Multiple sequence alignment - TraesCS2A01G463000

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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 TraesCS2A01G463000 chr2A 100.000 4538 0 0 1 4538 709031761 709027224 0.000000e+00 8381.0
1 TraesCS2A01G463000 chr2A 97.368 38 1 0 57 94 468534270 468534233 1.050000e-06 65.8
2 TraesCS2A01G463000 chr2D 96.464 3903 116 9 90 3972 569198728 569194828 0.000000e+00 6423.0
3 TraesCS2A01G463000 chr2D 87.071 379 25 13 4174 4538 569194578 569194210 1.520000e-109 407.0
4 TraesCS2A01G463000 chr2D 93.578 109 7 0 3987 4095 569194681 569194573 3.630000e-36 163.0
5 TraesCS2A01G463000 chr2D 94.872 39 2 0 57 95 488233666 488233628 1.360000e-05 62.1
6 TraesCS2A01G463000 chr2B 93.552 3908 201 19 90 3969 682020085 682016201 0.000000e+00 5773.0
7 TraesCS2A01G463000 chr2B 85.284 299 28 7 4177 4462 682015979 682015684 1.230000e-75 294.0
8 TraesCS2A01G463000 chr2B 98.851 87 1 0 4092 4178 696361737 696361651 6.080000e-34 156.0
9 TraesCS2A01G463000 chr2B 95.745 94 4 0 4086 4179 662898914 662899007 7.860000e-33 152.0
10 TraesCS2A01G463000 chr2B 93.617 47 3 0 57 103 755581024 755581070 2.260000e-08 71.3
11 TraesCS2A01G463000 chr2B 97.368 38 1 0 6 43 773426637 773426600 1.050000e-06 65.8
12 TraesCS2A01G463000 chr4B 98.851 87 1 0 4093 4179 342857074 342857160 6.080000e-34 156.0
13 TraesCS2A01G463000 chr1A 97.778 90 1 1 4093 4181 14584508 14584419 2.190000e-33 154.0
14 TraesCS2A01G463000 chr5B 96.703 91 3 0 4089 4179 547451082 547451172 7.860000e-33 152.0
15 TraesCS2A01G463000 chr3B 96.703 91 3 0 4089 4179 138269308 138269218 7.860000e-33 152.0
16 TraesCS2A01G463000 chr3B 94.872 39 1 1 56 94 460106347 460106384 4.900000e-05 60.2
17 TraesCS2A01G463000 chr6D 95.699 93 4 0 4093 4185 65497085 65497177 2.830000e-32 150.0
18 TraesCS2A01G463000 chr1B 95.699 93 4 0 4086 4178 571173436 571173344 2.830000e-32 150.0
19 TraesCS2A01G463000 chr3A 94.792 96 4 1 4094 4188 170384495 170384400 1.020000e-31 148.0
20 TraesCS2A01G463000 chr3A 95.238 42 2 0 57 98 25934662 25934621 2.930000e-07 67.6
21 TraesCS2A01G463000 chr3A 95.000 40 1 1 56 95 487452089 487452051 1.360000e-05 62.1
22 TraesCS2A01G463000 chr6B 100.000 35 0 0 57 91 500228196 500228162 1.050000e-06 65.8
23 TraesCS2A01G463000 chrUn 94.737 38 2 0 57 94 346823094 346823131 4.900000e-05 60.2
24 TraesCS2A01G463000 chr7A 94.737 38 2 0 57 94 365077189 365077152 4.900000e-05 60.2
25 TraesCS2A01G463000 chr7A 96.970 33 1 0 3 35 176674084 176674052 6.340000e-04 56.5
26 TraesCS2A01G463000 chr4A 100.000 28 0 0 16 43 490593099 490593072 8.000000e-03 52.8


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 TraesCS2A01G463000 chr2A 709027224 709031761 4537 True 8381.0 8381 100.000 1 4538 1 chr2A.!!$R2 4537
1 TraesCS2A01G463000 chr2D 569194210 569198728 4518 True 2331.0 6423 92.371 90 4538 3 chr2D.!!$R2 4448
2 TraesCS2A01G463000 chr2B 682015684 682020085 4401 True 3033.5 5773 89.418 90 4462 2 chr2B.!!$R3 4372

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
161 176 0.039437 CGACCGTCAATATCCTCCGG 60.039 60.0 0.00 0.0 44.06 5.14 F
908 939 0.460987 CTGCCTTCCGGTGATCAGTC 60.461 60.0 0.00 0.0 0.00 3.51 F
1455 1486 0.674895 ACTCAGTGAGCAATTCGGCC 60.675 55.0 20.31 0.0 32.04 6.13 F
1834 1865 0.620556 TGACTCCTCAATTGCTCCCC 59.379 55.0 0.00 0.0 0.00 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1677 1708 0.034186 CAAGTGCAGGCCCTCCAATA 60.034 55.000 0.00 0.0 33.74 1.90 R
1815 1846 0.620556 GGGGAGCAATTGAGGAGTCA 59.379 55.000 10.34 0.0 0.00 3.41 R
3126 3157 2.358898 GGCACAAGCAACTTCAAAGAGA 59.641 45.455 0.00 0.0 44.61 3.10 R
3585 3616 0.973632 ACATCAAGACCACGGCTACA 59.026 50.000 0.00 0.0 0.00 2.74 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
37 38 3.990318 AAGTTAGTGCAAAGTTGAGCC 57.010 42.857 0.00 0.00 0.00 4.70
38 39 2.930950 AGTTAGTGCAAAGTTGAGCCA 58.069 42.857 0.00 0.00 0.00 4.75
39 40 3.490348 AGTTAGTGCAAAGTTGAGCCAT 58.510 40.909 0.00 0.00 0.00 4.40
40 41 3.503748 AGTTAGTGCAAAGTTGAGCCATC 59.496 43.478 0.00 0.00 0.00 3.51
41 42 2.283145 AGTGCAAAGTTGAGCCATCT 57.717 45.000 0.00 0.00 0.00 2.90
42 43 3.423539 AGTGCAAAGTTGAGCCATCTA 57.576 42.857 0.00 0.00 0.00 1.98
43 44 3.077359 AGTGCAAAGTTGAGCCATCTAC 58.923 45.455 0.00 0.00 0.00 2.59
44 45 2.162408 GTGCAAAGTTGAGCCATCTACC 59.838 50.000 0.00 0.00 32.33 3.18
45 46 2.224744 TGCAAAGTTGAGCCATCTACCA 60.225 45.455 0.00 0.00 32.33 3.25
46 47 3.019564 GCAAAGTTGAGCCATCTACCAT 58.980 45.455 0.00 0.00 32.33 3.55
47 48 3.065925 GCAAAGTTGAGCCATCTACCATC 59.934 47.826 0.00 0.00 32.33 3.51
48 49 2.898729 AGTTGAGCCATCTACCATCG 57.101 50.000 0.00 0.00 32.33 3.84
49 50 1.202580 AGTTGAGCCATCTACCATCGC 60.203 52.381 0.00 0.00 32.33 4.58
50 51 0.829990 TTGAGCCATCTACCATCGCA 59.170 50.000 0.00 0.00 0.00 5.10
51 52 0.829990 TGAGCCATCTACCATCGCAA 59.170 50.000 0.00 0.00 0.00 4.85
52 53 1.209261 TGAGCCATCTACCATCGCAAA 59.791 47.619 0.00 0.00 0.00 3.68
53 54 2.288666 GAGCCATCTACCATCGCAAAA 58.711 47.619 0.00 0.00 0.00 2.44
54 55 2.682856 GAGCCATCTACCATCGCAAAAA 59.317 45.455 0.00 0.00 0.00 1.94
80 81 9.914131 AAAAAGTTGAGCCATCTATTTTAGAAC 57.086 29.630 0.00 0.00 38.50 3.01
81 82 6.910536 AGTTGAGCCATCTATTTTAGAACG 57.089 37.500 0.00 0.00 38.50 3.95
82 83 5.817816 AGTTGAGCCATCTATTTTAGAACGG 59.182 40.000 0.00 0.00 38.50 4.44
83 84 5.607939 TGAGCCATCTATTTTAGAACGGA 57.392 39.130 7.28 0.00 38.50 4.69
84 85 5.601662 TGAGCCATCTATTTTAGAACGGAG 58.398 41.667 7.28 0.00 38.50 4.63
85 86 4.962155 AGCCATCTATTTTAGAACGGAGG 58.038 43.478 7.28 0.00 38.50 4.30
86 87 4.065789 GCCATCTATTTTAGAACGGAGGG 58.934 47.826 7.28 0.00 38.50 4.30
87 88 4.202326 GCCATCTATTTTAGAACGGAGGGA 60.202 45.833 0.00 0.00 38.50 4.20
88 89 5.542779 CCATCTATTTTAGAACGGAGGGAG 58.457 45.833 0.00 0.00 38.50 4.30
95 96 9.473640 CTATTTTAGAACGGAGGGAGTATTAAC 57.526 37.037 0.00 0.00 0.00 2.01
161 176 0.039437 CGACCGTCAATATCCTCCGG 60.039 60.000 0.00 0.00 44.06 5.14
164 179 1.411612 ACCGTCAATATCCTCCGGAAC 59.588 52.381 5.23 0.00 41.08 3.62
221 239 2.413142 GGAGCCAGCCTGTCATTGC 61.413 63.158 0.00 0.00 0.00 3.56
252 270 3.624326 TGAAAAGTCATCAAGGCAACG 57.376 42.857 0.00 0.00 46.39 4.10
255 273 1.523758 AAGTCATCAAGGCAACGGTC 58.476 50.000 0.00 0.00 46.39 4.79
256 274 0.687354 AGTCATCAAGGCAACGGTCT 59.313 50.000 0.00 0.00 46.39 3.85
258 276 2.301870 AGTCATCAAGGCAACGGTCTTA 59.698 45.455 0.00 0.00 36.66 2.10
260 278 2.037902 TCATCAAGGCAACGGTCTTACA 59.962 45.455 0.00 0.00 36.66 2.41
293 311 1.633432 TGGAAAAGGATCCGTCACCAT 59.367 47.619 17.09 0.00 42.76 3.55
294 312 2.289565 GGAAAAGGATCCGTCACCATC 58.710 52.381 5.98 0.00 0.00 3.51
311 329 2.244000 TCGAAAGAGCCGCAAAAGG 58.756 52.632 0.00 0.00 34.84 3.11
318 337 0.957888 GAGCCGCAAAAGGAAGAGCT 60.958 55.000 0.00 0.00 0.00 4.09
343 362 4.060038 TCTCCATTATTTCTCACGAGCC 57.940 45.455 0.00 0.00 0.00 4.70
388 408 1.281960 CACGACTTGACCGAGACGT 59.718 57.895 8.53 8.53 45.90 4.34
625 646 1.267121 CGGTCTTCTTCCTCTTCCCA 58.733 55.000 0.00 0.00 0.00 4.37
641 662 2.449322 CATCCCTCCCTCCCCCTG 60.449 72.222 0.00 0.00 0.00 4.45
716 747 1.134250 GGCTCTGAAATCCCTCCACTC 60.134 57.143 0.00 0.00 0.00 3.51
745 776 3.402681 CCTCCATCCACCGTGCCT 61.403 66.667 0.00 0.00 0.00 4.75
757 788 2.047274 GTGCCTTGTAGCTGCGGA 60.047 61.111 0.00 0.00 0.00 5.54
883 914 0.770499 TCACTCTTGGCCATTGGTGA 59.230 50.000 22.67 22.67 0.00 4.02
908 939 0.460987 CTGCCTTCCGGTGATCAGTC 60.461 60.000 0.00 0.00 0.00 3.51
1377 1408 2.286833 CGGTTCAGTGTTTGATGTCGTT 59.713 45.455 0.00 0.00 35.27 3.85
1425 1456 4.012374 AGTTTAACGTGTCGGAGGAGATA 58.988 43.478 0.00 0.00 0.00 1.98
1452 1483 3.124297 GGAGAAACTCAGTGAGCAATTCG 59.876 47.826 20.31 0.00 32.04 3.34
1455 1486 0.674895 ACTCAGTGAGCAATTCGGCC 60.675 55.000 20.31 0.00 32.04 6.13
1495 1526 4.999950 AGGAGTACTTTCTTGCAGTCAATG 59.000 41.667 0.00 0.00 0.00 2.82
1595 1626 3.885297 CCAGATAATTCCTTCAACGGCAT 59.115 43.478 0.00 0.00 0.00 4.40
1662 1693 2.659610 GGCCGAGCTGTTGAGACT 59.340 61.111 0.00 0.00 0.00 3.24
1671 1702 4.024809 CGAGCTGTTGAGACTATGTATCGA 60.025 45.833 0.00 0.00 0.00 3.59
1677 1708 7.334844 TGTTGAGACTATGTATCGACTGAAT 57.665 36.000 12.16 0.00 38.53 2.57
1815 1846 6.039047 CAGCCATAAAGTATGTCTCAAGCAAT 59.961 38.462 0.00 0.00 34.36 3.56
1834 1865 0.620556 TGACTCCTCAATTGCTCCCC 59.379 55.000 0.00 0.00 0.00 4.81
1836 1867 1.283321 GACTCCTCAATTGCTCCCCTT 59.717 52.381 0.00 0.00 0.00 3.95
1854 1885 2.389059 CTTGATGTCTATGAGACCGCG 58.611 52.381 0.00 0.00 44.44 6.46
1888 1919 3.507162 ACAACATGGTCATGGACAAGA 57.493 42.857 14.49 0.00 42.91 3.02
1893 1924 3.181429 ACATGGTCATGGACAAGAGGTTT 60.181 43.478 14.49 0.00 42.91 3.27
2046 2077 6.274579 TGAGAACTACGATGTGTACAACAAA 58.725 36.000 0.00 0.00 43.61 2.83
2112 2143 2.103143 CCGCAGCAGGTAGACTCG 59.897 66.667 0.00 0.00 0.00 4.18
2330 2361 2.912025 CGCTTTTGTGGCCCTGGT 60.912 61.111 0.00 0.00 0.00 4.00
2514 2545 0.846015 TTGGTCATAGGATGGGCAGG 59.154 55.000 0.00 0.00 0.00 4.85
2730 2761 3.215568 CACCGGCACCTTGTTGCA 61.216 61.111 0.00 0.00 44.94 4.08
2910 2941 2.887568 CACACGGGAGCAGATCGC 60.888 66.667 0.00 0.00 42.91 4.58
3126 3157 5.596361 TGATGTGTATTCTTTTGGTGTGGTT 59.404 36.000 0.00 0.00 0.00 3.67
3477 3508 2.336945 TTAGCATGCCTCACATCAGG 57.663 50.000 15.66 0.00 36.64 3.86
3564 3595 2.465860 TTCTGACATGTGGTAACCCG 57.534 50.000 1.15 0.00 0.00 5.28
3585 3616 4.036027 CCGCTGAACTATCTTGATTGCATT 59.964 41.667 0.00 0.00 0.00 3.56
3609 3641 2.812011 AGCCGTGGTCTTGATGTAAAAC 59.188 45.455 0.00 0.00 0.00 2.43
3949 3981 1.535462 GTCGTTTCTGTGTTCCCATGG 59.465 52.381 4.14 4.14 0.00 3.66
3969 4039 2.223805 GGAAACTTCACCCTTTGCTGTG 60.224 50.000 0.00 0.00 0.00 3.66
3970 4040 2.143876 AACTTCACCCTTTGCTGTGT 57.856 45.000 0.00 0.00 34.14 3.72
3971 4041 2.143876 ACTTCACCCTTTGCTGTGTT 57.856 45.000 0.00 0.00 34.14 3.32
3974 4044 0.467290 TCACCCTTTGCTGTGTTCCC 60.467 55.000 0.00 0.00 34.14 3.97
3975 4045 0.468029 CACCCTTTGCTGTGTTCCCT 60.468 55.000 0.00 0.00 0.00 4.20
3976 4046 0.261696 ACCCTTTGCTGTGTTCCCTT 59.738 50.000 0.00 0.00 0.00 3.95
3979 4049 2.962421 CCCTTTGCTGTGTTCCCTTAAA 59.038 45.455 0.00 0.00 0.00 1.52
3980 4050 3.243737 CCCTTTGCTGTGTTCCCTTAAAC 60.244 47.826 0.00 0.00 0.00 2.01
3981 4051 3.636764 CCTTTGCTGTGTTCCCTTAAACT 59.363 43.478 0.00 0.00 0.00 2.66
3983 4053 4.911514 TTGCTGTGTTCCCTTAAACTTC 57.088 40.909 0.00 0.00 0.00 3.01
3984 4054 3.892284 TGCTGTGTTCCCTTAAACTTCA 58.108 40.909 0.00 0.00 0.00 3.02
3993 4160 2.224450 CCCTTAAACTTCACCCGACTGT 60.224 50.000 0.00 0.00 0.00 3.55
3995 4162 4.243270 CCTTAAACTTCACCCGACTGTAG 58.757 47.826 0.00 0.00 0.00 2.74
4044 4211 5.758296 TGAAGCGATGTACTTTCAGTTCTTT 59.242 36.000 0.00 0.00 0.00 2.52
4049 4216 4.893424 TGTACTTTCAGTTCTTTGTGGC 57.107 40.909 0.00 0.00 0.00 5.01
4095 4262 2.497675 TGGTGATCAGGTTCAGAGCTAC 59.502 50.000 0.00 0.00 31.08 3.58
4096 4263 2.763448 GGTGATCAGGTTCAGAGCTACT 59.237 50.000 0.00 0.00 31.08 2.57
4097 4264 3.181480 GGTGATCAGGTTCAGAGCTACTC 60.181 52.174 0.00 0.00 31.08 2.59
4098 4265 3.027412 TGATCAGGTTCAGAGCTACTCC 58.973 50.000 0.00 0.00 31.08 3.85
4099 4266 1.853963 TCAGGTTCAGAGCTACTCCC 58.146 55.000 0.00 0.00 31.08 4.30
4100 4267 1.359474 TCAGGTTCAGAGCTACTCCCT 59.641 52.381 0.00 0.00 31.08 4.20
4101 4268 1.754226 CAGGTTCAGAGCTACTCCCTC 59.246 57.143 0.00 0.00 31.08 4.30
4102 4269 1.116308 GGTTCAGAGCTACTCCCTCC 58.884 60.000 0.00 0.00 0.00 4.30
4103 4270 0.741915 GTTCAGAGCTACTCCCTCCG 59.258 60.000 0.00 0.00 0.00 4.63
4104 4271 0.331954 TTCAGAGCTACTCCCTCCGT 59.668 55.000 0.00 0.00 0.00 4.69
4105 4272 0.107116 TCAGAGCTACTCCCTCCGTC 60.107 60.000 0.00 0.00 0.00 4.79
4106 4273 1.104577 CAGAGCTACTCCCTCCGTCC 61.105 65.000 0.00 0.00 0.00 4.79
4107 4274 1.829096 GAGCTACTCCCTCCGTCCC 60.829 68.421 0.00 0.00 0.00 4.46
4108 4275 2.043248 GCTACTCCCTCCGTCCCA 60.043 66.667 0.00 0.00 0.00 4.37
4109 4276 1.457831 GCTACTCCCTCCGTCCCAT 60.458 63.158 0.00 0.00 0.00 4.00
4110 4277 0.178970 GCTACTCCCTCCGTCCCATA 60.179 60.000 0.00 0.00 0.00 2.74
4111 4278 1.756690 GCTACTCCCTCCGTCCCATAA 60.757 57.143 0.00 0.00 0.00 1.90
4112 4279 2.890814 CTACTCCCTCCGTCCCATAAT 58.109 52.381 0.00 0.00 0.00 1.28
4113 4280 3.816842 GCTACTCCCTCCGTCCCATAATA 60.817 52.174 0.00 0.00 0.00 0.98
4114 4281 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
4115 4282 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
4116 4283 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
4117 4284 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
4118 4285 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
4119 4286 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
4120 4287 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
4121 4288 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
4122 4289 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
4123 4290 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
4124 4291 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
4125 4292 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
4126 4293 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
4127 4294 7.853929 CCGTCCCATAATATAAGAACGTTTTTG 59.146 37.037 13.87 0.00 0.00 2.44
4128 4295 8.605746 CGTCCCATAATATAAGAACGTTTTTGA 58.394 33.333 13.87 2.81 0.00 2.69
4129 4296 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
4130 4297 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
4131 4298 9.498307 CCCATAATATAAGAACGTTTTTGACAC 57.502 33.333 13.87 0.00 0.00 3.67
4138 4305 8.876275 ATAAGAACGTTTTTGACACTAGTGTA 57.124 30.769 27.98 11.50 45.05 2.90
4139 4306 6.823678 AGAACGTTTTTGACACTAGTGTAG 57.176 37.500 27.98 14.79 45.05 2.74
4140 4307 6.335777 AGAACGTTTTTGACACTAGTGTAGT 58.664 36.000 27.98 15.35 45.05 2.73
4153 4320 6.579491 ACTAGTGTAGTGTCAAAAACGTTC 57.421 37.500 0.00 0.00 37.69 3.95
4154 4321 6.335777 ACTAGTGTAGTGTCAAAAACGTTCT 58.664 36.000 0.00 0.00 37.69 3.01
4155 4322 6.815142 ACTAGTGTAGTGTCAAAAACGTTCTT 59.185 34.615 0.00 0.00 37.69 2.52
4156 4323 7.975616 ACTAGTGTAGTGTCAAAAACGTTCTTA 59.024 33.333 0.00 0.00 37.69 2.10
4157 4324 7.781548 AGTGTAGTGTCAAAAACGTTCTTAT 57.218 32.000 0.00 0.00 0.00 1.73
4158 4325 8.876275 AGTGTAGTGTCAAAAACGTTCTTATA 57.124 30.769 0.00 0.00 0.00 0.98
4159 4326 9.485206 AGTGTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 0.00 0.00 0.00 0.86
4164 4331 8.437742 AGTGTCAAAAACGTTCTTATATTACGG 58.562 33.333 0.00 0.00 39.45 4.02
4165 4332 7.689400 GTGTCAAAAACGTTCTTATATTACGGG 59.311 37.037 0.00 0.00 39.45 5.28
4166 4333 7.601886 TGTCAAAAACGTTCTTATATTACGGGA 59.398 33.333 0.00 0.00 39.45 5.14
4167 4334 7.899841 GTCAAAAACGTTCTTATATTACGGGAC 59.100 37.037 0.00 0.00 39.45 4.46
4180 4347 4.781264 GGGACGGAGGGAGTAACT 57.219 61.111 0.00 0.00 0.00 2.24
4237 4404 4.899502 TCTAAACAGAGCCAGGAAAGAAG 58.100 43.478 0.00 0.00 0.00 2.85
4238 4405 1.902938 AACAGAGCCAGGAAAGAAGC 58.097 50.000 0.00 0.00 0.00 3.86
4239 4406 0.321122 ACAGAGCCAGGAAAGAAGCG 60.321 55.000 0.00 0.00 0.00 4.68
4240 4407 1.023513 CAGAGCCAGGAAAGAAGCGG 61.024 60.000 0.00 0.00 0.00 5.52
4241 4408 1.003233 GAGCCAGGAAAGAAGCGGT 60.003 57.895 0.00 0.00 0.00 5.68
4255 4435 6.887626 AAGAAGCGGTCATAAACCTAAAAA 57.112 33.333 0.00 0.00 46.87 1.94
4258 4438 4.993905 AGCGGTCATAAACCTAAAAATGC 58.006 39.130 0.00 0.00 46.87 3.56
4319 4499 2.553904 CCCTCAACACATGGAGCTTCTT 60.554 50.000 0.00 0.00 0.00 2.52
4350 4530 5.000591 TGTCATCGACTTAATTCTTTGGCA 58.999 37.500 0.00 0.00 33.15 4.92
4463 4643 7.148086 CCGATTTCATGAGAATTTTTCACCCTA 60.148 37.037 0.00 0.00 32.89 3.53
4517 4697 7.308049 GGAGGTTCTTTCTCATTACAGTGAAAC 60.308 40.741 0.00 0.00 33.18 2.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 8.244113 GGCTCAACTTTGCACTAACTTTAATAT 58.756 33.333 0.00 0.00 0.00 1.28
12 13 7.229707 TGGCTCAACTTTGCACTAACTTTAATA 59.770 33.333 0.00 0.00 0.00 0.98
13 14 6.040391 TGGCTCAACTTTGCACTAACTTTAAT 59.960 34.615 0.00 0.00 0.00 1.40
14 15 5.358442 TGGCTCAACTTTGCACTAACTTTAA 59.642 36.000 0.00 0.00 0.00 1.52
15 16 4.884744 TGGCTCAACTTTGCACTAACTTTA 59.115 37.500 0.00 0.00 0.00 1.85
16 17 3.699038 TGGCTCAACTTTGCACTAACTTT 59.301 39.130 0.00 0.00 0.00 2.66
17 18 3.287222 TGGCTCAACTTTGCACTAACTT 58.713 40.909 0.00 0.00 0.00 2.66
18 19 2.930950 TGGCTCAACTTTGCACTAACT 58.069 42.857 0.00 0.00 0.00 2.24
19 20 3.503748 AGATGGCTCAACTTTGCACTAAC 59.496 43.478 0.00 0.00 0.00 2.34
20 21 3.754965 AGATGGCTCAACTTTGCACTAA 58.245 40.909 0.00 0.00 0.00 2.24
21 22 3.423539 AGATGGCTCAACTTTGCACTA 57.576 42.857 0.00 0.00 0.00 2.74
22 23 2.283145 AGATGGCTCAACTTTGCACT 57.717 45.000 0.00 0.00 0.00 4.40
23 24 2.162408 GGTAGATGGCTCAACTTTGCAC 59.838 50.000 0.00 0.00 0.00 4.57
24 25 2.224744 TGGTAGATGGCTCAACTTTGCA 60.225 45.455 0.00 0.00 0.00 4.08
25 26 2.436417 TGGTAGATGGCTCAACTTTGC 58.564 47.619 0.00 0.00 0.00 3.68
26 27 3.310774 CGATGGTAGATGGCTCAACTTTG 59.689 47.826 0.00 0.00 0.00 2.77
27 28 3.535561 CGATGGTAGATGGCTCAACTTT 58.464 45.455 0.00 0.00 0.00 2.66
28 29 2.743183 GCGATGGTAGATGGCTCAACTT 60.743 50.000 0.00 0.00 0.00 2.66
29 30 1.202580 GCGATGGTAGATGGCTCAACT 60.203 52.381 0.00 0.00 0.00 3.16
30 31 1.221414 GCGATGGTAGATGGCTCAAC 58.779 55.000 0.00 0.00 0.00 3.18
31 32 0.829990 TGCGATGGTAGATGGCTCAA 59.170 50.000 0.00 0.00 0.00 3.02
32 33 0.829990 TTGCGATGGTAGATGGCTCA 59.170 50.000 0.00 0.00 0.00 4.26
33 34 1.953559 TTTGCGATGGTAGATGGCTC 58.046 50.000 0.00 0.00 0.00 4.70
34 35 2.418368 TTTTGCGATGGTAGATGGCT 57.582 45.000 0.00 0.00 0.00 4.75
54 55 9.914131 GTTCTAAAATAGATGGCTCAACTTTTT 57.086 29.630 0.00 0.00 34.22 1.94
55 56 8.237267 CGTTCTAAAATAGATGGCTCAACTTTT 58.763 33.333 0.00 0.00 34.22 2.27
56 57 7.148239 CCGTTCTAAAATAGATGGCTCAACTTT 60.148 37.037 0.00 0.00 34.22 2.66
57 58 6.316390 CCGTTCTAAAATAGATGGCTCAACTT 59.684 38.462 0.00 0.00 34.22 2.66
58 59 5.817816 CCGTTCTAAAATAGATGGCTCAACT 59.182 40.000 0.00 0.00 34.22 3.16
59 60 5.815740 TCCGTTCTAAAATAGATGGCTCAAC 59.184 40.000 0.00 0.00 34.22 3.18
60 61 5.984725 TCCGTTCTAAAATAGATGGCTCAA 58.015 37.500 0.00 0.00 34.22 3.02
61 62 5.453339 CCTCCGTTCTAAAATAGATGGCTCA 60.453 44.000 0.00 0.00 34.22 4.26
62 63 4.991687 CCTCCGTTCTAAAATAGATGGCTC 59.008 45.833 0.00 0.00 34.22 4.70
63 64 4.202367 CCCTCCGTTCTAAAATAGATGGCT 60.202 45.833 0.00 0.00 34.22 4.75
64 65 4.065789 CCCTCCGTTCTAAAATAGATGGC 58.934 47.826 0.00 0.00 34.22 4.40
65 66 5.070580 ACTCCCTCCGTTCTAAAATAGATGG 59.929 44.000 0.00 0.00 34.22 3.51
66 67 6.163135 ACTCCCTCCGTTCTAAAATAGATG 57.837 41.667 0.00 0.00 34.22 2.90
67 68 8.493787 AATACTCCCTCCGTTCTAAAATAGAT 57.506 34.615 0.00 0.00 34.22 1.98
68 69 7.909485 AATACTCCCTCCGTTCTAAAATAGA 57.091 36.000 0.00 0.00 0.00 1.98
69 70 9.473640 GTTAATACTCCCTCCGTTCTAAAATAG 57.526 37.037 0.00 0.00 0.00 1.73
70 71 8.424133 GGTTAATACTCCCTCCGTTCTAAAATA 58.576 37.037 0.00 0.00 0.00 1.40
71 72 7.092757 TGGTTAATACTCCCTCCGTTCTAAAAT 60.093 37.037 0.00 0.00 0.00 1.82
72 73 6.213195 TGGTTAATACTCCCTCCGTTCTAAAA 59.787 38.462 0.00 0.00 0.00 1.52
73 74 5.721000 TGGTTAATACTCCCTCCGTTCTAAA 59.279 40.000 0.00 0.00 0.00 1.85
74 75 5.271598 TGGTTAATACTCCCTCCGTTCTAA 58.728 41.667 0.00 0.00 0.00 2.10
75 76 4.870636 TGGTTAATACTCCCTCCGTTCTA 58.129 43.478 0.00 0.00 0.00 2.10
76 77 3.716431 TGGTTAATACTCCCTCCGTTCT 58.284 45.455 0.00 0.00 0.00 3.01
77 78 4.476628 TTGGTTAATACTCCCTCCGTTC 57.523 45.455 0.00 0.00 0.00 3.95
78 79 4.566278 GGTTTGGTTAATACTCCCTCCGTT 60.566 45.833 0.00 0.00 0.00 4.44
79 80 3.054875 GGTTTGGTTAATACTCCCTCCGT 60.055 47.826 0.00 0.00 0.00 4.69
80 81 3.054948 TGGTTTGGTTAATACTCCCTCCG 60.055 47.826 0.00 0.00 0.00 4.63
81 82 4.579647 TGGTTTGGTTAATACTCCCTCC 57.420 45.455 0.00 0.00 0.00 4.30
82 83 7.344134 ACTATTGGTTTGGTTAATACTCCCTC 58.656 38.462 0.00 0.00 0.00 4.30
83 84 7.280044 ACTATTGGTTTGGTTAATACTCCCT 57.720 36.000 0.00 0.00 0.00 4.20
84 85 8.048514 TGTACTATTGGTTTGGTTAATACTCCC 58.951 37.037 0.00 0.00 0.00 4.30
85 86 9.452287 TTGTACTATTGGTTTGGTTAATACTCC 57.548 33.333 0.00 0.00 0.00 3.85
87 88 8.953313 GCTTGTACTATTGGTTTGGTTAATACT 58.047 33.333 0.00 0.00 0.00 2.12
88 89 7.906527 CGCTTGTACTATTGGTTTGGTTAATAC 59.093 37.037 0.00 0.00 0.00 1.89
95 96 2.159435 GGCGCTTGTACTATTGGTTTGG 60.159 50.000 7.64 0.00 0.00 3.28
209 227 1.376424 CGGTCAGCAATGACAGGCT 60.376 57.895 10.29 0.00 42.06 4.58
221 239 2.416747 TGACTTTTCATCTGCGGTCAG 58.583 47.619 0.00 0.00 41.67 3.51
281 299 2.464865 CTCTTTCGATGGTGACGGATC 58.535 52.381 0.00 0.00 0.00 3.36
283 301 0.108804 GCTCTTTCGATGGTGACGGA 60.109 55.000 0.00 0.00 0.00 4.69
293 311 0.250124 TCCTTTTGCGGCTCTTTCGA 60.250 50.000 0.00 0.00 0.00 3.71
294 312 0.591170 TTCCTTTTGCGGCTCTTTCG 59.409 50.000 0.00 0.00 0.00 3.46
311 329 9.553064 TGAGAAATAATGGAGATTTAGCTCTTC 57.447 33.333 0.00 0.00 35.26 2.87
318 337 6.706270 GGCTCGTGAGAAATAATGGAGATTTA 59.294 38.462 0.00 0.00 41.32 1.40
343 362 4.087892 CCTCCGGTGCTGGGTGAG 62.088 72.222 0.00 0.00 0.00 3.51
388 408 6.416415 TGGTTAGCCGAAAGTATTATTCCAA 58.584 36.000 0.00 0.00 37.67 3.53
431 451 3.761218 TGACTTTTCAAGAACTTGCACCA 59.239 39.130 9.38 0.65 40.24 4.17
466 487 7.523293 TTAGAGCAATCATTTTTGTCCAGAA 57.477 32.000 0.00 0.00 0.00 3.02
471 492 8.299570 TCTCCTTTTAGAGCAATCATTTTTGTC 58.700 33.333 0.00 0.00 33.66 3.18
625 646 2.967014 ACAGGGGGAGGGAGGGAT 60.967 66.667 0.00 0.00 0.00 3.85
745 776 2.047274 GCAGGTCCGCAGCTACAA 60.047 61.111 0.00 0.00 0.00 2.41
861 892 0.329261 CCAATGGCCAAGAGTGAGGA 59.671 55.000 10.96 0.00 0.00 3.71
864 895 0.770499 TCACCAATGGCCAAGAGTGA 59.230 50.000 23.70 23.70 32.15 3.41
867 898 0.323178 AGCTCACCAATGGCCAAGAG 60.323 55.000 10.96 13.37 0.00 2.85
908 939 1.073722 TGGAACTCAGCTGGGCTTG 59.926 57.895 15.27 1.87 36.40 4.01
1377 1408 1.250328 CCAGCTTGAAGTCATTGGCA 58.750 50.000 0.00 0.00 0.00 4.92
1495 1526 1.880340 CGATCTGCAGGCGAGAACC 60.880 63.158 20.41 0.00 0.00 3.62
1595 1626 1.821753 CACCACCAACTTTGTTCACCA 59.178 47.619 0.00 0.00 0.00 4.17
1662 1693 6.351033 GCCCTCCAATATTCAGTCGATACATA 60.351 42.308 0.00 0.00 0.00 2.29
1671 1702 1.133668 GCAGGCCCTCCAATATTCAGT 60.134 52.381 0.00 0.00 33.74 3.41
1677 1708 0.034186 CAAGTGCAGGCCCTCCAATA 60.034 55.000 0.00 0.00 33.74 1.90
1815 1846 0.620556 GGGGAGCAATTGAGGAGTCA 59.379 55.000 10.34 0.00 0.00 3.41
1834 1865 2.033424 TCGCGGTCTCATAGACATCAAG 59.967 50.000 6.13 0.00 46.79 3.02
1836 1867 1.604278 CTCGCGGTCTCATAGACATCA 59.396 52.381 6.13 0.00 46.79 3.07
1854 1885 3.429822 CCATGTTGTTGCCCATGATTCTC 60.430 47.826 0.00 0.00 40.70 2.87
1888 1919 2.091541 CCGCCATGTCACATTAAACCT 58.908 47.619 0.00 0.00 0.00 3.50
1893 1924 2.779755 AGAACCGCCATGTCACATTA 57.220 45.000 0.00 0.00 0.00 1.90
2046 2077 1.134189 GCCTTGTTAATACCTCCGGCT 60.134 52.381 0.00 0.00 33.68 5.52
2112 2143 1.523484 GCCTAGCTGAAGCCAGAGC 60.523 63.158 0.00 0.00 43.02 4.09
2325 2356 5.091261 AGAATAGAGCAACACTTACCAGG 57.909 43.478 0.00 0.00 0.00 4.45
2330 2361 6.108687 CACCATGAGAATAGAGCAACACTTA 58.891 40.000 0.00 0.00 0.00 2.24
2514 2545 3.826236 ATATCTGCAATGCTGAATCGC 57.174 42.857 18.22 0.00 39.70 4.58
2730 2761 4.951715 TGCTCTTCACAATAGCCAATCATT 59.048 37.500 0.00 0.00 35.33 2.57
2910 2941 9.367444 GTCTTAACATCCCTATGAATTATACCG 57.633 37.037 0.00 0.00 36.54 4.02
3126 3157 2.358898 GGCACAAGCAACTTCAAAGAGA 59.641 45.455 0.00 0.00 44.61 3.10
3477 3508 1.047801 GATGCTCCTCTTCTCCCTCC 58.952 60.000 0.00 0.00 0.00 4.30
3564 3595 5.888105 ACAATGCAATCAAGATAGTTCAGC 58.112 37.500 0.00 0.00 0.00 4.26
3585 3616 0.973632 ACATCAAGACCACGGCTACA 59.026 50.000 0.00 0.00 0.00 2.74
3609 3641 9.155975 AGAAACTAAGTGAACAATATAGCACAG 57.844 33.333 0.00 0.00 33.85 3.66
3832 3864 5.047377 ACACACACAAACAAGTTGAAGGATT 60.047 36.000 10.54 0.00 39.87 3.01
3845 3877 1.586042 CTGCGGCACACACACAAAC 60.586 57.895 0.00 0.00 0.00 2.93
3949 3981 2.427095 ACACAGCAAAGGGTGAAGTTTC 59.573 45.455 0.42 0.00 45.29 2.78
3969 4039 2.810274 GTCGGGTGAAGTTTAAGGGAAC 59.190 50.000 0.00 0.00 0.00 3.62
3970 4040 2.707257 AGTCGGGTGAAGTTTAAGGGAA 59.293 45.455 0.00 0.00 0.00 3.97
3971 4041 2.038033 CAGTCGGGTGAAGTTTAAGGGA 59.962 50.000 0.00 0.00 0.00 4.20
3974 4044 5.130292 TCTACAGTCGGGTGAAGTTTAAG 57.870 43.478 0.00 0.00 0.00 1.85
3975 4045 5.534207 TTCTACAGTCGGGTGAAGTTTAA 57.466 39.130 0.00 0.00 0.00 1.52
3976 4046 5.733620 ATTCTACAGTCGGGTGAAGTTTA 57.266 39.130 0.00 0.00 0.00 2.01
3979 4049 4.771054 ACTAATTCTACAGTCGGGTGAAGT 59.229 41.667 0.00 0.00 0.00 3.01
3980 4050 5.103000 CACTAATTCTACAGTCGGGTGAAG 58.897 45.833 0.00 0.00 0.00 3.02
3981 4051 4.081862 CCACTAATTCTACAGTCGGGTGAA 60.082 45.833 0.00 0.00 0.00 3.18
3983 4053 3.446161 TCCACTAATTCTACAGTCGGGTG 59.554 47.826 0.00 0.00 0.00 4.61
3984 4054 3.705051 TCCACTAATTCTACAGTCGGGT 58.295 45.455 0.00 0.00 0.00 5.28
4044 4211 3.367910 GGAACTTGAAAAACACTGCCACA 60.368 43.478 0.00 0.00 0.00 4.17
4049 4216 2.798145 GCCCGGAACTTGAAAAACACTG 60.798 50.000 0.73 0.00 0.00 3.66
4095 4262 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
4096 4263 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
4097 4264 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
4098 4265 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
4099 4266 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
4100 4267 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
4101 4268 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
4102 4269 8.605746 TCAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
4103 4270 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
4104 4271 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
4105 4272 9.498307 GTGTCAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
4111 4278 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
4112 4279 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
4113 4280 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
4114 4281 7.975616 ACTACACTAGTGTCAAAAACGTTCTTA 59.024 33.333 31.11 8.36 43.74 2.10
4115 4282 6.815142 ACTACACTAGTGTCAAAAACGTTCTT 59.185 34.615 31.11 4.99 43.74 2.52
4116 4283 6.335777 ACTACACTAGTGTCAAAAACGTTCT 58.664 36.000 31.11 5.44 43.74 3.01
4117 4284 6.579491 ACTACACTAGTGTCAAAAACGTTC 57.421 37.500 31.11 0.00 43.74 3.95
4130 4297 6.335777 AGAACGTTTTTGACACTACACTAGT 58.664 36.000 0.46 0.00 40.28 2.57
4131 4298 6.823678 AGAACGTTTTTGACACTACACTAG 57.176 37.500 0.46 0.00 0.00 2.57
4132 4299 8.876275 ATAAGAACGTTTTTGACACTACACTA 57.124 30.769 13.87 0.00 0.00 2.74
4133 4300 7.781548 ATAAGAACGTTTTTGACACTACACT 57.218 32.000 13.87 0.00 0.00 3.55
4138 4305 8.437742 CCGTAATATAAGAACGTTTTTGACACT 58.562 33.333 13.87 0.00 34.90 3.55
4139 4306 7.689400 CCCGTAATATAAGAACGTTTTTGACAC 59.311 37.037 13.87 4.53 34.90 3.67
4140 4307 7.601886 TCCCGTAATATAAGAACGTTTTTGACA 59.398 33.333 13.87 0.01 34.90 3.58
4141 4308 7.899841 GTCCCGTAATATAAGAACGTTTTTGAC 59.100 37.037 13.87 5.89 34.90 3.18
4142 4309 7.201427 CGTCCCGTAATATAAGAACGTTTTTGA 60.201 37.037 13.87 2.81 34.90 2.69
4143 4310 6.896088 CGTCCCGTAATATAAGAACGTTTTTG 59.104 38.462 13.87 0.00 34.90 2.44
4144 4311 6.035975 CCGTCCCGTAATATAAGAACGTTTTT 59.964 38.462 9.22 9.22 34.90 1.94
4145 4312 5.519927 CCGTCCCGTAATATAAGAACGTTTT 59.480 40.000 0.46 0.00 34.90 2.43
4146 4313 5.043248 CCGTCCCGTAATATAAGAACGTTT 58.957 41.667 0.46 0.00 34.90 3.60
4147 4314 4.338118 TCCGTCCCGTAATATAAGAACGTT 59.662 41.667 0.00 0.00 34.90 3.99
4148 4315 3.882888 TCCGTCCCGTAATATAAGAACGT 59.117 43.478 0.00 0.00 34.90 3.99
4149 4316 4.470462 CTCCGTCCCGTAATATAAGAACG 58.530 47.826 0.00 0.00 36.42 3.95
4150 4317 4.321527 CCCTCCGTCCCGTAATATAAGAAC 60.322 50.000 0.00 0.00 0.00 3.01
4151 4318 3.828451 CCCTCCGTCCCGTAATATAAGAA 59.172 47.826 0.00 0.00 0.00 2.52
4152 4319 3.074390 TCCCTCCGTCCCGTAATATAAGA 59.926 47.826 0.00 0.00 0.00 2.10
4153 4320 3.424703 TCCCTCCGTCCCGTAATATAAG 58.575 50.000 0.00 0.00 0.00 1.73
4154 4321 3.181429 ACTCCCTCCGTCCCGTAATATAA 60.181 47.826 0.00 0.00 0.00 0.98
4155 4322 2.376518 ACTCCCTCCGTCCCGTAATATA 59.623 50.000 0.00 0.00 0.00 0.86
4156 4323 1.146566 ACTCCCTCCGTCCCGTAATAT 59.853 52.381 0.00 0.00 0.00 1.28
4157 4324 0.552848 ACTCCCTCCGTCCCGTAATA 59.447 55.000 0.00 0.00 0.00 0.98
4158 4325 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
4159 4326 0.331278 TTACTCCCTCCGTCCCGTAA 59.669 55.000 0.00 0.00 0.00 3.18
4160 4327 0.394352 GTTACTCCCTCCGTCCCGTA 60.394 60.000 0.00 0.00 0.00 4.02
4161 4328 1.680314 GTTACTCCCTCCGTCCCGT 60.680 63.158 0.00 0.00 0.00 5.28
4162 4329 1.379576 AGTTACTCCCTCCGTCCCG 60.380 63.158 0.00 0.00 0.00 5.14
4163 4330 0.614134 ACAGTTACTCCCTCCGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
4164 4331 1.264295 AACAGTTACTCCCTCCGTCC 58.736 55.000 0.00 0.00 0.00 4.79
4165 4332 3.087781 AGTAACAGTTACTCCCTCCGTC 58.912 50.000 18.79 0.00 42.62 4.79
4166 4333 3.166560 AGTAACAGTTACTCCCTCCGT 57.833 47.619 18.79 0.00 42.62 4.69
4175 4342 5.259632 TCTAGACAGGGGAGTAACAGTTAC 58.740 45.833 14.76 14.76 36.38 2.50
4176 4343 5.525454 TCTAGACAGGGGAGTAACAGTTA 57.475 43.478 0.00 0.00 0.00 2.24
4177 4344 4.399483 TCTAGACAGGGGAGTAACAGTT 57.601 45.455 0.00 0.00 0.00 3.16
4180 4347 4.485875 TGTTTCTAGACAGGGGAGTAACA 58.514 43.478 0.00 0.00 30.84 2.41
4239 4406 7.339048 GCTGTGGCATTTTTAGGTTTATGACC 61.339 42.308 0.00 0.00 42.75 4.02
4240 4407 5.576774 GCTGTGGCATTTTTAGGTTTATGAC 59.423 40.000 0.00 0.00 38.54 3.06
4241 4408 5.480073 AGCTGTGGCATTTTTAGGTTTATGA 59.520 36.000 0.00 0.00 41.70 2.15
4255 4435 1.378250 GGCTGAGAAGCTGTGGCAT 60.378 57.895 0.00 0.00 41.70 4.40
4258 4438 0.603707 TTTCGGCTGAGAAGCTGTGG 60.604 55.000 6.45 0.00 41.63 4.17
4273 4453 2.016961 CCCGAGCCACATGATTTCG 58.983 57.895 0.00 3.28 0.00 3.46
4274 4454 1.729881 GCCCGAGCCACATGATTTC 59.270 57.895 0.00 0.00 0.00 2.17
4293 4473 0.692476 TCCATGTGTTGAGGGAGTGG 59.308 55.000 0.00 0.00 0.00 4.00
4303 4483 6.463995 TTTAAACAAGAAGCTCCATGTGTT 57.536 33.333 0.00 0.00 0.00 3.32
4347 4527 7.094377 TGTGTTTATTTCTAGAGTGGATTTGCC 60.094 37.037 0.00 0.00 37.10 4.52
4350 4530 9.793259 TCTTGTGTTTATTTCTAGAGTGGATTT 57.207 29.630 0.00 0.00 0.00 2.17
4426 4606 0.537188 TGAAATCGGGAGGAGCAGAC 59.463 55.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.