Multiple sequence alignment - TraesCS5B01G469600

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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 TraesCS5B01G469600 chr5B 100.000 3056 0 0 1 3056 643262616 643259561 0.000000e+00 5644
1 TraesCS5B01G469600 chr5B 95.522 67 3 0 1 67 434495391 434495325 1.160000e-19 108
2 TraesCS5B01G469600 chr5A 94.156 2019 80 23 821 2836 640619534 640617551 0.000000e+00 3040
3 TraesCS5B01G469600 chr5A 87.879 165 8 7 601 754 640619965 640619802 1.870000e-42 183
4 TraesCS5B01G469600 chr5A 89.781 137 7 5 319 454 640620095 640619965 5.240000e-38 169
5 TraesCS5B01G469600 chr5D 95.223 1926 66 19 823 2737 512220662 512218752 0.000000e+00 3024
6 TraesCS5B01G469600 chr5D 89.280 1166 75 23 164 1320 512228596 512227472 0.000000e+00 1415
7 TraesCS5B01G469600 chr5D 84.513 749 57 25 77 808 512222517 512221811 0.000000e+00 686
8 TraesCS5B01G469600 chr5D 81.068 206 23 9 1027 1232 350898444 350898633 1.900000e-32 150
9 TraesCS5B01G469600 chr1B 86.895 641 43 12 879 1517 549374731 549375332 0.000000e+00 680
10 TraesCS5B01G469600 chr3D 90.452 199 13 5 2863 3056 610885897 610886094 1.090000e-64 257
11 TraesCS5B01G469600 chr3D 89.320 206 14 5 2859 3056 47239519 47239314 5.060000e-63 252
12 TraesCS5B01G469600 chr1D 90.000 200 15 2 2859 3053 319516444 319516643 1.410000e-63 254
13 TraesCS5B01G469600 chr1D 94.030 67 4 0 1 67 61470303 61470237 5.390000e-18 102
14 TraesCS5B01G469600 chr1D 95.312 64 3 0 1 64 114926320 114926383 5.390000e-18 102
15 TraesCS5B01G469600 chr1D 95.312 64 3 0 1 64 257463565 257463628 5.390000e-18 102
16 TraesCS5B01G469600 chr1D 95.312 64 3 0 1 64 350750236 350750299 5.390000e-18 102
17 TraesCS5B01G469600 chr1D 94.030 67 4 0 1 67 461999092 461999026 5.390000e-18 102
18 TraesCS5B01G469600 chr7D 91.005 189 13 1 2872 3056 229784083 229783895 5.060000e-63 252
19 TraesCS5B01G469600 chrUn 89.899 198 15 2 2864 3056 121739671 121739474 1.820000e-62 250
20 TraesCS5B01G469600 chr2B 89.604 202 14 6 2861 3056 172005704 172005904 1.820000e-62 250
21 TraesCS5B01G469600 chr7B 89.500 200 16 2 2862 3056 143259098 143259297 6.540000e-62 248
22 TraesCS5B01G469600 chr7B 88.945 199 17 2 2863 3056 621909126 621909324 1.090000e-59 241
23 TraesCS5B01G469600 chr1A 88.670 203 18 2 2859 3056 58287773 58287571 3.040000e-60 243
24 TraesCS5B01G469600 chr6D 95.312 64 3 0 1 64 120583572 120583635 5.390000e-18 102
25 TraesCS5B01G469600 chr6D 94.030 67 4 0 1 67 248441172 248441106 5.390000e-18 102
26 TraesCS5B01G469600 chr6D 95.312 64 3 0 1 64 273896982 273897045 5.390000e-18 102


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 TraesCS5B01G469600 chr5B 643259561 643262616 3055 True 5644.000000 5644 100.000000 1 3056 1 chr5B.!!$R2 3055
1 TraesCS5B01G469600 chr5A 640617551 640620095 2544 True 1130.666667 3040 90.605333 319 2836 3 chr5A.!!$R1 2517
2 TraesCS5B01G469600 chr5D 512218752 512222517 3765 True 1855.000000 3024 89.868000 77 2737 2 chr5D.!!$R2 2660
3 TraesCS5B01G469600 chr5D 512227472 512228596 1124 True 1415.000000 1415 89.280000 164 1320 1 chr5D.!!$R1 1156
4 TraesCS5B01G469600 chr1B 549374731 549375332 601 False 680.000000 680 86.895000 879 1517 1 chr1B.!!$F1 638

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
282 289 0.038343 TGCGAAAAGAGCAAATGCCC 60.038 50.0 0.94 0.0 42.18 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2206 3406 1.473278 AGAGCTTGACCGTAGCAGTAC 59.527 52.381 0.0 0.0 41.11 2.73 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
22 23 5.418310 TGCTAGTTGTGTTGCTCTTAAAC 57.582 39.130 0.00 0.00 0.00 2.01
23 24 4.025229 TGCTAGTTGTGTTGCTCTTAAACG 60.025 41.667 0.00 0.00 0.00 3.60
24 25 4.210537 GCTAGTTGTGTTGCTCTTAAACGA 59.789 41.667 0.00 0.00 0.00 3.85
25 26 4.795970 AGTTGTGTTGCTCTTAAACGAG 57.204 40.909 0.00 0.00 0.00 4.18
26 27 4.189231 AGTTGTGTTGCTCTTAAACGAGT 58.811 39.130 0.00 0.00 33.55 4.18
27 28 4.034048 AGTTGTGTTGCTCTTAAACGAGTG 59.966 41.667 0.00 0.00 33.55 3.51
28 29 3.787785 TGTGTTGCTCTTAAACGAGTGA 58.212 40.909 0.00 0.00 33.55 3.41
29 30 3.554324 TGTGTTGCTCTTAAACGAGTGAC 59.446 43.478 0.00 0.00 33.55 3.67
30 31 3.802685 GTGTTGCTCTTAAACGAGTGACT 59.197 43.478 0.00 0.00 33.55 3.41
31 32 3.802139 TGTTGCTCTTAAACGAGTGACTG 59.198 43.478 0.00 0.00 33.55 3.51
32 33 2.404215 TGCTCTTAAACGAGTGACTGC 58.596 47.619 0.00 0.00 33.55 4.40
33 34 2.223947 TGCTCTTAAACGAGTGACTGCA 60.224 45.455 0.00 0.00 33.55 4.41
34 35 2.155924 GCTCTTAAACGAGTGACTGCAC 59.844 50.000 0.00 0.00 45.49 4.57
35 36 2.731976 CTCTTAAACGAGTGACTGCACC 59.268 50.000 0.00 0.00 46.32 5.01
36 37 2.101750 TCTTAAACGAGTGACTGCACCA 59.898 45.455 0.00 0.00 46.32 4.17
37 38 2.148916 TAAACGAGTGACTGCACCAG 57.851 50.000 0.00 0.00 46.32 4.00
38 39 0.532862 AAACGAGTGACTGCACCAGG 60.533 55.000 0.00 0.00 46.32 4.45
39 40 1.686325 AACGAGTGACTGCACCAGGT 61.686 55.000 0.00 0.00 46.32 4.00
40 41 1.665916 CGAGTGACTGCACCAGGTG 60.666 63.158 16.16 16.16 46.32 4.00
67 68 7.750229 TTGATGCTATCAATTATCTTCCCAC 57.250 36.000 7.27 0.00 43.84 4.61
68 69 6.840527 TGATGCTATCAATTATCTTCCCACA 58.159 36.000 0.00 0.00 36.11 4.17
69 70 6.938596 TGATGCTATCAATTATCTTCCCACAG 59.061 38.462 0.00 0.00 36.11 3.66
70 71 6.499106 TGCTATCAATTATCTTCCCACAGA 57.501 37.500 0.00 0.00 0.00 3.41
71 72 6.899089 TGCTATCAATTATCTTCCCACAGAA 58.101 36.000 0.00 0.00 0.00 3.02
72 73 7.345691 TGCTATCAATTATCTTCCCACAGAAA 58.654 34.615 0.00 0.00 32.88 2.52
73 74 8.000709 TGCTATCAATTATCTTCCCACAGAAAT 58.999 33.333 0.00 0.00 32.88 2.17
74 75 8.854117 GCTATCAATTATCTTCCCACAGAAATT 58.146 33.333 0.00 0.00 32.88 1.82
86 87 6.514947 TCCCACAGAAATTCAGATGTTTTTG 58.485 36.000 0.00 0.00 0.00 2.44
104 105 8.555166 TGTTTTTGATTTCACTATTCAACGAC 57.445 30.769 0.00 0.00 0.00 4.34
105 106 7.646130 TGTTTTTGATTTCACTATTCAACGACC 59.354 33.333 0.00 0.00 0.00 4.79
114 115 5.869344 TCACTATTCAACGACCTCATTTGAG 59.131 40.000 0.39 0.39 41.71 3.02
173 180 6.094603 AGCCAATTGCATAACAACAACAAAAA 59.905 30.769 0.00 0.00 42.27 1.94
182 189 8.938928 GCATAACAACAACAAAAATTTAAACGG 58.061 29.630 0.00 0.00 0.00 4.44
210 217 3.616219 ACCTAGCCAAATAAATCGCACA 58.384 40.909 0.00 0.00 0.00 4.57
220 227 6.199531 CCAAATAAATCGCACATTTCCATCAG 59.800 38.462 0.00 0.00 0.00 2.90
282 289 0.038343 TGCGAAAAGAGCAAATGCCC 60.038 50.000 0.94 0.00 42.18 5.36
292 299 7.480760 AAAGAGCAAATGCCCTATTCTAAAA 57.519 32.000 0.94 0.00 43.38 1.52
294 301 7.282332 AGAGCAAATGCCCTATTCTAAAATC 57.718 36.000 0.94 0.00 43.38 2.17
295 302 6.016777 AGAGCAAATGCCCTATTCTAAAATCG 60.017 38.462 0.94 0.00 43.38 3.34
300 307 8.352201 CAAATGCCCTATTCTAAAATCGATCAA 58.648 33.333 0.00 0.00 0.00 2.57
302 309 5.465390 TGCCCTATTCTAAAATCGATCAACG 59.535 40.000 0.00 0.00 44.09 4.10
317 324 2.710377 TCAACGCTTACAATGCCATCT 58.290 42.857 0.00 0.00 0.00 2.90
318 325 3.081061 TCAACGCTTACAATGCCATCTT 58.919 40.909 0.00 0.00 0.00 2.40
380 388 2.434359 CCGTCTTCTTCCCGCACC 60.434 66.667 0.00 0.00 0.00 5.01
427 435 2.308344 CGGAGCTCGATGTCGACTA 58.692 57.895 17.92 3.52 44.22 2.59
440 448 5.977725 CGATGTCGACTATGTACCTTCAAAT 59.022 40.000 17.92 0.00 43.02 2.32
447 455 7.068962 TCGACTATGTACCTTCAAATCACCATA 59.931 37.037 0.00 0.00 0.00 2.74
448 456 7.872993 CGACTATGTACCTTCAAATCACCATAT 59.127 37.037 0.00 0.00 0.00 1.78
492 504 5.575606 CGGTCGACTTGAATGTAAACATACT 59.424 40.000 16.46 0.00 35.10 2.12
502 514 9.647797 TTGAATGTAAACATACTGTAGTAGTGG 57.352 33.333 0.00 0.00 40.65 4.00
503 515 9.027202 TGAATGTAAACATACTGTAGTAGTGGA 57.973 33.333 0.00 0.00 40.65 4.02
507 519 8.950210 TGTAAACATACTGTAGTAGTGGAGTAC 58.050 37.037 0.00 0.00 40.65 2.73
582 594 2.012673 GGCATCAACCATCACAGTCTC 58.987 52.381 0.00 0.00 0.00 3.36
597 609 2.765135 CAGTCTCAGATGGGTCTCATGT 59.235 50.000 0.00 0.00 35.97 3.21
598 610 2.765135 AGTCTCAGATGGGTCTCATGTG 59.235 50.000 3.37 3.37 45.38 3.21
698 728 0.339859 ATCCCAGCACTACTCTCCCA 59.660 55.000 0.00 0.00 0.00 4.37
699 729 0.614979 TCCCAGCACTACTCTCCCAC 60.615 60.000 0.00 0.00 0.00 4.61
700 730 0.616111 CCCAGCACTACTCTCCCACT 60.616 60.000 0.00 0.00 0.00 4.00
801 842 1.047801 TTCTGCCTTTTTCCCAAGCC 58.952 50.000 0.00 0.00 0.00 4.35
831 2006 2.395619 AGGCTGCCCGTAGTAACTAAT 58.604 47.619 16.57 0.00 35.76 1.73
958 2152 2.276868 CGTCGCCGGTGTACGTAG 60.277 66.667 23.16 6.93 42.24 3.51
959 2153 2.577911 GTCGCCGGTGTACGTAGC 60.578 66.667 16.01 0.00 42.24 3.58
960 2154 3.814268 TCGCCGGTGTACGTAGCC 61.814 66.667 16.01 0.29 42.24 3.93
961 2155 4.118995 CGCCGGTGTACGTAGCCA 62.119 66.667 6.91 0.00 42.24 4.75
1650 2848 3.812019 CGCCGCACCGACTACTCT 61.812 66.667 0.00 0.00 0.00 3.24
1653 2851 2.396955 CCGCACCGACTACTCTCGT 61.397 63.158 0.00 0.00 31.35 4.18
2001 3199 3.760035 GCCTCCGTCTTCGCCTCA 61.760 66.667 0.00 0.00 35.54 3.86
2092 3291 4.458295 CCTCCCTACATACGTACATACCAG 59.542 50.000 0.00 0.00 0.00 4.00
2172 3372 2.351276 GCCATTGACGGTCCACCT 59.649 61.111 5.55 0.00 0.00 4.00
2185 3385 2.659016 CACCTGGAGCTCGAGCAA 59.341 61.111 36.87 21.46 45.16 3.91
2206 3406 5.163814 GCAAGAGCTCAACAATGGTAGTAAG 60.164 44.000 17.77 0.00 37.91 2.34
2394 3594 4.076394 TGAGGTTTTTACCCCGAGAATTG 58.924 43.478 0.00 0.00 0.00 2.32
2447 3647 6.485830 AACAGGCTCTTGCTGTAATATAGA 57.514 37.500 0.00 0.00 39.59 1.98
2448 3648 6.095432 ACAGGCTCTTGCTGTAATATAGAG 57.905 41.667 0.00 0.00 39.59 2.43
2471 3671 8.133627 AGAGAGAGATGTTGTCAAAACAAATTG 58.866 33.333 0.00 0.00 46.56 2.32
2477 3677 5.098893 TGTTGTCAAAACAAATTGAGTCCG 58.901 37.500 0.00 0.00 46.56 4.79
2481 3681 3.697045 TCAAAACAAATTGAGTCCGTGGT 59.303 39.130 0.00 0.00 34.50 4.16
2517 3717 1.955080 GGTCGTCTCCATCGTAATCCT 59.045 52.381 0.00 0.00 0.00 3.24
2532 3732 9.204570 CATCGTAATCCTAGATTAATTTTCGGT 57.795 33.333 0.00 0.00 0.00 4.69
2590 3790 3.797546 GCCGCACTTGCAGCTCTC 61.798 66.667 2.05 0.00 41.03 3.20
2639 3841 5.712152 AATCACTTTCCTTGACCAATCAC 57.288 39.130 0.00 0.00 33.38 3.06
2640 3842 3.486383 TCACTTTCCTTGACCAATCACC 58.514 45.455 0.00 0.00 33.38 4.02
2689 3891 1.571457 TCTCTTACTCCCTCCTCCAGG 59.429 57.143 0.00 0.00 43.01 4.45
2746 3948 3.731652 TGACCAAATTTCCACAGCAAG 57.268 42.857 0.00 0.00 0.00 4.01
2750 3952 4.696455 ACCAAATTTCCACAGCAAGAAAG 58.304 39.130 0.00 0.00 35.57 2.62
2755 3957 6.469782 AATTTCCACAGCAAGAAAGAAAGA 57.530 33.333 0.00 0.00 35.57 2.52
2756 3958 5.913137 TTTCCACAGCAAGAAAGAAAGAA 57.087 34.783 0.00 0.00 0.00 2.52
2757 3959 5.913137 TTCCACAGCAAGAAAGAAAGAAA 57.087 34.783 0.00 0.00 0.00 2.52
2800 4002 8.883731 AGAAAAATATCCACATCTACAACTTCG 58.116 33.333 0.00 0.00 0.00 3.79
2817 4019 6.014499 ACAACTTCGGAGATATATAGGGGTTG 60.014 42.308 0.00 0.00 35.04 3.77
2823 4025 5.254115 GGAGATATATAGGGGTTGTTTGGC 58.746 45.833 0.00 0.00 0.00 4.52
2839 4041 4.722193 GCTGGCAACTGGCTCTAA 57.278 55.556 4.78 0.00 44.01 2.10
2840 4042 3.181526 GCTGGCAACTGGCTCTAAT 57.818 52.632 4.78 0.00 44.01 1.73
2841 4043 1.467920 GCTGGCAACTGGCTCTAATT 58.532 50.000 4.78 0.00 44.01 1.40
2842 4044 1.821136 GCTGGCAACTGGCTCTAATTT 59.179 47.619 4.78 0.00 44.01 1.82
2843 4045 2.232208 GCTGGCAACTGGCTCTAATTTT 59.768 45.455 4.78 0.00 44.01 1.82
2844 4046 3.674410 GCTGGCAACTGGCTCTAATTTTC 60.674 47.826 4.78 0.00 44.01 2.29
2845 4047 3.760684 CTGGCAACTGGCTCTAATTTTCT 59.239 43.478 4.78 0.00 44.01 2.52
2846 4048 4.151883 TGGCAACTGGCTCTAATTTTCTT 58.848 39.130 4.78 0.00 44.01 2.52
2847 4049 4.588528 TGGCAACTGGCTCTAATTTTCTTT 59.411 37.500 4.78 0.00 44.01 2.52
2848 4050 4.925646 GGCAACTGGCTCTAATTTTCTTTG 59.074 41.667 0.00 0.00 44.01 2.77
2849 4051 5.278957 GGCAACTGGCTCTAATTTTCTTTGA 60.279 40.000 0.00 0.00 44.01 2.69
2850 4052 5.860716 GCAACTGGCTCTAATTTTCTTTGAG 59.139 40.000 0.00 0.00 40.25 3.02
2851 4053 6.385033 CAACTGGCTCTAATTTTCTTTGAGG 58.615 40.000 0.00 0.00 0.00 3.86
2852 4054 5.012893 ACTGGCTCTAATTTTCTTTGAGGG 58.987 41.667 0.00 0.00 0.00 4.30
2853 4055 4.344104 TGGCTCTAATTTTCTTTGAGGGG 58.656 43.478 0.00 0.00 0.00 4.79
2854 4056 4.044065 TGGCTCTAATTTTCTTTGAGGGGA 59.956 41.667 0.00 0.00 0.00 4.81
2855 4057 4.642437 GGCTCTAATTTTCTTTGAGGGGAG 59.358 45.833 0.00 0.00 0.00 4.30
2856 4058 5.257262 GCTCTAATTTTCTTTGAGGGGAGT 58.743 41.667 0.00 0.00 0.00 3.85
2857 4059 5.355630 GCTCTAATTTTCTTTGAGGGGAGTC 59.644 44.000 0.00 0.00 0.00 3.36
2858 4060 5.816682 TCTAATTTTCTTTGAGGGGAGTCC 58.183 41.667 0.00 0.00 0.00 3.85
2869 4071 2.284151 GGAGTCCCTCTCTCCCCC 59.716 72.222 0.00 0.00 43.90 5.40
2870 4072 2.123640 GAGTCCCTCTCTCCCCCG 60.124 72.222 0.00 0.00 39.86 5.73
2871 4073 2.617538 AGTCCCTCTCTCCCCCGA 60.618 66.667 0.00 0.00 0.00 5.14
2872 4074 2.442458 GTCCCTCTCTCCCCCGAC 60.442 72.222 0.00 0.00 0.00 4.79
2873 4075 3.752167 TCCCTCTCTCCCCCGACC 61.752 72.222 0.00 0.00 0.00 4.79
2874 4076 3.756783 CCCTCTCTCCCCCGACCT 61.757 72.222 0.00 0.00 0.00 3.85
2875 4077 2.123640 CCTCTCTCCCCCGACCTC 60.124 72.222 0.00 0.00 0.00 3.85
2876 4078 2.695970 CCTCTCTCCCCCGACCTCT 61.696 68.421 0.00 0.00 0.00 3.69
2877 4079 1.152839 CTCTCTCCCCCGACCTCTC 60.153 68.421 0.00 0.00 0.00 3.20
2878 4080 1.619975 TCTCTCCCCCGACCTCTCT 60.620 63.158 0.00 0.00 0.00 3.10
2879 4081 1.152839 CTCTCCCCCGACCTCTCTC 60.153 68.421 0.00 0.00 0.00 3.20
2880 4082 2.123640 CTCCCCCGACCTCTCTCC 60.124 72.222 0.00 0.00 0.00 3.71
2881 4083 3.742248 CTCCCCCGACCTCTCTCCC 62.742 73.684 0.00 0.00 0.00 4.30
2882 4084 4.075793 CCCCCGACCTCTCTCCCA 62.076 72.222 0.00 0.00 0.00 4.37
2883 4085 2.760385 CCCCGACCTCTCTCCCAC 60.760 72.222 0.00 0.00 0.00 4.61
2884 4086 3.141488 CCCGACCTCTCTCCCACG 61.141 72.222 0.00 0.00 0.00 4.94
2885 4087 2.045242 CCGACCTCTCTCCCACGA 60.045 66.667 0.00 0.00 0.00 4.35
2886 4088 2.115911 CCGACCTCTCTCCCACGAG 61.116 68.421 0.00 0.00 37.48 4.18
2889 4091 3.522731 CCTCTCTCCCACGAGGCG 61.523 72.222 0.00 0.00 40.27 5.52
2890 4092 3.522731 CTCTCTCCCACGAGGCGG 61.523 72.222 0.00 0.00 36.70 6.13
2891 4093 4.361971 TCTCTCCCACGAGGCGGT 62.362 66.667 0.00 0.00 36.70 5.68
2892 4094 4.135153 CTCTCCCACGAGGCGGTG 62.135 72.222 4.97 4.97 36.70 4.94
2927 4129 3.703127 GGGAGTCCCCGTCCACAC 61.703 72.222 18.55 0.00 44.02 3.82
2928 4130 3.703127 GGAGTCCCCGTCCACACC 61.703 72.222 0.00 0.00 33.84 4.16
2929 4131 4.065281 GAGTCCCCGTCCACACCG 62.065 72.222 0.00 0.00 0.00 4.94
2930 4132 4.928140 AGTCCCCGTCCACACCGT 62.928 66.667 0.00 0.00 0.00 4.83
2931 4133 4.368543 GTCCCCGTCCACACCGTC 62.369 72.222 0.00 0.00 0.00 4.79
2934 4136 4.065281 CCCGTCCACACCGTCCTC 62.065 72.222 0.00 0.00 0.00 3.71
2935 4137 3.299977 CCGTCCACACCGTCCTCA 61.300 66.667 0.00 0.00 0.00 3.86
2936 4138 2.258591 CGTCCACACCGTCCTCAG 59.741 66.667 0.00 0.00 0.00 3.35
2937 4139 2.048127 GTCCACACCGTCCTCAGC 60.048 66.667 0.00 0.00 0.00 4.26
2938 4140 3.311110 TCCACACCGTCCTCAGCC 61.311 66.667 0.00 0.00 0.00 4.85
2939 4141 4.394712 CCACACCGTCCTCAGCCC 62.395 72.222 0.00 0.00 0.00 5.19
2940 4142 3.314331 CACACCGTCCTCAGCCCT 61.314 66.667 0.00 0.00 0.00 5.19
2941 4143 2.997897 ACACCGTCCTCAGCCCTC 60.998 66.667 0.00 0.00 0.00 4.30
2942 4144 3.775654 CACCGTCCTCAGCCCTCC 61.776 72.222 0.00 0.00 0.00 4.30
2946 4148 4.423209 GTCCTCAGCCCTCCCCCT 62.423 72.222 0.00 0.00 0.00 4.79
2947 4149 4.095400 TCCTCAGCCCTCCCCCTC 62.095 72.222 0.00 0.00 0.00 4.30
2949 4151 4.421554 CTCAGCCCTCCCCCTCCA 62.422 72.222 0.00 0.00 0.00 3.86
2950 4152 3.710631 TCAGCCCTCCCCCTCCAT 61.711 66.667 0.00 0.00 0.00 3.41
2951 4153 3.174265 CAGCCCTCCCCCTCCATC 61.174 72.222 0.00 0.00 0.00 3.51
2952 4154 4.888325 AGCCCTCCCCCTCCATCG 62.888 72.222 0.00 0.00 0.00 3.84
2954 4156 2.844839 CCCTCCCCCTCCATCGTC 60.845 72.222 0.00 0.00 0.00 4.20
2955 4157 2.283809 CCTCCCCCTCCATCGTCT 59.716 66.667 0.00 0.00 0.00 4.18
2956 4158 1.834822 CCTCCCCCTCCATCGTCTC 60.835 68.421 0.00 0.00 0.00 3.36
2957 4159 1.834822 CTCCCCCTCCATCGTCTCC 60.835 68.421 0.00 0.00 0.00 3.71
2958 4160 2.844839 CCCCCTCCATCGTCTCCC 60.845 72.222 0.00 0.00 0.00 4.30
2959 4161 2.041922 CCCCTCCATCGTCTCCCA 60.042 66.667 0.00 0.00 0.00 4.37
2960 4162 2.435693 CCCCTCCATCGTCTCCCAC 61.436 68.421 0.00 0.00 0.00 4.61
2961 4163 1.381872 CCCTCCATCGTCTCCCACT 60.382 63.158 0.00 0.00 0.00 4.00
2962 4164 0.106167 CCCTCCATCGTCTCCCACTA 60.106 60.000 0.00 0.00 0.00 2.74
2963 4165 1.033574 CCTCCATCGTCTCCCACTAC 58.966 60.000 0.00 0.00 0.00 2.73
2964 4166 1.033574 CTCCATCGTCTCCCACTACC 58.966 60.000 0.00 0.00 0.00 3.18
2965 4167 0.750546 TCCATCGTCTCCCACTACCG 60.751 60.000 0.00 0.00 0.00 4.02
2966 4168 1.065928 CATCGTCTCCCACTACCGC 59.934 63.158 0.00 0.00 0.00 5.68
2967 4169 2.125961 ATCGTCTCCCACTACCGCC 61.126 63.158 0.00 0.00 0.00 6.13
2968 4170 4.189188 CGTCTCCCACTACCGCCG 62.189 72.222 0.00 0.00 0.00 6.46
2969 4171 4.509737 GTCTCCCACTACCGCCGC 62.510 72.222 0.00 0.00 0.00 6.53
2982 4184 4.814294 GCCGCCGTCGTTGAGGAT 62.814 66.667 0.00 0.00 0.00 3.24
2983 4185 2.885644 CCGCCGTCGTTGAGGATG 60.886 66.667 0.00 0.00 0.00 3.51
2984 4186 3.554692 CGCCGTCGTTGAGGATGC 61.555 66.667 0.00 0.00 0.00 3.91
2985 4187 3.195698 GCCGTCGTTGAGGATGCC 61.196 66.667 0.00 0.00 0.00 4.40
2986 4188 2.885644 CCGTCGTTGAGGATGCCG 60.886 66.667 0.00 0.00 0.00 5.69
2987 4189 3.554692 CGTCGTTGAGGATGCCGC 61.555 66.667 0.00 0.00 0.00 6.53
2988 4190 3.554692 GTCGTTGAGGATGCCGCG 61.555 66.667 0.00 0.00 0.00 6.46
2989 4191 4.812476 TCGTTGAGGATGCCGCGG 62.812 66.667 24.05 24.05 0.00 6.46
3009 4211 2.046892 CGAAGCCCCTGTGGTGAG 60.047 66.667 0.00 0.00 36.04 3.51
3010 4212 2.352805 GAAGCCCCTGTGGTGAGG 59.647 66.667 0.00 0.00 36.04 3.86
3011 4213 3.927481 GAAGCCCCTGTGGTGAGGC 62.927 68.421 0.00 0.00 46.13 4.70
3033 4235 4.357947 GCGACGGTGCTGTCCTCA 62.358 66.667 5.66 0.00 35.40 3.86
3034 4236 2.126307 CGACGGTGCTGTCCTCAG 60.126 66.667 5.66 0.00 43.87 3.35
3042 4244 4.478195 CTGTCCTCAGCCGTAACG 57.522 61.111 0.00 0.00 34.79 3.18
3043 4245 1.805945 CTGTCCTCAGCCGTAACGC 60.806 63.158 0.00 0.00 34.79 4.84
3044 4246 2.879462 GTCCTCAGCCGTAACGCG 60.879 66.667 3.53 3.53 40.95 6.01
3045 4247 3.367743 TCCTCAGCCGTAACGCGT 61.368 61.111 5.58 5.58 39.32 6.01
3046 4248 3.179265 CCTCAGCCGTAACGCGTG 61.179 66.667 14.98 0.00 39.32 5.34
3047 4249 3.179265 CTCAGCCGTAACGCGTGG 61.179 66.667 14.98 11.79 39.32 4.94
3048 4250 4.728102 TCAGCCGTAACGCGTGGG 62.728 66.667 14.98 16.38 39.32 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.210537 TCGTTTAAGAGCAACACAACTAGC 59.789 41.667 0.00 0.00 0.00 3.42
4 5 4.034048 CACTCGTTTAAGAGCAACACAACT 59.966 41.667 0.00 0.00 41.77 3.16
5 6 4.033587 TCACTCGTTTAAGAGCAACACAAC 59.966 41.667 0.00 0.00 41.77 3.32
7 8 3.554324 GTCACTCGTTTAAGAGCAACACA 59.446 43.478 0.00 0.00 41.77 3.72
8 9 3.802685 AGTCACTCGTTTAAGAGCAACAC 59.197 43.478 0.00 0.00 41.77 3.32
9 10 3.802139 CAGTCACTCGTTTAAGAGCAACA 59.198 43.478 0.00 0.00 41.77 3.33
10 11 3.363084 GCAGTCACTCGTTTAAGAGCAAC 60.363 47.826 0.00 0.00 41.77 4.17
11 12 2.800544 GCAGTCACTCGTTTAAGAGCAA 59.199 45.455 0.00 0.00 41.77 3.91
12 13 2.223947 TGCAGTCACTCGTTTAAGAGCA 60.224 45.455 0.00 0.00 41.77 4.26
13 14 2.155924 GTGCAGTCACTCGTTTAAGAGC 59.844 50.000 0.00 0.00 41.77 4.09
14 15 2.731976 GGTGCAGTCACTCGTTTAAGAG 59.268 50.000 0.00 0.00 42.72 2.85
15 16 2.101750 TGGTGCAGTCACTCGTTTAAGA 59.898 45.455 0.00 0.00 42.72 2.10
16 17 2.476619 CTGGTGCAGTCACTCGTTTAAG 59.523 50.000 0.00 0.00 42.72 1.85
17 18 2.479837 CTGGTGCAGTCACTCGTTTAA 58.520 47.619 0.00 0.00 42.72 1.52
18 19 1.270094 CCTGGTGCAGTCACTCGTTTA 60.270 52.381 0.00 0.00 42.72 2.01
19 20 0.532862 CCTGGTGCAGTCACTCGTTT 60.533 55.000 0.00 0.00 42.72 3.60
20 21 1.069765 CCTGGTGCAGTCACTCGTT 59.930 57.895 0.00 0.00 42.72 3.85
21 22 2.134287 ACCTGGTGCAGTCACTCGT 61.134 57.895 0.00 0.00 42.72 4.18
22 23 1.665916 CACCTGGTGCAGTCACTCG 60.666 63.158 14.87 0.00 42.72 4.18
23 24 4.368391 CACCTGGTGCAGTCACTC 57.632 61.111 14.87 0.00 42.72 3.51
44 45 6.840527 TGTGGGAAGATAATTGATAGCATCA 58.159 36.000 0.00 0.00 37.55 3.07
45 46 7.164122 TCTGTGGGAAGATAATTGATAGCATC 58.836 38.462 0.00 0.00 0.00 3.91
46 47 7.083062 TCTGTGGGAAGATAATTGATAGCAT 57.917 36.000 0.00 0.00 0.00 3.79
47 48 6.499106 TCTGTGGGAAGATAATTGATAGCA 57.501 37.500 0.00 0.00 0.00 3.49
48 49 7.807977 TTTCTGTGGGAAGATAATTGATAGC 57.192 36.000 0.00 0.00 35.16 2.97
50 51 9.919416 TGAATTTCTGTGGGAAGATAATTGATA 57.081 29.630 0.00 0.00 35.16 2.15
51 52 8.827832 TGAATTTCTGTGGGAAGATAATTGAT 57.172 30.769 0.00 0.00 35.16 2.57
52 53 8.108999 TCTGAATTTCTGTGGGAAGATAATTGA 58.891 33.333 0.00 0.00 35.16 2.57
53 54 8.284945 TCTGAATTTCTGTGGGAAGATAATTG 57.715 34.615 0.00 0.00 35.16 2.32
54 55 8.910944 CATCTGAATTTCTGTGGGAAGATAATT 58.089 33.333 0.00 0.00 35.16 1.40
55 56 8.057623 ACATCTGAATTTCTGTGGGAAGATAAT 58.942 33.333 0.00 0.00 35.16 1.28
56 57 7.405292 ACATCTGAATTTCTGTGGGAAGATAA 58.595 34.615 0.00 0.00 35.16 1.75
57 58 6.962182 ACATCTGAATTTCTGTGGGAAGATA 58.038 36.000 0.00 0.00 35.16 1.98
58 59 5.824421 ACATCTGAATTTCTGTGGGAAGAT 58.176 37.500 0.00 0.00 35.16 2.40
59 60 5.246981 ACATCTGAATTTCTGTGGGAAGA 57.753 39.130 0.00 0.00 35.16 2.87
60 61 5.972107 AACATCTGAATTTCTGTGGGAAG 57.028 39.130 0.00 0.00 35.16 3.46
61 62 6.729690 AAAACATCTGAATTTCTGTGGGAA 57.270 33.333 0.00 0.00 0.00 3.97
62 63 6.323482 TCAAAAACATCTGAATTTCTGTGGGA 59.677 34.615 0.00 0.00 0.00 4.37
63 64 6.514947 TCAAAAACATCTGAATTTCTGTGGG 58.485 36.000 0.00 0.00 0.00 4.61
64 65 8.597662 AATCAAAAACATCTGAATTTCTGTGG 57.402 30.769 0.00 0.00 0.00 4.17
66 67 9.820725 TGAAATCAAAAACATCTGAATTTCTGT 57.179 25.926 0.00 0.00 0.00 3.41
86 87 6.910536 ATGAGGTCGTTGAATAGTGAAATC 57.089 37.500 0.00 0.00 0.00 2.17
119 120 1.682257 GAAAGTGCCCCTCTGCTCT 59.318 57.895 0.00 0.00 36.70 4.09
124 125 0.467290 TTTTGCGAAAGTGCCCCTCT 60.467 50.000 0.00 0.00 0.00 3.69
126 127 2.510664 TTTTTGCGAAAGTGCCCCT 58.489 47.368 0.00 0.00 0.00 4.79
149 156 5.415415 TTTGTTGTTGTTATGCAATTGGC 57.585 34.783 7.72 0.15 39.55 4.52
150 157 8.853469 AATTTTTGTTGTTGTTATGCAATTGG 57.147 26.923 7.72 0.00 39.55 3.16
182 189 6.856426 GCGATTTATTTGGCTAGGTATTTGAC 59.144 38.462 0.00 0.00 0.00 3.18
205 212 2.609002 TCGAATCTGATGGAAATGTGCG 59.391 45.455 0.00 0.00 0.00 5.34
220 227 8.825667 AGCTTTCCTTATCTCTAAATCGAATC 57.174 34.615 0.00 0.00 0.00 2.52
278 285 5.465390 CGTTGATCGATTTTAGAATAGGGCA 59.535 40.000 0.00 0.00 42.86 5.36
282 289 8.752254 TGTAAGCGTTGATCGATTTTAGAATAG 58.248 33.333 0.00 0.00 46.04 1.73
292 299 2.287915 GGCATTGTAAGCGTTGATCGAT 59.712 45.455 0.00 0.00 42.86 3.59
294 301 1.396648 TGGCATTGTAAGCGTTGATCG 59.603 47.619 0.00 0.00 43.12 3.69
295 302 3.313526 AGATGGCATTGTAAGCGTTGATC 59.686 43.478 0.00 0.00 0.00 2.92
300 307 4.881273 TGATAAAGATGGCATTGTAAGCGT 59.119 37.500 0.00 0.00 0.00 5.07
302 309 7.761249 AGTTTTGATAAAGATGGCATTGTAAGC 59.239 33.333 0.00 0.00 0.00 3.09
317 324 9.719279 CGGTGTGTAAGTTTTAGTTTTGATAAA 57.281 29.630 0.00 0.00 0.00 1.40
318 325 8.344098 CCGGTGTGTAAGTTTTAGTTTTGATAA 58.656 33.333 0.00 0.00 0.00 1.75
391 399 4.707840 CTCGCAACACGCACGCTG 62.708 66.667 0.00 0.00 42.60 5.18
427 435 9.784531 CTTCTATATGGTGATTTGAAGGTACAT 57.215 33.333 0.00 0.00 0.00 2.29
440 448 2.288213 CGCCGCTTCTTCTATATGGTGA 60.288 50.000 0.00 0.00 0.00 4.02
447 455 2.279517 CGCCGCCGCTTCTTCTAT 60.280 61.111 0.00 0.00 0.00 1.98
448 456 4.508128 CCGCCGCCGCTTCTTCTA 62.508 66.667 0.00 0.00 0.00 2.10
507 519 9.462174 TTGCAGTTGAACATCTAAACAAAATAG 57.538 29.630 0.00 0.00 0.00 1.73
582 594 1.065636 AGCACACATGAGACCCATCTG 60.066 52.381 0.00 0.00 34.34 2.90
588 600 0.036577 AGCAGAGCACACATGAGACC 60.037 55.000 0.00 0.00 0.00 3.85
597 609 1.183676 TCAGAGCAGAGCAGAGCACA 61.184 55.000 0.00 0.00 0.00 4.57
598 610 0.176219 ATCAGAGCAGAGCAGAGCAC 59.824 55.000 0.00 0.00 0.00 4.40
641 658 3.662247 AGAGAAACTTACTGGGTCGTG 57.338 47.619 0.00 0.00 0.00 4.35
698 728 0.465824 AGGATGCGGCGACTAGTAGT 60.466 55.000 12.98 1.37 0.00 2.73
699 729 0.238817 GAGGATGCGGCGACTAGTAG 59.761 60.000 12.98 0.00 0.00 2.57
700 730 1.170919 GGAGGATGCGGCGACTAGTA 61.171 60.000 12.98 0.00 0.00 1.82
801 842 1.077429 GGGCAGCCTAAACAGAGGG 60.077 63.158 12.43 0.00 37.06 4.30
831 2006 6.630203 TTATAGGGTGGTTAGCAAGAGAAA 57.370 37.500 0.00 0.00 0.00 2.52
996 2194 0.668706 CGGAGATCATCGGCATGGTC 60.669 60.000 0.00 3.02 40.14 4.02
1345 2543 2.365635 CTGGTCGGGGTCCTGGAT 60.366 66.667 0.00 0.00 0.00 3.41
2092 3291 2.650608 GTGCGGATTGTTTCTTGTGTC 58.349 47.619 0.00 0.00 0.00 3.67
2185 3385 5.746990 ACTTACTACCATTGTTGAGCTCT 57.253 39.130 16.19 0.00 0.00 4.09
2200 3400 4.095483 GCTTGACCGTAGCAGTACTTACTA 59.905 45.833 0.00 0.00 38.51 1.82
2206 3406 1.473278 AGAGCTTGACCGTAGCAGTAC 59.527 52.381 0.00 0.00 41.11 2.73
2447 3647 7.999679 TCAATTTGTTTTGACAACATCTCTCT 58.000 30.769 0.00 0.00 30.82 3.10
2448 3648 7.917505 ACTCAATTTGTTTTGACAACATCTCTC 59.082 33.333 0.00 0.00 32.39 3.20
2471 3671 5.878669 AGTAAATATTCCAAACCACGGACTC 59.121 40.000 0.00 0.00 30.29 3.36
2477 3677 6.072342 ACGACCAAGTAAATATTCCAAACCAC 60.072 38.462 0.00 0.00 0.00 4.16
2481 3681 6.596497 GGAGACGACCAAGTAAATATTCCAAA 59.404 38.462 0.00 0.00 0.00 3.28
2517 3717 7.177832 TGAGTGGAGACCGAAAATTAATCTA 57.822 36.000 0.00 0.00 0.00 1.98
2532 3732 2.305928 GATAGCTCAGCTGAGTGGAGA 58.694 52.381 37.25 21.69 43.85 3.71
2599 3799 6.183347 AGTGATTAAGTTAAGAATGCTGCCT 58.817 36.000 1.21 0.00 0.00 4.75
2616 3818 5.710099 GGTGATTGGTCAAGGAAAGTGATTA 59.290 40.000 0.00 0.00 35.80 1.75
2656 3858 4.381505 GGAGTAAGAGAAGAAGCCACTCTG 60.382 50.000 0.00 0.00 40.28 3.35
2672 3874 1.395826 CGCCTGGAGGAGGGAGTAAG 61.396 65.000 0.00 0.00 43.07 2.34
2689 3891 0.601057 AATGTGCCTTGTAAACCCGC 59.399 50.000 0.00 0.00 0.00 6.13
2780 3982 5.833667 TCTCCGAAGTTGTAGATGTGGATAT 59.166 40.000 0.00 0.00 0.00 1.63
2791 3993 6.797707 ACCCCTATATATCTCCGAAGTTGTA 58.202 40.000 0.00 0.00 0.00 2.41
2792 3994 5.652324 ACCCCTATATATCTCCGAAGTTGT 58.348 41.667 0.00 0.00 0.00 3.32
2799 4001 5.488341 CCAAACAACCCCTATATATCTCCG 58.512 45.833 0.00 0.00 0.00 4.63
2800 4002 5.014228 AGCCAAACAACCCCTATATATCTCC 59.986 44.000 0.00 0.00 0.00 3.71
2817 4019 2.029518 GCCAGTTGCCAGCCAAAC 59.970 61.111 0.00 0.00 34.68 2.93
2823 4025 3.760684 AGAAAATTAGAGCCAGTTGCCAG 59.239 43.478 0.00 0.00 42.71 4.85
2855 4057 2.442458 GTCGGGGGAGAGAGGGAC 60.442 72.222 0.00 0.00 0.00 4.46
2856 4058 3.752167 GGTCGGGGGAGAGAGGGA 61.752 72.222 0.00 0.00 0.00 4.20
2857 4059 3.742248 GAGGTCGGGGGAGAGAGGG 62.742 73.684 0.00 0.00 0.00 4.30
2858 4060 2.123640 GAGGTCGGGGGAGAGAGG 60.124 72.222 0.00 0.00 0.00 3.69
2859 4061 1.152839 GAGAGGTCGGGGGAGAGAG 60.153 68.421 0.00 0.00 0.00 3.20
2860 4062 1.619975 AGAGAGGTCGGGGGAGAGA 60.620 63.158 0.00 0.00 0.00 3.10
2861 4063 1.152839 GAGAGAGGTCGGGGGAGAG 60.153 68.421 0.00 0.00 0.00 3.20
2862 4064 2.691779 GGAGAGAGGTCGGGGGAGA 61.692 68.421 0.00 0.00 0.00 3.71
2863 4065 2.123640 GGAGAGAGGTCGGGGGAG 60.124 72.222 0.00 0.00 0.00 4.30
2864 4066 3.752167 GGGAGAGAGGTCGGGGGA 61.752 72.222 0.00 0.00 0.00 4.81
2865 4067 4.075793 TGGGAGAGAGGTCGGGGG 62.076 72.222 0.00 0.00 0.00 5.40
2866 4068 2.760385 GTGGGAGAGAGGTCGGGG 60.760 72.222 0.00 0.00 0.00 5.73
2867 4069 3.141488 CGTGGGAGAGAGGTCGGG 61.141 72.222 0.00 0.00 0.00 5.14
2868 4070 2.045242 TCGTGGGAGAGAGGTCGG 60.045 66.667 0.00 0.00 0.00 4.79
2869 4071 2.115911 CCTCGTGGGAGAGAGGTCG 61.116 68.421 3.49 0.00 46.68 4.79
2870 4072 3.927501 CCTCGTGGGAGAGAGGTC 58.072 66.667 3.49 0.00 46.68 3.85
2873 4075 3.522731 CCGCCTCGTGGGAGAGAG 61.523 72.222 5.54 0.00 43.27 3.20
2874 4076 4.361971 ACCGCCTCGTGGGAGAGA 62.362 66.667 5.54 0.00 43.27 3.10
2875 4077 4.135153 CACCGCCTCGTGGGAGAG 62.135 72.222 5.54 0.00 43.27 3.20
2911 4113 3.703127 GGTGTGGACGGGGACTCC 61.703 72.222 0.00 0.00 0.00 3.85
2912 4114 4.065281 CGGTGTGGACGGGGACTC 62.065 72.222 0.00 0.00 0.00 3.36
2913 4115 4.928140 ACGGTGTGGACGGGGACT 62.928 66.667 0.00 0.00 35.23 3.85
2914 4116 4.368543 GACGGTGTGGACGGGGAC 62.369 72.222 0.00 0.00 35.23 4.46
2917 4119 4.065281 GAGGACGGTGTGGACGGG 62.065 72.222 0.00 0.00 35.23 5.28
2918 4120 3.282745 CTGAGGACGGTGTGGACGG 62.283 68.421 0.00 0.00 35.23 4.79
2919 4121 2.258591 CTGAGGACGGTGTGGACG 59.741 66.667 0.00 0.00 37.36 4.79
2920 4122 2.048127 GCTGAGGACGGTGTGGAC 60.048 66.667 0.00 0.00 0.00 4.02
2921 4123 3.311110 GGCTGAGGACGGTGTGGA 61.311 66.667 0.00 0.00 0.00 4.02
2922 4124 4.394712 GGGCTGAGGACGGTGTGG 62.395 72.222 0.00 0.00 0.00 4.17
2923 4125 3.302347 GAGGGCTGAGGACGGTGTG 62.302 68.421 0.00 0.00 0.00 3.82
2924 4126 2.997897 GAGGGCTGAGGACGGTGT 60.998 66.667 0.00 0.00 0.00 4.16
2925 4127 3.775654 GGAGGGCTGAGGACGGTG 61.776 72.222 0.00 0.00 0.00 4.94
2929 4131 4.423209 AGGGGGAGGGCTGAGGAC 62.423 72.222 0.00 0.00 0.00 3.85
2930 4132 4.095400 GAGGGGGAGGGCTGAGGA 62.095 72.222 0.00 0.00 0.00 3.71
2932 4134 3.728305 ATGGAGGGGGAGGGCTGAG 62.728 68.421 0.00 0.00 0.00 3.35
2933 4135 3.710631 ATGGAGGGGGAGGGCTGA 61.711 66.667 0.00 0.00 0.00 4.26
2934 4136 3.174265 GATGGAGGGGGAGGGCTG 61.174 72.222 0.00 0.00 0.00 4.85
2935 4137 4.888325 CGATGGAGGGGGAGGGCT 62.888 72.222 0.00 0.00 0.00 5.19
2937 4139 2.844839 GACGATGGAGGGGGAGGG 60.845 72.222 0.00 0.00 0.00 4.30
2938 4140 1.834822 GAGACGATGGAGGGGGAGG 60.835 68.421 0.00 0.00 0.00 4.30
2939 4141 1.834822 GGAGACGATGGAGGGGGAG 60.835 68.421 0.00 0.00 0.00 4.30
2940 4142 2.282446 GGAGACGATGGAGGGGGA 59.718 66.667 0.00 0.00 0.00 4.81
2941 4143 2.844839 GGGAGACGATGGAGGGGG 60.845 72.222 0.00 0.00 0.00 5.40
2942 4144 2.041922 TGGGAGACGATGGAGGGG 60.042 66.667 0.00 0.00 0.00 4.79
2943 4145 0.106167 TAGTGGGAGACGATGGAGGG 60.106 60.000 0.00 0.00 0.00 4.30
2944 4146 1.033574 GTAGTGGGAGACGATGGAGG 58.966 60.000 0.00 0.00 0.00 4.30
2945 4147 1.033574 GGTAGTGGGAGACGATGGAG 58.966 60.000 0.00 0.00 0.00 3.86
2946 4148 0.750546 CGGTAGTGGGAGACGATGGA 60.751 60.000 0.00 0.00 0.00 3.41
2947 4149 1.734137 CGGTAGTGGGAGACGATGG 59.266 63.158 0.00 0.00 0.00 3.51
2948 4150 1.065928 GCGGTAGTGGGAGACGATG 59.934 63.158 0.00 0.00 0.00 3.84
2949 4151 2.125961 GGCGGTAGTGGGAGACGAT 61.126 63.158 0.00 0.00 0.00 3.73
2950 4152 2.753043 GGCGGTAGTGGGAGACGA 60.753 66.667 0.00 0.00 0.00 4.20
2951 4153 4.189188 CGGCGGTAGTGGGAGACG 62.189 72.222 0.00 0.00 0.00 4.18
2952 4154 4.509737 GCGGCGGTAGTGGGAGAC 62.510 72.222 9.78 0.00 0.00 3.36
2965 4167 4.814294 ATCCTCAACGACGGCGGC 62.814 66.667 18.49 7.52 43.17 6.53
2966 4168 2.885644 CATCCTCAACGACGGCGG 60.886 66.667 18.49 0.00 43.17 6.13
2967 4169 3.554692 GCATCCTCAACGACGGCG 61.555 66.667 10.39 10.39 44.79 6.46
2968 4170 3.195698 GGCATCCTCAACGACGGC 61.196 66.667 0.00 0.00 0.00 5.68
2969 4171 2.885644 CGGCATCCTCAACGACGG 60.886 66.667 0.00 0.00 0.00 4.79
2970 4172 3.554692 GCGGCATCCTCAACGACG 61.555 66.667 0.00 0.00 0.00 5.12
2971 4173 3.554692 CGCGGCATCCTCAACGAC 61.555 66.667 0.00 0.00 0.00 4.34
2972 4174 4.812476 CCGCGGCATCCTCAACGA 62.812 66.667 14.67 0.00 0.00 3.85
2991 4193 4.329545 TCACCACAGGGGCTTCGC 62.330 66.667 0.00 0.00 42.05 4.70
2992 4194 2.046892 CTCACCACAGGGGCTTCG 60.047 66.667 0.00 0.00 42.05 3.79
2993 4195 2.352805 CCTCACCACAGGGGCTTC 59.647 66.667 0.00 0.00 42.05 3.86
2994 4196 3.971702 GCCTCACCACAGGGGCTT 61.972 66.667 0.00 0.00 42.05 4.35
3016 4218 4.357947 TGAGGACAGCACCGTCGC 62.358 66.667 0.00 0.00 36.73 5.19
3017 4219 2.126307 CTGAGGACAGCACCGTCG 60.126 66.667 0.00 0.00 37.33 5.12
3025 4227 1.805945 GCGTTACGGCTGAGGACAG 60.806 63.158 6.94 0.00 45.91 3.51
3026 4228 2.260434 GCGTTACGGCTGAGGACA 59.740 61.111 6.94 0.00 0.00 4.02
3027 4229 2.879462 CGCGTTACGGCTGAGGAC 60.879 66.667 6.94 0.00 38.44 3.85


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

AutoCloner maintained by Alex Coulton.