Multiple sequence alignment - TraesCS5D01G210800

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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 TraesCS5D01G210800 chr5D 100.000 3947 0 0 1 3947 319148508 319144562 0.000000e+00 7289.0
1 TraesCS5D01G210800 chr5D 92.442 172 10 2 3739 3909 344470177 344470346 3.940000e-60 243.0
2 TraesCS5D01G210800 chr5D 89.888 178 14 2 3732 3906 544718930 544719106 3.970000e-55 226.0
3 TraesCS5D01G210800 chr5D 88.732 71 7 1 40 109 199747410 199747480 7.030000e-13 86.1
4 TraesCS5D01G210800 chr5D 97.143 35 1 0 2598 2632 438361886 438361852 4.260000e-05 60.2
5 TraesCS5D01G210800 chr5D 97.143 35 1 0 2598 2632 438387855 438387821 4.260000e-05 60.2
6 TraesCS5D01G210800 chr5B 92.977 3574 141 37 227 3732 369264697 369261166 0.000000e+00 5108.0
7 TraesCS5D01G210800 chr5B 97.143 35 1 0 2598 2632 532932574 532932540 4.260000e-05 60.2
8 TraesCS5D01G210800 chr5A 90.235 3697 211 63 124 3736 415319728 415323358 0.000000e+00 4689.0
9 TraesCS5D01G210800 chr2D 89.637 193 14 3 3729 3915 394118975 394118783 1.420000e-59 241.0
10 TraesCS5D01G210800 chr2D 87.317 205 16 5 3725 3921 175757111 175757313 3.970000e-55 226.0
11 TraesCS5D01G210800 chr2D 89.385 179 17 2 3737 3915 30326994 30327170 1.430000e-54 224.0
12 TraesCS5D01G210800 chr2D 90.141 71 6 1 40 109 239196874 239196804 1.510000e-14 91.6
13 TraesCS5D01G210800 chr7D 90.449 178 14 3 3732 3908 443426029 443425854 8.530000e-57 231.0
14 TraesCS5D01G210800 chr7D 77.341 331 75 0 2001 2331 176165923 176166253 3.110000e-46 196.0
15 TraesCS5D01G210800 chr7D 89.855 69 6 1 40 107 463159237 463159169 1.950000e-13 87.9
16 TraesCS5D01G210800 chr7D 75.862 174 25 15 2583 2746 587156102 587155936 5.470000e-09 73.1
17 TraesCS5D01G210800 chr3D 90.449 178 9 3 3737 3906 533955517 533955694 1.100000e-55 228.0
18 TraesCS5D01G210800 chr3D 88.298 188 16 5 3725 3911 182224561 182224743 1.850000e-53 220.0
19 TraesCS5D01G210800 chr2B 89.247 186 11 3 3731 3907 771215133 771215318 1.430000e-54 224.0
20 TraesCS5D01G210800 chr7A 77.644 331 74 0 2001 2331 178296835 178296505 6.690000e-48 202.0
21 TraesCS5D01G210800 chr7B 77.341 331 75 0 2001 2331 141865413 141865083 3.110000e-46 196.0
22 TraesCS5D01G210800 chr7B 93.243 74 5 0 33 106 639228132 639228205 4.170000e-20 110.0
23 TraesCS5D01G210800 chr7B 76.433 157 22 13 2599 2746 658282114 658281964 1.970000e-08 71.3
24 TraesCS5D01G210800 chr1D 77.073 205 35 11 2549 2747 399188677 399188479 1.500000e-19 108.0
25 TraesCS5D01G210800 chr1D 100.000 35 0 0 2598 2632 420856395 420856361 9.150000e-07 65.8
26 TraesCS5D01G210800 chrUn 91.667 72 6 0 36 107 363028873 363028802 2.510000e-17 100.0
27 TraesCS5D01G210800 chrUn 91.667 72 6 0 33 104 397311075 397311146 2.510000e-17 100.0
28 TraesCS5D01G210800 chr1B 83.962 106 15 2 2549 2653 535384620 535384516 2.510000e-17 100.0
29 TraesCS5D01G210800 chr1B 100.000 35 0 0 2598 2632 569561507 569561473 9.150000e-07 65.8
30 TraesCS5D01G210800 chr3A 92.537 67 5 0 40 106 575497283 575497349 3.250000e-16 97.1
31 TraesCS5D01G210800 chr6A 89.189 74 4 3 40 109 336707249 336707176 5.430000e-14 89.8
32 TraesCS5D01G210800 chr2A 89.041 73 5 2 40 109 240441261 240441189 1.950000e-13 87.9


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 TraesCS5D01G210800 chr5D 319144562 319148508 3946 True 7289 7289 100.000 1 3947 1 chr5D.!!$R1 3946
1 TraesCS5D01G210800 chr5B 369261166 369264697 3531 True 5108 5108 92.977 227 3732 1 chr5B.!!$R1 3505
2 TraesCS5D01G210800 chr5A 415319728 415323358 3630 False 4689 4689 90.235 124 3736 1 chr5A.!!$F1 3612

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
481 501 0.240145 CTGTCTCGTACGCACAAGGA 59.760 55.0 11.24 0.0 0.0 3.36 F
788 828 0.688487 TAATATAGCCGCACACCCCC 59.312 55.0 0.00 0.0 0.0 5.40 F
1846 1913 0.458543 GCTCGCCGTGATCTTCTTCA 60.459 55.0 0.00 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1416 1471 0.167689 GCAAGCCGAGCAAGAAGAAG 59.832 55.0 0.0 0.0 0.00 2.85 R
1851 1918 0.250124 TCTTGCCACGACGGAAACAT 60.250 50.0 0.0 0.0 36.56 2.71 R
3618 3732 0.034896 GACCGTTCAAAGCTCCCTGA 59.965 55.0 0.0 0.0 0.00 3.86 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
39 40 7.406031 CCATTTAGGTCACTACTTACAGAGA 57.594 40.000 0.00 0.00 0.00 3.10
40 41 8.012957 CCATTTAGGTCACTACTTACAGAGAT 57.987 38.462 0.00 0.00 0.00 2.75
41 42 9.132923 CCATTTAGGTCACTACTTACAGAGATA 57.867 37.037 0.00 0.00 0.00 1.98
47 48 9.787435 AGGTCACTACTTACAGAGATATAAGAG 57.213 37.037 0.00 0.00 0.00 2.85
48 49 8.508875 GGTCACTACTTACAGAGATATAAGAGC 58.491 40.741 0.00 0.00 0.00 4.09
49 50 9.058174 GTCACTACTTACAGAGATATAAGAGCA 57.942 37.037 0.00 0.00 0.00 4.26
50 51 9.800572 TCACTACTTACAGAGATATAAGAGCAT 57.199 33.333 0.00 0.00 0.00 3.79
79 80 8.827677 AGGTCACTATTTTATTGATCTAAACGC 58.172 33.333 0.00 0.00 28.37 4.84
80 81 8.827677 GGTCACTATTTTATTGATCTAAACGCT 58.172 33.333 0.00 0.00 0.00 5.07
81 82 9.851043 GTCACTATTTTATTGATCTAAACGCTC 57.149 33.333 0.00 0.00 0.00 5.03
82 83 9.817809 TCACTATTTTATTGATCTAAACGCTCT 57.182 29.630 0.00 0.00 0.00 4.09
115 116 9.603921 TTTTTACGGAGGGAGTAGTAAATTATG 57.396 33.333 1.30 0.00 38.39 1.90
116 117 8.537728 TTTACGGAGGGAGTAGTAAATTATGA 57.462 34.615 0.00 0.00 35.10 2.15
117 118 6.651975 ACGGAGGGAGTAGTAAATTATGAG 57.348 41.667 0.00 0.00 0.00 2.90
118 119 6.371278 ACGGAGGGAGTAGTAAATTATGAGA 58.629 40.000 0.00 0.00 0.00 3.27
119 120 6.264970 ACGGAGGGAGTAGTAAATTATGAGAC 59.735 42.308 0.00 0.00 0.00 3.36
120 121 6.568081 CGGAGGGAGTAGTAAATTATGAGACG 60.568 46.154 0.00 0.00 0.00 4.18
121 122 6.294620 GGAGGGAGTAGTAAATTATGAGACGG 60.295 46.154 0.00 0.00 0.00 4.79
122 123 6.134754 AGGGAGTAGTAAATTATGAGACGGT 58.865 40.000 0.00 0.00 0.00 4.83
123 124 6.040616 AGGGAGTAGTAAATTATGAGACGGTG 59.959 42.308 0.00 0.00 0.00 4.94
124 125 6.040166 GGGAGTAGTAAATTATGAGACGGTGA 59.960 42.308 0.00 0.00 0.00 4.02
125 126 7.140048 GGAGTAGTAAATTATGAGACGGTGAG 58.860 42.308 0.00 0.00 0.00 3.51
126 127 7.013083 GGAGTAGTAAATTATGAGACGGTGAGA 59.987 40.741 0.00 0.00 0.00 3.27
127 128 7.932335 AGTAGTAAATTATGAGACGGTGAGAG 58.068 38.462 0.00 0.00 0.00 3.20
128 129 6.777213 AGTAAATTATGAGACGGTGAGAGT 57.223 37.500 0.00 0.00 0.00 3.24
129 130 7.876936 AGTAAATTATGAGACGGTGAGAGTA 57.123 36.000 0.00 0.00 0.00 2.59
130 131 7.932335 AGTAAATTATGAGACGGTGAGAGTAG 58.068 38.462 0.00 0.00 0.00 2.57
131 132 7.774157 AGTAAATTATGAGACGGTGAGAGTAGA 59.226 37.037 0.00 0.00 0.00 2.59
139 140 6.485984 TGAGACGGTGAGAGTAGATATTTACC 59.514 42.308 0.00 0.00 0.00 2.85
154 155 8.653036 AGATATTTACCCTCGAAATAGCTAGT 57.347 34.615 0.00 0.00 41.39 2.57
155 156 9.750783 AGATATTTACCCTCGAAATAGCTAGTA 57.249 33.333 0.00 0.00 41.39 1.82
159 160 8.882415 TTTACCCTCGAAATAGCTAGTAATTG 57.118 34.615 0.00 0.00 0.00 2.32
160 161 6.481434 ACCCTCGAAATAGCTAGTAATTGT 57.519 37.500 0.00 0.00 0.00 2.71
162 163 8.015185 ACCCTCGAAATAGCTAGTAATTGTTA 57.985 34.615 0.00 0.00 0.00 2.41
163 164 8.648693 ACCCTCGAAATAGCTAGTAATTGTTAT 58.351 33.333 0.00 0.00 0.00 1.89
223 224 2.260434 GCACGTACGCCTCCTCAA 59.740 61.111 16.72 0.00 0.00 3.02
406 425 4.690159 CGTTAGCGTACGGTACCC 57.310 61.111 25.47 17.50 37.86 3.69
457 477 6.544197 AGACGAGTTAAGCTGATCAGATAGAA 59.456 38.462 27.04 14.72 0.00 2.10
481 501 0.240145 CTGTCTCGTACGCACAAGGA 59.760 55.000 11.24 0.00 0.00 3.36
629 649 2.206536 CGCCCCCTTTCCTGCAAAA 61.207 57.895 0.00 0.00 0.00 2.44
675 698 2.035193 CACATCCCTATCACTCTCACCG 59.965 54.545 0.00 0.00 0.00 4.94
739 779 1.747709 CTAGCTGCTGCACCATCTTT 58.252 50.000 18.42 0.00 42.74 2.52
752 792 1.570813 CATCTTTGGCGCGTAGATCA 58.429 50.000 8.43 0.00 0.00 2.92
787 827 2.781681 ATAATATAGCCGCACACCCC 57.218 50.000 0.00 0.00 0.00 4.95
788 828 0.688487 TAATATAGCCGCACACCCCC 59.312 55.000 0.00 0.00 0.00 5.40
821 864 6.071051 AGGGCTAGCAGTAGATTAAGATTAGC 60.071 42.308 18.24 0.00 0.00 3.09
824 867 7.309499 GGCTAGCAGTAGATTAAGATTAGCAGA 60.309 40.741 18.24 0.00 34.27 4.26
825 868 7.540745 GCTAGCAGTAGATTAAGATTAGCAGAC 59.459 40.741 10.63 0.00 33.17 3.51
828 875 8.573035 AGCAGTAGATTAAGATTAGCAGACTAC 58.427 37.037 0.00 0.00 0.00 2.73
856 903 4.853007 AGCGGAGTACTTAACTAAGGAGA 58.147 43.478 0.00 0.00 39.07 3.71
919 971 3.364023 CCTTACGTCTGTTGAACGATCAC 59.636 47.826 0.00 0.00 34.61 3.06
941 993 1.013005 GGTGACGAGACGAGACGAGA 61.013 60.000 0.00 0.00 0.00 4.04
1474 1529 3.489563 CGAATAATCGTTTCTCTGGCG 57.510 47.619 0.00 0.00 44.06 5.69
1541 1596 3.725490 ACTTGGAGAACAACGTCCTTAC 58.275 45.455 0.00 0.00 34.76 2.34
1632 1687 2.351244 CCCTGTGCCAGAGTCGCTA 61.351 63.158 4.00 0.00 32.44 4.26
1666 1721 0.605319 CAGCGCCTTTAGTGGGACAA 60.605 55.000 2.29 0.00 44.16 3.18
1846 1913 0.458543 GCTCGCCGTGATCTTCTTCA 60.459 55.000 0.00 0.00 0.00 3.02
1851 1918 2.799562 CGCCGTGATCTTCTTCATGCTA 60.800 50.000 0.00 0.00 32.36 3.49
1864 1931 2.267426 TCATGCTATGTTTCCGTCGTG 58.733 47.619 0.00 0.00 0.00 4.35
1896 1963 2.029964 GCCGACACTTCCACCGAA 59.970 61.111 0.00 0.00 0.00 4.30
1971 2038 1.374252 GGAGAAGAGCGGCGTGAAA 60.374 57.895 9.37 0.00 0.00 2.69
1972 2039 1.355066 GGAGAAGAGCGGCGTGAAAG 61.355 60.000 9.37 0.00 0.00 2.62
2358 2425 2.507324 GAGCGCCTCGACTTCACC 60.507 66.667 2.29 0.00 0.00 4.02
2359 2426 3.282745 GAGCGCCTCGACTTCACCA 62.283 63.158 2.29 0.00 0.00 4.17
2364 2431 2.254350 CTCGACTTCACCACGCGA 59.746 61.111 15.93 0.00 0.00 5.87
2457 2524 3.304659 GCAACATCAAGTCGTCCAACATT 60.305 43.478 0.00 0.00 0.00 2.71
2640 2707 3.710926 CTCCTGGAGCTGCTGACT 58.289 61.111 11.42 0.00 0.00 3.41
2976 3043 2.874751 CCGCCGTGGTTCATTTCC 59.125 61.111 0.00 0.00 0.00 3.13
3016 3087 0.749818 TTTCCCGCTGCAAACTGTGA 60.750 50.000 0.00 0.00 0.00 3.58
3030 3101 5.049267 GCAAACTGTGAAAAACTATACCGGA 60.049 40.000 9.46 0.00 0.00 5.14
3054 3132 9.342308 GGAATTCCTCAACATGTTCATAGAATA 57.658 33.333 17.73 0.00 0.00 1.75
3175 3253 8.372459 ACAGTTAAAAATCATTAAGTTTCCCCC 58.628 33.333 0.00 0.00 0.00 5.40
3227 3305 2.879756 GCAAGGTGCCAAATGGAGACTA 60.880 50.000 2.98 0.00 37.42 2.59
3265 3344 0.034896 ATTGAAGCGGTCGGTCAGTT 59.965 50.000 0.00 0.00 0.00 3.16
3309 3388 3.319238 GATGGACGTTTTATTCCAGCG 57.681 47.619 0.00 0.00 45.20 5.18
3310 3389 2.459060 TGGACGTTTTATTCCAGCGA 57.541 45.000 0.00 0.00 36.96 4.93
3311 3390 2.070783 TGGACGTTTTATTCCAGCGAC 58.929 47.619 0.00 0.00 36.96 5.19
3312 3391 1.060122 GGACGTTTTATTCCAGCGACG 59.940 52.381 0.00 0.00 36.65 5.12
3313 3392 1.723003 GACGTTTTATTCCAGCGACGT 59.277 47.619 0.00 0.00 45.10 4.34
3314 3393 1.723003 ACGTTTTATTCCAGCGACGTC 59.277 47.619 5.18 5.18 39.20 4.34
3315 3394 1.722464 CGTTTTATTCCAGCGACGTCA 59.278 47.619 17.16 0.00 0.00 4.35
3316 3395 2.222508 CGTTTTATTCCAGCGACGTCAG 60.223 50.000 17.16 9.59 0.00 3.51
3317 3396 1.355971 TTTATTCCAGCGACGTCAGC 58.644 50.000 17.16 18.79 0.00 4.26
3318 3397 0.800683 TTATTCCAGCGACGTCAGCG 60.801 55.000 17.16 14.40 44.93 5.18
3372 3461 3.572642 TCTGACCTGGTAAAGACTGTCA 58.427 45.455 10.88 0.00 32.00 3.58
3501 3591 7.822334 ACCATCATATTTAGTTGTCTGACGAAA 59.178 33.333 0.00 0.00 0.00 3.46
3575 3665 4.452114 TCAATGTGGCTTCGATGCATATAC 59.548 41.667 22.93 15.68 34.04 1.47
3602 3692 3.060602 GAGAAAGTTCAGTTGACCTCCG 58.939 50.000 0.00 0.00 0.00 4.63
3604 3694 3.118371 AGAAAGTTCAGTTGACCTCCGTT 60.118 43.478 0.00 0.00 0.00 4.44
3605 3695 2.240493 AGTTCAGTTGACCTCCGTTG 57.760 50.000 0.00 0.00 0.00 4.10
3606 3696 1.485066 AGTTCAGTTGACCTCCGTTGT 59.515 47.619 0.00 0.00 0.00 3.32
3607 3697 2.696707 AGTTCAGTTGACCTCCGTTGTA 59.303 45.455 0.00 0.00 0.00 2.41
3608 3698 3.057734 GTTCAGTTGACCTCCGTTGTAG 58.942 50.000 0.00 0.00 0.00 2.74
3618 3732 0.105964 TCCGTTGTAGTTGCACAGCT 59.894 50.000 0.00 0.00 0.00 4.24
3620 3734 1.217001 CGTTGTAGTTGCACAGCTCA 58.783 50.000 0.00 0.00 0.00 4.26
3644 3758 0.514691 GCTTTGAACGGTCTGAGCAG 59.485 55.000 19.29 2.77 34.50 4.24
3675 3792 4.547406 TCTGAGACCATTATACGTCACG 57.453 45.455 0.00 0.00 0.00 4.35
3714 3831 3.785505 GCGTTTTGATGCTATCCAACGAG 60.786 47.826 21.34 0.00 42.72 4.18
3736 3853 3.306703 GTGGCATGCAAATTTTGATACGG 59.693 43.478 21.36 0.00 0.00 4.02
3737 3854 3.056250 TGGCATGCAAATTTTGATACGGT 60.056 39.130 21.36 0.00 0.00 4.83
3738 3855 3.932089 GGCATGCAAATTTTGATACGGTT 59.068 39.130 21.36 0.00 0.00 4.44
3739 3856 4.391523 GGCATGCAAATTTTGATACGGTTT 59.608 37.500 21.36 0.00 0.00 3.27
3740 3857 5.578727 GGCATGCAAATTTTGATACGGTTTA 59.421 36.000 21.36 0.00 0.00 2.01
3741 3858 6.257630 GGCATGCAAATTTTGATACGGTTTAT 59.742 34.615 21.36 0.00 0.00 1.40
3742 3859 7.336975 GCATGCAAATTTTGATACGGTTTATC 58.663 34.615 14.21 0.00 0.00 1.75
3743 3860 7.222611 GCATGCAAATTTTGATACGGTTTATCT 59.777 33.333 14.21 0.00 0.00 1.98
3744 3861 9.729023 CATGCAAATTTTGATACGGTTTATCTA 57.271 29.630 13.26 0.00 0.00 1.98
3789 3906 9.567776 TTTAAGAATGTCACATCTAAACTTCCA 57.432 29.630 0.00 0.00 0.00 3.53
3790 3907 7.440523 AAGAATGTCACATCTAAACTTCCAC 57.559 36.000 0.00 0.00 0.00 4.02
3791 3908 6.533730 AGAATGTCACATCTAAACTTCCACA 58.466 36.000 0.00 0.00 0.00 4.17
3792 3909 6.998074 AGAATGTCACATCTAAACTTCCACAA 59.002 34.615 0.00 0.00 0.00 3.33
3793 3910 7.502226 AGAATGTCACATCTAAACTTCCACAAA 59.498 33.333 0.00 0.00 0.00 2.83
3794 3911 7.765695 ATGTCACATCTAAACTTCCACAAAT 57.234 32.000 0.00 0.00 0.00 2.32
3795 3912 8.862325 ATGTCACATCTAAACTTCCACAAATA 57.138 30.769 0.00 0.00 0.00 1.40
3796 3913 8.862325 TGTCACATCTAAACTTCCACAAATAT 57.138 30.769 0.00 0.00 0.00 1.28
3797 3914 9.952030 TGTCACATCTAAACTTCCACAAATATA 57.048 29.630 0.00 0.00 0.00 0.86
3809 3926 9.801873 ACTTCCACAAATATATAATGCAACAAC 57.198 29.630 0.00 0.00 0.00 3.32
3810 3927 9.800433 CTTCCACAAATATATAATGCAACAACA 57.200 29.630 0.00 0.00 0.00 3.33
3856 3973 4.410492 CACAAACAGAGTGGTCATTAGC 57.590 45.455 0.00 0.00 33.43 3.09
3857 3974 4.067896 CACAAACAGAGTGGTCATTAGCT 58.932 43.478 0.00 0.00 33.43 3.32
3858 3975 4.516698 CACAAACAGAGTGGTCATTAGCTT 59.483 41.667 0.00 0.00 33.43 3.74
3859 3976 5.700832 CACAAACAGAGTGGTCATTAGCTTA 59.299 40.000 0.00 0.00 33.43 3.09
3860 3977 5.934625 ACAAACAGAGTGGTCATTAGCTTAG 59.065 40.000 0.00 0.00 0.00 2.18
3861 3978 6.166279 CAAACAGAGTGGTCATTAGCTTAGA 58.834 40.000 0.00 0.00 0.00 2.10
3862 3979 6.552445 AACAGAGTGGTCATTAGCTTAGAT 57.448 37.500 0.00 0.00 0.00 1.98
3863 3980 5.911752 ACAGAGTGGTCATTAGCTTAGATG 58.088 41.667 0.00 0.00 0.00 2.90
3864 3981 5.423610 ACAGAGTGGTCATTAGCTTAGATGT 59.576 40.000 0.00 0.00 0.00 3.06
3865 3982 5.752472 CAGAGTGGTCATTAGCTTAGATGTG 59.248 44.000 0.00 0.00 0.00 3.21
3866 3983 5.658634 AGAGTGGTCATTAGCTTAGATGTGA 59.341 40.000 0.00 0.00 0.00 3.58
3867 3984 5.665459 AGTGGTCATTAGCTTAGATGTGAC 58.335 41.667 8.58 8.58 36.22 3.67
3868 3985 5.187772 AGTGGTCATTAGCTTAGATGTGACA 59.812 40.000 15.66 0.00 38.10 3.58
3869 3986 6.051717 GTGGTCATTAGCTTAGATGTGACAT 58.948 40.000 15.66 0.00 38.10 3.06
3870 3987 7.069950 AGTGGTCATTAGCTTAGATGTGACATA 59.930 37.037 15.66 5.57 38.10 2.29
3871 3988 7.710907 GTGGTCATTAGCTTAGATGTGACATAA 59.289 37.037 15.66 0.00 38.10 1.90
3872 3989 7.710907 TGGTCATTAGCTTAGATGTGACATAAC 59.289 37.037 15.66 0.00 38.10 1.89
3873 3990 7.928706 GGTCATTAGCTTAGATGTGACATAACT 59.071 37.037 15.66 0.00 38.10 2.24
3874 3991 9.967346 GTCATTAGCTTAGATGTGACATAACTA 57.033 33.333 0.00 0.00 36.78 2.24
3903 4020 6.312399 CATCTAGATGTGTCCTAGACAGAC 57.688 45.833 22.42 0.00 43.57 3.51
3904 4021 4.783055 TCTAGATGTGTCCTAGACAGACC 58.217 47.826 0.00 0.00 43.57 3.85
3905 4022 2.741145 AGATGTGTCCTAGACAGACCC 58.259 52.381 0.00 0.00 43.57 4.46
3906 4023 2.043115 AGATGTGTCCTAGACAGACCCA 59.957 50.000 0.00 0.00 43.57 4.51
3907 4024 2.623418 TGTGTCCTAGACAGACCCAT 57.377 50.000 0.00 0.00 43.57 4.00
3908 4025 2.902608 TGTGTCCTAGACAGACCCATT 58.097 47.619 0.00 0.00 43.57 3.16
3909 4026 3.248024 TGTGTCCTAGACAGACCCATTT 58.752 45.455 0.00 0.00 43.57 2.32
3910 4027 3.650942 TGTGTCCTAGACAGACCCATTTT 59.349 43.478 0.00 0.00 43.57 1.82
3911 4028 4.003648 GTGTCCTAGACAGACCCATTTTG 58.996 47.826 0.00 0.00 43.57 2.44
3912 4029 3.907474 TGTCCTAGACAGACCCATTTTGA 59.093 43.478 0.00 0.00 37.67 2.69
3913 4030 4.536090 TGTCCTAGACAGACCCATTTTGAT 59.464 41.667 0.00 0.00 37.67 2.57
3914 4031 5.724370 TGTCCTAGACAGACCCATTTTGATA 59.276 40.000 0.00 0.00 37.67 2.15
3915 4032 6.049790 GTCCTAGACAGACCCATTTTGATAC 58.950 44.000 0.00 0.00 32.09 2.24
3916 4033 5.050490 CCTAGACAGACCCATTTTGATACG 58.950 45.833 0.00 0.00 0.00 3.06
3917 4034 3.270877 AGACAGACCCATTTTGATACGC 58.729 45.455 0.00 0.00 0.00 4.42
3918 4035 2.354821 GACAGACCCATTTTGATACGCC 59.645 50.000 0.00 0.00 0.00 5.68
3919 4036 2.290641 ACAGACCCATTTTGATACGCCA 60.291 45.455 0.00 0.00 0.00 5.69
3920 4037 2.355756 CAGACCCATTTTGATACGCCAG 59.644 50.000 0.00 0.00 0.00 4.85
3921 4038 1.676006 GACCCATTTTGATACGCCAGG 59.324 52.381 0.00 0.00 0.00 4.45
3922 4039 1.005450 ACCCATTTTGATACGCCAGGT 59.995 47.619 0.00 0.00 0.00 4.00
3923 4040 2.099405 CCCATTTTGATACGCCAGGTT 58.901 47.619 0.00 0.00 0.00 3.50
3924 4041 2.495669 CCCATTTTGATACGCCAGGTTT 59.504 45.455 0.00 0.00 0.00 3.27
3925 4042 3.428862 CCCATTTTGATACGCCAGGTTTC 60.429 47.826 0.00 0.00 0.00 2.78
3926 4043 3.425404 CATTTTGATACGCCAGGTTTCG 58.575 45.455 0.00 0.00 30.13 3.46
3927 4044 2.172851 TTTGATACGCCAGGTTTCGT 57.827 45.000 0.00 0.00 42.09 3.85
3928 4045 2.172851 TTGATACGCCAGGTTTCGTT 57.827 45.000 0.00 0.00 39.79 3.85
3929 4046 2.172851 TGATACGCCAGGTTTCGTTT 57.827 45.000 0.00 0.00 39.79 3.60
3930 4047 2.070783 TGATACGCCAGGTTTCGTTTC 58.929 47.619 0.00 0.00 39.79 2.78
3931 4048 2.070783 GATACGCCAGGTTTCGTTTCA 58.929 47.619 0.00 0.00 39.79 2.69
3932 4049 1.219646 TACGCCAGGTTTCGTTTCAC 58.780 50.000 0.00 0.00 39.79 3.18
3933 4050 0.745128 ACGCCAGGTTTCGTTTCACA 60.745 50.000 0.00 0.00 35.09 3.58
3934 4051 0.041312 CGCCAGGTTTCGTTTCACAG 60.041 55.000 0.00 0.00 0.00 3.66
3935 4052 1.021968 GCCAGGTTTCGTTTCACAGT 58.978 50.000 0.00 0.00 0.00 3.55
3936 4053 1.002792 GCCAGGTTTCGTTTCACAGTC 60.003 52.381 0.00 0.00 0.00 3.51
3937 4054 2.285083 CCAGGTTTCGTTTCACAGTCA 58.715 47.619 0.00 0.00 0.00 3.41
3938 4055 2.287915 CCAGGTTTCGTTTCACAGTCAG 59.712 50.000 0.00 0.00 0.00 3.51
3939 4056 3.194861 CAGGTTTCGTTTCACAGTCAGA 58.805 45.455 0.00 0.00 0.00 3.27
3940 4057 3.621268 CAGGTTTCGTTTCACAGTCAGAA 59.379 43.478 0.00 0.00 0.00 3.02
3941 4058 4.273480 CAGGTTTCGTTTCACAGTCAGAAT 59.727 41.667 0.00 0.00 0.00 2.40
3942 4059 4.511826 AGGTTTCGTTTCACAGTCAGAATC 59.488 41.667 0.00 0.00 0.00 2.52
3943 4060 4.511826 GGTTTCGTTTCACAGTCAGAATCT 59.488 41.667 0.00 0.00 0.00 2.40
3944 4061 5.435557 GTTTCGTTTCACAGTCAGAATCTG 58.564 41.667 3.38 3.38 38.68 2.90
3945 4062 3.653344 TCGTTTCACAGTCAGAATCTGG 58.347 45.455 10.71 0.00 37.25 3.86
3946 4063 3.069586 TCGTTTCACAGTCAGAATCTGGT 59.930 43.478 10.71 0.00 37.25 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 6.952358 TCTCTGTAAGTAGTGACCTAAATGGT 59.048 38.462 0.00 0.00 44.22 3.55
15 16 7.406031 TCTCTGTAAGTAGTGACCTAAATGG 57.594 40.000 0.00 0.00 37.21 3.16
21 22 9.787435 CTCTTATATCTCTGTAAGTAGTGACCT 57.213 37.037 0.00 0.00 33.76 3.85
22 23 8.508875 GCTCTTATATCTCTGTAAGTAGTGACC 58.491 40.741 0.00 0.00 33.76 4.02
23 24 9.058174 TGCTCTTATATCTCTGTAAGTAGTGAC 57.942 37.037 0.00 0.00 33.76 3.67
24 25 9.800572 ATGCTCTTATATCTCTGTAAGTAGTGA 57.199 33.333 0.00 0.00 33.76 3.41
32 33 9.588096 TGACCTAAATGCTCTTATATCTCTGTA 57.412 33.333 0.00 0.00 0.00 2.74
33 34 8.364142 GTGACCTAAATGCTCTTATATCTCTGT 58.636 37.037 0.00 0.00 0.00 3.41
34 35 8.584157 AGTGACCTAAATGCTCTTATATCTCTG 58.416 37.037 0.00 0.00 0.00 3.35
35 36 8.719645 AGTGACCTAAATGCTCTTATATCTCT 57.280 34.615 0.00 0.00 0.00 3.10
44 45 9.905713 TCAATAAAATAGTGACCTAAATGCTCT 57.094 29.630 0.00 0.00 0.00 4.09
53 54 8.827677 GCGTTTAGATCAATAAAATAGTGACCT 58.172 33.333 0.00 0.00 35.44 3.85
54 55 8.827677 AGCGTTTAGATCAATAAAATAGTGACC 58.172 33.333 0.00 0.00 35.44 4.02
55 56 9.851043 GAGCGTTTAGATCAATAAAATAGTGAC 57.149 33.333 0.00 0.00 35.44 3.67
56 57 9.817809 AGAGCGTTTAGATCAATAAAATAGTGA 57.182 29.630 0.00 0.00 37.82 3.41
89 90 9.603921 CATAATTTACTACTCCCTCCGTAAAAA 57.396 33.333 0.00 0.00 36.01 1.94
90 91 8.980596 TCATAATTTACTACTCCCTCCGTAAAA 58.019 33.333 0.00 0.00 36.01 1.52
91 92 8.537728 TCATAATTTACTACTCCCTCCGTAAA 57.462 34.615 0.00 0.00 36.59 2.01
92 93 8.000709 TCTCATAATTTACTACTCCCTCCGTAA 58.999 37.037 0.00 0.00 0.00 3.18
93 94 7.446625 GTCTCATAATTTACTACTCCCTCCGTA 59.553 40.741 0.00 0.00 0.00 4.02
94 95 6.264970 GTCTCATAATTTACTACTCCCTCCGT 59.735 42.308 0.00 0.00 0.00 4.69
95 96 6.568081 CGTCTCATAATTTACTACTCCCTCCG 60.568 46.154 0.00 0.00 0.00 4.63
96 97 6.294620 CCGTCTCATAATTTACTACTCCCTCC 60.295 46.154 0.00 0.00 0.00 4.30
97 98 6.264970 ACCGTCTCATAATTTACTACTCCCTC 59.735 42.308 0.00 0.00 0.00 4.30
98 99 6.040616 CACCGTCTCATAATTTACTACTCCCT 59.959 42.308 0.00 0.00 0.00 4.20
99 100 6.040166 TCACCGTCTCATAATTTACTACTCCC 59.960 42.308 0.00 0.00 0.00 4.30
100 101 7.013083 TCTCACCGTCTCATAATTTACTACTCC 59.987 40.741 0.00 0.00 0.00 3.85
101 102 7.928103 TCTCACCGTCTCATAATTTACTACTC 58.072 38.462 0.00 0.00 0.00 2.59
102 103 7.556996 ACTCTCACCGTCTCATAATTTACTACT 59.443 37.037 0.00 0.00 0.00 2.57
103 104 7.705214 ACTCTCACCGTCTCATAATTTACTAC 58.295 38.462 0.00 0.00 0.00 2.73
104 105 7.876936 ACTCTCACCGTCTCATAATTTACTA 57.123 36.000 0.00 0.00 0.00 1.82
105 106 6.777213 ACTCTCACCGTCTCATAATTTACT 57.223 37.500 0.00 0.00 0.00 2.24
106 107 7.928103 TCTACTCTCACCGTCTCATAATTTAC 58.072 38.462 0.00 0.00 0.00 2.01
107 108 8.693120 ATCTACTCTCACCGTCTCATAATTTA 57.307 34.615 0.00 0.00 0.00 1.40
108 109 7.589958 ATCTACTCTCACCGTCTCATAATTT 57.410 36.000 0.00 0.00 0.00 1.82
109 110 8.871629 ATATCTACTCTCACCGTCTCATAATT 57.128 34.615 0.00 0.00 0.00 1.40
110 111 8.871629 AATATCTACTCTCACCGTCTCATAAT 57.128 34.615 0.00 0.00 0.00 1.28
111 112 8.693120 AAATATCTACTCTCACCGTCTCATAA 57.307 34.615 0.00 0.00 0.00 1.90
112 113 9.217278 GTAAATATCTACTCTCACCGTCTCATA 57.783 37.037 0.00 0.00 0.00 2.15
113 114 7.175293 GGTAAATATCTACTCTCACCGTCTCAT 59.825 40.741 0.00 0.00 0.00 2.90
114 115 6.485984 GGTAAATATCTACTCTCACCGTCTCA 59.514 42.308 0.00 0.00 0.00 3.27
115 116 6.072563 GGGTAAATATCTACTCTCACCGTCTC 60.073 46.154 0.00 0.00 0.00 3.36
116 117 5.769162 GGGTAAATATCTACTCTCACCGTCT 59.231 44.000 0.00 0.00 0.00 4.18
117 118 5.769162 AGGGTAAATATCTACTCTCACCGTC 59.231 44.000 0.00 0.00 24.92 4.79
118 119 5.703310 AGGGTAAATATCTACTCTCACCGT 58.297 41.667 0.00 0.00 24.92 4.83
119 120 5.106634 CGAGGGTAAATATCTACTCTCACCG 60.107 48.000 14.98 0.05 45.97 4.94
120 121 6.002704 TCGAGGGTAAATATCTACTCTCACC 58.997 44.000 14.98 0.00 45.97 4.02
121 122 7.507733 TTCGAGGGTAAATATCTACTCTCAC 57.492 40.000 14.98 0.00 45.97 3.51
122 123 8.707796 ATTTCGAGGGTAAATATCTACTCTCA 57.292 34.615 14.98 1.67 45.97 3.27
124 125 8.741841 GCTATTTCGAGGGTAAATATCTACTCT 58.258 37.037 0.00 0.00 35.20 3.24
125 126 8.741841 AGCTATTTCGAGGGTAAATATCTACTC 58.258 37.037 0.00 0.00 28.52 2.59
126 127 8.653036 AGCTATTTCGAGGGTAAATATCTACT 57.347 34.615 0.00 0.00 28.52 2.57
128 129 9.750783 ACTAGCTATTTCGAGGGTAAATATCTA 57.249 33.333 0.00 0.00 31.34 1.98
129 130 8.653036 ACTAGCTATTTCGAGGGTAAATATCT 57.347 34.615 0.00 0.00 32.74 1.98
163 164 9.517868 GAGAGGCCTAGAAATACTAGTACAATA 57.482 37.037 4.42 0.00 45.01 1.90
164 165 8.005388 TGAGAGGCCTAGAAATACTAGTACAAT 58.995 37.037 4.42 0.00 45.01 2.71
165 166 7.351952 TGAGAGGCCTAGAAATACTAGTACAA 58.648 38.462 4.42 0.00 45.01 2.41
166 167 6.907961 TGAGAGGCCTAGAAATACTAGTACA 58.092 40.000 4.42 0.00 45.01 2.90
167 168 6.431852 CCTGAGAGGCCTAGAAATACTAGTAC 59.568 46.154 4.42 0.00 45.01 2.73
168 169 6.544650 CCTGAGAGGCCTAGAAATACTAGTA 58.455 44.000 4.42 4.77 45.01 1.82
169 170 5.390387 CCTGAGAGGCCTAGAAATACTAGT 58.610 45.833 4.42 0.00 45.01 2.57
170 171 5.975693 CCTGAGAGGCCTAGAAATACTAG 57.024 47.826 4.42 0.00 45.77 2.57
213 214 2.521958 AATGGACGGTTGAGGAGGCG 62.522 60.000 0.00 0.00 0.00 5.52
214 215 1.026718 CAATGGACGGTTGAGGAGGC 61.027 60.000 0.00 0.00 0.00 4.70
216 217 2.185004 AACAATGGACGGTTGAGGAG 57.815 50.000 0.00 0.00 0.00 3.69
223 224 1.572447 CGCGAAAACAATGGACGGT 59.428 52.632 0.00 0.00 0.00 4.83
280 295 2.252747 GCCGGGCGTTAAATTACAAAC 58.747 47.619 1.81 0.00 0.00 2.93
281 296 1.201880 GGCCGGGCGTTAAATTACAAA 59.798 47.619 14.21 0.00 0.00 2.83
283 298 1.031029 GGGCCGGGCGTTAAATTACA 61.031 55.000 23.19 0.00 0.00 2.41
315 331 3.154710 CTGGATAGTGGTGGTATAGCGA 58.845 50.000 0.00 0.00 0.00 4.93
429 449 3.357203 TGATCAGCTTAACTCGTCTCCT 58.643 45.455 0.00 0.00 0.00 3.69
437 457 6.276847 CCGTTTCTATCTGATCAGCTTAACT 58.723 40.000 18.36 1.10 0.00 2.24
457 477 2.126580 GCGTACGAGACAGCCGTT 60.127 61.111 21.65 0.00 40.95 4.44
481 501 1.300971 TAGCACGTCTAGACCGCGTT 61.301 55.000 17.23 7.87 36.67 4.84
675 698 1.741706 TGGAATAGTCGTCCGTGTCTC 59.258 52.381 0.00 0.00 38.06 3.36
739 779 0.245266 TCAAACTGATCTACGCGCCA 59.755 50.000 5.73 0.00 0.00 5.69
788 828 2.759973 TGCTAGCCCTCGGTGGAG 60.760 66.667 13.29 0.00 40.14 3.86
828 875 4.612932 AGTTAAGTACTCCGCTACGAAG 57.387 45.455 0.00 0.00 28.23 3.79
856 903 0.097674 CTGCGCCTACGTACGTACTT 59.902 55.000 23.60 16.37 42.83 2.24
895 946 3.928727 TCGTTCAACAGACGTAAGGAT 57.071 42.857 0.00 0.00 46.39 3.24
919 971 2.745100 TCTCGTCTCGTCACCCGG 60.745 66.667 0.00 0.00 37.11 5.73
941 993 0.750850 CCCGTATCGATGGAGTTGGT 59.249 55.000 8.54 0.00 32.85 3.67
1339 1394 4.166011 GCAGTTGCCGATGTCCGC 62.166 66.667 0.00 0.00 36.84 5.54
1416 1471 0.167689 GCAAGCCGAGCAAGAAGAAG 59.832 55.000 0.00 0.00 0.00 2.85
1474 1529 0.531974 TTGAACTCCAGCGACACACC 60.532 55.000 0.00 0.00 0.00 4.16
1518 1573 4.411256 AAGGACGTTGTTCTCCAAGTAA 57.589 40.909 0.00 0.00 32.51 2.24
1625 1680 2.416432 GGTCTTCCGGCTAGCGACT 61.416 63.158 16.13 0.00 0.00 4.18
1683 1738 4.367023 TTCGCGCACGGGCTTAGT 62.367 61.111 8.62 0.00 40.63 2.24
1744 1811 0.607112 CTGCTCTTGCTGTCCTCAGA 59.393 55.000 0.00 0.00 43.76 3.27
1846 1913 1.651987 CCACGACGGAAACATAGCAT 58.348 50.000 0.00 0.00 36.56 3.79
1851 1918 0.250124 TCTTGCCACGACGGAAACAT 60.250 50.000 0.00 0.00 36.56 2.71
1864 1931 1.132453 GTCGGCCTTATTTGTCTTGCC 59.868 52.381 0.00 0.00 35.55 4.52
2181 2248 2.202623 CCGCGGAACTCCTTCTCG 60.203 66.667 24.07 0.00 0.00 4.04
3016 3087 6.943718 TGTTGAGGAATTCCGGTATAGTTTTT 59.056 34.615 18.82 0.00 42.08 1.94
3054 3132 5.398122 CGCACGAAAACAATGAAGTAAACAT 59.602 36.000 0.00 0.00 0.00 2.71
3065 3143 3.564511 CAGGAATTCGCACGAAAACAAT 58.435 40.909 9.80 0.00 37.69 2.71
3175 3253 1.152567 TTGGGAGTTGGGTGCTTGG 60.153 57.895 0.00 0.00 0.00 3.61
3176 3254 0.754957 TGTTGGGAGTTGGGTGCTTG 60.755 55.000 0.00 0.00 0.00 4.01
3265 3344 1.532604 AATGGACTCGCCGACTGTCA 61.533 55.000 8.73 0.00 40.66 3.58
3311 3390 2.941013 GGTACGCGTACGCTGACG 60.941 66.667 35.36 22.64 45.53 4.35
3312 3391 1.442520 TTGGTACGCGTACGCTGAC 60.443 57.895 35.36 29.23 45.53 3.51
3313 3392 1.442520 GTTGGTACGCGTACGCTGA 60.443 57.895 35.36 21.09 45.53 4.26
3314 3393 1.730192 TGTTGGTACGCGTACGCTG 60.730 57.895 35.36 28.60 45.53 5.18
3315 3394 1.730547 GTGTTGGTACGCGTACGCT 60.731 57.895 35.36 24.05 45.53 5.07
3316 3395 2.765150 GTGTTGGTACGCGTACGC 59.235 61.111 35.36 29.83 45.53 4.42
3372 3461 2.193536 GTTTGCCGGCCAGAACAGT 61.194 57.895 26.77 0.00 0.00 3.55
3501 3591 2.300152 TCAGCGTTCAGAATTCACTCCT 59.700 45.455 8.44 0.00 0.00 3.69
3575 3665 4.320057 GGTCAACTGAACTTTCTCATGCTG 60.320 45.833 0.00 0.00 0.00 4.41
3602 3692 1.532868 CCTGAGCTGTGCAACTACAAC 59.467 52.381 0.00 0.00 38.04 3.32
3604 3694 0.035317 CCCTGAGCTGTGCAACTACA 59.965 55.000 0.00 0.00 38.04 2.74
3605 3695 0.321671 TCCCTGAGCTGTGCAACTAC 59.678 55.000 0.00 0.00 38.04 2.73
3606 3696 0.610174 CTCCCTGAGCTGTGCAACTA 59.390 55.000 0.00 0.00 38.04 2.24
3607 3697 1.374190 CTCCCTGAGCTGTGCAACT 59.626 57.895 0.00 0.00 38.04 3.16
3608 3698 3.978272 CTCCCTGAGCTGTGCAAC 58.022 61.111 0.00 0.00 37.35 4.17
3618 3732 0.034896 GACCGTTCAAAGCTCCCTGA 59.965 55.000 0.00 0.00 0.00 3.86
3620 3734 0.035458 CAGACCGTTCAAAGCTCCCT 59.965 55.000 0.00 0.00 0.00 4.20
3644 3758 4.489679 AATGGTCTCAGAAACTTTTCGC 57.510 40.909 0.00 0.00 41.92 4.70
3675 3792 1.301795 GCCCAGATTAGCGGTAGCC 60.302 63.158 0.00 0.00 46.67 3.93
3690 3807 1.388547 TGGATAGCATCAAAACGCCC 58.611 50.000 0.00 0.00 0.00 6.13
3714 3831 3.306703 CCGTATCAAAATTTGCATGCCAC 59.693 43.478 16.68 0.00 0.00 5.01
3763 3880 9.567776 TGGAAGTTTAGATGTGACATTCTTAAA 57.432 29.630 0.00 3.55 0.00 1.52
3764 3881 8.999431 GTGGAAGTTTAGATGTGACATTCTTAA 58.001 33.333 0.00 0.00 0.00 1.85
3765 3882 8.154203 TGTGGAAGTTTAGATGTGACATTCTTA 58.846 33.333 0.00 0.00 0.00 2.10
3766 3883 6.998074 TGTGGAAGTTTAGATGTGACATTCTT 59.002 34.615 0.00 0.72 0.00 2.52
3767 3884 6.533730 TGTGGAAGTTTAGATGTGACATTCT 58.466 36.000 0.00 1.32 0.00 2.40
3768 3885 6.801539 TGTGGAAGTTTAGATGTGACATTC 57.198 37.500 0.00 0.00 0.00 2.67
3769 3886 7.581213 TTTGTGGAAGTTTAGATGTGACATT 57.419 32.000 0.00 0.00 0.00 2.71
3770 3887 7.765695 ATTTGTGGAAGTTTAGATGTGACAT 57.234 32.000 0.00 0.00 0.00 3.06
3771 3888 8.862325 ATATTTGTGGAAGTTTAGATGTGACA 57.138 30.769 0.00 0.00 0.00 3.58
3783 3900 9.801873 GTTGTTGCATTATATATTTGTGGAAGT 57.198 29.630 0.00 0.00 0.00 3.01
3784 3901 9.800433 TGTTGTTGCATTATATATTTGTGGAAG 57.200 29.630 0.00 0.00 0.00 3.46
3835 3952 4.067896 AGCTAATGACCACTCTGTTTGTG 58.932 43.478 0.00 0.00 35.39 3.33
3836 3953 4.357918 AGCTAATGACCACTCTGTTTGT 57.642 40.909 0.00 0.00 0.00 2.83
3837 3954 6.166279 TCTAAGCTAATGACCACTCTGTTTG 58.834 40.000 0.00 0.00 0.00 2.93
3838 3955 6.360370 TCTAAGCTAATGACCACTCTGTTT 57.640 37.500 0.00 0.00 0.00 2.83
3839 3956 6.070538 ACATCTAAGCTAATGACCACTCTGTT 60.071 38.462 9.84 0.00 0.00 3.16
3840 3957 5.423610 ACATCTAAGCTAATGACCACTCTGT 59.576 40.000 9.84 0.00 0.00 3.41
3841 3958 5.752472 CACATCTAAGCTAATGACCACTCTG 59.248 44.000 9.84 0.00 0.00 3.35
3842 3959 5.658634 TCACATCTAAGCTAATGACCACTCT 59.341 40.000 9.84 0.00 0.00 3.24
3843 3960 5.751028 GTCACATCTAAGCTAATGACCACTC 59.249 44.000 9.84 0.00 32.18 3.51
3844 3961 5.187772 TGTCACATCTAAGCTAATGACCACT 59.812 40.000 9.84 0.00 36.47 4.00
3845 3962 5.419542 TGTCACATCTAAGCTAATGACCAC 58.580 41.667 9.84 4.89 36.47 4.16
3846 3963 5.675684 TGTCACATCTAAGCTAATGACCA 57.324 39.130 9.84 2.41 36.47 4.02
3847 3964 7.928706 AGTTATGTCACATCTAAGCTAATGACC 59.071 37.037 0.00 0.41 36.47 4.02
3848 3965 8.879342 AGTTATGTCACATCTAAGCTAATGAC 57.121 34.615 0.00 7.51 37.54 3.06
3880 3997 5.240623 GGTCTGTCTAGGACACATCTAGATG 59.759 48.000 27.63 27.63 43.25 2.90
3881 3998 5.381757 GGTCTGTCTAGGACACATCTAGAT 58.618 45.833 0.00 0.00 43.25 1.98
3882 3999 4.385421 GGGTCTGTCTAGGACACATCTAGA 60.385 50.000 0.00 0.00 37.67 2.43
3883 4000 3.886505 GGGTCTGTCTAGGACACATCTAG 59.113 52.174 0.00 0.00 37.67 2.43
3884 4001 3.268595 TGGGTCTGTCTAGGACACATCTA 59.731 47.826 0.00 0.00 41.46 1.98
3885 4002 2.043115 TGGGTCTGTCTAGGACACATCT 59.957 50.000 0.00 0.00 41.46 2.90
3886 4003 2.457598 TGGGTCTGTCTAGGACACATC 58.542 52.381 0.00 0.00 41.46 3.06
3887 4004 2.623418 TGGGTCTGTCTAGGACACAT 57.377 50.000 0.00 0.00 41.46 3.21
3889 4006 3.983044 AAATGGGTCTGTCTAGGACAC 57.017 47.619 0.00 0.00 37.67 3.67
3890 4007 3.907474 TCAAAATGGGTCTGTCTAGGACA 59.093 43.478 0.43 0.43 40.50 4.02
3891 4008 4.553330 TCAAAATGGGTCTGTCTAGGAC 57.447 45.455 0.00 0.00 0.00 3.85
3892 4009 5.163447 CGTATCAAAATGGGTCTGTCTAGGA 60.163 44.000 0.00 0.00 0.00 2.94
3893 4010 5.050490 CGTATCAAAATGGGTCTGTCTAGG 58.950 45.833 0.00 0.00 0.00 3.02
3894 4011 4.508124 GCGTATCAAAATGGGTCTGTCTAG 59.492 45.833 0.00 0.00 0.00 2.43
3895 4012 4.439057 GCGTATCAAAATGGGTCTGTCTA 58.561 43.478 0.00 0.00 0.00 2.59
3896 4013 3.270877 GCGTATCAAAATGGGTCTGTCT 58.729 45.455 0.00 0.00 0.00 3.41
3897 4014 2.354821 GGCGTATCAAAATGGGTCTGTC 59.645 50.000 0.00 0.00 0.00 3.51
3898 4015 2.290641 TGGCGTATCAAAATGGGTCTGT 60.291 45.455 0.00 0.00 0.00 3.41
3899 4016 2.355756 CTGGCGTATCAAAATGGGTCTG 59.644 50.000 0.00 0.00 0.00 3.51
3900 4017 2.643551 CTGGCGTATCAAAATGGGTCT 58.356 47.619 0.00 0.00 0.00 3.85
3901 4018 1.676006 CCTGGCGTATCAAAATGGGTC 59.324 52.381 0.00 0.00 0.00 4.46
3902 4019 1.005450 ACCTGGCGTATCAAAATGGGT 59.995 47.619 0.00 0.00 0.00 4.51
3903 4020 1.762708 ACCTGGCGTATCAAAATGGG 58.237 50.000 0.00 0.00 0.00 4.00
3904 4021 3.730662 CGAAACCTGGCGTATCAAAATGG 60.731 47.826 0.00 0.00 0.00 3.16
3905 4022 3.119990 ACGAAACCTGGCGTATCAAAATG 60.120 43.478 0.00 0.00 39.21 2.32
3906 4023 3.078837 ACGAAACCTGGCGTATCAAAAT 58.921 40.909 0.00 0.00 39.21 1.82
3907 4024 2.496111 ACGAAACCTGGCGTATCAAAA 58.504 42.857 0.00 0.00 39.21 2.44
3908 4025 2.172851 ACGAAACCTGGCGTATCAAA 57.827 45.000 0.00 0.00 39.21 2.69
3909 4026 2.172851 AACGAAACCTGGCGTATCAA 57.827 45.000 0.00 0.00 40.23 2.57
3910 4027 2.070783 GAAACGAAACCTGGCGTATCA 58.929 47.619 0.00 0.00 40.23 2.15
3911 4028 2.070783 TGAAACGAAACCTGGCGTATC 58.929 47.619 0.00 0.00 40.23 2.24
3912 4029 1.802365 GTGAAACGAAACCTGGCGTAT 59.198 47.619 0.00 0.00 40.23 3.06
3913 4030 1.219646 GTGAAACGAAACCTGGCGTA 58.780 50.000 0.00 0.00 40.23 4.42
3914 4031 0.745128 TGTGAAACGAAACCTGGCGT 60.745 50.000 0.00 0.00 42.39 5.68
3915 4032 0.041312 CTGTGAAACGAAACCTGGCG 60.041 55.000 0.00 0.00 42.39 5.69
3916 4033 1.002792 GACTGTGAAACGAAACCTGGC 60.003 52.381 0.00 0.00 42.39 4.85
3917 4034 2.285083 TGACTGTGAAACGAAACCTGG 58.715 47.619 0.00 0.00 42.39 4.45
3918 4035 3.194861 TCTGACTGTGAAACGAAACCTG 58.805 45.455 0.00 0.00 42.39 4.00
3919 4036 3.536956 TCTGACTGTGAAACGAAACCT 57.463 42.857 0.00 0.00 42.39 3.50
3920 4037 4.511826 AGATTCTGACTGTGAAACGAAACC 59.488 41.667 0.00 0.00 42.39 3.27
3921 4038 5.435557 CAGATTCTGACTGTGAAACGAAAC 58.564 41.667 8.00 0.00 34.08 2.78
3922 4039 4.511454 CCAGATTCTGACTGTGAAACGAAA 59.489 41.667 15.36 0.00 34.08 3.46
3923 4040 4.058124 CCAGATTCTGACTGTGAAACGAA 58.942 43.478 15.36 0.00 34.08 3.85
3924 4041 3.069586 ACCAGATTCTGACTGTGAAACGA 59.930 43.478 15.36 0.00 34.08 3.85
3925 4042 3.393800 ACCAGATTCTGACTGTGAAACG 58.606 45.455 15.36 0.00 34.08 3.60


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

AutoCloner maintained by Alex Coulton.