Multiple sequence alignment - TraesCS5D01G088700

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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 TraesCS5D01G088700 chr5D 100.000 4463 0 0 1 4463 95272562 95277024 0.000000e+00 8242.0
1 TraesCS5D01G088700 chr5B 91.173 4067 153 69 95 4053 102161001 102164969 0.000000e+00 5332.0
2 TraesCS5D01G088700 chr5A 92.070 3846 138 58 97 3853 89976851 89980618 0.000000e+00 5258.0
3 TraesCS5D01G088700 chr5A 85.260 346 11 8 4126 4463 89982461 89982774 2.000000e-83 320.0
4 TraesCS5D01G088700 chr5A 84.694 98 9 3 1 92 89976712 89976809 4.750000e-15 93.5
5 TraesCS5D01G088700 chr5A 94.340 53 2 1 3564 3616 43536582 43536633 3.700000e-11 80.5
6 TraesCS5D01G088700 chr5A 100.000 28 0 0 3845 3872 89981655 89981682 8.000000e-03 52.8
7 TraesCS5D01G088700 chr1A 83.262 466 49 17 3326 3788 345998375 345998814 6.950000e-108 401.0
8 TraesCS5D01G088700 chr1A 97.872 47 0 1 915 960 549593184 549593138 3.700000e-11 80.5
9 TraesCS5D01G088700 chr7B 92.000 175 14 0 1518 1692 332813124 332812950 3.450000e-61 246.0
10 TraesCS5D01G088700 chr7B 92.806 139 8 1 915 1053 332813611 332813475 2.720000e-47 200.0
11 TraesCS5D01G088700 chr6D 79.592 294 53 4 1420 1711 226788095 226787807 2.100000e-48 204.0
12 TraesCS5D01G088700 chr6B 79.252 294 54 4 1420 1711 378960427 378960139 9.790000e-47 198.0
13 TraesCS5D01G088700 chr6A 78.912 294 55 4 1420 1711 264831350 264831638 4.560000e-45 193.0
14 TraesCS5D01G088700 chr1D 79.599 299 38 7 3194 3489 156290355 156290077 4.560000e-45 193.0
15 TraesCS5D01G088700 chr4D 80.385 260 42 7 1413 1669 173572937 173573190 5.890000e-44 189.0
16 TraesCS5D01G088700 chr4A 80.228 263 43 7 1413 1672 227093928 227093672 5.890000e-44 189.0
17 TraesCS5D01G088700 chr4B 79.845 258 43 7 1418 1672 246319270 246319019 3.550000e-41 180.0
18 TraesCS5D01G088700 chr3A 97.872 47 0 1 915 960 23253510 23253556 3.700000e-11 80.5
19 TraesCS5D01G088700 chr3D 90.698 43 3 1 2711 2753 312715942 312715901 6.240000e-04 56.5


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 TraesCS5D01G088700 chr5D 95272562 95277024 4462 False 8242.000 8242 100.000 1 4463 1 chr5D.!!$F1 4462
1 TraesCS5D01G088700 chr5B 102161001 102164969 3968 False 5332.000 5332 91.173 95 4053 1 chr5B.!!$F1 3958
2 TraesCS5D01G088700 chr5A 89976712 89982774 6062 False 1431.075 5258 90.506 1 4463 4 chr5A.!!$F2 4462
3 TraesCS5D01G088700 chr7B 332812950 332813611 661 True 223.000 246 92.403 915 1692 2 chr7B.!!$R1 777

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
53 59 0.187117 TGCCACCATGTTTCTCCCAA 59.813 50.000 0.0 0.0 0.00 4.12 F
1763 1908 0.034186 ACCACAACGGCATCCATCAT 60.034 50.000 0.0 0.0 39.03 2.45 F
1765 1910 2.158623 ACCACAACGGCATCCATCATAT 60.159 45.455 0.0 0.0 39.03 1.78 F
3032 3202 0.032678 AGCAAGGTCAGTCACACTCG 59.967 55.000 0.0 0.0 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1788 1946 0.108186 TGTAGCACTTGATCTGCCGG 60.108 55.000 0.00 0.00 35.01 6.13 R
2808 2978 0.042731 TACTCCTTGGTCCCCTGGAG 59.957 60.000 16.06 16.06 44.22 3.86 R
3439 3628 0.248336 CATGTGTGATCATGGCGTGC 60.248 55.000 0.00 0.00 40.77 5.34 R
4080 5933 1.135170 AGGTTCGTTACGGCTAAGAGC 60.135 52.381 4.53 0.00 41.46 4.09 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
33 34 6.652053 TGATTAACAGATGGTGATCACATGA 58.348 36.000 26.47 10.70 31.62 3.07
53 59 0.187117 TGCCACCATGTTTCTCCCAA 59.813 50.000 0.00 0.00 0.00 4.12
57 63 2.297033 CCACCATGTTTCTCCCAAACAG 59.703 50.000 6.13 0.00 42.57 3.16
67 73 0.550914 TCCCAAACAGACCAGCACTT 59.449 50.000 0.00 0.00 0.00 3.16
68 74 1.771854 TCCCAAACAGACCAGCACTTA 59.228 47.619 0.00 0.00 0.00 2.24
72 79 4.949856 CCCAAACAGACCAGCACTTATAAT 59.050 41.667 0.00 0.00 0.00 1.28
85 92 9.831737 CCAGCACTTATAATTAATTATCACTGC 57.168 33.333 21.26 21.80 34.91 4.40
124 168 5.505159 GGTGCTAATTAAATCCGTTAGCCAC 60.505 44.000 12.83 10.93 45.97 5.01
321 365 3.392882 TCCTATACTTGCATGCACATCG 58.607 45.455 22.58 11.66 0.00 3.84
350 395 6.938698 TTGACTTCCCACAGTAACCTTATA 57.061 37.500 0.00 0.00 0.00 0.98
471 520 3.136626 AGTTGCACCTGTTCTTACTTCCT 59.863 43.478 0.00 0.00 0.00 3.36
472 521 3.402628 TGCACCTGTTCTTACTTCCTC 57.597 47.619 0.00 0.00 0.00 3.71
473 522 2.038557 TGCACCTGTTCTTACTTCCTCC 59.961 50.000 0.00 0.00 0.00 4.30
474 523 2.615747 GCACCTGTTCTTACTTCCTCCC 60.616 54.545 0.00 0.00 0.00 4.30
475 524 2.907042 CACCTGTTCTTACTTCCTCCCT 59.093 50.000 0.00 0.00 0.00 4.20
476 525 2.907042 ACCTGTTCTTACTTCCTCCCTG 59.093 50.000 0.00 0.00 0.00 4.45
477 526 3.173965 CCTGTTCTTACTTCCTCCCTGA 58.826 50.000 0.00 0.00 0.00 3.86
478 527 3.196685 CCTGTTCTTACTTCCTCCCTGAG 59.803 52.174 0.00 0.00 0.00 3.35
479 528 4.090090 CTGTTCTTACTTCCTCCCTGAGA 58.910 47.826 0.00 0.00 0.00 3.27
480 529 4.090090 TGTTCTTACTTCCTCCCTGAGAG 58.910 47.826 0.00 0.00 42.83 3.20
503 552 5.306678 AGGCTGAGAATATAAGAGAGGTTGG 59.693 44.000 0.00 0.00 0.00 3.77
566 615 4.148128 AGCATGGTGTGATAGGAAAGAG 57.852 45.455 0.00 0.00 0.00 2.85
570 622 5.415701 GCATGGTGTGATAGGAAAGAGAAAA 59.584 40.000 0.00 0.00 0.00 2.29
574 626 6.262273 TGGTGTGATAGGAAAGAGAAAAACAC 59.738 38.462 0.00 0.00 34.81 3.32
575 627 6.262273 GGTGTGATAGGAAAGAGAAAAACACA 59.738 38.462 0.00 0.00 36.72 3.72
755 817 4.666253 CTGGCCCTGGTGGTGGTG 62.666 72.222 0.00 0.00 36.04 4.17
799 861 2.552093 TCTTTAGGAGGAGGAGGGTG 57.448 55.000 0.00 0.00 0.00 4.61
848 910 2.583441 CGTGCCCTGTGGAGAGGAA 61.583 63.158 0.00 0.00 34.69 3.36
1129 1219 3.390521 CGGTGTGGAGCAGGCCTA 61.391 66.667 3.98 0.00 0.00 3.93
1549 1679 1.819632 GTTCATGGCGCGGGAGATT 60.820 57.895 8.83 0.00 0.00 2.40
1745 1885 6.019318 GCATTTCATTGCCTTGTTATCATCAC 60.019 38.462 0.00 0.00 36.60 3.06
1749 1889 3.431673 TGCCTTGTTATCATCACCACA 57.568 42.857 0.00 0.00 0.00 4.17
1763 1908 0.034186 ACCACAACGGCATCCATCAT 60.034 50.000 0.00 0.00 39.03 2.45
1765 1910 2.158623 ACCACAACGGCATCCATCATAT 60.159 45.455 0.00 0.00 39.03 1.78
1788 1946 7.724305 ATTAATTGATGAATTTGGATGCTGC 57.276 32.000 0.00 0.00 33.63 5.25
2718 2888 2.795297 GACCACCTCGCTCTCTCG 59.205 66.667 0.00 0.00 0.00 4.04
2808 2978 3.991536 GACGACCAAGAGGAGCGCC 62.992 68.421 2.29 0.00 38.91 6.53
2836 3006 1.131928 ACCAAGGAGTACCACCACCC 61.132 60.000 8.98 0.00 38.94 4.61
3032 3202 0.032678 AGCAAGGTCAGTCACACTCG 59.967 55.000 0.00 0.00 0.00 4.18
3041 3211 2.354656 TCACACTCGCACGCTCAC 60.355 61.111 0.00 0.00 0.00 3.51
3062 3232 2.350522 CATCCTACTCCACACAGCAAC 58.649 52.381 0.00 0.00 0.00 4.17
3080 3250 3.799917 GCAACCCACACCAAAATCTCTTG 60.800 47.826 0.00 0.00 0.00 3.02
3094 3266 3.713858 TCTCTTGCAAACACATGGTTG 57.286 42.857 5.24 5.24 45.15 3.77
3098 3270 4.573900 TCTTGCAAACACATGGTTGTTTT 58.426 34.783 11.16 0.00 45.45 2.43
3099 3271 4.391216 TCTTGCAAACACATGGTTGTTTTG 59.609 37.500 11.16 8.49 45.45 2.44
3100 3272 3.668447 TGCAAACACATGGTTGTTTTGT 58.332 36.364 11.16 0.00 45.45 2.83
3101 3273 4.067896 TGCAAACACATGGTTGTTTTGTT 58.932 34.783 11.16 1.43 45.45 2.83
3102 3274 4.516698 TGCAAACACATGGTTGTTTTGTTT 59.483 33.333 11.16 7.02 45.45 2.83
3144 3316 2.893489 GCTGTCTCATTTTCCCTGGTTT 59.107 45.455 0.00 0.00 0.00 3.27
3145 3317 3.057245 GCTGTCTCATTTTCCCTGGTTTC 60.057 47.826 0.00 0.00 0.00 2.78
3146 3318 4.144297 CTGTCTCATTTTCCCTGGTTTCA 58.856 43.478 0.00 0.00 0.00 2.69
3169 3344 0.813821 GAAGCACAAGGGGAAGATGC 59.186 55.000 0.00 0.00 36.52 3.91
3310 3485 1.005512 CGATCGAACACCCCACACA 60.006 57.895 10.26 0.00 0.00 3.72
3326 3501 2.670905 CACACAATGAAATGCATGCCTG 59.329 45.455 16.68 3.68 37.28 4.85
3343 3526 1.341383 CCTGCAGGCTAACCAATTCCT 60.341 52.381 22.33 0.00 39.06 3.36
3361 3544 1.678728 CCTCTGAAACCGCCATTGCTA 60.679 52.381 0.00 0.00 34.43 3.49
3392 3575 4.809426 TCTTCTTCTTTTTGTCGACAGGAC 59.191 41.667 19.11 0.00 46.27 3.85
3439 3628 3.827898 GACCGAGGGAGAGGCACG 61.828 72.222 0.00 0.00 0.00 5.34
3489 3678 4.435651 CCGTGTAGAAGGCTCGAATTTTTC 60.436 45.833 0.00 0.00 0.00 2.29
3493 3684 2.041755 AGAAGGCTCGAATTTTTCCCCT 59.958 45.455 0.00 0.00 0.00 4.79
3642 3834 2.169832 TGCACTGTAGCTTCCACTTC 57.830 50.000 0.00 0.00 34.99 3.01
3664 3856 1.080907 TCACCTCCCATCTCCTGCA 59.919 57.895 0.00 0.00 0.00 4.41
3674 3876 3.147629 CCATCTCCTGCATTCTTCCATC 58.852 50.000 0.00 0.00 0.00 3.51
3709 3911 0.680921 TGTGCCTTGCTAATGCCCTC 60.681 55.000 0.00 0.00 38.71 4.30
3720 3925 6.849085 TGCTAATGCCCTCTTATTTTTGAA 57.151 33.333 0.00 0.00 38.71 2.69
3874 5124 5.335261 TCTTGTACACAATGGAGGTAGGTA 58.665 41.667 0.00 0.00 35.02 3.08
3875 5125 5.186409 TCTTGTACACAATGGAGGTAGGTAC 59.814 44.000 0.00 0.00 35.02 3.34
3901 5154 2.628657 CCCCGTCTTATTCCTGGACTAG 59.371 54.545 0.00 0.00 0.00 2.57
3917 5765 6.758886 CCTGGACTAGTACACAGAATCAAATC 59.241 42.308 18.28 0.00 32.86 2.17
3954 5807 8.447787 AATCATTGCAAACACGTAAATAAGAC 57.552 30.769 1.71 0.00 0.00 3.01
3974 5827 7.713734 AAGACATCAATGTGGAAATCATCTT 57.286 32.000 0.00 0.00 41.95 2.40
3983 5836 2.216898 GGAAATCATCTTCTGCTCGGG 58.783 52.381 0.00 0.00 0.00 5.14
4053 5906 8.834465 TCAAATTTGGTTGACCATAATTTGTTG 58.166 29.630 30.85 21.49 46.79 3.33
4054 5907 6.799926 ATTTGGTTGACCATAATTTGTTGC 57.200 33.333 3.28 0.00 46.97 4.17
4055 5908 4.264460 TGGTTGACCATAATTTGTTGCC 57.736 40.909 0.00 0.00 42.01 4.52
4056 5909 3.900601 TGGTTGACCATAATTTGTTGCCT 59.099 39.130 0.00 0.00 42.01 4.75
4057 5910 4.346418 TGGTTGACCATAATTTGTTGCCTT 59.654 37.500 0.00 0.00 42.01 4.35
4058 5911 4.690280 GGTTGACCATAATTTGTTGCCTTG 59.310 41.667 0.00 0.00 35.64 3.61
4059 5912 5.296748 GTTGACCATAATTTGTTGCCTTGT 58.703 37.500 0.00 0.00 0.00 3.16
4060 5913 5.132897 TGACCATAATTTGTTGCCTTGTC 57.867 39.130 0.00 0.00 0.00 3.18
4061 5914 4.586421 TGACCATAATTTGTTGCCTTGTCA 59.414 37.500 0.00 0.00 0.00 3.58
4062 5915 5.069648 TGACCATAATTTGTTGCCTTGTCAA 59.930 36.000 0.00 0.00 0.00 3.18
4063 5916 6.112927 ACCATAATTTGTTGCCTTGTCAAT 57.887 33.333 0.00 0.00 0.00 2.57
4064 5917 6.532826 ACCATAATTTGTTGCCTTGTCAATT 58.467 32.000 0.00 0.00 0.00 2.32
4065 5918 6.650390 ACCATAATTTGTTGCCTTGTCAATTC 59.350 34.615 0.00 0.00 0.00 2.17
4066 5919 6.092533 CCATAATTTGTTGCCTTGTCAATTCC 59.907 38.462 0.00 0.00 0.00 3.01
4067 5920 4.961438 ATTTGTTGCCTTGTCAATTCCT 57.039 36.364 0.00 0.00 0.00 3.36
4068 5921 4.751767 TTTGTTGCCTTGTCAATTCCTT 57.248 36.364 0.00 0.00 0.00 3.36
4069 5922 4.751767 TTGTTGCCTTGTCAATTCCTTT 57.248 36.364 0.00 0.00 0.00 3.11
4070 5923 4.751767 TGTTGCCTTGTCAATTCCTTTT 57.248 36.364 0.00 0.00 0.00 2.27
4071 5924 5.860941 TGTTGCCTTGTCAATTCCTTTTA 57.139 34.783 0.00 0.00 0.00 1.52
4072 5925 5.596845 TGTTGCCTTGTCAATTCCTTTTAC 58.403 37.500 0.00 0.00 0.00 2.01
4073 5926 4.497473 TGCCTTGTCAATTCCTTTTACG 57.503 40.909 0.00 0.00 0.00 3.18
4074 5927 4.138290 TGCCTTGTCAATTCCTTTTACGA 58.862 39.130 0.00 0.00 0.00 3.43
4075 5928 4.580995 TGCCTTGTCAATTCCTTTTACGAA 59.419 37.500 0.00 0.00 0.00 3.85
4076 5929 5.067936 TGCCTTGTCAATTCCTTTTACGAAA 59.932 36.000 0.00 0.00 0.00 3.46
4077 5930 5.980715 GCCTTGTCAATTCCTTTTACGAAAA 59.019 36.000 0.00 0.00 0.00 2.29
4078 5931 6.645003 GCCTTGTCAATTCCTTTTACGAAAAT 59.355 34.615 0.00 0.00 0.00 1.82
4079 5932 7.170828 GCCTTGTCAATTCCTTTTACGAAAATT 59.829 33.333 0.00 0.00 0.00 1.82
4080 5933 8.487176 CCTTGTCAATTCCTTTTACGAAAATTG 58.513 33.333 0.00 0.00 0.00 2.32
4081 5934 7.401484 TGTCAATTCCTTTTACGAAAATTGC 57.599 32.000 0.00 0.00 0.00 3.56
4082 5935 7.206687 TGTCAATTCCTTTTACGAAAATTGCT 58.793 30.769 0.00 0.00 0.00 3.91
4083 5936 7.381139 TGTCAATTCCTTTTACGAAAATTGCTC 59.619 33.333 0.00 0.00 0.00 4.26
4084 5937 7.595130 GTCAATTCCTTTTACGAAAATTGCTCT 59.405 33.333 0.00 0.00 0.00 4.09
4085 5938 8.141268 TCAATTCCTTTTACGAAAATTGCTCTT 58.859 29.630 0.00 0.00 0.00 2.85
4086 5939 9.405587 CAATTCCTTTTACGAAAATTGCTCTTA 57.594 29.630 0.00 0.00 0.00 2.10
4087 5940 9.626045 AATTCCTTTTACGAAAATTGCTCTTAG 57.374 29.630 0.00 0.00 0.00 2.18
4088 5941 6.608610 TCCTTTTACGAAAATTGCTCTTAGC 58.391 36.000 0.00 0.00 42.82 3.09
4089 5942 5.800438 CCTTTTACGAAAATTGCTCTTAGCC 59.200 40.000 0.00 0.00 41.51 3.93
4090 5943 4.593597 TTACGAAAATTGCTCTTAGCCG 57.406 40.909 0.00 0.00 41.51 5.52
4091 5944 2.423577 ACGAAAATTGCTCTTAGCCGT 58.576 42.857 0.00 0.00 41.51 5.68
4092 5945 3.592059 ACGAAAATTGCTCTTAGCCGTA 58.408 40.909 0.00 0.00 41.51 4.02
4093 5946 3.998341 ACGAAAATTGCTCTTAGCCGTAA 59.002 39.130 0.00 0.00 41.51 3.18
4094 5947 4.142966 ACGAAAATTGCTCTTAGCCGTAAC 60.143 41.667 0.00 0.00 41.51 2.50
4095 5948 4.331962 GAAAATTGCTCTTAGCCGTAACG 58.668 43.478 0.00 0.00 41.51 3.18
4096 5949 2.953466 ATTGCTCTTAGCCGTAACGA 57.047 45.000 0.00 0.00 41.51 3.85
4097 5950 2.728690 TTGCTCTTAGCCGTAACGAA 57.271 45.000 0.00 0.00 41.51 3.85
4098 5951 1.986698 TGCTCTTAGCCGTAACGAAC 58.013 50.000 0.00 0.00 41.51 3.95
4099 5952 1.275505 GCTCTTAGCCGTAACGAACC 58.724 55.000 0.00 0.00 34.48 3.62
4100 5953 1.135170 GCTCTTAGCCGTAACGAACCT 60.135 52.381 0.00 0.00 34.48 3.50
4101 5954 2.098117 GCTCTTAGCCGTAACGAACCTA 59.902 50.000 0.00 0.00 34.48 3.08
4102 5955 3.791455 GCTCTTAGCCGTAACGAACCTAG 60.791 52.174 0.00 0.00 34.48 3.02
4103 5956 3.347216 TCTTAGCCGTAACGAACCTAGT 58.653 45.455 0.00 0.00 0.00 2.57
4104 5957 3.375299 TCTTAGCCGTAACGAACCTAGTC 59.625 47.826 0.00 0.00 0.00 2.59
4105 5958 1.538047 AGCCGTAACGAACCTAGTCA 58.462 50.000 0.00 0.00 0.00 3.41
4106 5959 1.888512 AGCCGTAACGAACCTAGTCAA 59.111 47.619 0.00 0.00 0.00 3.18
4107 5960 2.297033 AGCCGTAACGAACCTAGTCAAA 59.703 45.455 0.00 0.00 0.00 2.69
4108 5961 3.059166 GCCGTAACGAACCTAGTCAAAA 58.941 45.455 0.00 0.00 0.00 2.44
4109 5962 3.494251 GCCGTAACGAACCTAGTCAAAAA 59.506 43.478 0.00 0.00 0.00 1.94
4110 5963 4.376717 GCCGTAACGAACCTAGTCAAAAAG 60.377 45.833 0.00 0.00 0.00 2.27
4111 5964 4.984161 CCGTAACGAACCTAGTCAAAAAGA 59.016 41.667 0.00 0.00 0.00 2.52
4112 5965 5.636543 CCGTAACGAACCTAGTCAAAAAGAT 59.363 40.000 0.00 0.00 0.00 2.40
4113 5966 6.808212 CCGTAACGAACCTAGTCAAAAAGATA 59.192 38.462 0.00 0.00 0.00 1.98
4114 5967 7.490402 CCGTAACGAACCTAGTCAAAAAGATAT 59.510 37.037 0.00 0.00 0.00 1.63
4115 5968 8.529911 CGTAACGAACCTAGTCAAAAAGATATC 58.470 37.037 0.00 0.00 0.00 1.63
4116 5969 9.362539 GTAACGAACCTAGTCAAAAAGATATCA 57.637 33.333 5.32 0.00 0.00 2.15
4117 5970 8.480643 AACGAACCTAGTCAAAAAGATATCAG 57.519 34.615 5.32 0.00 0.00 2.90
4118 5971 7.837863 ACGAACCTAGTCAAAAAGATATCAGA 58.162 34.615 5.32 0.00 0.00 3.27
4119 5972 7.976734 ACGAACCTAGTCAAAAAGATATCAGAG 59.023 37.037 5.32 0.00 0.00 3.35
4120 5973 7.436673 CGAACCTAGTCAAAAAGATATCAGAGG 59.563 40.741 5.32 0.87 0.00 3.69
4121 5974 7.130681 ACCTAGTCAAAAAGATATCAGAGGG 57.869 40.000 5.32 0.00 0.00 4.30
4122 5975 6.903534 ACCTAGTCAAAAAGATATCAGAGGGA 59.096 38.462 5.32 0.00 0.00 4.20
4123 5976 7.403231 ACCTAGTCAAAAAGATATCAGAGGGAA 59.597 37.037 5.32 0.00 0.00 3.97
4124 5977 8.435982 CCTAGTCAAAAAGATATCAGAGGGAAT 58.564 37.037 5.32 0.00 0.00 3.01
4125 5978 9.844257 CTAGTCAAAAAGATATCAGAGGGAATT 57.156 33.333 5.32 0.00 0.00 2.17
4127 5980 9.539194 AGTCAAAAAGATATCAGAGGGAATTTT 57.461 29.630 5.32 0.00 0.00 1.82
4163 6016 4.646945 TGGAACTGCAAAGGTAACATCAAA 59.353 37.500 0.00 0.00 41.41 2.69
4247 6108 4.268687 GTGAAGTCACGAGGCCTG 57.731 61.111 12.00 5.11 37.10 4.85
4268 6129 5.699915 CCTGTGCTCCATTTAGATGTCTATG 59.300 44.000 0.00 0.00 0.00 2.23
4269 6130 6.239217 TGTGCTCCATTTAGATGTCTATGT 57.761 37.500 0.00 0.00 0.00 2.29
4276 6137 8.727100 TCCATTTAGATGTCTATGTACTGGAT 57.273 34.615 0.00 0.00 27.74 3.41
4280 6141 8.727100 TTTAGATGTCTATGTACTGGATGGAT 57.273 34.615 0.00 0.00 0.00 3.41
4281 6142 6.849085 AGATGTCTATGTACTGGATGGATC 57.151 41.667 0.00 0.00 0.00 3.36
4283 6144 4.160329 TGTCTATGTACTGGATGGATCCC 58.840 47.826 9.90 0.00 46.59 3.85
4284 6145 4.140686 TGTCTATGTACTGGATGGATCCCT 60.141 45.833 9.90 0.00 46.59 4.20
4285 6146 5.075900 TGTCTATGTACTGGATGGATCCCTA 59.924 44.000 9.90 0.00 46.59 3.53
4286 6147 6.017192 GTCTATGTACTGGATGGATCCCTAA 58.983 44.000 9.90 0.00 46.59 2.69
4287 6148 6.670027 GTCTATGTACTGGATGGATCCCTAAT 59.330 42.308 9.90 0.00 46.59 1.73
4310 6171 3.207321 TCCCTATTGAATTGGGCTGGAAT 59.793 43.478 18.22 0.00 43.88 3.01
4311 6172 4.418526 TCCCTATTGAATTGGGCTGGAATA 59.581 41.667 18.22 0.00 43.88 1.75
4312 6173 4.524328 CCCTATTGAATTGGGCTGGAATAC 59.476 45.833 11.64 0.00 38.46 1.89
4313 6174 5.388654 CCTATTGAATTGGGCTGGAATACT 58.611 41.667 0.00 0.00 0.00 2.12
4314 6175 6.467194 CCCTATTGAATTGGGCTGGAATACTA 60.467 42.308 11.64 0.00 38.46 1.82
4315 6176 7.004086 CCTATTGAATTGGGCTGGAATACTAA 58.996 38.462 0.00 0.00 0.00 2.24
4316 6177 7.671398 CCTATTGAATTGGGCTGGAATACTAAT 59.329 37.037 0.00 0.00 0.00 1.73
4317 6178 7.919385 ATTGAATTGGGCTGGAATACTAATT 57.081 32.000 0.00 0.00 0.00 1.40
4318 6179 6.959639 TGAATTGGGCTGGAATACTAATTC 57.040 37.500 0.00 0.00 40.77 2.17
4319 6180 6.430864 TGAATTGGGCTGGAATACTAATTCA 58.569 36.000 10.12 10.12 42.88 2.57
4320 6181 6.547141 TGAATTGGGCTGGAATACTAATTCAG 59.453 38.462 10.12 0.00 42.88 3.02
4321 6182 3.820557 TGGGCTGGAATACTAATTCAGC 58.179 45.455 0.00 0.00 42.88 4.26
4322 6183 3.201930 TGGGCTGGAATACTAATTCAGCA 59.798 43.478 14.24 0.00 42.88 4.41
4323 6184 4.207165 GGGCTGGAATACTAATTCAGCAA 58.793 43.478 14.24 0.00 42.88 3.91
4324 6185 4.644685 GGGCTGGAATACTAATTCAGCAAA 59.355 41.667 14.24 0.00 42.88 3.68
4325 6186 5.221126 GGGCTGGAATACTAATTCAGCAAAG 60.221 44.000 14.24 0.00 42.88 2.77
4326 6187 5.590259 GGCTGGAATACTAATTCAGCAAAGA 59.410 40.000 14.24 0.00 42.88 2.52
4327 6188 6.095440 GGCTGGAATACTAATTCAGCAAAGAA 59.905 38.462 14.24 0.00 42.88 2.52
4328 6189 7.362920 GGCTGGAATACTAATTCAGCAAAGAAA 60.363 37.037 14.24 0.00 42.88 2.52
4383 6244 4.211125 TGGTTGTTCACTTAATTGGCTCA 58.789 39.130 0.00 0.00 0.00 4.26
4384 6245 4.646945 TGGTTGTTCACTTAATTGGCTCAA 59.353 37.500 0.00 0.00 0.00 3.02
4385 6246 5.127845 TGGTTGTTCACTTAATTGGCTCAAA 59.872 36.000 0.00 0.00 0.00 2.69
4429 6290 6.956047 GGATTCGATACCAAATCCTGTTTAC 58.044 40.000 4.60 0.00 44.97 2.01
4436 6297 5.217978 ACCAAATCCTGTTTACGTGAGTA 57.782 39.130 0.00 0.00 46.88 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 5.647658 TGATCACCATCTGTTAATCAACCAC 59.352 40.000 0.00 0.00 33.41 4.16
33 34 0.409092 TGGGAGAAACATGGTGGCAT 59.591 50.000 0.00 0.00 0.00 4.40
77 84 7.450634 CACCCTACTAGGTTAATAGCAGTGATA 59.549 40.741 0.00 0.00 38.39 2.15
92 99 6.164176 CGGATTTAATTAGCACCCTACTAGG 58.836 44.000 0.00 0.00 34.30 3.02
93 100 6.756221 ACGGATTTAATTAGCACCCTACTAG 58.244 40.000 0.00 0.00 0.00 2.57
124 168 1.580704 GCGCTCAAAATTGAATCAGCG 59.419 47.619 17.76 17.76 45.20 5.18
126 170 2.591148 CGTGCGCTCAAAATTGAATCAG 59.409 45.455 9.73 0.00 36.64 2.90
321 365 5.181433 GGTTACTGTGGGAAGTCAAAGAATC 59.819 44.000 0.00 0.00 0.00 2.52
434 483 4.441356 GGTGCAACTGATCCAGAAACAAAA 60.441 41.667 0.00 0.00 36.74 2.44
435 484 3.068024 GGTGCAACTGATCCAGAAACAAA 59.932 43.478 0.00 0.00 36.74 2.83
471 520 3.627041 ATATTCTCAGCCTCTCAGGGA 57.373 47.619 0.00 0.00 35.37 4.20
472 521 5.083122 TCTTATATTCTCAGCCTCTCAGGG 58.917 45.833 0.00 0.00 35.37 4.45
473 522 6.009589 TCTCTTATATTCTCAGCCTCTCAGG 58.990 44.000 0.00 0.00 38.80 3.86
474 523 6.151648 CCTCTCTTATATTCTCAGCCTCTCAG 59.848 46.154 0.00 0.00 0.00 3.35
475 524 6.009589 CCTCTCTTATATTCTCAGCCTCTCA 58.990 44.000 0.00 0.00 0.00 3.27
476 525 6.010219 ACCTCTCTTATATTCTCAGCCTCTC 58.990 44.000 0.00 0.00 0.00 3.20
477 526 5.964288 ACCTCTCTTATATTCTCAGCCTCT 58.036 41.667 0.00 0.00 0.00 3.69
478 527 6.454795 CAACCTCTCTTATATTCTCAGCCTC 58.545 44.000 0.00 0.00 0.00 4.70
479 528 5.306678 CCAACCTCTCTTATATTCTCAGCCT 59.693 44.000 0.00 0.00 0.00 4.58
480 529 5.071115 ACCAACCTCTCTTATATTCTCAGCC 59.929 44.000 0.00 0.00 0.00 4.85
481 530 5.988561 CACCAACCTCTCTTATATTCTCAGC 59.011 44.000 0.00 0.00 0.00 4.26
503 552 0.322546 CCCTCCCTGGTTAAGTGCAC 60.323 60.000 9.40 9.40 0.00 4.57
566 615 3.179048 GCACTTCTGGTGTGTGTTTTTC 58.821 45.455 0.00 0.00 46.86 2.29
570 622 1.832883 TTGCACTTCTGGTGTGTGTT 58.167 45.000 0.00 0.00 46.86 3.32
574 626 3.304928 GGAGAAATTGCACTTCTGGTGTG 60.305 47.826 13.65 0.00 46.86 3.82
575 627 2.887152 GGAGAAATTGCACTTCTGGTGT 59.113 45.455 13.65 0.00 46.86 4.16
589 641 2.131023 GGGACATGGAGAGGGAGAAAT 58.869 52.381 0.00 0.00 0.00 2.17
671 723 0.107800 CGTCCTCCTCGGTCTGTCTA 60.108 60.000 0.00 0.00 0.00 2.59
752 814 5.632034 AGGAAATCTAGATTACCACCACC 57.368 43.478 18.23 12.11 0.00 4.61
753 815 7.339482 AGAAAGGAAATCTAGATTACCACCAC 58.661 38.462 18.23 13.05 0.00 4.16
754 816 7.510675 AGAAAGGAAATCTAGATTACCACCA 57.489 36.000 18.23 0.00 0.00 4.17
755 817 9.713713 GATAGAAAGGAAATCTAGATTACCACC 57.286 37.037 18.23 17.06 33.17 4.61
848 910 1.988956 CTGCCCTGTCTCCTCTGCT 60.989 63.158 0.00 0.00 0.00 4.24
1069 1150 4.373116 CCCGGACACCACCTCGTG 62.373 72.222 0.73 0.00 39.75 4.35
1116 1206 1.768077 ATCCCTAGGCCTGCTCCAC 60.768 63.158 17.99 0.00 0.00 4.02
1129 1219 2.042930 GTCACCCTCCCCATCCCT 59.957 66.667 0.00 0.00 0.00 4.20
1212 1329 0.867753 CCTGCTCGCACTCGATGTAC 60.868 60.000 0.00 0.00 44.56 2.90
1531 1661 0.531974 TAATCTCCCGCGCCATGAAC 60.532 55.000 0.00 0.00 0.00 3.18
1725 1865 4.398988 GTGGTGATGATAACAAGGCAATGA 59.601 41.667 0.00 0.00 0.00 2.57
1745 1885 1.965935 TATGATGGATGCCGTTGTGG 58.034 50.000 0.00 0.00 42.50 4.17
1749 1889 7.541162 CATCAATTAATATGATGGATGCCGTT 58.459 34.615 21.05 0.00 46.65 4.44
1763 1908 7.874016 GGCAGCATCCAAATTCATCAATTAATA 59.126 33.333 0.00 0.00 31.51 0.98
1765 1910 6.050432 GGCAGCATCCAAATTCATCAATTAA 58.950 36.000 0.00 0.00 31.51 1.40
1788 1946 0.108186 TGTAGCACTTGATCTGCCGG 60.108 55.000 0.00 0.00 35.01 6.13
2557 2715 4.814294 GCCGCCGTCGACTTCCAT 62.814 66.667 14.70 0.00 38.10 3.41
2808 2978 0.042731 TACTCCTTGGTCCCCTGGAG 59.957 60.000 16.06 16.06 44.22 3.86
2809 2979 0.252558 GTACTCCTTGGTCCCCTGGA 60.253 60.000 0.00 0.00 0.00 3.86
2823 2993 1.885163 CTCCGTGGGTGGTGGTACTC 61.885 65.000 0.00 0.00 0.00 2.59
2850 3020 2.127232 GTCGTTCTTGCGCTTGCC 60.127 61.111 9.73 0.00 38.03 4.52
3032 3202 0.528684 GAGTAGGATGGTGAGCGTGC 60.529 60.000 0.00 0.00 0.00 5.34
3041 3211 0.904649 TGCTGTGTGGAGTAGGATGG 59.095 55.000 0.00 0.00 0.00 3.51
3062 3232 1.962807 TGCAAGAGATTTTGGTGTGGG 59.037 47.619 0.00 0.00 0.00 4.61
3094 3266 5.632347 CAGCTCCAGATGATCAAAACAAAAC 59.368 40.000 0.00 0.00 32.25 2.43
3098 3270 4.005650 GTCAGCTCCAGATGATCAAAACA 58.994 43.478 0.00 0.00 42.80 2.83
3099 3271 3.063180 CGTCAGCTCCAGATGATCAAAAC 59.937 47.826 0.00 0.00 42.80 2.43
3100 3272 3.055891 TCGTCAGCTCCAGATGATCAAAA 60.056 43.478 0.00 0.00 42.80 2.44
3101 3273 2.497273 TCGTCAGCTCCAGATGATCAAA 59.503 45.455 0.00 0.00 42.80 2.69
3102 3274 2.100418 CTCGTCAGCTCCAGATGATCAA 59.900 50.000 0.00 0.00 42.80 2.57
3136 3308 1.815003 GTGCTTCTGATGAAACCAGGG 59.185 52.381 0.00 0.00 32.73 4.45
3144 3316 1.361204 TCCCCTTGTGCTTCTGATGA 58.639 50.000 0.00 0.00 0.00 2.92
3145 3317 2.089980 CTTCCCCTTGTGCTTCTGATG 58.910 52.381 0.00 0.00 0.00 3.07
3146 3318 1.988107 TCTTCCCCTTGTGCTTCTGAT 59.012 47.619 0.00 0.00 0.00 2.90
3169 3344 1.479709 CCTGAGTAGTCCACCCTCTG 58.520 60.000 0.00 0.00 0.00 3.35
3223 3398 2.659016 CTCGTGGCTCTGCAGGAA 59.341 61.111 15.13 0.00 0.00 3.36
3299 3474 1.344114 GCATTTCATTGTGTGGGGTGT 59.656 47.619 0.00 0.00 0.00 4.16
3304 3479 2.004017 GGCATGCATTTCATTGTGTGG 58.996 47.619 21.36 0.00 31.79 4.17
3326 3501 2.019984 CAGAGGAATTGGTTAGCCTGC 58.980 52.381 0.00 0.00 35.27 4.85
3327 3502 3.634397 TCAGAGGAATTGGTTAGCCTG 57.366 47.619 0.00 0.00 35.27 4.85
3335 3518 0.811281 GGCGGTTTCAGAGGAATTGG 59.189 55.000 0.00 0.00 31.93 3.16
3336 3519 1.533625 TGGCGGTTTCAGAGGAATTG 58.466 50.000 0.00 0.00 31.93 2.32
3361 3544 6.542370 TCGACAAAAAGAAGAAGAATGAGGTT 59.458 34.615 0.00 0.00 0.00 3.50
3392 3575 0.892358 TGCTGCTGCTCCCTCTTTTG 60.892 55.000 17.00 0.00 40.48 2.44
3394 3577 1.303155 GTGCTGCTGCTCCCTCTTT 60.303 57.895 17.00 0.00 40.48 2.52
3439 3628 0.248336 CATGTGTGATCATGGCGTGC 60.248 55.000 0.00 0.00 40.77 5.34
3489 3678 2.335712 GCCGCAAGAGTCAAAGGGG 61.336 63.158 7.83 7.83 43.02 4.79
3493 3684 1.952990 TCAATTGCCGCAAGAGTCAAA 59.047 42.857 12.16 0.00 43.02 2.69
3634 3826 1.420138 GGGAGGTGACAAGAAGTGGAA 59.580 52.381 0.00 0.00 0.00 3.53
3642 3834 1.209019 CAGGAGATGGGAGGTGACAAG 59.791 57.143 0.00 0.00 0.00 3.16
3664 3856 2.547642 GCTGAGCTAGCGATGGAAGAAT 60.548 50.000 9.55 0.00 43.63 2.40
3732 3937 0.317770 CATCAGCACGGCGTGTTTTT 60.318 50.000 36.68 19.99 35.75 1.94
3743 3948 0.458669 CAATTCCCAGGCATCAGCAC 59.541 55.000 0.00 0.00 44.61 4.40
3767 3972 1.493772 CACAAACCAGTGCAGCATTG 58.506 50.000 10.93 10.93 32.04 2.82
3874 5124 3.297736 CAGGAATAAGACGGGGAGTAGT 58.702 50.000 0.00 0.00 0.00 2.73
3875 5125 2.628657 CCAGGAATAAGACGGGGAGTAG 59.371 54.545 0.00 0.00 0.00 2.57
3880 5130 1.497161 AGTCCAGGAATAAGACGGGG 58.503 55.000 0.00 0.00 35.65 5.73
3917 5765 9.334693 GTGTTTGCAATGATTTTCTCTAGTAAG 57.665 33.333 0.00 0.00 0.00 2.34
3933 5786 7.589395 TGATGTCTTATTTACGTGTTTGCAAT 58.411 30.769 0.00 0.00 0.00 3.56
3954 5807 5.977725 GCAGAAGATGATTTCCACATTGATG 59.022 40.000 0.00 0.00 0.00 3.07
3974 5827 3.904800 TTGTTGATTATCCCGAGCAGA 57.095 42.857 0.00 0.00 0.00 4.26
3983 5836 8.190122 TGGTTTAGTGCATGATTGTTGATTATC 58.810 33.333 0.00 0.00 0.00 1.75
4018 5871 5.920840 GGTCAACCAAATTTGAAAGCTAGAC 59.079 40.000 19.86 14.69 37.24 2.59
4053 5906 4.759516 TCGTAAAAGGAATTGACAAGGC 57.240 40.909 0.00 0.00 0.00 4.35
4054 5907 8.487176 CAATTTTCGTAAAAGGAATTGACAAGG 58.513 33.333 0.00 0.00 39.05 3.61
4055 5908 8.003784 GCAATTTTCGTAAAAGGAATTGACAAG 58.996 33.333 10.33 0.00 39.05 3.16
4056 5909 7.708752 AGCAATTTTCGTAAAAGGAATTGACAA 59.291 29.630 10.33 0.00 39.05 3.18
4057 5910 7.206687 AGCAATTTTCGTAAAAGGAATTGACA 58.793 30.769 10.33 0.00 39.05 3.58
4058 5911 7.595130 AGAGCAATTTTCGTAAAAGGAATTGAC 59.405 33.333 10.33 4.75 39.05 3.18
4059 5912 7.657336 AGAGCAATTTTCGTAAAAGGAATTGA 58.343 30.769 10.33 0.00 39.05 2.57
4060 5913 7.873739 AGAGCAATTTTCGTAAAAGGAATTG 57.126 32.000 0.00 0.00 39.48 2.32
4061 5914 9.626045 CTAAGAGCAATTTTCGTAAAAGGAATT 57.374 29.630 0.00 0.00 33.22 2.17
4062 5915 7.755373 GCTAAGAGCAATTTTCGTAAAAGGAAT 59.245 33.333 0.00 0.00 41.89 3.01
4063 5916 7.081976 GCTAAGAGCAATTTTCGTAAAAGGAA 58.918 34.615 0.00 0.00 41.89 3.36
4064 5917 6.349033 GGCTAAGAGCAATTTTCGTAAAAGGA 60.349 38.462 0.21 0.00 44.75 3.36
4065 5918 5.800438 GGCTAAGAGCAATTTTCGTAAAAGG 59.200 40.000 0.21 0.00 44.75 3.11
4066 5919 5.508224 CGGCTAAGAGCAATTTTCGTAAAAG 59.492 40.000 0.21 0.00 44.75 2.27
4067 5920 5.049267 ACGGCTAAGAGCAATTTTCGTAAAA 60.049 36.000 0.21 0.00 44.75 1.52
4068 5921 4.453136 ACGGCTAAGAGCAATTTTCGTAAA 59.547 37.500 0.21 0.00 44.75 2.01
4069 5922 3.998341 ACGGCTAAGAGCAATTTTCGTAA 59.002 39.130 0.21 0.00 44.75 3.18
4070 5923 3.592059 ACGGCTAAGAGCAATTTTCGTA 58.408 40.909 0.21 0.00 44.75 3.43
4071 5924 2.423577 ACGGCTAAGAGCAATTTTCGT 58.576 42.857 0.21 0.00 44.75 3.85
4072 5925 4.331962 GTTACGGCTAAGAGCAATTTTCG 58.668 43.478 0.21 0.00 44.75 3.46
4073 5926 4.092383 TCGTTACGGCTAAGAGCAATTTTC 59.908 41.667 4.53 0.00 44.75 2.29
4074 5927 3.998341 TCGTTACGGCTAAGAGCAATTTT 59.002 39.130 4.53 0.00 44.75 1.82
4075 5928 3.592059 TCGTTACGGCTAAGAGCAATTT 58.408 40.909 4.53 0.00 44.75 1.82
4076 5929 3.241067 TCGTTACGGCTAAGAGCAATT 57.759 42.857 4.53 0.00 44.75 2.32
4077 5930 2.928116 GTTCGTTACGGCTAAGAGCAAT 59.072 45.455 4.53 0.00 44.75 3.56
4078 5931 2.331194 GTTCGTTACGGCTAAGAGCAA 58.669 47.619 4.53 0.00 44.75 3.91
4079 5932 1.403249 GGTTCGTTACGGCTAAGAGCA 60.403 52.381 4.53 0.00 44.75 4.26
4080 5933 1.135170 AGGTTCGTTACGGCTAAGAGC 60.135 52.381 4.53 0.00 41.46 4.09
4081 5934 2.935481 AGGTTCGTTACGGCTAAGAG 57.065 50.000 4.53 0.00 0.00 2.85
4082 5935 3.347216 ACTAGGTTCGTTACGGCTAAGA 58.653 45.455 4.53 0.00 0.00 2.10
4083 5936 3.127548 TGACTAGGTTCGTTACGGCTAAG 59.872 47.826 4.53 0.00 0.00 2.18
4084 5937 3.081061 TGACTAGGTTCGTTACGGCTAA 58.919 45.455 4.53 0.00 0.00 3.09
4085 5938 2.710377 TGACTAGGTTCGTTACGGCTA 58.290 47.619 4.53 0.00 0.00 3.93
4086 5939 1.538047 TGACTAGGTTCGTTACGGCT 58.462 50.000 4.53 0.00 0.00 5.52
4087 5940 2.352503 TTGACTAGGTTCGTTACGGC 57.647 50.000 4.53 0.00 0.00 5.68
4088 5941 4.984161 TCTTTTTGACTAGGTTCGTTACGG 59.016 41.667 4.53 0.00 0.00 4.02
4089 5942 6.701432 ATCTTTTTGACTAGGTTCGTTACG 57.299 37.500 0.00 0.00 0.00 3.18
4090 5943 9.362539 TGATATCTTTTTGACTAGGTTCGTTAC 57.637 33.333 3.98 0.00 0.00 2.50
4091 5944 9.582431 CTGATATCTTTTTGACTAGGTTCGTTA 57.418 33.333 3.98 0.00 0.00 3.18
4092 5945 8.311836 TCTGATATCTTTTTGACTAGGTTCGTT 58.688 33.333 3.98 0.00 0.00 3.85
4093 5946 7.837863 TCTGATATCTTTTTGACTAGGTTCGT 58.162 34.615 3.98 0.00 0.00 3.85
4094 5947 7.436673 CCTCTGATATCTTTTTGACTAGGTTCG 59.563 40.741 3.98 0.00 0.00 3.95
4095 5948 7.713073 CCCTCTGATATCTTTTTGACTAGGTTC 59.287 40.741 3.98 0.00 0.00 3.62
4096 5949 7.403231 TCCCTCTGATATCTTTTTGACTAGGTT 59.597 37.037 3.98 0.00 0.00 3.50
4097 5950 6.903534 TCCCTCTGATATCTTTTTGACTAGGT 59.096 38.462 3.98 0.00 0.00 3.08
4098 5951 7.366847 TCCCTCTGATATCTTTTTGACTAGG 57.633 40.000 3.98 0.00 0.00 3.02
4099 5952 9.844257 AATTCCCTCTGATATCTTTTTGACTAG 57.156 33.333 3.98 0.00 0.00 2.57
4101 5954 9.539194 AAAATTCCCTCTGATATCTTTTTGACT 57.461 29.630 3.98 0.00 0.00 3.41
4127 5980 3.761218 TGCAGTTCCACTCAAGACAAAAA 59.239 39.130 0.00 0.00 0.00 1.94
4128 5981 3.351740 TGCAGTTCCACTCAAGACAAAA 58.648 40.909 0.00 0.00 0.00 2.44
4132 5985 2.291741 CCTTTGCAGTTCCACTCAAGAC 59.708 50.000 0.00 0.00 0.00 3.01
4247 6108 7.383572 CAGTACATAGACATCTAAATGGAGCAC 59.616 40.741 0.00 0.00 37.19 4.40
4276 6137 7.240897 CAATTCAATAGGGAATTAGGGATCCA 58.759 38.462 15.23 0.00 43.66 3.41
4280 6141 5.695494 GCCCAATTCAATAGGGAATTAGGGA 60.695 44.000 24.36 0.00 45.81 4.20
4281 6142 4.528206 GCCCAATTCAATAGGGAATTAGGG 59.472 45.833 20.10 20.10 45.77 3.53
4282 6143 5.244626 CAGCCCAATTCAATAGGGAATTAGG 59.755 44.000 8.21 8.21 43.66 2.69
4283 6144 5.244626 CCAGCCCAATTCAATAGGGAATTAG 59.755 44.000 1.97 0.00 43.66 1.73
4284 6145 5.103301 TCCAGCCCAATTCAATAGGGAATTA 60.103 40.000 1.97 0.00 43.66 1.40
4285 6146 3.969312 CCAGCCCAATTCAATAGGGAATT 59.031 43.478 1.97 0.00 45.75 2.17
4286 6147 3.207321 TCCAGCCCAATTCAATAGGGAAT 59.793 43.478 1.97 0.00 45.80 3.01
4287 6148 2.584965 TCCAGCCCAATTCAATAGGGAA 59.415 45.455 1.97 0.00 45.80 3.97
4313 6174 8.981647 GCTCATTTTCTTTTCTTTGCTGAATTA 58.018 29.630 0.00 0.00 0.00 1.40
4314 6175 7.496591 TGCTCATTTTCTTTTCTTTGCTGAATT 59.503 29.630 0.00 0.00 0.00 2.17
4315 6176 6.987992 TGCTCATTTTCTTTTCTTTGCTGAAT 59.012 30.769 0.00 0.00 0.00 2.57
4316 6177 6.339730 TGCTCATTTTCTTTTCTTTGCTGAA 58.660 32.000 0.00 0.00 0.00 3.02
4317 6178 5.904941 TGCTCATTTTCTTTTCTTTGCTGA 58.095 33.333 0.00 0.00 0.00 4.26
4318 6179 6.422701 TCATGCTCATTTTCTTTTCTTTGCTG 59.577 34.615 0.00 0.00 0.00 4.41
4319 6180 6.518493 TCATGCTCATTTTCTTTTCTTTGCT 58.482 32.000 0.00 0.00 0.00 3.91
4320 6181 6.774354 TCATGCTCATTTTCTTTTCTTTGC 57.226 33.333 0.00 0.00 0.00 3.68
4322 6183 9.132521 CGTATTCATGCTCATTTTCTTTTCTTT 57.867 29.630 0.00 0.00 0.00 2.52
4323 6184 8.514594 TCGTATTCATGCTCATTTTCTTTTCTT 58.485 29.630 0.00 0.00 0.00 2.52
4324 6185 8.044060 TCGTATTCATGCTCATTTTCTTTTCT 57.956 30.769 0.00 0.00 0.00 2.52
4325 6186 7.965107 ACTCGTATTCATGCTCATTTTCTTTTC 59.035 33.333 0.00 0.00 0.00 2.29
4326 6187 7.820648 ACTCGTATTCATGCTCATTTTCTTTT 58.179 30.769 0.00 0.00 0.00 2.27
4327 6188 7.383102 ACTCGTATTCATGCTCATTTTCTTT 57.617 32.000 0.00 0.00 0.00 2.52
4328 6189 6.992063 ACTCGTATTCATGCTCATTTTCTT 57.008 33.333 0.00 0.00 0.00 2.52
4337 6198 2.586258 AGCGAACTCGTATTCATGCT 57.414 45.000 0.51 1.72 42.22 3.79
4422 6283 8.269424 GCATAATCTTCATACTCACGTAAACAG 58.731 37.037 0.00 0.00 0.00 3.16
4425 6286 8.942338 AAGCATAATCTTCATACTCACGTAAA 57.058 30.769 0.00 0.00 0.00 2.01
4429 6290 7.239166 ACAAAGCATAATCTTCATACTCACG 57.761 36.000 0.00 0.00 0.00 4.35
4436 6297 8.954350 GCATATAGGACAAAGCATAATCTTCAT 58.046 33.333 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.