Multiple sequence alignment - TraesCS1D01G342200

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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 TraesCS1D01G342200 chr1D 100.000 5179 0 0 1 5179 431954274 431959452 0.000000e+00 9564.0
1 TraesCS1D01G342200 chr1D 86.093 604 72 9 952 1546 369483188 369482588 1.570000e-179 640.0
2 TraesCS1D01G342200 chr1A 89.617 2456 188 39 23 2437 530510958 530513387 0.000000e+00 3061.0
3 TraesCS1D01G342200 chr1A 94.578 1328 52 11 3854 5179 530514849 530516158 0.000000e+00 2036.0
4 TraesCS1D01G342200 chr1A 93.596 1296 49 19 2486 3752 530513564 530514854 0.000000e+00 1903.0
5 TraesCS1D01G342200 chr1B 91.925 1932 118 22 1 1912 583393914 583395827 0.000000e+00 2669.0
6 TraesCS1D01G342200 chr1B 91.281 1881 117 22 1908 3752 583395938 583397807 0.000000e+00 2521.0
7 TraesCS1D01G342200 chr1B 89.943 696 46 9 4506 5179 583398459 583399152 0.000000e+00 876.0
8 TraesCS1D01G342200 chr1B 89.118 680 51 16 3834 4494 583397806 583398481 0.000000e+00 824.0
9 TraesCS1D01G342200 chr6D 84.454 952 120 21 952 1891 59757743 59756808 0.000000e+00 913.0
10 TraesCS1D01G342200 chr7D 83.281 951 110 33 952 1891 429959963 429959051 0.000000e+00 830.0
11 TraesCS1D01G342200 chr7D 97.727 88 2 0 3751 3838 141292172 141292085 8.980000e-33 152.0
12 TraesCS1D01G342200 chr7D 97.727 88 2 0 3751 3838 529689689 529689602 8.980000e-33 152.0
13 TraesCS1D01G342200 chr5A 87.202 672 74 5 952 1612 545944153 545944823 0.000000e+00 754.0
14 TraesCS1D01G342200 chr5A 86.473 207 27 1 1686 1891 545944862 545945068 5.220000e-55 226.0
15 TraesCS1D01G342200 chr4B 85.491 448 55 7 1450 1891 603004956 603005399 4.730000e-125 459.0
16 TraesCS1D01G342200 chr4B 93.069 101 6 1 3738 3838 491017737 491017638 4.180000e-31 147.0
17 TraesCS1D01G342200 chr7B 85.488 441 53 7 1458 1891 559712233 559711797 2.840000e-122 449.0
18 TraesCS1D01G342200 chr6B 85.396 404 50 6 1444 1842 693623109 693623508 1.340000e-110 411.0
19 TraesCS1D01G342200 chr5B 80.515 272 45 7 524 794 232663822 232663558 8.790000e-48 202.0
20 TraesCS1D01G342200 chr5B 96.226 53 1 1 952 1004 702409712 702409661 9.240000e-13 86.1
21 TraesCS1D01G342200 chr5D 80.297 269 40 10 535 800 217227015 217227273 1.900000e-44 191.0
22 TraesCS1D01G342200 chr2D 96.703 91 2 1 3749 3838 436111337 436111427 3.230000e-32 150.0
23 TraesCS1D01G342200 chr4A 95.652 92 4 0 3747 3838 556768043 556767952 1.160000e-31 148.0
24 TraesCS1D01G342200 chr3D 93.000 100 5 2 3737 3835 54370399 54370497 1.500000e-30 145.0
25 TraesCS1D01G342200 chr3D 92.157 102 7 1 3751 3851 591872580 591872479 5.410000e-30 143.0
26 TraesCS1D01G342200 chr3B 92.929 99 7 0 3740 3838 723452849 723452947 1.500000e-30 145.0
27 TraesCS1D01G342200 chr2B 89.091 110 9 3 3731 3838 362021120 362021228 3.250000e-27 134.0
28 TraesCS1D01G342200 chr3A 75.445 281 41 16 525 803 109328688 109328942 1.520000e-20 111.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G342200 chr1D 431954274 431959452 5178 False 9564.000000 9564 100.00000 1 5179 1 chr1D.!!$F1 5178
1 TraesCS1D01G342200 chr1D 369482588 369483188 600 True 640.000000 640 86.09300 952 1546 1 chr1D.!!$R1 594
2 TraesCS1D01G342200 chr1A 530510958 530516158 5200 False 2333.333333 3061 92.59700 23 5179 3 chr1A.!!$F1 5156
3 TraesCS1D01G342200 chr1B 583393914 583399152 5238 False 1722.500000 2669 90.56675 1 5179 4 chr1B.!!$F1 5178
4 TraesCS1D01G342200 chr6D 59756808 59757743 935 True 913.000000 913 84.45400 952 1891 1 chr6D.!!$R1 939
5 TraesCS1D01G342200 chr7D 429959051 429959963 912 True 830.000000 830 83.28100 952 1891 1 chr7D.!!$R2 939
6 TraesCS1D01G342200 chr5A 545944153 545945068 915 False 490.000000 754 86.83750 952 1891 2 chr5A.!!$F1 939

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
202 209 0.251832 ACAAACACCCACACCACCAA 60.252 50.0 0.0 0.0 0.00 3.67 F
1234 1281 0.252239 AGCCCCTTGGATTTTGGTCC 60.252 55.0 0.0 0.0 38.81 4.46 F
1807 1862 0.175073 CGTAGGTGTTACTGCCCCTC 59.825 60.0 0.0 0.0 0.00 4.30 F
3358 3694 0.949397 TCGTAGTCAAGTCTGCACGT 59.051 50.0 0.0 0.0 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1774 1829 0.373716 CCTACGCAGCAACGATTTCC 59.626 55.000 5.33 0.0 36.70 3.13 R
2957 3292 2.284625 AGATCCACTGGGTCGGCA 60.285 61.111 2.46 0.0 34.93 5.69 R
3536 3904 0.986527 TGATGATGCAGTGGTCCTGT 59.013 50.000 0.00 0.0 43.55 4.00 R
4415 4792 1.964223 ACACAACCAACACCAACACAA 59.036 42.857 0.00 0.0 0.00 3.33 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
64 65 1.136329 CCCTCCCATCCCGAATCCAT 61.136 60.000 0.00 0.00 0.00 3.41
104 108 1.507174 GACGCGTGAGGAGCTAGTT 59.493 57.895 20.70 0.00 0.00 2.24
182 189 2.936498 GCCAAGTACAACATAGACGCAT 59.064 45.455 0.00 0.00 0.00 4.73
190 197 5.277601 ACAACATAGACGCATACAAACAC 57.722 39.130 0.00 0.00 0.00 3.32
202 209 0.251832 ACAAACACCCACACCACCAA 60.252 50.000 0.00 0.00 0.00 3.67
231 238 2.030274 AGCCCACTTCGCAAACATAAAC 60.030 45.455 0.00 0.00 0.00 2.01
244 251 6.608610 GCAAACATAAACTTTGGATACGACT 58.391 36.000 0.00 0.00 42.51 4.18
362 369 5.041951 TCACTGCGGAACATATTTGAAAC 57.958 39.130 0.00 0.00 0.00 2.78
438 445 6.942576 ACTAGCTTCTTGGACAAACATACAAT 59.057 34.615 0.00 0.00 0.00 2.71
440 447 6.006449 AGCTTCTTGGACAAACATACAATCT 58.994 36.000 0.00 0.00 0.00 2.40
455 462 6.432162 ACATACAATCTGTGTCTCAAAGCATT 59.568 34.615 0.00 0.00 41.98 3.56
470 477 1.211969 CATTGCTGAGTGCTGCACC 59.788 57.895 27.74 19.28 46.64 5.01
486 493 1.541015 GCACCTTCCCCTTGCAAAAAG 60.541 52.381 0.00 2.35 36.22 2.27
657 675 1.403249 GCAGTGCTTCATCGGCAAAAT 60.403 47.619 8.18 0.00 41.54 1.82
712 731 3.817148 TTATCGTTCGGCTTGTTTTCC 57.183 42.857 0.00 0.00 0.00 3.13
799 818 9.508642 TGTGACAATGAACACACCTATATTTTA 57.491 29.630 11.92 0.00 41.19 1.52
882 918 2.032377 TGCTGCACGTTACTGTAAAAGC 60.032 45.455 0.00 7.38 0.00 3.51
925 961 0.809385 GTTGATCCGACGACTCAGGA 59.191 55.000 0.00 0.00 38.56 3.86
927 963 1.025041 TGATCCGACGACTCAGGATG 58.975 55.000 0.00 0.00 44.13 3.51
994 1031 2.753029 GCTCCCAGCACAAGTCCT 59.247 61.111 0.00 0.00 41.89 3.85
1114 1154 2.670251 CGGGCTTTGGGTGCGTTA 60.670 61.111 0.00 0.00 0.00 3.18
1115 1155 2.262303 CGGGCTTTGGGTGCGTTAA 61.262 57.895 0.00 0.00 0.00 2.01
1234 1281 0.252239 AGCCCCTTGGATTTTGGTCC 60.252 55.000 0.00 0.00 38.81 4.46
1249 1296 6.877611 TTTTGGTCCTTCTGACTATGTTTC 57.122 37.500 0.00 0.00 43.89 2.78
1323 1372 0.533085 GTGGCTAGGCGGAGGATTTC 60.533 60.000 12.19 0.00 0.00 2.17
1435 1484 2.284190 GCAGTAGTTCAGATTCAGGGC 58.716 52.381 0.00 0.00 0.00 5.19
1441 1490 0.776810 TTCAGATTCAGGGCCAACCA 59.223 50.000 6.18 0.00 43.89 3.67
1442 1491 0.329261 TCAGATTCAGGGCCAACCAG 59.671 55.000 6.18 0.00 43.89 4.00
1456 1505 2.944349 CCAACCAGCTGTGCAAATTTTT 59.056 40.909 13.81 0.00 0.00 1.94
1475 1524 8.677148 AATTTTTGTTGTCTCTAGCTTCTACA 57.323 30.769 0.00 0.00 0.00 2.74
1507 1560 3.116531 GCGCCCGTGTTGTACTCC 61.117 66.667 0.00 0.00 0.00 3.85
1610 1663 5.047306 ACAGATGTTGACGAGATTAACTGGA 60.047 40.000 0.00 0.00 0.00 3.86
1611 1664 5.869344 CAGATGTTGACGAGATTAACTGGAA 59.131 40.000 0.00 0.00 0.00 3.53
1612 1665 6.368791 CAGATGTTGACGAGATTAACTGGAAA 59.631 38.462 0.00 0.00 0.00 3.13
1613 1666 6.591834 AGATGTTGACGAGATTAACTGGAAAG 59.408 38.462 0.00 0.00 0.00 2.62
1627 1680 5.913137 ACTGGAAAGAACAACATTTGACA 57.087 34.783 0.00 0.00 0.00 3.58
1684 1739 5.763204 AGGAAAAAGTGCAGTTATCTTTCGA 59.237 36.000 17.53 0.00 32.09 3.71
1774 1829 1.715519 CGCAACAGCAAAATCGGAAAG 59.284 47.619 0.00 0.00 0.00 2.62
1800 1855 1.792006 GTTGCTGCGTAGGTGTTACT 58.208 50.000 1.76 0.00 0.00 2.24
1802 1857 0.669318 TGCTGCGTAGGTGTTACTGC 60.669 55.000 1.76 0.00 34.54 4.40
1807 1862 0.175073 CGTAGGTGTTACTGCCCCTC 59.825 60.000 0.00 0.00 0.00 4.30
1848 1903 6.509418 AAAATATCTTTGTCGCAGCCTTTA 57.491 33.333 0.00 0.00 0.00 1.85
1849 1904 6.509418 AAATATCTTTGTCGCAGCCTTTAA 57.491 33.333 0.00 0.00 0.00 1.52
1850 1905 6.509418 AATATCTTTGTCGCAGCCTTTAAA 57.491 33.333 0.00 0.00 0.00 1.52
1851 1906 4.846779 ATCTTTGTCGCAGCCTTTAAAA 57.153 36.364 0.00 0.00 0.00 1.52
1852 1907 4.640789 TCTTTGTCGCAGCCTTTAAAAA 57.359 36.364 0.00 0.00 0.00 1.94
1905 1963 9.155975 CCAATATGTCTACTAATATGTCCTTGC 57.844 37.037 0.00 0.00 0.00 4.01
1937 2110 9.019656 AGCATAATGTGTTTTACTTGTGGATAA 57.980 29.630 0.00 0.00 0.00 1.75
1959 2132 8.863872 ATAACTTGTTAGGGTATATTGCCATC 57.136 34.615 0.00 0.00 0.00 3.51
1961 2134 4.967084 TGTTAGGGTATATTGCCATCGT 57.033 40.909 0.00 0.00 0.00 3.73
1974 2147 2.076100 GCCATCGTCTGTTGTGATTGA 58.924 47.619 0.00 0.00 0.00 2.57
1975 2148 2.483877 GCCATCGTCTGTTGTGATTGAA 59.516 45.455 0.00 0.00 0.00 2.69
2083 2256 6.767902 AGTATATTCGAAATGGCATGACAAGT 59.232 34.615 4.70 0.00 0.00 3.16
2405 2578 5.767168 AGAAAGTATGCCTATCTCATTTGGC 59.233 40.000 0.00 0.00 45.10 4.52
2408 2581 3.870538 ATGCCTATCTCATTTGGCTGA 57.129 42.857 0.00 0.00 45.11 4.26
2455 2789 4.906060 ACCTAGGTTTATACCCTCATGGAC 59.094 45.833 9.21 0.00 46.28 4.02
2506 2840 4.445879 GGGGTCACTCCTACAGTTTTCTTT 60.446 45.833 0.00 0.00 30.26 2.52
2615 2950 9.865321 CAGGTCATATTTTGAATCTTGTGAAAT 57.135 29.630 0.00 0.00 35.70 2.17
2973 3308 2.125106 GTGCCGACCCAGTGGATC 60.125 66.667 11.95 0.44 34.81 3.36
3165 3501 4.289342 CACAGATATCTCTTCAGAGCACG 58.711 47.826 1.03 0.00 41.80 5.34
3169 3505 1.550327 ATCTCTTCAGAGCACGGACA 58.450 50.000 0.00 0.00 41.80 4.02
3170 3506 1.328279 TCTCTTCAGAGCACGGACAA 58.672 50.000 0.00 0.00 41.80 3.18
3358 3694 0.949397 TCGTAGTCAAGTCTGCACGT 59.051 50.000 0.00 0.00 0.00 4.49
3396 3732 6.658816 TGAACACATGCTACCACATATTTCTT 59.341 34.615 0.00 0.00 0.00 2.52
3453 3789 8.589338 AGAAATTCATATATCGCTAGAGTTGGT 58.411 33.333 0.00 0.00 0.00 3.67
3474 3810 9.567848 GTTGGTTGGTTTATTTATGATGTACTG 57.432 33.333 0.00 0.00 0.00 2.74
3494 3830 1.518056 CGTGTGCTGCCAAGTTCCAT 61.518 55.000 0.00 0.00 0.00 3.41
3509 3845 2.493278 GTTCCATATGGTGCAGCTGTTT 59.507 45.455 21.28 2.17 36.34 2.83
3513 3849 3.247442 CATATGGTGCAGCTGTTTGTTG 58.753 45.455 18.08 1.49 0.00 3.33
3522 3890 2.033407 CAGCTGTTTGTTGTCTCAGACG 60.033 50.000 5.25 0.00 34.95 4.18
3543 3911 3.861689 CGATTTACGTAGGAAACAGGACC 59.138 47.826 0.00 0.00 37.22 4.46
3600 3968 6.514048 GCAGGATGTGATAAAATTAGGACTGC 60.514 42.308 0.00 0.00 39.31 4.40
3643 4011 4.696877 TCGTCCAGTCGAGTTTCAGTATAA 59.303 41.667 0.00 0.00 34.85 0.98
3722 4093 7.257790 TGCTATCCATATTAGCAACATAGGT 57.742 36.000 5.33 0.00 42.99 3.08
3723 4094 7.689299 TGCTATCCATATTAGCAACATAGGTT 58.311 34.615 5.33 0.00 42.99 3.50
3724 4095 8.163408 TGCTATCCATATTAGCAACATAGGTTT 58.837 33.333 5.33 0.00 42.99 3.27
3725 4096 9.014297 GCTATCCATATTAGCAACATAGGTTTT 57.986 33.333 0.00 0.00 34.21 2.43
3756 4127 9.391006 TCATGTATTCAACAACTAAATACTCCC 57.609 33.333 0.00 0.00 42.70 4.30
3757 4128 9.396022 CATGTATTCAACAACTAAATACTCCCT 57.604 33.333 0.00 0.00 42.70 4.20
3758 4129 9.614792 ATGTATTCAACAACTAAATACTCCCTC 57.385 33.333 0.00 0.00 42.70 4.30
3759 4130 8.044908 TGTATTCAACAACTAAATACTCCCTCC 58.955 37.037 0.00 0.00 36.99 4.30
3760 4131 5.080969 TCAACAACTAAATACTCCCTCCG 57.919 43.478 0.00 0.00 0.00 4.63
3761 4132 4.529377 TCAACAACTAAATACTCCCTCCGT 59.471 41.667 0.00 0.00 0.00 4.69
3762 4133 4.732672 ACAACTAAATACTCCCTCCGTC 57.267 45.455 0.00 0.00 0.00 4.79
3763 4134 3.450096 ACAACTAAATACTCCCTCCGTCC 59.550 47.826 0.00 0.00 0.00 4.79
3764 4135 2.675583 ACTAAATACTCCCTCCGTCCC 58.324 52.381 0.00 0.00 0.00 4.46
3765 4136 2.023695 ACTAAATACTCCCTCCGTCCCA 60.024 50.000 0.00 0.00 0.00 4.37
3766 4137 2.191981 AAATACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
3767 4138 3.339713 AAATACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
3768 4139 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
3769 4140 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
3770 4141 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
3771 4142 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
3772 4143 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
3773 4144 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
3774 4145 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
3775 4146 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
3776 4147 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
3777 4148 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
3778 4149 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
3779 4150 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
3780 4151 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
3781 4152 4.863131 CCGTCCCATAATATAAGAGCGTTC 59.137 45.833 0.00 0.00 0.00 3.95
3782 4153 5.336531 CCGTCCCATAATATAAGAGCGTTCT 60.337 44.000 0.00 0.00 34.29 3.01
3783 4154 6.157211 CGTCCCATAATATAAGAGCGTTCTT 58.843 40.000 18.78 18.78 45.45 2.52
3784 4155 6.089551 CGTCCCATAATATAAGAGCGTTCTTG 59.910 42.308 22.97 6.36 43.41 3.02
3785 4156 7.152645 GTCCCATAATATAAGAGCGTTCTTGA 58.847 38.462 22.97 11.99 43.41 3.02
3786 4157 7.116519 GTCCCATAATATAAGAGCGTTCTTGAC 59.883 40.741 22.97 14.18 43.41 3.18
3787 4158 6.929049 CCCATAATATAAGAGCGTTCTTGACA 59.071 38.462 22.97 9.18 43.41 3.58
3788 4159 7.095607 CCCATAATATAAGAGCGTTCTTGACAC 60.096 40.741 22.97 0.00 43.41 3.67
3789 4160 7.653713 CCATAATATAAGAGCGTTCTTGACACT 59.346 37.037 22.97 7.52 43.41 3.55
3790 4161 9.678941 CATAATATAAGAGCGTTCTTGACACTA 57.321 33.333 22.97 9.24 43.41 2.74
3791 4162 7.988904 AATATAAGAGCGTTCTTGACACTAC 57.011 36.000 22.97 0.00 43.41 2.73
3792 4163 3.728076 AAGAGCGTTCTTGACACTACA 57.272 42.857 14.17 0.00 42.04 2.74
3793 4164 3.014604 AGAGCGTTCTTGACACTACAC 57.985 47.619 0.00 0.00 0.00 2.90
3794 4165 2.059541 GAGCGTTCTTGACACTACACC 58.940 52.381 0.00 0.00 0.00 4.16
3795 4166 1.411246 AGCGTTCTTGACACTACACCA 59.589 47.619 0.00 0.00 0.00 4.17
3796 4167 1.792949 GCGTTCTTGACACTACACCAG 59.207 52.381 0.00 0.00 0.00 4.00
3797 4168 2.802057 GCGTTCTTGACACTACACCAGT 60.802 50.000 0.00 0.00 38.32 4.00
3808 4179 2.353579 ACTACACCAGTGTCAAAAACGC 59.646 45.455 6.72 0.00 43.74 4.84
3810 4181 1.400494 ACACCAGTGTCAAAAACGCTC 59.600 47.619 0.00 0.00 45.69 5.03
3811 4182 1.670811 CACCAGTGTCAAAAACGCTCT 59.329 47.619 0.00 0.00 45.69 4.09
3812 4183 2.097466 CACCAGTGTCAAAAACGCTCTT 59.903 45.455 0.00 0.00 45.69 2.85
3813 4184 3.311322 CACCAGTGTCAAAAACGCTCTTA 59.689 43.478 0.00 0.00 45.69 2.10
3814 4185 4.024048 CACCAGTGTCAAAAACGCTCTTAT 60.024 41.667 0.00 0.00 45.69 1.73
3815 4186 5.178623 CACCAGTGTCAAAAACGCTCTTATA 59.821 40.000 0.00 0.00 45.69 0.98
3816 4187 5.938125 ACCAGTGTCAAAAACGCTCTTATAT 59.062 36.000 0.00 0.00 45.69 0.86
3817 4188 6.430000 ACCAGTGTCAAAAACGCTCTTATATT 59.570 34.615 0.00 0.00 45.69 1.28
3818 4189 7.604927 ACCAGTGTCAAAAACGCTCTTATATTA 59.395 33.333 0.00 0.00 45.69 0.98
3819 4190 8.612619 CCAGTGTCAAAAACGCTCTTATATTAT 58.387 33.333 0.00 0.00 45.69 1.28
3820 4191 9.425893 CAGTGTCAAAAACGCTCTTATATTATG 57.574 33.333 0.00 0.00 45.69 1.90
3821 4192 8.612619 AGTGTCAAAAACGCTCTTATATTATGG 58.387 33.333 0.00 0.00 45.69 2.74
3822 4193 7.855904 GTGTCAAAAACGCTCTTATATTATGGG 59.144 37.037 0.00 0.00 35.42 4.00
3823 4194 7.771361 TGTCAAAAACGCTCTTATATTATGGGA 59.229 33.333 0.00 0.00 0.00 4.37
3824 4195 8.068380 GTCAAAAACGCTCTTATATTATGGGAC 58.932 37.037 0.00 0.00 0.00 4.46
3825 4196 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
3826 4197 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
3827 4198 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
3828 4199 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
3829 4200 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
3830 4201 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
3831 4202 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
3832 4203 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
3833 4204 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
3850 4221 3.325425 GGGAGTAATTCCTAGGAGCTTCC 59.675 52.174 12.26 14.61 45.98 3.46
3897 4269 9.703892 TGACAATACCCATTTTCACTTTTTATG 57.296 29.630 0.00 0.00 28.22 1.90
3996 4368 4.694339 GTCTACACAGACCAAAAGTGAGT 58.306 43.478 0.00 0.00 44.72 3.41
3997 4369 4.508124 GTCTACACAGACCAAAAGTGAGTG 59.492 45.833 0.00 0.00 44.72 3.51
4009 4381 5.906073 CAAAAGTGAGTGAATTTGGAACCT 58.094 37.500 0.00 0.00 0.00 3.50
4023 4395 2.180276 GGAACCTACAGGCTCTCTCAA 58.820 52.381 0.00 0.00 39.32 3.02
4039 4411 2.159824 TCTCAACTCTCAAGACGCTACG 59.840 50.000 0.00 0.00 0.00 3.51
4069 4441 2.028203 CCATTTGGGTAGGGCTTGTTTG 60.028 50.000 0.00 0.00 0.00 2.93
4076 4448 2.102420 GGTAGGGCTTGTTTGCAACTTT 59.898 45.455 0.00 0.00 34.04 2.66
4123 4495 0.247145 CTGTTTGCGCCGATTACGAC 60.247 55.000 4.18 0.00 42.66 4.34
4134 4506 1.005512 ATTACGACGCCTGCACACA 60.006 52.632 0.00 0.00 0.00 3.72
4136 4508 0.244178 TTACGACGCCTGCACACATA 59.756 50.000 0.00 0.00 0.00 2.29
4153 4528 6.348458 GCACACATAAACATCAGCTTCAAGTA 60.348 38.462 0.00 0.00 0.00 2.24
4231 4606 2.420058 TCTGCCGTCTCATACTCAGA 57.580 50.000 0.00 0.00 34.81 3.27
4381 4757 3.550437 ACTGACCTATGCATGGACTTC 57.450 47.619 12.26 5.58 0.00 3.01
4484 4880 9.935682 GGTTATGTACTCATGATGTTTGTATTG 57.064 33.333 0.00 0.00 35.70 1.90
4491 4887 6.869913 ACTCATGATGTTTGTATTGCCTTTTG 59.130 34.615 0.00 0.00 0.00 2.44
4495 4891 7.856145 TGATGTTTGTATTGCCTTTTGTTTT 57.144 28.000 0.00 0.00 0.00 2.43
4496 4892 8.273780 TGATGTTTGTATTGCCTTTTGTTTTT 57.726 26.923 0.00 0.00 0.00 1.94
4620 5016 6.374333 GGCCAAAATCAGAAGTATGACAACTA 59.626 38.462 0.00 0.00 30.46 2.24
4824 5246 4.193334 GCATTCCGGCGGGCTTTC 62.193 66.667 27.98 8.20 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 0.613777 GAGGTCGGGGTTGTTGATCT 59.386 55.000 0.00 0.00 0.00 2.75
30 31 3.254617 GGGGAGGTCGGGGTTGTT 61.255 66.667 0.00 0.00 0.00 2.83
182 189 0.624254 TGGTGGTGTGGGTGTTTGTA 59.376 50.000 0.00 0.00 0.00 2.41
190 197 2.551912 GCGAGTTTGGTGGTGTGGG 61.552 63.158 0.00 0.00 0.00 4.61
202 209 2.048127 GAAGTGGGCTCGCGAGTT 60.048 61.111 34.46 21.72 0.00 3.01
231 238 9.543018 GTTTCAAAAGATTAGTCGTATCCAAAG 57.457 33.333 0.00 0.00 0.00 2.77
244 251 8.852135 ACGTTTCTAATGGGTTTCAAAAGATTA 58.148 29.630 0.00 0.00 0.00 1.75
392 399 4.152402 AGTGATTTTTCGTGAATCTCACCG 59.848 41.667 12.32 0.00 44.20 4.94
438 445 2.551032 CAGCAATGCTTTGAGACACAGA 59.449 45.455 15.97 0.00 36.40 3.41
440 447 2.551032 CTCAGCAATGCTTTGAGACACA 59.449 45.455 16.55 0.00 36.40 3.72
470 477 4.122046 CACTTTCTTTTTGCAAGGGGAAG 58.878 43.478 0.00 7.00 0.00 3.46
486 493 1.797537 GAACATGCGCGGCACTTTC 60.798 57.895 8.83 8.87 43.04 2.62
602 619 4.392445 GCATGAAAATTGGCAAGCACATTA 59.608 37.500 5.96 0.00 0.00 1.90
607 624 2.545537 TGCATGAAAATTGGCAAGCA 57.454 40.000 5.96 4.96 36.52 3.91
679 697 6.812160 AGCCGAACGATAATTATATCCTTCAC 59.188 38.462 0.00 0.00 35.23 3.18
687 705 7.496591 AGGAAAACAAGCCGAACGATAATTATA 59.503 33.333 0.00 0.00 0.00 0.98
689 707 5.644636 AGGAAAACAAGCCGAACGATAATTA 59.355 36.000 0.00 0.00 0.00 1.40
794 813 9.432077 GCACGTCAAAAATGTGAAAAATAAAAT 57.568 25.926 1.70 0.00 46.13 1.82
799 818 5.006552 CCTGCACGTCAAAAATGTGAAAAAT 59.993 36.000 1.70 0.00 46.13 1.82
925 961 1.285280 TCAGATTTGTCCCGGTCCAT 58.715 50.000 0.00 0.00 0.00 3.41
927 963 1.450025 GTTCAGATTTGTCCCGGTCC 58.550 55.000 0.00 0.00 0.00 4.46
1108 1148 1.377987 GGCCCTGTGGATTAACGCA 60.378 57.895 0.00 0.00 0.00 5.24
1112 1152 0.539986 GACGAGGCCCTGTGGATTAA 59.460 55.000 0.00 0.00 0.00 1.40
1114 1154 2.990479 GACGAGGCCCTGTGGATT 59.010 61.111 0.00 0.00 0.00 3.01
1115 1155 3.461773 CGACGAGGCCCTGTGGAT 61.462 66.667 0.00 0.00 0.00 3.41
1234 1281 3.262420 CACCCGGAAACATAGTCAGAAG 58.738 50.000 0.73 0.00 0.00 2.85
1249 1296 3.060614 ATTCCCTGATGGCACCCGG 62.061 63.158 0.00 0.00 0.00 5.73
1323 1372 4.421479 AGAGCGGCTGGAACGTCG 62.421 66.667 7.50 0.00 33.74 5.12
1435 1484 2.243602 AAATTTGCACAGCTGGTTGG 57.756 45.000 19.93 5.63 0.00 3.77
1441 1490 4.506758 AGACAACAAAAATTTGCACAGCT 58.493 34.783 5.82 0.00 41.79 4.24
1442 1491 4.567959 AGAGACAACAAAAATTTGCACAGC 59.432 37.500 5.82 0.00 41.79 4.40
1456 1505 6.260870 CTTCTGTAGAAGCTAGAGACAACA 57.739 41.667 8.56 0.00 44.10 3.33
1491 1540 2.025418 GTGGAGTACAACACGGGCG 61.025 63.158 0.00 0.00 0.00 6.13
1507 1560 5.051816 ACTGAAACATGGCATTCTTTTGTG 58.948 37.500 0.00 0.00 0.00 3.33
1519 1572 4.384056 AGTCAGAGACAACTGAAACATGG 58.616 43.478 0.00 0.00 46.34 3.66
1610 1663 5.723295 AGCAAGTGTCAAATGTTGTTCTTT 58.277 33.333 0.00 0.00 0.00 2.52
1611 1664 5.329035 AGCAAGTGTCAAATGTTGTTCTT 57.671 34.783 0.00 0.00 0.00 2.52
1612 1665 4.989279 AGCAAGTGTCAAATGTTGTTCT 57.011 36.364 0.00 0.00 0.00 3.01
1613 1666 4.676924 GCTAGCAAGTGTCAAATGTTGTTC 59.323 41.667 10.63 0.00 0.00 3.18
1627 1680 9.892130 AAAGATAACTACATTTAGCTAGCAAGT 57.108 29.630 18.83 9.81 27.61 3.16
1661 1714 5.851703 GTCGAAAGATAACTGCACTTTTTCC 59.148 40.000 1.31 0.00 45.19 3.13
1662 1715 6.659776 AGTCGAAAGATAACTGCACTTTTTC 58.340 36.000 1.31 0.00 45.19 2.29
1684 1739 9.442047 GCTGGTATAAGAATATGCATTAAGAGT 57.558 33.333 3.54 0.00 0.00 3.24
1774 1829 0.373716 CCTACGCAGCAACGATTTCC 59.626 55.000 5.33 0.00 36.70 3.13
1800 1855 1.065199 CAATACAAGCTCAGAGGGGCA 60.065 52.381 0.00 0.00 0.00 5.36
1802 1857 1.673168 GCAATACAAGCTCAGAGGGG 58.327 55.000 0.00 0.00 0.00 4.79
1807 1862 3.940209 TTTTGGGCAATACAAGCTCAG 57.060 42.857 0.00 0.00 44.43 3.35
1852 1907 8.184192 CAGATTATAGGCAAGTTCGTGATTTTT 58.816 33.333 0.00 0.00 0.00 1.94
1857 1915 4.119862 GCAGATTATAGGCAAGTTCGTGA 58.880 43.478 0.00 0.00 0.00 4.35
1876 1934 8.535335 AGGACATATTAGTAGACATATTGGCAG 58.465 37.037 0.00 0.00 0.00 4.85
1905 1963 8.721478 ACAAGTAAAACACATTATGCTACTCAG 58.279 33.333 0.00 0.00 0.00 3.35
1927 2100 9.847224 AATATACCCTAACAAGTTATCCACAAG 57.153 33.333 0.00 0.00 0.00 3.16
1937 2110 5.163237 ACGATGGCAATATACCCTAACAAGT 60.163 40.000 0.00 0.00 0.00 3.16
1959 2132 6.092670 AGGTAATGATTCAATCACAACAGACG 59.907 38.462 0.98 0.00 43.01 4.18
1961 2134 7.397221 AGAGGTAATGATTCAATCACAACAGA 58.603 34.615 0.98 0.00 43.01 3.41
2007 2180 7.200434 TGAAAGCTCATCTTTAAGGGACTAT 57.800 36.000 0.00 0.00 44.58 2.12
2123 2296 8.391075 TGCTGCATGATATCCATATGAATATG 57.609 34.615 3.65 3.69 39.80 1.78
2312 2485 7.783042 AGGTCCACATTAAACTAGTGATAGAC 58.217 38.462 0.00 0.00 35.33 2.59
2375 2548 8.901472 ATGAGATAGGCATACTTTCTACCATA 57.099 34.615 0.00 0.00 37.58 2.74
2376 2549 7.805083 ATGAGATAGGCATACTTTCTACCAT 57.195 36.000 0.00 0.00 37.58 3.55
2405 2578 3.947834 GGGTTGTACATCCATTTCCTCAG 59.052 47.826 21.70 0.00 0.00 3.35
2408 2581 4.079958 GGTAGGGTTGTACATCCATTTCCT 60.080 45.833 21.70 12.68 0.00 3.36
2443 2777 4.569653 CCCAAATTTGAGTCCATGAGGGTA 60.570 45.833 19.86 0.00 38.11 3.69
2957 3292 2.284625 AGATCCACTGGGTCGGCA 60.285 61.111 2.46 0.00 34.93 5.69
3165 3501 5.241662 AGAGAGCAATTGTAAGAGTTGTCC 58.758 41.667 7.40 0.00 0.00 4.02
3169 3505 6.538263 AGGAAAGAGAGCAATTGTAAGAGTT 58.462 36.000 7.40 0.00 0.00 3.01
3170 3506 6.120507 AGGAAAGAGAGCAATTGTAAGAGT 57.879 37.500 7.40 0.00 0.00 3.24
3358 3694 9.190858 GTAGCATGTGTTCATTAATTTTCAACA 57.809 29.630 0.00 0.00 31.15 3.33
3453 3789 7.119992 ACACGCAGTACATCATAAATAAACCAA 59.880 33.333 0.00 0.00 41.61 3.67
3474 3810 2.050985 GAACTTGGCAGCACACGC 60.051 61.111 0.00 0.00 38.99 5.34
3494 3830 2.293122 GACAACAAACAGCTGCACCATA 59.707 45.455 15.27 0.00 0.00 2.74
3522 3890 4.628766 GTGGTCCTGTTTCCTACGTAAATC 59.371 45.833 0.00 0.00 0.00 2.17
3529 3897 1.071699 TGCAGTGGTCCTGTTTCCTAC 59.928 52.381 0.00 0.00 43.55 3.18
3536 3904 0.986527 TGATGATGCAGTGGTCCTGT 59.013 50.000 0.00 0.00 43.55 4.00
3538 3906 1.841919 TCATGATGATGCAGTGGTCCT 59.158 47.619 0.00 0.00 0.00 3.85
3543 3911 2.683362 AGCAACTCATGATGATGCAGTG 59.317 45.455 19.60 5.52 0.00 3.66
3552 3920 5.681437 GCCAATGATTGAAGCAACTCATGAT 60.681 40.000 6.76 0.00 29.39 2.45
3643 4011 5.670792 TGTTTTATCTCACTCGGGTATGT 57.329 39.130 0.00 0.00 0.00 2.29
3743 4114 3.036819 GGGACGGAGGGAGTATTTAGTT 58.963 50.000 0.00 0.00 0.00 2.24
3751 4122 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
3752 4123 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
3753 4124 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
3754 4125 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
3755 4126 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
3756 4127 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
3757 4128 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
3758 4129 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
3759 4130 5.710984 AGAACGCTCTTATATTATGGGACG 58.289 41.667 0.00 0.00 0.00 4.79
3760 4131 7.116519 GTCAAGAACGCTCTTATATTATGGGAC 59.883 40.741 0.00 0.00 40.05 4.46
3761 4132 7.152645 GTCAAGAACGCTCTTATATTATGGGA 58.847 38.462 0.00 0.00 40.05 4.37
3762 4133 6.929049 TGTCAAGAACGCTCTTATATTATGGG 59.071 38.462 0.00 0.00 40.05 4.00
3763 4134 7.653713 AGTGTCAAGAACGCTCTTATATTATGG 59.346 37.037 0.00 0.00 45.69 2.74
3764 4135 8.581057 AGTGTCAAGAACGCTCTTATATTATG 57.419 34.615 0.00 0.00 45.69 1.90
3765 4136 9.680315 GTAGTGTCAAGAACGCTCTTATATTAT 57.320 33.333 0.00 0.00 45.69 1.28
3766 4137 8.680001 TGTAGTGTCAAGAACGCTCTTATATTA 58.320 33.333 0.00 0.00 45.69 0.98
3767 4138 7.488471 GTGTAGTGTCAAGAACGCTCTTATATT 59.512 37.037 0.00 0.00 45.69 1.28
3768 4139 6.973474 GTGTAGTGTCAAGAACGCTCTTATAT 59.027 38.462 0.00 0.00 45.69 0.86
3769 4140 6.320171 GTGTAGTGTCAAGAACGCTCTTATA 58.680 40.000 0.00 0.00 45.69 0.98
3770 4141 5.162075 GTGTAGTGTCAAGAACGCTCTTAT 58.838 41.667 0.00 0.00 45.69 1.73
3771 4142 4.543692 GTGTAGTGTCAAGAACGCTCTTA 58.456 43.478 0.00 0.00 45.69 2.10
3772 4143 3.381949 GTGTAGTGTCAAGAACGCTCTT 58.618 45.455 0.00 0.00 45.69 2.85
3773 4144 2.288273 GGTGTAGTGTCAAGAACGCTCT 60.288 50.000 0.00 0.00 45.69 4.09
3774 4145 2.059541 GGTGTAGTGTCAAGAACGCTC 58.940 52.381 0.00 0.00 45.69 5.03
3776 4147 1.792949 CTGGTGTAGTGTCAAGAACGC 59.207 52.381 0.00 0.00 38.74 4.84
3777 4148 3.093717 ACTGGTGTAGTGTCAAGAACG 57.906 47.619 0.00 0.00 38.49 3.95
3787 4158 2.353579 GCGTTTTTGACACTGGTGTAGT 59.646 45.455 6.35 0.00 45.05 2.73
3788 4159 2.612212 AGCGTTTTTGACACTGGTGTAG 59.388 45.455 6.35 0.00 45.05 2.74
3789 4160 2.610374 GAGCGTTTTTGACACTGGTGTA 59.390 45.455 6.35 0.00 45.05 2.90
3791 4162 1.670811 AGAGCGTTTTTGACACTGGTG 59.329 47.619 0.00 0.00 0.00 4.17
3792 4163 2.038387 AGAGCGTTTTTGACACTGGT 57.962 45.000 0.00 0.00 0.00 4.00
3793 4164 4.749245 ATAAGAGCGTTTTTGACACTGG 57.251 40.909 0.00 0.00 0.00 4.00
3794 4165 9.425893 CATAATATAAGAGCGTTTTTGACACTG 57.574 33.333 0.00 0.00 0.00 3.66
3795 4166 8.612619 CCATAATATAAGAGCGTTTTTGACACT 58.387 33.333 0.00 0.00 0.00 3.55
3796 4167 7.855904 CCCATAATATAAGAGCGTTTTTGACAC 59.144 37.037 0.00 0.00 0.00 3.67
3797 4168 7.771361 TCCCATAATATAAGAGCGTTTTTGACA 59.229 33.333 0.00 0.00 0.00 3.58
3798 4169 8.068380 GTCCCATAATATAAGAGCGTTTTTGAC 58.932 37.037 0.00 0.00 0.00 3.18
3799 4170 7.042321 CGTCCCATAATATAAGAGCGTTTTTGA 60.042 37.037 0.00 0.00 0.00 2.69
3800 4171 7.069569 CGTCCCATAATATAAGAGCGTTTTTG 58.930 38.462 0.00 0.00 0.00 2.44
3801 4172 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
3802 4173 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
3803 4174 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
3804 4175 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
3805 4176 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
3806 4177 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
3807 4178 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
3808 4179 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
3809 4180 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
3810 4181 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
3811 4182 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
3812 4183 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
3813 4184 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
3814 4185 4.474303 TTACTCCCTCCGTCCCATAATA 57.526 45.455 0.00 0.00 0.00 0.98
3815 4186 3.339713 TTACTCCCTCCGTCCCATAAT 57.660 47.619 0.00 0.00 0.00 1.28
3816 4187 2.852714 TTACTCCCTCCGTCCCATAA 57.147 50.000 0.00 0.00 0.00 1.90
3817 4188 3.236896 GAATTACTCCCTCCGTCCCATA 58.763 50.000 0.00 0.00 0.00 2.74
3818 4189 2.047830 GAATTACTCCCTCCGTCCCAT 58.952 52.381 0.00 0.00 0.00 4.00
3819 4190 1.492764 GAATTACTCCCTCCGTCCCA 58.507 55.000 0.00 0.00 0.00 4.37
3820 4191 0.757512 GGAATTACTCCCTCCGTCCC 59.242 60.000 0.00 0.00 38.44 4.46
3821 4192 1.790818 AGGAATTACTCCCTCCGTCC 58.209 55.000 0.00 0.00 46.81 4.79
3822 4193 2.892215 CCTAGGAATTACTCCCTCCGTC 59.108 54.545 1.05 0.00 46.81 4.79
3823 4194 2.517127 TCCTAGGAATTACTCCCTCCGT 59.483 50.000 9.71 0.00 46.81 4.69
3824 4195 3.158676 CTCCTAGGAATTACTCCCTCCG 58.841 54.545 13.77 0.00 46.81 4.63
3825 4196 2.901192 GCTCCTAGGAATTACTCCCTCC 59.099 54.545 13.77 0.00 46.81 4.30
3826 4197 3.851979 AGCTCCTAGGAATTACTCCCTC 58.148 50.000 13.77 0.00 46.81 4.30
3827 4198 4.228010 GAAGCTCCTAGGAATTACTCCCT 58.772 47.826 13.77 0.00 46.81 4.20
3828 4199 3.325425 GGAAGCTCCTAGGAATTACTCCC 59.675 52.174 13.77 1.64 38.10 4.30
3829 4200 4.610605 GGAAGCTCCTAGGAATTACTCC 57.389 50.000 13.77 10.53 37.82 3.85
3867 4238 7.781324 AAGTGAAAATGGGTATTGTCAGATT 57.219 32.000 0.00 0.00 40.36 2.40
3897 4269 1.153549 GCCTCGTCATCCACCTGTC 60.154 63.158 0.00 0.00 0.00 3.51
3943 4315 6.839124 ACATCATCCAATTCAAGCAACTTA 57.161 33.333 0.00 0.00 0.00 2.24
3988 4360 6.126409 TGTAGGTTCCAAATTCACTCACTTT 58.874 36.000 0.00 0.00 0.00 2.66
3996 4368 3.330701 AGAGCCTGTAGGTTCCAAATTCA 59.669 43.478 10.67 0.00 45.27 2.57
3997 4369 3.942115 GAGAGCCTGTAGGTTCCAAATTC 59.058 47.826 10.67 0.00 45.27 2.17
4009 4381 3.441500 TGAGAGTTGAGAGAGCCTGTA 57.558 47.619 0.00 0.00 0.00 2.74
4039 4411 2.213499 CTACCCAAATGGAGTCATCGC 58.787 52.381 0.00 0.00 37.39 4.58
4069 4441 2.227865 TCCTTAATGGACGCAAAGTTGC 59.772 45.455 5.93 5.93 44.58 4.17
4123 4495 1.468127 TGATGTTTATGTGTGCAGGCG 59.532 47.619 0.00 0.00 0.00 5.52
4134 4506 8.579850 TTTGGATACTTGAAGCTGATGTTTAT 57.420 30.769 0.00 0.00 37.61 1.40
4136 4508 6.899393 TTTGGATACTTGAAGCTGATGTTT 57.101 33.333 0.00 0.00 37.61 2.83
4153 4528 7.052873 TGTGTTCACCAATTTTCATTTTGGAT 58.947 30.769 8.58 0.00 44.23 3.41
4231 4606 6.404623 GGGACAACAAACGTAAGGTAAAAACT 60.405 38.462 0.00 0.00 46.39 2.66
4397 4774 8.760569 CCAACACAAACAAACAAAATATAGGAC 58.239 33.333 0.00 0.00 0.00 3.85
4411 4788 3.181465 ACAACCAACACCAACACAAACAA 60.181 39.130 0.00 0.00 0.00 2.83
4412 4789 2.365617 ACAACCAACACCAACACAAACA 59.634 40.909 0.00 0.00 0.00 2.83
4413 4790 2.734079 CACAACCAACACCAACACAAAC 59.266 45.455 0.00 0.00 0.00 2.93
4414 4791 2.365617 ACACAACCAACACCAACACAAA 59.634 40.909 0.00 0.00 0.00 2.83
4415 4792 1.964223 ACACAACCAACACCAACACAA 59.036 42.857 0.00 0.00 0.00 3.33
4495 4891 6.867816 GCAATACAAACATCATCCTTGTCAAA 59.132 34.615 0.00 0.00 35.09 2.69
4496 4892 6.389091 GCAATACAAACATCATCCTTGTCAA 58.611 36.000 0.00 0.00 35.09 3.18
4497 4893 5.105797 GGCAATACAAACATCATCCTTGTCA 60.106 40.000 0.00 0.00 35.09 3.58
4498 4894 5.126061 AGGCAATACAAACATCATCCTTGTC 59.874 40.000 0.00 0.00 35.09 3.18
5010 5432 2.751806 GAGGGAGGCAAAGAAGTTCATG 59.248 50.000 5.50 5.06 0.00 3.07


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

AutoCloner maintained by Alex Coulton.