00 44.89 4.10
6297 12868 3.831715 AAGTTAAGCCAGCGATGAAAC 57.168 42.857 0.06 1.08 0.00 2.78
6298 12869 4.320023 TGTAAGTTAAGCCAGCGATGAAA 58.680 39.130 0.06 0.00 0.00 2.69
6299 12870 3.932710 CTGTAAGTTAAGCCAGCGATGAA 59.067 43.478 0.06 0.00 0.00 2.57
6301 12872 3.521560 TCTGTAAGTTAAGCCAGCGATG 58.478 45.455 0.00 0.00 33.76 3.84
6305 12876 4.672801 GCAACATCTGTAAGTTAAGCCAGC 60.673 45.833 0.00 0.00 33.76 4.85
6306 12877 4.455533 TGCAACATCTGTAAGTTAAGCCAG 59.544 41.667 0.00 0.00 33.76 4.85
6313 12897 4.852134 TGCAATGCAACATCTGTAAGTT 57.148 36.364 5.01 0.00 34.76 2.66
6327 12911 3.581024 TTTCCTGAACAGATGCAATGC 57.419 42.857 0.00 0.00 0.00 3.56
6343 12927 5.016831 ACTTTGTGGAGTTGGGATATTTCC 58.983 41.667 0.00 0.00 41.77 3.13
6352 12936 6.693315 TTTCTCTTTACTTTGTGGAGTTGG 57.307 37.500 0.00 0.00 0.00 3.77
6386 12970 5.060506 TGTCTCGGCTTTGTGAATTCTAAA 58.939 37.500 7.05 7.50 0.00 1.85
6397 12981 3.134458 ACTTTCTTCTGTCTCGGCTTTG 58.866 45.455 0.00 0.00 0.00 2.77
6399 12983 3.134458 CAACTTTCTTCTGTCTCGGCTT 58.866 45.455 0.00 0.00 0.00 4.35
6578 13162 4.134563 GCCCAAGAAGAAGAACAAGTACA 58.865 43.478 0.00 0.00 0.00 2.90
6619 13203 3.715628 ACAACAACTCATCAAGGTTGC 57.284 42.857 0.00 0.00 44.41 4.17
6620 13204 3.798337 GCAACAACAACTCATCAAGGTTG 59.202 43.478 0.00 0.00 45.55 3.77
6621 13205 3.489059 CGCAACAACAACTCATCAAGGTT 60.489 43.478 0.00 0.00 0.00 3.50
6622 13206 2.033299 CGCAACAACAACTCATCAAGGT 59.967 45.455 0.00 0.00 0.00 3.50
6623 13207 2.605338 CCGCAACAACAACTCATCAAGG 60.605 50.000 0.00 0.00 0.00 3.61
6624 13208 2.653890 CCGCAACAACAACTCATCAAG 58.346 47.619 0.00 0.00 0.00 3.02
6625 13209 1.268999 GCCGCAACAACAACTCATCAA 60.269 47.619 0.00 0.00 0.00 2.57
6626 13210 0.310543 GCCGCAACAACAACTCATCA 59.689 50.000 0.00 0.00 0.00 3.07
6627 13211 0.387239 GGCCGCAACAACAACTCATC 60.387 55.000 0.00 0.00 0.00 2.92
6628 13212 0.823356 AGGCCGCAACAACAACTCAT 60.823 50.000 0.00 0.00 0.00 2.90
6629 13213 1.034838 AAGGCCGCAACAACAACTCA 61.035 50.000 0.00 0.00 0.00 3.41
6630 13214 0.594796 CAAGGCCGCAACAACAACTC 60.595 55.000 0.00 0.00 0.00 3.01
6672 13256 2.193536 AACTTGGCGAGGTTGTGGC 61.194 57.895 6.71 0.00 0.00 5.01
6771 13355 0.179163 GTTTTGAGTATGCAGGCCGC 60.179 55.000 11.92 11.92 42.89 6.53
6773 13357 1.398390 CTCGTTTTGAGTATGCAGGCC 59.602 52.381 0.00 0.00 40.03 5.19
6793 13377 0.248458 CACAGGTTGGTTCGCACAAC 60.248 55.000 7.79 7.79 45.60 3.32
6835 13419 1.873732 ACCTGGTGGGATAGGGATACT 59.126 52.381 0.00 0.00 38.42 2.12
6843 13427 1.913419 GACCTGAAACCTGGTGGGATA 59.087 52.381 0.00 0.00 36.22 2.59
6844 13428 0.698818 GACCTGAAACCTGGTGGGAT 59.301 55.000 0.00 0.00 36.22 3.85
6845 13429 1.423794 GGACCTGAAACCTGGTGGGA 61.424 60.000 0.00 0.00 36.22 4.37
6860 13444 1.816074 TAAATGCGAACACCAGGACC 58.184 50.000 0.00 0.00 0.00 4.46
6865 13449 6.751514 AATACAGAATAAATGCGAACACCA 57.248 33.333 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.