Multiple sequence alignment - TraesCS7A01G321000

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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 TraesCS7A01G321000 chr7A 100.000 6177 0 0 1 6177 463200700 463206876 0.000000e+00 11407.0
1 TraesCS7A01G321000 chr7A 95.765 1818 67 8 1 1815 681006428 681008238 0.000000e+00 2922.0
2 TraesCS7A01G321000 chr7A 95.107 1819 73 10 1 1815 536619140 536617334 0.000000e+00 2852.0
3 TraesCS7A01G321000 chr7A 91.834 747 55 6 1814 2558 503404237 503404979 0.000000e+00 1037.0
4 TraesCS7A01G321000 chr7D 94.437 3110 96 35 3059 6133 405878718 405881785 0.000000e+00 4713.0
5 TraesCS7A01G321000 chr7D 87.342 395 36 7 2555 2948 405878339 405878720 2.040000e-119 440.0
6 TraesCS7A01G321000 chr7D 76.892 251 35 12 3217 3445 62126113 62126362 3.020000e-23 121.0
7 TraesCS7A01G321000 chr7D 97.826 46 1 0 6132 6177 405881814 405881859 5.130000e-11 80.5
8 TraesCS7A01G321000 chr7D 82.292 96 11 5 3344 3433 13073672 13073577 1.850000e-10 78.7
9 TraesCS7A01G321000 chr7B 96.110 2648 58 21 3503 6132 413972324 413974944 0.000000e+00 4277.0
10 TraesCS7A01G321000 chr7B 88.127 817 71 16 2555 3363 413932412 413933210 0.000000e+00 948.0
11 TraesCS7A01G321000 chr7B 91.262 103 9 0 3423 3525 413953576 413953678 2.320000e-29 141.0
12 TraesCS7A01G321000 chr7B 97.826 46 1 0 3366 3411 413933234 413933279 5.130000e-11 80.5
13 TraesCS7A01G321000 chr7B 97.826 46 1 0 6132 6177 413974974 413975019 5.130000e-11 80.5
14 TraesCS7A01G321000 chr5A 95.319 1816 78 4 1 1814 379221213 379223023 0.000000e+00 2876.0
15 TraesCS7A01G321000 chr5A 95.319 1816 75 6 1 1814 550708171 550709978 0.000000e+00 2874.0
16 TraesCS7A01G321000 chr5A 92.359 746 54 3 1814 2558 91717768 91718511 0.000000e+00 1059.0
17 TraesCS7A01G321000 chr5A 92.070 744 55 4 1818 2559 332063401 332062660 0.000000e+00 1044.0
18 TraesCS7A01G321000 chr5A 83.505 97 14 2 3259 3353 626263285 626263381 8.530000e-14 89.8
19 TraesCS7A01G321000 chr5A 100.000 28 0 0 6085 6112 706029756 706029729 1.100000e-02 52.8
20 TraesCS7A01G321000 chr4A 95.270 1818 75 7 1 1815 71297681 71299490 0.000000e+00 2870.0
21 TraesCS7A01G321000 chr4A 95.044 1816 80 6 1 1814 435880133 435878326 0.000000e+00 2846.0
22 TraesCS7A01G321000 chr4A 96.875 32 1 0 6085 6116 225339536 225339567 3.000000e-03 54.7
23 TraesCS7A01G321000 chr4B 95.209 1816 79 5 1 1814 221307 223116 0.000000e+00 2865.0
24 TraesCS7A01G321000 chr2A 94.827 1817 84 6 1 1815 98472184 98470376 0.000000e+00 2826.0
25 TraesCS7A01G321000 chr2A 91.845 748 59 2 1814 2560 628414947 628415693 0.000000e+00 1042.0
26 TraesCS7A01G321000 chr1A 94.774 1818 81 12 1 1814 30939434 30937627 0.000000e+00 2819.0
27 TraesCS7A01G321000 chr1A 91.845 748 56 5 1814 2558 295453749 295454494 0.000000e+00 1038.0
28 TraesCS7A01G321000 chr3A 91.957 746 58 2 1814 2558 93087917 93087173 0.000000e+00 1044.0
29 TraesCS7A01G321000 chr3A 91.689 746 59 3 1814 2558 344206514 344205771 0.000000e+00 1031.0
30 TraesCS7A01G321000 chr2D 91.867 750 54 7 1815 2560 579942191 579942937 0.000000e+00 1040.0
31 TraesCS7A01G321000 chr2D 89.062 64 6 1 6070 6133 318352900 318352962 1.850000e-10 78.7
32 TraesCS7A01G321000 chr6A 91.935 744 57 3 1814 2555 163250010 163249268 0.000000e+00 1038.0
33 TraesCS7A01G321000 chr6B 100.000 28 0 0 2958 2985 96670341 96670368 1.100000e-02 52.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7A01G321000 chr7A 463200700 463206876 6176 False 11407.00 11407 100.000000 1 6177 1 chr7A.!!$F1 6176
1 TraesCS7A01G321000 chr7A 681006428 681008238 1810 False 2922.00 2922 95.765000 1 1815 1 chr7A.!!$F3 1814
2 TraesCS7A01G321000 chr7A 536617334 536619140 1806 True 2852.00 2852 95.107000 1 1815 1 chr7A.!!$R1 1814
3 TraesCS7A01G321000 chr7A 503404237 503404979 742 False 1037.00 1037 91.834000 1814 2558 1 chr7A.!!$F2 744
4 TraesCS7A01G321000 chr7D 405878339 405881859 3520 False 1744.50 4713 93.201667 2555 6177 3 chr7D.!!$F2 3622
5 TraesCS7A01G321000 chr7B 413972324 413975019 2695 False 2178.75 4277 96.968000 3503 6177 2 chr7B.!!$F3 2674
6 TraesCS7A01G321000 chr7B 413932412 413933279 867 False 514.25 948 92.976500 2555 3411 2 chr7B.!!$F2 856
7 TraesCS7A01G321000 chr5A 379221213 379223023 1810 False 2876.00 2876 95.319000 1 1814 1 chr5A.!!$F2 1813
8 TraesCS7A01G321000 chr5A 550708171 550709978 1807 False 2874.00 2874 95.319000 1 1814 1 chr5A.!!$F3 1813
9 TraesCS7A01G321000 chr5A 91717768 91718511 743 False 1059.00 1059 92.359000 1814 2558 1 chr5A.!!$F1 744
10 TraesCS7A01G321000 chr5A 332062660 332063401 741 True 1044.00 1044 92.070000 1818 2559 1 chr5A.!!$R1 741
11 TraesCS7A01G321000 chr4A 71297681 71299490 1809 False 2870.00 2870 95.270000 1 1815 1 chr4A.!!$F1 1814
12 TraesCS7A01G321000 chr4A 435878326 435880133 1807 True 2846.00 2846 95.044000 1 1814 1 chr4A.!!$R1 1813
13 TraesCS7A01G321000 chr4B 221307 223116 1809 False 2865.00 2865 95.209000 1 1814 1 chr4B.!!$F1 1813
14 TraesCS7A01G321000 chr2A 98470376 98472184 1808 True 2826.00 2826 94.827000 1 1815 1 chr2A.!!$R1 1814
15 TraesCS7A01G321000 chr2A 628414947 628415693 746 False 1042.00 1042 91.845000 1814 2560 1 chr2A.!!$F1 746
16 TraesCS7A01G321000 chr1A 30937627 30939434 1807 True 2819.00 2819 94.774000 1 1814 1 chr1A.!!$R1 1813
17 TraesCS7A01G321000 chr1A 295453749 295454494 745 False 1038.00 1038 91.845000 1814 2558 1 chr1A.!!$F1 744
18 TraesCS7A01G321000 chr3A 93087173 93087917 744 True 1044.00 1044 91.957000 1814 2558 1 chr3A.!!$R1 744
19 TraesCS7A01G321000 chr3A 344205771 344206514 743 True 1031.00 1031 91.689000 1814 2558 1 chr3A.!!$R2 744
20 TraesCS7A01G321000 chr2D 579942191 579942937 746 False 1040.00 1040 91.867000 1815 2560 1 chr2D.!!$F2 745
21 TraesCS7A01G321000 chr6A 163249268 163250010 742 True 1038.00 1038 91.935000 1814 2555 1 chr6A.!!$R1 741

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
831 841 0.822121 GGTGGCCGAAACTGGTCTTT 60.822 55.0 0.0 0.0 33.69 2.52 F
1416 1427 0.181824 AGCCACCCAGTTACGTTGTT 59.818 50.0 0.0 0.0 0.00 2.83 F
2838 2855 0.105913 TTTGGGGGCGAACCTTTCTT 60.106 50.0 0.0 0.0 40.03 2.52 F
3020 3037 0.326238 TATCCGTCCCTCCCTTTGCT 60.326 55.0 0.0 0.0 0.00 3.91 F
3089 3106 0.391130 TAGATCAGCCGCAACCACAC 60.391 55.0 0.0 0.0 0.00 3.82 F
4292 4353 0.898326 GTTCGGAATTGGGGCAGGTT 60.898 55.0 0.0 0.0 0.00 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1828 1840 0.110867 TCGACGCGCTTGTTTTCATG 60.111 50.000 5.73 0.0 0.00 3.07 R
3098 3115 0.030705 TCCTCCTCTCCCATTCCCTG 60.031 60.000 0.00 0.0 0.00 4.45 R
4292 4353 0.032403 CACCCTTCGTACGGACAACA 59.968 55.000 16.52 0.0 0.00 3.33 R
4664 4725 1.466025 AACTGCAAGGCACCCACATG 61.466 55.000 0.00 0.0 39.30 3.21 R
4698 4759 2.248248 TCGTGTTCCTGAACTCATCCT 58.752 47.619 11.03 0.0 41.67 3.24 R
5497 5558 3.007831 GGAATGGAGGGCAATGAAACAAA 59.992 43.478 0.00 0.0 0.00 2.83 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 5.423015 ACTTGTGTTCTACTCATGCATAGG 58.577 41.667 0.00 0.00 0.00 2.57
82 83 2.629051 AGGAACTACGCATAAACTGGC 58.371 47.619 0.00 0.00 36.02 4.85
83 84 2.236395 AGGAACTACGCATAAACTGGCT 59.764 45.455 0.00 0.00 36.02 4.75
84 85 2.608090 GGAACTACGCATAAACTGGCTC 59.392 50.000 0.00 0.00 0.00 4.70
89 92 3.819564 ACGCATAAACTGGCTCTGATA 57.180 42.857 0.00 0.00 0.00 2.15
90 93 4.342862 ACGCATAAACTGGCTCTGATAT 57.657 40.909 0.00 0.00 0.00 1.63
190 195 2.119495 GGGGAAGAGGAGTGCATCTAA 58.881 52.381 0.00 0.00 33.31 2.10
286 291 2.279517 GATGACCGAGCGCCGAAT 60.280 61.111 17.96 9.45 41.76 3.34
290 295 3.792053 GACCGAGCGCCGAATGGAT 62.792 63.158 17.96 0.00 41.76 3.41
346 351 1.614413 AGACGTCTCCTCCTTGTTGAC 59.386 52.381 13.58 0.00 0.00 3.18
366 371 0.911525 CCAGCAAGGGGAGAGGAGAA 60.912 60.000 0.00 0.00 0.00 2.87
490 496 4.785453 GAGGCGCCAGGGACTTGG 62.785 72.222 31.54 0.00 34.60 3.61
810 820 1.270147 CGGTGACCCTCGAAACTTTCT 60.270 52.381 0.00 0.00 0.00 2.52
831 841 0.822121 GGTGGCCGAAACTGGTCTTT 60.822 55.000 0.00 0.00 33.69 2.52
884 894 1.572085 GAACTCCTCGTGACGTCCGA 61.572 60.000 22.03 22.03 0.00 4.55
1030 1040 0.541863 ACCTCTCTGGCCAATAACCG 59.458 55.000 7.01 0.00 40.22 4.44
1301 1312 1.635817 ATGCATTACCGAGTGGGCCT 61.636 55.000 4.53 0.00 40.62 5.19
1416 1427 0.181824 AGCCACCCAGTTACGTTGTT 59.818 50.000 0.00 0.00 0.00 2.83
1478 1489 5.503927 AGTTGCACAATCTCATGGTCTAAT 58.496 37.500 0.00 0.00 0.00 1.73
1625 1637 3.424703 CAATGTCCATGGTCAGGAAACT 58.575 45.455 16.79 0.00 46.44 2.66
1727 1739 8.452534 TGTATTACAATTTCCGGATAACACAAC 58.547 33.333 4.15 0.00 0.00 3.32
1825 1837 1.740332 TTCCAACAGCGGAGTCGTCA 61.740 55.000 0.00 0.00 36.12 4.35
1828 1840 3.575351 AACAGCGGAGTCGTCAGCC 62.575 63.158 0.00 0.00 44.30 4.85
1904 1916 4.202253 CGGAAACCATGATGATAGGACTCA 60.202 45.833 0.00 0.00 0.00 3.41
2147 2160 0.109723 GTGAAGTTACAGGGGGTGCA 59.890 55.000 0.00 0.00 0.00 4.57
2173 2187 4.643930 TCCTAGAGGAGGGGGTGA 57.356 61.111 0.00 0.00 46.70 4.02
2314 2329 1.964373 GTGAATGCCCGACCGTTGT 60.964 57.895 0.00 0.00 0.00 3.32
2319 2334 1.899437 ATGCCCGACCGTTGTCATCT 61.899 55.000 0.00 0.00 41.85 2.90
2349 2364 5.507637 ACCTTAGATCTTCTGTACTCCGAA 58.492 41.667 0.00 0.00 0.00 4.30
2525 2541 3.433740 GGGAAGGGTGCTTAGATTAGGTG 60.434 52.174 0.00 0.00 0.00 4.00
2563 2579 3.066900 GGTACATGTCATCGTCAGTAGCT 59.933 47.826 0.00 0.00 0.00 3.32
2564 2580 3.876274 ACATGTCATCGTCAGTAGCTT 57.124 42.857 0.00 0.00 0.00 3.74
2574 2590 2.159366 CGTCAGTAGCTTTGATCTCCGT 60.159 50.000 0.00 0.00 0.00 4.69
2594 2611 4.317839 CCGTAACAAGTCGTCACTTCAAAG 60.318 45.833 0.00 0.00 41.24 2.77
2647 2664 1.374758 CGGTCCAACCAGACAGAGC 60.375 63.158 0.00 0.00 38.47 4.09
2648 2665 1.821061 CGGTCCAACCAGACAGAGCT 61.821 60.000 0.00 0.00 38.47 4.09
2666 2683 3.565307 AGCTGGGAACAAAAATCTCACA 58.435 40.909 0.00 0.00 42.06 3.58
2667 2684 3.319122 AGCTGGGAACAAAAATCTCACAC 59.681 43.478 0.00 0.00 42.06 3.82
2668 2685 3.068024 GCTGGGAACAAAAATCTCACACA 59.932 43.478 0.00 0.00 42.06 3.72
2669 2686 4.262164 GCTGGGAACAAAAATCTCACACAT 60.262 41.667 0.00 0.00 42.06 3.21
2670 2687 5.739935 GCTGGGAACAAAAATCTCACACATT 60.740 40.000 0.00 0.00 42.06 2.71
2671 2688 5.841810 TGGGAACAAAAATCTCACACATTC 58.158 37.500 0.00 0.00 37.44 2.67
2672 2689 5.362143 TGGGAACAAAAATCTCACACATTCA 59.638 36.000 0.00 0.00 37.44 2.57
2677 2694 5.971202 ACAAAAATCTCACACATTCACGTTC 59.029 36.000 0.00 0.00 0.00 3.95
2679 2696 3.685139 ATCTCACACATTCACGTTCCT 57.315 42.857 0.00 0.00 0.00 3.36
2681 2698 1.721389 CTCACACATTCACGTTCCTCG 59.279 52.381 0.00 0.00 46.00 4.63
2684 2701 1.736645 ACATTCACGTTCCTCGCCG 60.737 57.895 0.00 0.00 44.19 6.46
2719 2736 2.819608 GCAACTTCATTGGGCAGAACTA 59.180 45.455 0.00 0.00 38.88 2.24
2741 2758 3.217231 CGGAGGACCAAGGCGTAT 58.783 61.111 0.00 0.00 35.59 3.06
2743 2760 0.314302 CGGAGGACCAAGGCGTATAG 59.686 60.000 0.00 0.00 35.59 1.31
2752 2769 1.323534 CAAGGCGTATAGTCACGTTGC 59.676 52.381 0.00 0.00 43.79 4.17
2784 2801 0.108585 ACAGTGCCACCGAGACAAAT 59.891 50.000 0.00 0.00 0.00 2.32
2789 2806 1.635663 GCCACCGAGACAAATCCACG 61.636 60.000 0.00 0.00 0.00 4.94
2805 2822 5.674933 ATCCACGAAAGAAAAAGTCAGAC 57.325 39.130 0.00 0.00 0.00 3.51
2806 2823 4.509616 TCCACGAAAGAAAAAGTCAGACA 58.490 39.130 2.66 0.00 0.00 3.41
2838 2855 0.105913 TTTGGGGGCGAACCTTTCTT 60.106 50.000 0.00 0.00 40.03 2.52
2876 2893 4.024725 CGATACAAAGAAACACCACCGAAA 60.025 41.667 0.00 0.00 0.00 3.46
2877 2894 5.334569 CGATACAAAGAAACACCACCGAAAT 60.335 40.000 0.00 0.00 0.00 2.17
2879 2896 3.697045 ACAAAGAAACACCACCGAAATGA 59.303 39.130 0.00 0.00 0.00 2.57
2880 2897 4.202010 ACAAAGAAACACCACCGAAATGAG 60.202 41.667 0.00 0.00 0.00 2.90
2882 2899 0.958822 AAACACCACCGAAATGAGGC 59.041 50.000 0.00 0.00 0.00 4.70
2884 2901 1.671054 CACCACCGAAATGAGGCGT 60.671 57.895 0.00 0.00 0.00 5.68
2886 2903 1.375396 CCACCGAAATGAGGCGTGA 60.375 57.895 0.00 0.00 0.00 4.35
2887 2904 1.361668 CCACCGAAATGAGGCGTGAG 61.362 60.000 0.00 0.00 0.00 3.51
2888 2905 1.079127 ACCGAAATGAGGCGTGAGG 60.079 57.895 0.00 0.00 0.00 3.86
2889 2906 1.079127 CCGAAATGAGGCGTGAGGT 60.079 57.895 0.00 0.00 0.00 3.85
2914 2931 3.627395 AGACCTTATTTCATGCCGACA 57.373 42.857 0.00 0.00 0.00 4.35
2922 2939 0.602638 TTCATGCCGACAGTGACACC 60.603 55.000 0.84 0.00 0.00 4.16
2953 2970 2.128035 CACCGCCGATCTGAGATAAAC 58.872 52.381 0.00 0.00 0.00 2.01
2955 2972 2.431057 ACCGCCGATCTGAGATAAACTT 59.569 45.455 0.00 0.00 0.00 2.66
2986 3003 1.687123 CCTAACCCTACCACCATCGAG 59.313 57.143 0.00 0.00 0.00 4.04
3004 3021 2.165998 GAGCCAAAGCCATGGGATATC 58.834 52.381 15.13 0.00 41.01 1.63
3007 3024 1.202927 CCAAAGCCATGGGATATCCGT 60.203 52.381 15.13 4.09 38.76 4.69
3017 3034 1.730851 GGATATCCGTCCCTCCCTTT 58.269 55.000 5.86 0.00 31.82 3.11
3020 3037 0.326238 TATCCGTCCCTCCCTTTGCT 60.326 55.000 0.00 0.00 0.00 3.91
3050 3067 1.147817 ACAAAGAAAGAGGCCACCCAT 59.852 47.619 5.01 0.00 0.00 4.00
3051 3068 1.821136 CAAAGAAAGAGGCCACCCATC 59.179 52.381 5.01 0.00 0.00 3.51
3052 3069 1.075601 AAGAAAGAGGCCACCCATCA 58.924 50.000 5.01 0.00 0.00 3.07
3089 3106 0.391130 TAGATCAGCCGCAACCACAC 60.391 55.000 0.00 0.00 0.00 3.82
3098 3115 3.030652 CAACCACACTTGTCGCCC 58.969 61.111 0.00 0.00 0.00 6.13
3153 3170 1.271856 TAAGCGGATCAGACCCAACA 58.728 50.000 0.00 0.00 0.00 3.33
3212 3232 6.604735 AATAATGTGAATCTTACGGTGCTC 57.395 37.500 0.00 0.00 0.00 4.26
3226 3246 4.440127 GCTCCCGCCGTTCCGTAA 62.440 66.667 0.00 0.00 0.00 3.18
3265 3285 6.567769 ATTTAACAAAAGTCACACTTTGCG 57.432 33.333 2.44 0.90 46.78 4.85
3292 3316 8.329203 AGTTTGACCATGTTTAGAGAGATTTC 57.671 34.615 0.00 0.00 0.00 2.17
3294 3318 8.787852 GTTTGACCATGTTTAGAGAGATTTCTT 58.212 33.333 0.00 0.00 32.53 2.52
3343 3368 4.031418 TCGGATACATCGCGAGTTAAAA 57.969 40.909 16.66 0.00 0.00 1.52
3356 3381 9.864034 ATCGCGAGTTAAAATTTCATATTGTAG 57.136 29.630 16.66 0.00 0.00 2.74
3421 3467 9.844790 TTGACTTTTCAGAAAATATGTATGCAG 57.155 29.630 8.81 0.00 31.71 4.41
3422 3468 9.013229 TGACTTTTCAGAAAATATGTATGCAGT 57.987 29.630 8.81 0.00 0.00 4.40
3423 3469 9.282247 GACTTTTCAGAAAATATGTATGCAGTG 57.718 33.333 8.81 0.00 0.00 3.66
3424 3470 7.756722 ACTTTTCAGAAAATATGTATGCAGTGC 59.243 33.333 8.58 8.58 0.00 4.40
3425 3471 6.756299 TTCAGAAAATATGTATGCAGTGCA 57.244 33.333 22.22 22.22 44.86 4.57
3438 3484 1.331756 GCAGTGCATTATGGAACGGAG 59.668 52.381 11.09 0.00 0.00 4.63
3456 3502 7.272731 GGAACGGAGAAAGTATTACATTTTTGC 59.727 37.037 0.00 0.00 0.00 3.68
3460 3506 7.164171 CGGAGAAAGTATTACATTTTTGCATCG 59.836 37.037 0.00 0.00 0.00 3.84
3485 3531 8.076178 CGGGATCCAAATTGTATTGATCTAAAC 58.924 37.037 15.23 0.00 31.84 2.01
3566 3613 7.955918 AGAAAATATCATATTCCCAAGTTGGC 58.044 34.615 17.07 0.00 35.79 4.52
3567 3614 7.564660 AGAAAATATCATATTCCCAAGTTGGCA 59.435 33.333 17.07 0.00 35.79 4.92
3568 3615 6.655078 AATATCATATTCCCAAGTTGGCAC 57.345 37.500 17.07 0.00 35.79 5.01
3569 3616 3.737559 TCATATTCCCAAGTTGGCACT 57.262 42.857 17.07 0.00 35.79 4.40
3570 3617 3.620488 TCATATTCCCAAGTTGGCACTC 58.380 45.455 17.07 0.00 35.79 3.51
3571 3618 3.010027 TCATATTCCCAAGTTGGCACTCA 59.990 43.478 17.07 0.31 35.79 3.41
3572 3619 2.380064 ATTCCCAAGTTGGCACTCAA 57.620 45.000 17.07 3.95 35.79 3.02
3583 3630 3.500448 TGGCACTCAACCTAAATCACA 57.500 42.857 0.00 0.00 0.00 3.58
3584 3631 3.826524 TGGCACTCAACCTAAATCACAA 58.173 40.909 0.00 0.00 0.00 3.33
3585 3632 4.211125 TGGCACTCAACCTAAATCACAAA 58.789 39.130 0.00 0.00 0.00 2.83
3586 3633 4.037446 TGGCACTCAACCTAAATCACAAAC 59.963 41.667 0.00 0.00 0.00 2.93
3587 3634 4.546570 GCACTCAACCTAAATCACAAACC 58.453 43.478 0.00 0.00 0.00 3.27
3588 3635 4.558697 GCACTCAACCTAAATCACAAACCC 60.559 45.833 0.00 0.00 0.00 4.11
3589 3636 4.582656 CACTCAACCTAAATCACAAACCCA 59.417 41.667 0.00 0.00 0.00 4.51
3590 3637 5.068460 CACTCAACCTAAATCACAAACCCAA 59.932 40.000 0.00 0.00 0.00 4.12
3591 3638 5.068591 ACTCAACCTAAATCACAAACCCAAC 59.931 40.000 0.00 0.00 0.00 3.77
3592 3639 5.205056 TCAACCTAAATCACAAACCCAACT 58.795 37.500 0.00 0.00 0.00 3.16
3593 3640 5.300792 TCAACCTAAATCACAAACCCAACTC 59.699 40.000 0.00 0.00 0.00 3.01
3594 3641 5.061721 ACCTAAATCACAAACCCAACTCT 57.938 39.130 0.00 0.00 0.00 3.24
3595 3642 6.195600 ACCTAAATCACAAACCCAACTCTA 57.804 37.500 0.00 0.00 0.00 2.43
3596 3643 6.790319 ACCTAAATCACAAACCCAACTCTAT 58.210 36.000 0.00 0.00 0.00 1.98
3691 3738 3.268023 AGCTTTGGACGATTTCCTAGG 57.732 47.619 0.82 0.82 46.10 3.02
3700 3747 6.481643 TGGACGATTTCCTAGGAAAAGAAAT 58.518 36.000 34.72 21.31 45.60 2.17
3701 3748 6.374333 TGGACGATTTCCTAGGAAAAGAAATG 59.626 38.462 34.72 22.87 45.60 2.32
3702 3749 6.196079 ACGATTTCCTAGGAAAAGAAATGC 57.804 37.500 34.72 18.59 45.60 3.56
3703 3750 5.163754 ACGATTTCCTAGGAAAAGAAATGCG 60.164 40.000 34.72 27.31 45.60 4.73
3704 3751 4.434713 TTTCCTAGGAAAAGAAATGCGC 57.565 40.909 30.63 0.00 40.63 6.09
3717 3778 2.645281 AATGCGCACACACACACACG 62.645 55.000 14.90 0.00 0.00 4.49
3898 3959 1.566703 TCCTCGGTCTCATTCTCTCCT 59.433 52.381 0.00 0.00 0.00 3.69
4084 4145 1.635817 TAATGGGGGCAGAGGCTGTC 61.636 60.000 0.00 0.00 40.87 3.51
4220 4281 4.845580 CCGGCCTGAATCGCTGCT 62.846 66.667 0.00 0.00 0.00 4.24
4232 4293 2.464459 CGCTGCTGGATTCCGTTCC 61.464 63.158 0.00 0.00 36.24 3.62
4249 4310 2.124403 CTGTGGGCTGGATCCTGC 60.124 66.667 30.08 30.08 39.65 4.85
4290 4351 2.052104 GGTTCGGAATTGGGGCAGG 61.052 63.158 0.00 0.00 0.00 4.85
4291 4352 1.304134 GTTCGGAATTGGGGCAGGT 60.304 57.895 0.00 0.00 0.00 4.00
4292 4353 0.898326 GTTCGGAATTGGGGCAGGTT 60.898 55.000 0.00 0.00 0.00 3.50
4376 4437 2.223688 CGATCCAGGTCTGTGAAGCTAG 60.224 54.545 0.00 0.00 0.00 3.42
4698 4759 2.280797 GTTCCTGGAGCGTGTGCA 60.281 61.111 0.00 0.00 46.23 4.57
4741 4802 3.175133 GAATGGGTTCCATGACGCT 57.825 52.632 0.00 0.00 44.40 5.07
5143 5204 1.227321 GTTTGCTGCTTGGCTTGCA 60.227 52.632 0.00 5.07 37.09 4.08
5445 5506 7.276658 GTGGTCTTTCTGTAGTATGAGTTCATG 59.723 40.741 4.90 0.00 37.15 3.07
5497 5558 5.560724 ACTTGTGCAGATGTTGTACCTAAT 58.439 37.500 0.00 0.00 41.20 1.73
5529 5591 2.091885 GCCCTCCATTCCATGACCTTTA 60.092 50.000 0.00 0.00 0.00 1.85
5578 5641 9.310449 AGTTTAGTTCTCAGTTCTGATAGGTTA 57.690 33.333 2.89 0.00 0.00 2.85
5618 5682 5.379732 AGATGCTCGGTAAGTAGCTATTC 57.620 43.478 0.00 0.00 34.32 1.75
5801 5865 4.320057 GCAGTTGTTTCCTGAAGATGTGAG 60.320 45.833 0.00 0.00 31.38 3.51
5850 5914 8.682710 GTTAATACAATATTGTCTTGGCTTGGA 58.317 33.333 24.00 3.70 42.35 3.53
5994 6058 7.431960 TGCGCATTGTCATTTTCAAATACTATC 59.568 33.333 5.66 0.00 0.00 2.08
6056 6120 3.502211 AGCAATCAGTGGTACCTTTTTCG 59.498 43.478 14.36 0.00 35.75 3.46
6083 6148 4.650754 TCTTCGGAAATACTACCTCTGC 57.349 45.455 0.00 0.00 0.00 4.26
6104 6169 9.430838 CTCTGCAAAGAAATATAAGATCGTTTG 57.569 33.333 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 3.307242 CAGAGCCAGTTTATGCGTAGTTC 59.693 47.826 0.00 0.00 0.00 3.01
76 77 4.511527 CAACAGTGATATCAGAGCCAGTT 58.488 43.478 5.42 1.06 0.00 3.16
79 80 2.171237 CCCAACAGTGATATCAGAGCCA 59.829 50.000 5.42 0.00 0.00 4.75
80 81 2.486191 CCCCAACAGTGATATCAGAGCC 60.486 54.545 5.42 0.00 0.00 4.70
81 82 2.435805 TCCCCAACAGTGATATCAGAGC 59.564 50.000 5.42 0.00 0.00 4.09
82 83 4.760530 TTCCCCAACAGTGATATCAGAG 57.239 45.455 5.42 4.22 0.00 3.35
83 84 4.474651 ACATTCCCCAACAGTGATATCAGA 59.525 41.667 5.42 0.00 0.00 3.27
84 85 4.785301 ACATTCCCCAACAGTGATATCAG 58.215 43.478 5.42 0.00 0.00 2.90
89 92 2.308570 TGCTACATTCCCCAACAGTGAT 59.691 45.455 0.00 0.00 0.00 3.06
90 93 1.702401 TGCTACATTCCCCAACAGTGA 59.298 47.619 0.00 0.00 0.00 3.41
190 195 2.288273 GCTCGCGATCTACAAGGGTATT 60.288 50.000 10.36 0.00 0.00 1.89
290 295 4.243008 TTGAACGCGGAGGTGCCA 62.243 61.111 12.47 0.00 35.94 4.92
366 371 1.134159 GCTGCTGGATCTCCATCAACT 60.134 52.381 0.00 0.00 46.46 3.16
543 550 1.175262 AGATGGGATCTAGAGGGGCT 58.825 55.000 0.00 0.00 38.00 5.19
884 894 1.075896 GGAGTCCCGGATGAGACCT 60.076 63.158 0.73 0.00 33.29 3.85
1030 1040 0.318762 GGTATCCAGATCCCGCTGTC 59.681 60.000 0.00 0.00 34.06 3.51
1086 1096 1.135139 CCTCGACATCGTGGTTCATCT 59.865 52.381 13.02 0.00 45.02 2.90
1154 1164 0.174845 ACGATCGAATCTCGGGCAAA 59.825 50.000 24.34 0.00 40.88 3.68
1478 1489 9.734620 CTTTTCAAAGTGTCAAGTATCATTTCA 57.265 29.630 0.00 0.00 0.00 2.69
1498 1510 3.005897 AGTTCGTCTGCTAGAGCTTTTCA 59.994 43.478 2.72 0.00 42.66 2.69
1625 1637 5.753438 GCTCGTTGATCAATAGATGGTTACA 59.247 40.000 19.51 0.00 33.72 2.41
1775 1787 7.661040 CCCTAGAGGCAATAATAAAATGGTTG 58.339 38.462 0.00 0.00 0.00 3.77
1825 1837 1.081242 CGCGCTTGTTTTCATGGCT 60.081 52.632 5.56 0.00 0.00 4.75
1828 1840 0.110867 TCGACGCGCTTGTTTTCATG 60.111 50.000 5.73 0.00 0.00 3.07
1904 1916 1.673033 CGGTGAGGTTGCGATTTCTCT 60.673 52.381 0.00 0.00 0.00 3.10
2159 2172 6.103314 TCTATATAAGTCACCCCCTCCTCTA 58.897 44.000 0.00 0.00 0.00 2.43
2173 2187 3.256136 GTCCTGGCGCACTCTATATAAGT 59.744 47.826 10.83 0.00 0.00 2.24
2314 2329 7.719193 CAGAAGATCTAAGGTCACTCTAGATGA 59.281 40.741 0.00 0.00 32.34 2.92
2319 2334 7.863722 AGTACAGAAGATCTAAGGTCACTCTA 58.136 38.462 0.00 0.00 0.00 2.43
2349 2364 3.417069 TTCGACCACATCAGAAACCAT 57.583 42.857 0.00 0.00 0.00 3.55
2420 2436 0.321564 TCAAGATGCAACCCACTCGG 60.322 55.000 0.00 0.00 37.81 4.63
2563 2579 4.232221 GACGACTTGTTACGGAGATCAAA 58.768 43.478 0.00 0.00 0.00 2.69
2564 2580 3.253921 TGACGACTTGTTACGGAGATCAA 59.746 43.478 0.00 0.00 0.00 2.57
2574 2590 6.334989 TCTTCTTTGAAGTGACGACTTGTTA 58.665 36.000 7.13 0.00 42.80 2.41
2594 2611 0.796927 CCTTCTCCGGCGTTTTCTTC 59.203 55.000 6.01 0.00 0.00 2.87
2647 2664 4.916983 TGTGTGAGATTTTTGTTCCCAG 57.083 40.909 0.00 0.00 0.00 4.45
2648 2665 5.362143 TGAATGTGTGAGATTTTTGTTCCCA 59.638 36.000 0.00 0.00 0.00 4.37
2666 2683 1.736645 CGGCGAGGAACGTGAATGT 60.737 57.895 0.00 0.00 44.60 2.71
2667 2684 1.413767 CTCGGCGAGGAACGTGAATG 61.414 60.000 28.52 0.00 44.60 2.67
2668 2685 1.153823 CTCGGCGAGGAACGTGAAT 60.154 57.895 28.52 0.00 44.60 2.57
2669 2686 2.257371 CTCGGCGAGGAACGTGAA 59.743 61.111 28.52 0.00 44.60 3.18
2684 2701 4.087892 TTGCCTCGCCTCAGCCTC 62.088 66.667 0.00 0.00 34.57 4.70
2690 2707 0.449388 CAATGAAGTTGCCTCGCCTC 59.551 55.000 0.00 0.00 0.00 4.70
2691 2708 0.962356 CCAATGAAGTTGCCTCGCCT 60.962 55.000 0.00 0.00 36.46 5.52
2692 2709 1.508088 CCAATGAAGTTGCCTCGCC 59.492 57.895 0.00 0.00 36.46 5.54
2698 2715 1.615392 AGTTCTGCCCAATGAAGTTGC 59.385 47.619 0.00 0.00 36.46 4.17
2710 2727 0.744771 CCTCCGGCTTTAGTTCTGCC 60.745 60.000 0.00 0.00 42.94 4.85
2714 2731 0.611714 TGGTCCTCCGGCTTTAGTTC 59.388 55.000 0.00 0.00 36.30 3.01
2719 2736 2.757077 CCTTGGTCCTCCGGCTTT 59.243 61.111 0.00 0.00 36.30 3.51
2741 2758 1.292223 GGAGCAGGCAACGTGACTA 59.708 57.895 0.00 0.00 46.39 2.59
2743 2760 2.758770 TACGGAGCAGGCAACGTGAC 62.759 60.000 18.80 0.00 46.39 3.67
2752 2769 1.513158 CACTGTCCTACGGAGCAGG 59.487 63.158 7.14 0.00 36.17 4.85
2784 2801 4.509616 TGTCTGACTTTTTCTTTCGTGGA 58.490 39.130 9.51 0.00 0.00 4.02
2789 2806 7.645735 GGTTCTTCATGTCTGACTTTTTCTTTC 59.354 37.037 9.51 0.00 0.00 2.62
2805 2822 2.762327 CCCCCAAATCTGGTTCTTCATG 59.238 50.000 0.00 0.00 41.72 3.07
2806 2823 2.889756 GCCCCCAAATCTGGTTCTTCAT 60.890 50.000 0.00 0.00 41.72 2.57
2826 2843 0.384353 GCGTGTGAAGAAAGGTTCGC 60.384 55.000 0.00 0.00 37.44 4.70
2838 2855 1.252215 TATCGTTGGGAGGCGTGTGA 61.252 55.000 0.00 0.00 0.00 3.58
2876 2893 1.903877 CTTCCCACCTCACGCCTCAT 61.904 60.000 0.00 0.00 0.00 2.90
2877 2894 2.525629 TTCCCACCTCACGCCTCA 60.526 61.111 0.00 0.00 0.00 3.86
2879 2896 2.203788 TCTTCCCACCTCACGCCT 60.204 61.111 0.00 0.00 0.00 5.52
2880 2897 2.047179 GTCTTCCCACCTCACGCC 60.047 66.667 0.00 0.00 0.00 5.68
2882 2899 1.263356 TAAGGTCTTCCCACCTCACG 58.737 55.000 0.00 0.00 46.97 4.35
2884 2901 3.913799 TGAAATAAGGTCTTCCCACCTCA 59.086 43.478 0.00 0.00 46.97 3.86
2887 2904 3.381590 GCATGAAATAAGGTCTTCCCACC 59.618 47.826 0.00 0.00 36.58 4.61
2888 2905 3.381590 GGCATGAAATAAGGTCTTCCCAC 59.618 47.826 0.00 0.00 34.66 4.61
2889 2906 3.631250 GGCATGAAATAAGGTCTTCCCA 58.369 45.455 0.00 0.00 34.66 4.37
2914 2931 3.514309 GGTGGTAAGACTATGGTGTCACT 59.486 47.826 2.35 0.00 39.27 3.41
2922 2939 0.742505 TCGGCGGTGGTAAGACTATG 59.257 55.000 7.21 0.00 0.00 2.23
2953 2970 8.683615 GTGGTAGGGTTAGGAATAAATTTGAAG 58.316 37.037 0.00 0.00 0.00 3.02
2955 2972 7.120716 GGTGGTAGGGTTAGGAATAAATTTGA 58.879 38.462 0.00 0.00 0.00 2.69
2986 3003 1.260544 GGATATCCCATGGCTTTGGC 58.739 55.000 11.02 0.00 35.29 4.52
3004 3021 2.045926 CAGCAAAGGGAGGGACGG 60.046 66.667 0.00 0.00 0.00 4.79
3007 3024 0.401738 CACTTCAGCAAAGGGAGGGA 59.598 55.000 4.18 0.00 41.26 4.20
3015 3032 5.895636 TTCTTTGTCTTCACTTCAGCAAA 57.104 34.783 0.00 0.00 0.00 3.68
3017 3034 5.185454 TCTTTCTTTGTCTTCACTTCAGCA 58.815 37.500 0.00 0.00 0.00 4.41
3020 3037 4.576463 GCCTCTTTCTTTGTCTTCACTTCA 59.424 41.667 0.00 0.00 0.00 3.02
3050 3067 3.474798 ACCACCTCACCTCTAAGATGA 57.525 47.619 0.00 0.00 0.00 2.92
3051 3068 4.537751 TCTACCACCTCACCTCTAAGATG 58.462 47.826 0.00 0.00 0.00 2.90
3052 3069 4.883021 TCTACCACCTCACCTCTAAGAT 57.117 45.455 0.00 0.00 0.00 2.40
3089 3106 1.750399 CCATTCCCTGGGCGACAAG 60.750 63.158 8.22 0.00 41.82 3.16
3098 3115 0.030705 TCCTCCTCTCCCATTCCCTG 60.031 60.000 0.00 0.00 0.00 4.45
3153 3170 6.851609 TGATTTCACTTATAACGCATGCTTT 58.148 32.000 17.13 15.65 0.00 3.51
3195 3215 1.653151 GGGAGCACCGTAAGATTCAC 58.347 55.000 0.00 0.00 43.02 3.18
3247 3267 3.190535 ACTTCGCAAAGTGTGACTTTTGT 59.809 39.130 12.29 0.00 45.38 2.83
3265 3285 7.913674 ATCTCTCTAAACATGGTCAAACTTC 57.086 36.000 0.00 0.00 0.00 3.01
3303 3327 9.181805 GTATCCGATGATATGTATTGGTATTCG 57.818 37.037 0.00 0.00 35.94 3.34
3331 3356 9.089601 TCTACAATATGAAATTTTAACTCGCGA 57.910 29.630 9.26 9.26 0.00 5.87
3378 3424 9.087424 GAAAAGTCAAACTTAGCAAACTTGATT 57.913 29.630 0.00 0.00 37.47 2.57
3417 3463 1.093972 CCGTTCCATAATGCACTGCA 58.906 50.000 6.09 6.09 44.86 4.41
3418 3464 1.331756 CTCCGTTCCATAATGCACTGC 59.668 52.381 0.00 0.00 0.00 4.40
3419 3465 2.905075 TCTCCGTTCCATAATGCACTG 58.095 47.619 0.00 0.00 0.00 3.66
3420 3466 3.627395 TTCTCCGTTCCATAATGCACT 57.373 42.857 0.00 0.00 0.00 4.40
3421 3467 3.689649 ACTTTCTCCGTTCCATAATGCAC 59.310 43.478 0.00 0.00 0.00 4.57
3422 3468 3.950397 ACTTTCTCCGTTCCATAATGCA 58.050 40.909 0.00 0.00 0.00 3.96
3423 3469 6.619801 AATACTTTCTCCGTTCCATAATGC 57.380 37.500 0.00 0.00 0.00 3.56
3424 3470 8.657074 TGTAATACTTTCTCCGTTCCATAATG 57.343 34.615 0.00 0.00 0.00 1.90
3425 3471 9.847224 AATGTAATACTTTCTCCGTTCCATAAT 57.153 29.630 0.00 0.00 0.00 1.28
3426 3472 9.675464 AAATGTAATACTTTCTCCGTTCCATAA 57.325 29.630 0.00 0.00 0.00 1.90
3431 3477 7.806014 TGCAAAAATGTAATACTTTCTCCGTTC 59.194 33.333 0.00 0.00 0.00 3.95
3435 3481 7.432252 CCGATGCAAAAATGTAATACTTTCTCC 59.568 37.037 0.00 0.00 0.00 3.71
3438 3484 7.254852 TCCCGATGCAAAAATGTAATACTTTC 58.745 34.615 0.00 0.00 0.00 2.62
3456 3502 6.432162 AGATCAATACAATTTGGATCCCGATG 59.568 38.462 9.90 5.86 0.00 3.84
3460 3506 8.076178 CGTTTAGATCAATACAATTTGGATCCC 58.924 37.037 9.90 0.00 0.00 3.85
3485 3531 7.330946 TGAGTTTGTGATTTAGGTTGACTATCG 59.669 37.037 0.00 0.00 0.00 2.92
3566 3613 4.582656 TGGGTTTGTGATTTAGGTTGAGTG 59.417 41.667 0.00 0.00 0.00 3.51
3567 3614 4.798882 TGGGTTTGTGATTTAGGTTGAGT 58.201 39.130 0.00 0.00 0.00 3.41
3568 3615 5.301805 AGTTGGGTTTGTGATTTAGGTTGAG 59.698 40.000 0.00 0.00 0.00 3.02
3569 3616 5.205056 AGTTGGGTTTGTGATTTAGGTTGA 58.795 37.500 0.00 0.00 0.00 3.18
3570 3617 5.301805 AGAGTTGGGTTTGTGATTTAGGTTG 59.698 40.000 0.00 0.00 0.00 3.77
3571 3618 5.454966 AGAGTTGGGTTTGTGATTTAGGTT 58.545 37.500 0.00 0.00 0.00 3.50
3572 3619 5.061721 AGAGTTGGGTTTGTGATTTAGGT 57.938 39.130 0.00 0.00 0.00 3.08
3573 3620 7.611855 AGAATAGAGTTGGGTTTGTGATTTAGG 59.388 37.037 0.00 0.00 0.00 2.69
3575 3622 8.383175 AGAGAATAGAGTTGGGTTTGTGATTTA 58.617 33.333 0.00 0.00 0.00 1.40
3576 3623 7.234355 AGAGAATAGAGTTGGGTTTGTGATTT 58.766 34.615 0.00 0.00 0.00 2.17
3577 3624 6.784031 AGAGAATAGAGTTGGGTTTGTGATT 58.216 36.000 0.00 0.00 0.00 2.57
3578 3625 6.380079 AGAGAATAGAGTTGGGTTTGTGAT 57.620 37.500 0.00 0.00 0.00 3.06
3579 3626 5.825593 AGAGAATAGAGTTGGGTTTGTGA 57.174 39.130 0.00 0.00 0.00 3.58
3580 3627 6.464222 TGTAGAGAATAGAGTTGGGTTTGTG 58.536 40.000 0.00 0.00 0.00 3.33
3581 3628 6.681729 TGTAGAGAATAGAGTTGGGTTTGT 57.318 37.500 0.00 0.00 0.00 2.83
3582 3629 7.711339 GGTATGTAGAGAATAGAGTTGGGTTTG 59.289 40.741 0.00 0.00 0.00 2.93
3583 3630 7.402071 TGGTATGTAGAGAATAGAGTTGGGTTT 59.598 37.037 0.00 0.00 0.00 3.27
3584 3631 6.901300 TGGTATGTAGAGAATAGAGTTGGGTT 59.099 38.462 0.00 0.00 0.00 4.11
3585 3632 6.441222 TGGTATGTAGAGAATAGAGTTGGGT 58.559 40.000 0.00 0.00 0.00 4.51
3586 3633 6.978674 TGGTATGTAGAGAATAGAGTTGGG 57.021 41.667 0.00 0.00 0.00 4.12
3587 3634 8.865090 AGAATGGTATGTAGAGAATAGAGTTGG 58.135 37.037 0.00 0.00 0.00 3.77
3596 3643 9.733556 TGCTTTAAAAGAATGGTATGTAGAGAA 57.266 29.630 0.00 0.00 0.00 2.87
3619 3666 6.533723 TCATTATTGAGTCGTACGAAAATGCT 59.466 34.615 21.39 12.45 0.00 3.79
3691 3738 2.216263 GTGTGTGTGCGCATTTCTTTTC 59.784 45.455 15.91 0.00 37.46 2.29
3700 3747 3.858989 CGTGTGTGTGTGTGCGCA 61.859 61.111 5.66 5.66 0.00 6.09
3701 3748 4.589700 CCGTGTGTGTGTGTGCGC 62.590 66.667 0.00 0.00 0.00 6.09
3702 3749 4.589700 GCCGTGTGTGTGTGTGCG 62.590 66.667 0.00 0.00 0.00 5.34
3703 3750 3.453491 CTGCCGTGTGTGTGTGTGC 62.453 63.158 0.00 0.00 0.00 4.57
3704 3751 1.813337 TCTGCCGTGTGTGTGTGTG 60.813 57.895 0.00 0.00 0.00 3.82
3717 3778 2.125912 AGCATCGTGTCGTCTGCC 60.126 61.111 12.57 1.33 37.33 4.85
3898 3959 2.918934 TCCTGGATGGAGATTTGGACAA 59.081 45.455 0.00 0.00 40.56 3.18
4127 4188 3.664107 TCACGGATCAAGAACTGGAAAG 58.336 45.455 0.00 0.00 0.00 2.62
4220 4281 1.682849 CCCACAGGAACGGAATCCA 59.317 57.895 0.00 0.00 42.27 3.41
4232 4293 2.124403 GCAGGATCCAGCCCACAG 60.124 66.667 18.02 0.00 0.00 3.66
4290 4351 1.142474 CCCTTCGTACGGACAACAAC 58.858 55.000 16.52 0.00 0.00 3.32
4291 4352 0.752054 ACCCTTCGTACGGACAACAA 59.248 50.000 16.52 0.00 0.00 2.83
4292 4353 0.032403 CACCCTTCGTACGGACAACA 59.968 55.000 16.52 0.00 0.00 3.33
4664 4725 1.466025 AACTGCAAGGCACCCACATG 61.466 55.000 0.00 0.00 39.30 3.21
4698 4759 2.248248 TCGTGTTCCTGAACTCATCCT 58.752 47.619 11.03 0.00 41.67 3.24
4741 4802 2.525629 TGGACAGCCGGAACCAGA 60.526 61.111 5.05 0.00 36.79 3.86
5110 5171 4.428209 CAGCAAACAATACCACACAAACA 58.572 39.130 0.00 0.00 0.00 2.83
5445 5506 9.352163 CAACGAAAGCAAAAATATAAACACAAC 57.648 29.630 0.00 0.00 0.00 3.32
5497 5558 3.007831 GGAATGGAGGGCAATGAAACAAA 59.992 43.478 0.00 0.00 0.00 2.83
5529 5591 4.287067 TCTTGTAAGAGCAGAAATCCACCT 59.713 41.667 0.00 0.00 0.00 4.00
5563 5626 7.323420 TCACACTTCATAACCTATCAGAACTG 58.677 38.462 0.00 0.00 0.00 3.16
5578 5641 6.893583 AGCATCTAAACCTATCACACTTCAT 58.106 36.000 0.00 0.00 0.00 2.57
5618 5682 7.501559 AGGATCATTTTCATATCAAGGTGTGAG 59.498 37.037 0.00 0.00 40.43 3.51
5801 5865 4.613925 TCAGATCTTACCTGCATGGATC 57.386 45.455 8.91 7.52 39.71 3.36
6056 6120 5.183969 AGGTAGTATTTCCGAAGAAAAGGC 58.816 41.667 0.00 0.00 44.91 4.35
6133 6198 3.188254 TGATGTAATTGGTGTCGTGCTTG 59.812 43.478 0.00 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.