Multiple sequence alignment - TraesCS1D01G067000

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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 TraesCS1D01G067000 chr1D 100.000 6979 0 0 1 6979 48464405 48457427 0.000000e+00 12888
1 TraesCS1D01G067000 chr1D 93.548 155 10 0 21 175 484263396 484263242 1.510000e-56 231
2 TraesCS1D01G067000 chr1B 96.821 3838 87 13 1152 4971 68255187 68251367 0.000000e+00 6379
3 TraesCS1D01G067000 chr1B 94.750 1543 52 8 4960 6480 68250396 68248861 0.000000e+00 2374
4 TraesCS1D01G067000 chr1B 90.459 545 39 3 6432 6976 68248861 68248330 0.000000e+00 706
5 TraesCS1D01G067000 chr1B 82.903 503 46 18 580 1061 68256178 68255695 3.890000e-112 416
6 TraesCS1D01G067000 chr1B 75.832 571 69 37 186 732 68287577 68287052 7.040000e-55 226
7 TraesCS1D01G067000 chr1B 77.083 240 41 7 165 395 68256522 68256288 7.350000e-25 126
8 TraesCS1D01G067000 chr1A 95.668 3486 84 19 2553 6008 48728666 48725218 0.000000e+00 5539
9 TraesCS1D01G067000 chr1A 93.973 2356 95 25 173 2504 48731007 48728675 0.000000e+00 3520
10 TraesCS1D01G067000 chr1A 85.809 451 53 5 6415 6856 48711608 48711160 1.060000e-127 468
11 TraesCS1D01G067000 chr1A 95.364 151 7 0 22 172 128996567 128996717 2.520000e-59 241
12 TraesCS1D01G067000 chr1A 92.683 82 6 0 6852 6933 48711082 48711001 1.230000e-22 119
13 TraesCS1D01G067000 chr4A 92.904 2762 161 16 2262 5002 543731092 543733839 0.000000e+00 3982
14 TraesCS1D01G067000 chr4A 92.054 1032 56 14 1234 2263 543730041 543731048 0.000000e+00 1428
15 TraesCS1D01G067000 chr4A 90.304 1021 79 8 4994 6008 543733968 543734974 0.000000e+00 1319
16 TraesCS1D01G067000 chr4B 91.792 2790 162 31 2257 5002 78031403 78028637 0.000000e+00 3821
17 TraesCS1D01G067000 chr4B 91.977 1022 57 13 1244 2263 78032439 78031441 0.000000e+00 1410
18 TraesCS1D01G067000 chr4B 90.607 1022 75 10 4994 6008 78028505 78027498 0.000000e+00 1336
19 TraesCS1D01G067000 chr4B 93.617 329 17 2 898 1222 78033009 78032681 8.140000e-134 488
20 TraesCS1D01G067000 chr4D 95.252 1769 83 1 2805 4573 53246086 53244319 0.000000e+00 2800
21 TraesCS1D01G067000 chr4D 91.479 1021 68 7 4994 6008 53243715 53242708 0.000000e+00 1386
22 TraesCS1D01G067000 chr4D 94.527 877 40 3 1169 2038 53247792 53246917 0.000000e+00 1347
23 TraesCS1D01G067000 chr4D 87.895 570 46 11 2257 2807 53246732 53246167 0.000000e+00 649
24 TraesCS1D01G067000 chr4D 90.765 379 24 5 4624 5002 53244214 53243847 4.860000e-136 496
25 TraesCS1D01G067000 chr4D 93.089 246 15 1 914 1157 53248281 53248036 6.660000e-95 359
26 TraesCS1D01G067000 chr5D 96.711 152 5 0 21 172 435332119 435331968 3.230000e-63 254
27 TraesCS1D01G067000 chr5D 95.270 148 7 0 25 172 414903720 414903573 1.170000e-57 235
28 TraesCS1D01G067000 chr5D 94.667 150 8 0 25 174 487002391 487002540 4.210000e-57 233
29 TraesCS1D01G067000 chr2B 94.702 151 8 0 22 172 506171838 506171988 1.170000e-57 235
30 TraesCS1D01G067000 chr6D 94.667 150 8 0 22 171 100717840 100717989 4.210000e-57 233
31 TraesCS1D01G067000 chr7D 94.079 152 9 0 22 173 147229774 147229925 1.510000e-56 231
32 TraesCS1D01G067000 chr2D 94.079 152 9 0 21 172 133768180 133768331 1.510000e-56 231


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 TraesCS1D01G067000 chr1D 48457427 48464405 6978 True 12888.000000 12888 100.000000 1 6979 1 chr1D.!!$R1 6978
1 TraesCS1D01G067000 chr1B 68248330 68256522 8192 True 2000.200000 6379 88.403200 165 6976 5 chr1B.!!$R2 6811
2 TraesCS1D01G067000 chr1B 68287052 68287577 525 True 226.000000 226 75.832000 186 732 1 chr1B.!!$R1 546
3 TraesCS1D01G067000 chr1A 48725218 48731007 5789 True 4529.500000 5539 94.820500 173 6008 2 chr1A.!!$R2 5835
4 TraesCS1D01G067000 chr1A 48711001 48711608 607 True 293.500000 468 89.246000 6415 6933 2 chr1A.!!$R1 518
5 TraesCS1D01G067000 chr4A 543730041 543734974 4933 False 2243.000000 3982 91.754000 1234 6008 3 chr4A.!!$F1 4774
6 TraesCS1D01G067000 chr4B 78027498 78033009 5511 True 1763.750000 3821 91.998250 898 6008 4 chr4B.!!$R1 5110
7 TraesCS1D01G067000 chr4D 53242708 53248281 5573 True 1172.833333 2800 92.167833 914 6008 6 chr4D.!!$R1 5094

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
926 993 0.105453 TATGGCTCTCTCCCTCCCAC 60.105 60.000 0.00 0.00 0.00 4.61 F
1143 1215 1.684049 AGCTCTCAAGACCCCTCCG 60.684 63.158 0.00 0.00 0.00 4.63 F
1951 2904 1.000938 CAGTGGCTGGAGTTGAAAAGC 60.001 52.381 0.00 0.00 34.86 3.51 F
1965 2918 1.683385 GAAAAGCTGGTGTTCAGGCTT 59.317 47.619 4.93 0.00 43.54 4.35 F
2250 3215 2.695147 GGCTATGCTAAAATGCCTGGTT 59.305 45.455 0.00 0.00 40.36 3.67 F
3957 5102 0.104855 TGCCAGCGATATCACCTGAC 59.895 55.000 17.53 9.74 0.00 3.51 F
5596 7929 0.248565 AGTGAGCATGAGCACGATGT 59.751 50.000 0.00 0.00 45.49 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1951 2904 0.250295 TCGGAAAGCCTGAACACCAG 60.250 55.000 0.00 0.0 42.55 4.00 R
2216 3180 1.757118 GCATAGCCCACTGTCTGACTA 59.243 52.381 9.51 0.0 0.00 2.59 R
3481 4623 0.663153 ACCTGAACAGAAAAGCGTGC 59.337 50.000 3.19 0.0 0.00 5.34 R
3639 4781 1.423395 CTGCCGGCGATCTCTTTATC 58.577 55.000 23.90 0.0 0.00 1.75 R
3975 5120 6.913673 TCACAATTATGTTCATGCATTCGATG 59.086 34.615 0.00 0.0 37.82 3.84 R
5791 8124 0.527385 CTTAGAGGCTGACGAGCTGC 60.527 60.000 0.00 0.0 45.44 5.25 R
6552 8952 0.238289 GTGCCACAAAGACGACCATG 59.762 55.000 0.00 0.0 0.00 3.66 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
37 38 9.933723 AAAATTAGCTAAATTCATATCCATGCC 57.066 29.630 10.85 0.00 36.76 4.40
38 39 8.654485 AATTAGCTAAATTCATATCCATGCCA 57.346 30.769 10.85 0.00 32.00 4.92
39 40 8.834004 ATTAGCTAAATTCATATCCATGCCAT 57.166 30.769 10.85 0.00 31.73 4.40
40 41 9.925545 ATTAGCTAAATTCATATCCATGCCATA 57.074 29.630 10.85 0.00 31.73 2.74
41 42 7.636150 AGCTAAATTCATATCCATGCCATAC 57.364 36.000 0.00 0.00 31.73 2.39
42 43 6.604795 AGCTAAATTCATATCCATGCCATACC 59.395 38.462 0.00 0.00 31.73 2.73
43 44 6.183360 GCTAAATTCATATCCATGCCATACCC 60.183 42.308 0.00 0.00 31.73 3.69
44 45 4.951873 ATTCATATCCATGCCATACCCA 57.048 40.909 0.00 0.00 31.73 4.51
45 46 4.951873 TTCATATCCATGCCATACCCAT 57.048 40.909 0.00 0.00 31.73 4.00
46 47 6.595313 ATTCATATCCATGCCATACCCATA 57.405 37.500 0.00 0.00 31.73 2.74
47 48 6.595313 TTCATATCCATGCCATACCCATAT 57.405 37.500 0.00 0.00 31.73 1.78
48 49 7.704359 TTCATATCCATGCCATACCCATATA 57.296 36.000 0.00 0.00 31.73 0.86
49 50 7.893484 TCATATCCATGCCATACCCATATAT 57.107 36.000 0.00 0.00 31.73 0.86
50 51 8.291744 TCATATCCATGCCATACCCATATATT 57.708 34.615 0.00 0.00 31.73 1.28
51 52 8.735718 TCATATCCATGCCATACCCATATATTT 58.264 33.333 0.00 0.00 31.73 1.40
52 53 9.370930 CATATCCATGCCATACCCATATATTTT 57.629 33.333 0.00 0.00 0.00 1.82
53 54 7.664552 ATCCATGCCATACCCATATATTTTG 57.335 36.000 0.00 0.00 0.00 2.44
54 55 5.421693 TCCATGCCATACCCATATATTTTGC 59.578 40.000 0.00 0.00 0.00 3.68
55 56 5.342433 CATGCCATACCCATATATTTTGCG 58.658 41.667 0.00 0.00 0.00 4.85
56 57 3.761218 TGCCATACCCATATATTTTGCGG 59.239 43.478 0.00 0.00 0.00 5.69
57 58 3.130340 GCCATACCCATATATTTTGCGGG 59.870 47.826 3.95 3.95 43.02 6.13
62 63 4.981806 CCCATATATTTTGCGGGTATGG 57.018 45.455 0.00 0.00 40.80 2.74
63 64 4.594970 CCCATATATTTTGCGGGTATGGA 58.405 43.478 10.45 0.00 42.72 3.41
64 65 5.200483 CCCATATATTTTGCGGGTATGGAT 58.800 41.667 10.45 0.00 42.72 3.41
65 66 6.361433 CCCATATATTTTGCGGGTATGGATA 58.639 40.000 10.45 0.00 42.72 2.59
66 67 6.262273 CCCATATATTTTGCGGGTATGGATAC 59.738 42.308 10.45 0.00 42.72 2.24
79 80 1.133363 TGGATACCCATTACCCGTGG 58.867 55.000 0.00 0.00 37.58 4.94
91 92 3.527434 CCCGTGGGTACAAAGTCTC 57.473 57.895 0.00 0.00 0.00 3.36
92 93 0.974383 CCCGTGGGTACAAAGTCTCT 59.026 55.000 0.00 0.00 0.00 3.10
93 94 1.346722 CCCGTGGGTACAAAGTCTCTT 59.653 52.381 0.00 0.00 0.00 2.85
94 95 2.612221 CCCGTGGGTACAAAGTCTCTTC 60.612 54.545 0.00 0.00 0.00 2.87
95 96 2.036733 CCGTGGGTACAAAGTCTCTTCA 59.963 50.000 0.00 0.00 0.00 3.02
96 97 3.493699 CCGTGGGTACAAAGTCTCTTCAA 60.494 47.826 0.00 0.00 0.00 2.69
97 98 3.741344 CGTGGGTACAAAGTCTCTTCAAG 59.259 47.826 0.00 0.00 0.00 3.02
98 99 4.704965 GTGGGTACAAAGTCTCTTCAAGT 58.295 43.478 0.00 0.00 0.00 3.16
99 100 4.750598 GTGGGTACAAAGTCTCTTCAAGTC 59.249 45.833 0.00 0.00 0.00 3.01
100 101 4.654262 TGGGTACAAAGTCTCTTCAAGTCT 59.346 41.667 0.00 0.00 0.00 3.24
101 102 5.130477 TGGGTACAAAGTCTCTTCAAGTCTT 59.870 40.000 0.00 0.00 35.26 3.01
102 103 5.467063 GGGTACAAAGTCTCTTCAAGTCTTG 59.533 44.000 6.21 6.21 34.23 3.02
103 104 5.050023 GGTACAAAGTCTCTTCAAGTCTTGC 60.050 44.000 7.78 0.00 34.23 4.01
104 105 3.879892 ACAAAGTCTCTTCAAGTCTTGCC 59.120 43.478 7.78 0.00 34.23 4.52
105 106 2.849294 AGTCTCTTCAAGTCTTGCCC 57.151 50.000 7.78 0.00 0.00 5.36
106 107 2.050144 AGTCTCTTCAAGTCTTGCCCA 58.950 47.619 7.78 0.00 0.00 5.36
107 108 2.641815 AGTCTCTTCAAGTCTTGCCCAT 59.358 45.455 7.78 0.00 0.00 4.00
108 109 3.840666 AGTCTCTTCAAGTCTTGCCCATA 59.159 43.478 7.78 0.00 0.00 2.74
109 110 3.935828 GTCTCTTCAAGTCTTGCCCATAC 59.064 47.826 7.78 0.42 0.00 2.39
110 111 3.055094 TCTCTTCAAGTCTTGCCCATACC 60.055 47.826 7.78 0.00 0.00 2.73
111 112 2.026262 TCTTCAAGTCTTGCCCATACCC 60.026 50.000 7.78 0.00 0.00 3.69
112 113 1.367346 TCAAGTCTTGCCCATACCCA 58.633 50.000 7.78 0.00 0.00 4.51
113 114 1.922447 TCAAGTCTTGCCCATACCCAT 59.078 47.619 7.78 0.00 0.00 4.00
114 115 2.311542 TCAAGTCTTGCCCATACCCATT 59.688 45.455 7.78 0.00 0.00 3.16
115 116 2.428171 CAAGTCTTGCCCATACCCATTG 59.572 50.000 0.00 0.00 0.00 2.82
116 117 1.640670 AGTCTTGCCCATACCCATTGT 59.359 47.619 0.00 0.00 0.00 2.71
117 118 2.042979 AGTCTTGCCCATACCCATTGTT 59.957 45.455 0.00 0.00 0.00 2.83
118 119 2.831526 GTCTTGCCCATACCCATTGTTT 59.168 45.455 0.00 0.00 0.00 2.83
119 120 3.260632 GTCTTGCCCATACCCATTGTTTT 59.739 43.478 0.00 0.00 0.00 2.43
120 121 3.513515 TCTTGCCCATACCCATTGTTTTC 59.486 43.478 0.00 0.00 0.00 2.29
121 122 1.821753 TGCCCATACCCATTGTTTTCG 59.178 47.619 0.00 0.00 0.00 3.46
122 123 1.136110 GCCCATACCCATTGTTTTCGG 59.864 52.381 0.00 0.00 0.00 4.30
123 124 1.754226 CCCATACCCATTGTTTTCGGG 59.246 52.381 0.00 0.00 46.22 5.14
128 129 1.470051 CCCATTGTTTTCGGGTAGGG 58.530 55.000 0.00 0.00 35.03 3.53
129 130 1.272258 CCCATTGTTTTCGGGTAGGGT 60.272 52.381 0.00 0.00 35.03 4.34
130 131 2.026075 CCCATTGTTTTCGGGTAGGGTA 60.026 50.000 0.00 0.00 35.03 3.69
131 132 3.011818 CCATTGTTTTCGGGTAGGGTAC 58.988 50.000 0.00 0.00 0.00 3.34
145 146 2.894919 GTACCCGCGTGTACCCAT 59.105 61.111 19.47 0.00 36.02 4.00
146 147 2.114638 GTACCCGCGTGTACCCATA 58.885 57.895 19.47 0.00 36.02 2.74
147 148 0.249031 GTACCCGCGTGTACCCATAC 60.249 60.000 19.47 0.00 36.02 2.39
148 149 1.391157 TACCCGCGTGTACCCATACC 61.391 60.000 4.92 0.00 0.00 2.73
149 150 2.107546 CCGCGTGTACCCATACCC 59.892 66.667 4.92 0.00 0.00 3.69
150 151 2.723237 CCGCGTGTACCCATACCCA 61.723 63.158 4.92 0.00 0.00 4.51
151 152 1.444250 CGCGTGTACCCATACCCAT 59.556 57.895 0.00 0.00 0.00 4.00
152 153 0.878523 CGCGTGTACCCATACCCATG 60.879 60.000 0.00 0.00 0.00 3.66
162 163 2.965572 CATACCCATGGGCAAAACTG 57.034 50.000 31.73 14.56 39.32 3.16
163 164 1.134729 CATACCCATGGGCAAAACTGC 60.135 52.381 31.73 0.00 39.32 4.40
326 340 1.455248 CCACCTTAAATTTCGGCCGA 58.545 50.000 27.28 27.28 0.00 5.54
368 384 2.558554 CTTCCCACCGCGACGAGATT 62.559 60.000 8.23 0.00 0.00 2.40
433 465 2.037208 CATCCCCCGTTTGCCCTT 59.963 61.111 0.00 0.00 0.00 3.95
482 514 2.928361 GACAGTTGTCGCCGTGTG 59.072 61.111 0.00 0.00 35.12 3.82
494 526 3.112075 CGTGTGCTTGACGCCGAT 61.112 61.111 0.00 0.00 38.05 4.18
570 615 2.050477 AAAAATGCTTGCCGTTCTCG 57.950 45.000 0.00 0.00 0.00 4.04
626 672 2.338015 GCTAGTGTCACCGTCCCGA 61.338 63.158 0.00 0.00 0.00 5.14
652 698 2.632512 TCCTTTGAAAATGCTGGTTCCC 59.367 45.455 0.00 0.00 0.00 3.97
673 719 2.508526 GCACTCTGTGAGGACCAAAAT 58.491 47.619 1.52 0.00 35.23 1.82
770 817 8.771920 ATCTTGTCATATTTTTCGAGTGTGTA 57.228 30.769 0.00 0.00 0.00 2.90
771 818 8.596271 TCTTGTCATATTTTTCGAGTGTGTAA 57.404 30.769 0.00 0.00 0.00 2.41
772 819 8.492748 TCTTGTCATATTTTTCGAGTGTGTAAC 58.507 33.333 0.00 0.00 37.35 2.50
773 820 7.124347 TGTCATATTTTTCGAGTGTGTAACC 57.876 36.000 0.00 0.00 34.36 2.85
774 821 6.148150 TGTCATATTTTTCGAGTGTGTAACCC 59.852 38.462 0.00 0.00 34.36 4.11
775 822 6.370718 GTCATATTTTTCGAGTGTGTAACCCT 59.629 38.462 0.00 0.00 34.36 4.34
776 823 6.370442 TCATATTTTTCGAGTGTGTAACCCTG 59.630 38.462 0.00 0.00 34.36 4.45
777 824 3.823281 TTTTCGAGTGTGTAACCCTGA 57.177 42.857 0.00 0.00 34.36 3.86
778 825 4.345859 TTTTCGAGTGTGTAACCCTGAT 57.654 40.909 0.00 0.00 34.36 2.90
780 827 2.244695 TCGAGTGTGTAACCCTGATGT 58.755 47.619 0.00 0.00 34.36 3.06
781 828 2.029380 TCGAGTGTGTAACCCTGATGTG 60.029 50.000 0.00 0.00 34.36 3.21
782 829 2.029380 CGAGTGTGTAACCCTGATGTGA 60.029 50.000 0.00 0.00 34.36 3.58
907 968 1.068250 GCTCTCTTTCGCCGCCTAT 59.932 57.895 0.00 0.00 0.00 2.57
908 969 0.314302 GCTCTCTTTCGCCGCCTATA 59.686 55.000 0.00 0.00 0.00 1.31
926 993 0.105453 TATGGCTCTCTCCCTCCCAC 60.105 60.000 0.00 0.00 0.00 4.61
927 994 2.766229 GGCTCTCTCCCTCCCACC 60.766 72.222 0.00 0.00 0.00 4.61
958 1027 1.977544 CTGTCGACCTCCCTCCGTT 60.978 63.158 14.12 0.00 0.00 4.44
1143 1215 1.684049 AGCTCTCAAGACCCCTCCG 60.684 63.158 0.00 0.00 0.00 4.63
1906 2859 2.050144 CTAAGGCTGCCAGGAGGATAA 58.950 52.381 22.65 0.00 36.89 1.75
1914 2867 2.001076 CCAGGAGGATAATTTGGGCC 57.999 55.000 0.00 0.00 36.89 5.80
1951 2904 1.000938 CAGTGGCTGGAGTTGAAAAGC 60.001 52.381 0.00 0.00 34.86 3.51
1965 2918 1.683385 GAAAAGCTGGTGTTCAGGCTT 59.317 47.619 4.93 0.00 43.54 4.35
2055 3009 5.057149 GGAACTATATGTGGCTAGTGTTGG 58.943 45.833 0.00 0.00 0.00 3.77
2101 3058 6.152323 TGAGGGAAGCGAGTATGTATAATACC 59.848 42.308 0.00 0.00 0.00 2.73
2134 3092 4.362279 TGAAAAATGCTTGTCTGCTGTTC 58.638 39.130 0.00 0.00 0.00 3.18
2152 3110 6.421501 TGCTGTTCATGAAATCACAATTCAAC 59.578 34.615 10.35 0.00 39.98 3.18
2174 3132 9.685276 TCAACTGATTTGGTGATGAATTATAGT 57.315 29.630 0.00 0.00 35.69 2.12
2216 3180 6.599638 GCTTAGGAAAGGTGTAAGAATGTCAT 59.400 38.462 0.00 0.00 32.98 3.06
2250 3215 2.695147 GGCTATGCTAAAATGCCTGGTT 59.305 45.455 0.00 0.00 40.36 3.67
2414 3437 6.128200 TGTTTGTATCTCATGTTAGCTTGCAG 60.128 38.462 0.00 0.00 0.00 4.41
2455 3478 5.491982 AGTCTACACAATGATCAGGTTTCC 58.508 41.667 0.09 0.00 0.00 3.13
3481 4623 9.586732 TGGATATTTCTGGGTAGGATTTTAATG 57.413 33.333 0.00 0.00 0.00 1.90
3485 4627 4.196193 TCTGGGTAGGATTTTAATGCACG 58.804 43.478 0.00 0.00 0.00 5.34
3639 4781 2.202440 GCTCGCTGCATTGCACTG 60.202 61.111 7.38 3.10 42.31 3.66
3957 5102 0.104855 TGCCAGCGATATCACCTGAC 59.895 55.000 17.53 9.74 0.00 3.51
3958 5103 0.941463 GCCAGCGATATCACCTGACG 60.941 60.000 17.53 6.96 0.00 4.35
3959 5104 0.668535 CCAGCGATATCACCTGACGA 59.331 55.000 17.53 0.00 0.00 4.20
4080 5225 0.322098 TGGTACATTTGAGTGGCCGG 60.322 55.000 0.00 0.00 0.00 6.13
4265 5410 4.141413 TGGAAATAGGTCATCCACATCAGG 60.141 45.833 0.00 0.00 38.30 3.86
4329 5474 4.792057 GCATGGCAGCTCAATGAAATACTC 60.792 45.833 0.00 0.00 0.00 2.59
4756 5962 3.498397 GTCGACAATTGTCAACCAGTCAT 59.502 43.478 32.06 0.00 44.99 3.06
4901 6107 1.141053 CCCTGAAGGTATGGCTACACC 59.859 57.143 0.00 0.00 39.84 4.16
4944 6150 5.300792 ACAAACTTGTTATGTGGTAACCCTG 59.699 40.000 0.00 0.00 41.64 4.45
4957 6163 8.024145 TGTGGTAACCCTGTTTAAATTGAATT 57.976 30.769 0.00 0.00 0.00 2.17
4958 6164 9.144298 TGTGGTAACCCTGTTTAAATTGAATTA 57.856 29.630 0.00 0.00 0.00 1.40
5063 7390 3.863142 ATGCTTGGCACTTCAATTCTC 57.137 42.857 0.00 0.00 43.04 2.87
5079 7406 9.472361 CTTCAATTCTCAAGTTCATTGTTGATT 57.528 29.630 0.00 0.00 40.05 2.57
5192 7519 2.787994 CACAGTGAGGGCTCATCTTTT 58.212 47.619 0.00 0.00 42.18 2.27
5458 7785 2.361610 CCGCTGGTTGATTGGGCT 60.362 61.111 0.00 0.00 0.00 5.19
5492 7819 2.803956 GGCTAACAAGACGTGCAACTTA 59.196 45.455 0.00 0.00 31.75 2.24
5594 7927 0.822811 AGAGTGAGCATGAGCACGAT 59.177 50.000 0.00 0.00 45.49 3.73
5596 7929 0.248565 AGTGAGCATGAGCACGATGT 59.751 50.000 0.00 0.00 45.49 3.06
5903 8236 3.482598 GCAGAGTTGACGATGAATGTTCG 60.483 47.826 0.00 0.00 42.20 3.95
5987 8320 1.216444 GACGAGCTGACTGATGCCA 59.784 57.895 0.00 0.00 0.00 4.92
6003 8336 3.737559 TGCCATGGGAAGTTAGTTGAT 57.262 42.857 15.13 0.00 0.00 2.57
6079 8426 3.055094 TGAGACCCAGCTATCCTTTTCAC 60.055 47.826 0.00 0.00 0.00 3.18
6116 8463 4.093952 GCGAATGTGCAGTGCGCT 62.094 61.111 27.62 10.20 43.85 5.92
6117 8464 2.202260 CGAATGTGCAGTGCGCTG 60.202 61.111 27.62 23.02 45.23 5.18
6118 8465 2.949106 GAATGTGCAGTGCGCTGT 59.051 55.556 27.62 16.14 44.32 4.40
6149 8497 0.984230 TTTGCAGCAGTACCCTAGCT 59.016 50.000 0.00 0.00 39.63 3.32
6164 8512 3.751698 CCCTAGCTCCTTGTGTGTTTAAC 59.248 47.826 0.00 0.00 0.00 2.01
6321 8669 1.014352 AGCGCCAATACAACGGAATC 58.986 50.000 2.29 0.00 0.00 2.52
6327 8675 2.936498 CCAATACAACGGAATCGAAGCT 59.064 45.455 0.00 0.00 40.11 3.74
6334 8682 3.870633 ACGGAATCGAAGCTCTAGTTT 57.129 42.857 0.00 0.00 40.11 2.66
6335 8683 4.189639 ACGGAATCGAAGCTCTAGTTTT 57.810 40.909 0.00 0.00 40.11 2.43
6336 8684 5.320549 ACGGAATCGAAGCTCTAGTTTTA 57.679 39.130 0.00 0.00 40.11 1.52
6341 8689 7.358517 CGGAATCGAAGCTCTAGTTTTATTAGC 60.359 40.741 0.00 0.00 39.00 3.09
6392 8740 3.399330 TCGAGATCAACCACCTTGAAAC 58.601 45.455 0.00 0.00 42.37 2.78
6398 8746 1.002468 CAACCACCTTGAAACTCAGCG 60.002 52.381 0.00 0.00 30.42 5.18
6465 8861 2.936498 CGTCCCACTGTCATACAAATCC 59.064 50.000 0.00 0.00 0.00 3.01
6516 8912 2.126228 GCGGAACACCATCGACGA 60.126 61.111 0.00 0.00 0.00 4.20
6552 8952 7.359595 TGCTTTCATACTTGTATGTTGACAAC 58.640 34.615 11.54 11.54 34.40 3.32
6553 8953 7.012799 TGCTTTCATACTTGTATGTTGACAACA 59.987 33.333 22.61 22.61 46.94 3.33
6585 8985 3.550820 TGTGGCACCGATTAAGCAATAT 58.449 40.909 16.26 0.00 0.00 1.28
6590 8990 5.182950 TGGCACCGATTAAGCAATATATTGG 59.817 40.000 23.57 9.49 38.21 3.16
6631 9031 4.619227 ACTTCGGTGTGGCCACGG 62.619 66.667 30.07 21.21 42.80 4.94
6648 9048 1.153147 GGGCCTCGAGACCAATTCC 60.153 63.158 20.15 0.00 0.00 3.01
6658 9058 5.235516 TCGAGACCAATTCCTACAAAAGTC 58.764 41.667 0.00 0.00 0.00 3.01
6661 9061 6.310711 CGAGACCAATTCCTACAAAAGTCTAC 59.689 42.308 0.00 0.00 33.68 2.59
6751 9151 3.950397 ACCTTTCCAATGCGATACTTGA 58.050 40.909 0.00 0.00 0.00 3.02
6757 9157 3.324846 TCCAATGCGATACTTGAGGCTAT 59.675 43.478 0.00 0.00 0.00 2.97
6859 9341 9.916397 GGTTGATGAAGTATTTTATAGTTGTCG 57.084 33.333 0.00 0.00 0.00 4.35
6874 9356 0.107410 TGTCGGGTGTTGCACTCTTT 60.107 50.000 0.00 0.00 31.76 2.52
6941 9423 1.897802 GTCCTTCCTAAGGGAACGACA 59.102 52.381 16.26 0.00 46.84 4.35
6957 9439 4.361451 ACGACAAAAGCCATCATCAATC 57.639 40.909 0.00 0.00 0.00 2.67
6978 9460 9.593134 TCAATCTTCTAAGATCTTTTCTACAGC 57.407 33.333 14.36 0.00 44.67 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 9.933723 GGCATGGATATGAATTTAGCTAATTTT 57.066 29.630 7.08 4.50 36.59 1.82
12 13 9.092338 TGGCATGGATATGAATTTAGCTAATTT 57.908 29.630 7.08 10.11 36.59 1.82
13 14 8.654485 TGGCATGGATATGAATTTAGCTAATT 57.346 30.769 7.08 0.48 39.15 1.40
14 15 8.834004 ATGGCATGGATATGAATTTAGCTAAT 57.166 30.769 7.08 0.00 36.36 1.73
15 16 9.177608 GTATGGCATGGATATGAATTTAGCTAA 57.822 33.333 10.98 0.86 36.36 3.09
16 17 7.775093 GGTATGGCATGGATATGAATTTAGCTA 59.225 37.037 10.98 0.00 36.36 3.32
17 18 6.604795 GGTATGGCATGGATATGAATTTAGCT 59.395 38.462 10.98 0.00 36.36 3.32
18 19 6.183360 GGGTATGGCATGGATATGAATTTAGC 60.183 42.308 10.98 0.00 36.36 3.09
19 20 6.891361 TGGGTATGGCATGGATATGAATTTAG 59.109 38.462 10.98 0.00 36.36 1.85
20 21 6.798766 TGGGTATGGCATGGATATGAATTTA 58.201 36.000 10.98 0.00 36.36 1.40
21 22 5.653346 TGGGTATGGCATGGATATGAATTT 58.347 37.500 10.98 0.00 36.36 1.82
22 23 5.273833 TGGGTATGGCATGGATATGAATT 57.726 39.130 10.98 0.00 36.36 2.17
23 24 4.951873 TGGGTATGGCATGGATATGAAT 57.048 40.909 10.98 0.00 36.36 2.57
24 25 4.951873 ATGGGTATGGCATGGATATGAA 57.048 40.909 10.98 0.00 36.36 2.57
25 26 7.893484 ATATATGGGTATGGCATGGATATGA 57.107 36.000 10.98 0.00 36.36 2.15
26 27 8.945195 AAATATATGGGTATGGCATGGATATG 57.055 34.615 10.98 0.00 37.36 1.78
27 28 9.370930 CAAAATATATGGGTATGGCATGGATAT 57.629 33.333 10.98 8.51 0.00 1.63
28 29 7.287466 GCAAAATATATGGGTATGGCATGGATA 59.713 37.037 10.98 1.51 0.00 2.59
29 30 6.098695 GCAAAATATATGGGTATGGCATGGAT 59.901 38.462 10.98 0.00 0.00 3.41
30 31 5.421693 GCAAAATATATGGGTATGGCATGGA 59.578 40.000 10.98 0.00 0.00 3.41
31 32 5.663456 GCAAAATATATGGGTATGGCATGG 58.337 41.667 10.98 0.00 0.00 3.66
32 33 5.342433 CGCAAAATATATGGGTATGGCATG 58.658 41.667 10.98 0.00 0.00 4.06
33 34 4.402155 CCGCAAAATATATGGGTATGGCAT 59.598 41.667 4.88 4.88 0.00 4.40
34 35 3.761218 CCGCAAAATATATGGGTATGGCA 59.239 43.478 0.00 0.00 0.00 4.92
35 36 3.130340 CCCGCAAAATATATGGGTATGGC 59.870 47.826 0.00 0.00 35.05 4.40
36 37 4.981806 CCCGCAAAATATATGGGTATGG 57.018 45.455 0.00 0.00 35.05 2.74
41 42 4.594970 TCCATACCCGCAAAATATATGGG 58.405 43.478 8.36 3.95 41.73 4.00
42 43 6.262273 GGTATCCATACCCGCAAAATATATGG 59.738 42.308 4.57 2.73 45.62 2.74
43 44 7.259290 GGTATCCATACCCGCAAAATATATG 57.741 40.000 4.57 0.00 45.62 1.78
73 74 0.974383 AGAGACTTTGTACCCACGGG 59.026 55.000 0.00 0.00 42.03 5.28
74 75 2.036733 TGAAGAGACTTTGTACCCACGG 59.963 50.000 0.00 0.00 0.00 4.94
75 76 3.380479 TGAAGAGACTTTGTACCCACG 57.620 47.619 0.00 0.00 0.00 4.94
76 77 4.704965 ACTTGAAGAGACTTTGTACCCAC 58.295 43.478 0.00 0.00 0.00 4.61
77 78 4.654262 AGACTTGAAGAGACTTTGTACCCA 59.346 41.667 0.00 0.00 0.00 4.51
78 79 5.216614 AGACTTGAAGAGACTTTGTACCC 57.783 43.478 0.00 0.00 0.00 3.69
79 80 5.050023 GCAAGACTTGAAGAGACTTTGTACC 60.050 44.000 19.51 0.00 38.11 3.34
80 81 5.050023 GGCAAGACTTGAAGAGACTTTGTAC 60.050 44.000 19.51 0.00 38.11 2.90
81 82 5.057149 GGCAAGACTTGAAGAGACTTTGTA 58.943 41.667 19.51 0.00 38.11 2.41
82 83 3.879892 GGCAAGACTTGAAGAGACTTTGT 59.120 43.478 19.51 0.00 38.11 2.83
83 84 3.251972 GGGCAAGACTTGAAGAGACTTTG 59.748 47.826 19.51 0.00 38.11 2.77
84 85 3.117888 TGGGCAAGACTTGAAGAGACTTT 60.118 43.478 19.51 0.00 38.11 2.66
85 86 2.439507 TGGGCAAGACTTGAAGAGACTT 59.560 45.455 19.51 0.00 40.27 3.01
86 87 2.050144 TGGGCAAGACTTGAAGAGACT 58.950 47.619 19.51 0.00 31.55 3.24
87 88 2.550830 TGGGCAAGACTTGAAGAGAC 57.449 50.000 19.51 0.00 0.00 3.36
88 89 3.055094 GGTATGGGCAAGACTTGAAGAGA 60.055 47.826 19.51 0.00 0.00 3.10
89 90 3.274288 GGTATGGGCAAGACTTGAAGAG 58.726 50.000 19.51 0.00 0.00 2.85
90 91 2.026262 GGGTATGGGCAAGACTTGAAGA 60.026 50.000 19.51 1.36 0.00 2.87
91 92 2.290896 TGGGTATGGGCAAGACTTGAAG 60.291 50.000 19.51 0.00 0.00 3.02
92 93 1.707989 TGGGTATGGGCAAGACTTGAA 59.292 47.619 19.51 3.89 0.00 2.69
93 94 1.367346 TGGGTATGGGCAAGACTTGA 58.633 50.000 19.51 0.00 0.00 3.02
94 95 2.428171 CAATGGGTATGGGCAAGACTTG 59.572 50.000 11.02 11.02 0.00 3.16
95 96 2.042979 ACAATGGGTATGGGCAAGACTT 59.957 45.455 0.00 0.00 0.00 3.01
96 97 1.640670 ACAATGGGTATGGGCAAGACT 59.359 47.619 0.00 0.00 0.00 3.24
97 98 2.143876 ACAATGGGTATGGGCAAGAC 57.856 50.000 0.00 0.00 0.00 3.01
98 99 2.917713 AACAATGGGTATGGGCAAGA 57.082 45.000 0.00 0.00 0.00 3.02
99 100 3.675775 CGAAAACAATGGGTATGGGCAAG 60.676 47.826 0.00 0.00 0.00 4.01
100 101 2.232452 CGAAAACAATGGGTATGGGCAA 59.768 45.455 0.00 0.00 0.00 4.52
101 102 1.821753 CGAAAACAATGGGTATGGGCA 59.178 47.619 0.00 0.00 0.00 5.36
102 103 1.136110 CCGAAAACAATGGGTATGGGC 59.864 52.381 0.00 0.00 0.00 5.36
103 104 1.754226 CCCGAAAACAATGGGTATGGG 59.246 52.381 0.00 0.00 38.18 4.00
110 111 2.209690 ACCCTACCCGAAAACAATGG 57.790 50.000 0.00 0.00 0.00 3.16
111 112 3.011818 GGTACCCTACCCGAAAACAATG 58.988 50.000 0.00 0.00 43.18 2.82
112 113 3.354948 GGTACCCTACCCGAAAACAAT 57.645 47.619 0.00 0.00 43.18 2.71
113 114 2.857186 GGTACCCTACCCGAAAACAA 57.143 50.000 0.00 0.00 43.18 2.83
128 129 0.249031 GTATGGGTACACGCGGGTAC 60.249 60.000 37.36 37.36 42.26 3.34
129 130 1.391157 GGTATGGGTACACGCGGGTA 61.391 60.000 19.11 19.11 32.25 3.69
130 131 2.724273 GGTATGGGTACACGCGGGT 61.724 63.158 21.93 21.93 32.25 5.28
131 132 2.107546 GGTATGGGTACACGCGGG 59.892 66.667 6.92 6.92 32.25 6.13
132 133 2.035237 ATGGGTATGGGTACACGCGG 62.035 60.000 12.47 1.27 37.01 6.46
133 134 0.878523 CATGGGTATGGGTACACGCG 60.879 60.000 3.53 3.53 37.01 6.01
134 135 3.000815 CATGGGTATGGGTACACGC 57.999 57.895 0.00 0.00 37.01 5.34
143 144 1.134729 GCAGTTTTGCCCATGGGTATG 60.135 52.381 31.58 22.12 44.74 2.39
144 145 1.194218 GCAGTTTTGCCCATGGGTAT 58.806 50.000 31.58 9.93 44.74 2.73
145 146 2.664825 GCAGTTTTGCCCATGGGTA 58.335 52.632 31.58 25.81 44.74 3.69
146 147 3.470433 GCAGTTTTGCCCATGGGT 58.530 55.556 31.58 8.20 44.74 4.51
154 155 1.478105 CCTTAGGGATGGCAGTTTTGC 59.522 52.381 0.00 0.00 41.60 3.68
169 170 3.335729 AACCCACCCCCGCCTTAG 61.336 66.667 0.00 0.00 0.00 2.18
170 171 3.332385 GAACCCACCCCCGCCTTA 61.332 66.667 0.00 0.00 0.00 2.69
326 340 0.250513 GCGATGAGAAGGAAGGTGGT 59.749 55.000 0.00 0.00 0.00 4.16
368 384 2.949142 TGTGCGCGTGTATTTTCTCTA 58.051 42.857 8.43 0.00 0.00 2.43
626 672 6.097412 GGAACCAGCATTTTCAAAGGATCTAT 59.903 38.462 0.00 0.00 0.00 1.98
652 698 0.249868 TTTGGTCCTCACAGAGTGCG 60.250 55.000 0.00 0.00 32.98 5.34
673 719 2.683968 CAAGTAGCTCGCTTACAACCA 58.316 47.619 0.00 0.00 0.00 3.67
751 798 6.370442 CAGGGTTACACACTCGAAAAATATGA 59.630 38.462 0.00 0.00 21.60 2.15
761 808 2.029380 TCACATCAGGGTTACACACTCG 60.029 50.000 0.00 0.00 21.60 4.18
770 817 5.200368 GATGTTTTTGTCACATCAGGGTT 57.800 39.130 7.95 0.00 46.74 4.11
771 818 4.853924 GATGTTTTTGTCACATCAGGGT 57.146 40.909 7.95 0.00 46.74 4.34
824 882 6.884295 AGACGAGTTTGATCAATTTAATGGGA 59.116 34.615 9.40 0.00 0.00 4.37
863 921 5.574970 AACCAAAAGATTTGGGGCATTAA 57.425 34.783 22.08 0.00 43.71 1.40
868 926 1.879380 GCAAACCAAAAGATTTGGGGC 59.121 47.619 22.08 18.15 43.71 5.80
907 968 0.105453 GTGGGAGGGAGAGAGCCATA 60.105 60.000 0.00 0.00 0.00 2.74
908 969 1.383803 GTGGGAGGGAGAGAGCCAT 60.384 63.158 0.00 0.00 0.00 4.40
926 993 2.423538 GTCGACAGATTTGGGGAAATGG 59.576 50.000 11.55 0.00 0.00 3.16
927 994 2.423538 GGTCGACAGATTTGGGGAAATG 59.576 50.000 18.91 0.00 0.00 2.32
958 1027 1.501170 TCTGGTGGGGTTTGAAATGGA 59.499 47.619 0.00 0.00 0.00 3.41
1143 1215 2.591715 ACGGTGTGCTTGAGGTGC 60.592 61.111 0.00 0.00 0.00 5.01
1906 2859 1.745489 GCTCGACGAAGGCCCAAAT 60.745 57.895 0.00 0.00 0.00 2.32
1914 2867 1.075425 CTGCCTTCTGCTCGACGAAG 61.075 60.000 0.00 0.00 42.00 3.79
1951 2904 0.250295 TCGGAAAGCCTGAACACCAG 60.250 55.000 0.00 0.00 42.55 4.00
2055 3009 5.180271 TCAGGTACCAATTCCAATTCGTAC 58.820 41.667 15.94 10.02 40.19 3.67
2101 3058 9.199982 AGACAAGCATTTTTCAAGTGATTATTG 57.800 29.630 0.00 0.00 0.00 1.90
2134 3092 8.440059 CCAAATCAGTTGAATTGTGATTTCATG 58.560 33.333 6.57 0.00 45.03 3.07
2173 3131 5.975939 CCTAAGCGAACCATTGTAGTAGTAC 59.024 44.000 0.37 0.37 0.00 2.73
2174 3132 5.887598 TCCTAAGCGAACCATTGTAGTAGTA 59.112 40.000 0.00 0.00 0.00 1.82
2175 3133 4.708421 TCCTAAGCGAACCATTGTAGTAGT 59.292 41.667 0.00 0.00 0.00 2.73
2176 3134 5.258456 TCCTAAGCGAACCATTGTAGTAG 57.742 43.478 0.00 0.00 0.00 2.57
2216 3180 1.757118 GCATAGCCCACTGTCTGACTA 59.243 52.381 9.51 0.00 0.00 2.59
2250 3215 5.254115 TGAAGCTCTGCTAACACTACTAGA 58.746 41.667 0.00 0.00 38.25 2.43
2414 3437 4.023291 AGACTCTCCCTTGTGAGAAGATC 58.977 47.826 0.00 0.00 40.72 2.75
2455 3478 6.925165 AGTACTGACAAATTTCATTTTGCCAG 59.075 34.615 10.41 10.41 46.35 4.85
2458 3481 7.434897 TCACAGTACTGACAAATTTCATTTTGC 59.565 33.333 29.30 0.00 39.65 3.68
2683 3718 9.398170 CTAAAAAGATGACAGGTTGTAATGTTG 57.602 33.333 0.00 0.00 26.50 3.33
2746 3781 6.766467 ACTTCCTGAGTACAAACTAAACTTGG 59.234 38.462 0.00 0.00 36.65 3.61
3183 4325 6.763135 TCAAGCAAGTATATCAGACCATTCAC 59.237 38.462 0.00 0.00 0.00 3.18
3481 4623 0.663153 ACCTGAACAGAAAAGCGTGC 59.337 50.000 3.19 0.00 0.00 5.34
3485 4627 3.119137 ACCAACAACCTGAACAGAAAAGC 60.119 43.478 3.19 0.00 0.00 3.51
3639 4781 1.423395 CTGCCGGCGATCTCTTTATC 58.577 55.000 23.90 0.00 0.00 1.75
3975 5120 6.913673 TCACAATTATGTTCATGCATTCGATG 59.086 34.615 0.00 0.00 37.82 3.84
4080 5225 8.909671 GTCAATTCTTCAAACATTTCATCAGAC 58.090 33.333 0.00 0.00 0.00 3.51
4265 5410 9.092876 CAGTAAGTTCTTCATTACTCAGGATTC 57.907 37.037 0.00 0.00 39.59 2.52
4329 5474 3.127203 CAGCTCTCATTTCCTCTGCTTTG 59.873 47.826 0.00 0.00 0.00 2.77
4901 6107 5.730296 TTGTATGGGTTTGTATGGGTTTG 57.270 39.130 0.00 0.00 0.00 2.93
4902 6108 5.841783 AGTTTGTATGGGTTTGTATGGGTTT 59.158 36.000 0.00 0.00 0.00 3.27
4903 6109 5.399113 AGTTTGTATGGGTTTGTATGGGTT 58.601 37.500 0.00 0.00 0.00 4.11
4904 6110 5.005628 AGTTTGTATGGGTTTGTATGGGT 57.994 39.130 0.00 0.00 0.00 4.51
4905 6111 5.245075 ACAAGTTTGTATGGGTTTGTATGGG 59.755 40.000 0.00 0.00 40.16 4.00
4906 6112 6.339587 ACAAGTTTGTATGGGTTTGTATGG 57.660 37.500 0.00 0.00 40.16 2.74
4907 6113 9.352784 CATAACAAGTTTGTATGGGTTTGTATG 57.647 33.333 0.00 0.00 41.31 2.39
4908 6114 9.084533 ACATAACAAGTTTGTATGGGTTTGTAT 57.915 29.630 0.00 0.00 41.31 2.29
4909 6115 8.353684 CACATAACAAGTTTGTATGGGTTTGTA 58.646 33.333 0.00 0.00 41.31 2.41
4910 6116 7.206687 CACATAACAAGTTTGTATGGGTTTGT 58.793 34.615 0.00 0.00 41.31 2.83
5063 7390 5.399301 GGTTGTCGAATCAACAATGAACTTG 59.601 40.000 17.57 0.00 46.36 3.16
5079 7406 3.231734 CCAGCTTGATGGTTGTCGA 57.768 52.632 0.00 0.00 35.47 4.20
5192 7519 3.772572 TGTCTTTCAGATCGTCCCCATTA 59.227 43.478 0.00 0.00 0.00 1.90
5284 7611 4.176851 GGGGACTCGACGACTCGC 62.177 72.222 11.43 11.43 39.96 5.03
5321 7648 7.852945 GGTACAAGATCAAGAAGATTATTTGCG 59.147 37.037 0.00 0.00 37.00 4.85
5324 7651 8.897752 GCAGGTACAAGATCAAGAAGATTATTT 58.102 33.333 0.00 0.00 37.00 1.40
5458 7785 6.398918 GTCTTGTTAGCCATCTCACTTTCTA 58.601 40.000 0.00 0.00 0.00 2.10
5492 7819 2.894126 CAGTGGTAAGTCAGAGTCACCT 59.106 50.000 0.00 0.00 0.00 4.00
5585 7912 1.372872 CGGTGACACATCGTGCTCA 60.373 57.895 8.08 0.00 36.98 4.26
5594 7927 1.044611 TTCTGGATGACGGTGACACA 58.955 50.000 8.08 0.00 0.00 3.72
5596 7929 1.608025 GCTTTCTGGATGACGGTGACA 60.608 52.381 0.00 0.00 0.00 3.58
5791 8124 0.527385 CTTAGAGGCTGACGAGCTGC 60.527 60.000 0.00 0.00 45.44 5.25
5792 8125 1.098869 TCTTAGAGGCTGACGAGCTG 58.901 55.000 0.00 0.00 45.44 4.24
5793 8126 1.474879 GTTCTTAGAGGCTGACGAGCT 59.525 52.381 0.00 0.00 45.44 4.09
5903 8236 2.187424 CTCTCCAGCTGCTGCCTC 59.813 66.667 23.86 0.00 40.80 4.70
5987 8320 5.520748 AACCAGATCAACTAACTTCCCAT 57.479 39.130 0.00 0.00 0.00 4.00
6003 8336 4.515191 CAGAAACCGAATCAAGAAACCAGA 59.485 41.667 0.00 0.00 0.00 3.86
6079 8426 0.667993 TTTCCCAAACTGCAGCGAAG 59.332 50.000 15.27 0.99 0.00 3.79
6134 8482 1.137872 CAAGGAGCTAGGGTACTGCTG 59.862 57.143 7.64 0.00 37.16 4.41
6164 8512 9.653287 TTTCAAAGATGAAGGTAGTATGTAGTG 57.347 33.333 0.00 0.00 45.82 2.74
6168 8516 9.003658 CACTTTTCAAAGATGAAGGTAGTATGT 57.996 33.333 6.29 0.00 45.82 2.29
6250 8598 6.767902 TGGTCTTGAGGCTTATTTATAGCTTG 59.232 38.462 0.00 0.00 38.67 4.01
6321 8669 7.649973 TCTAGGCTAATAAAACTAGAGCTTCG 58.350 38.462 0.00 0.00 37.57 3.79
6392 8740 1.998315 CTTCAATGTGGAGTCGCTGAG 59.002 52.381 0.00 0.00 0.00 3.35
6398 8746 3.007398 ACAGAGGACTTCAATGTGGAGTC 59.993 47.826 7.99 7.99 0.00 3.36
6465 8861 2.686558 ACTGCACAATAACTTGCGTG 57.313 45.000 0.00 0.00 41.96 5.34
6480 8876 1.334689 GCAAAGTACCCGAACAACTGC 60.335 52.381 0.00 0.00 0.00 4.40
6516 8912 2.702270 ATGAAAGCAAGGTCCCCTTT 57.298 45.000 0.00 0.73 41.69 3.11
6552 8952 0.238289 GTGCCACAAAGACGACCATG 59.762 55.000 0.00 0.00 0.00 3.66
6553 8953 0.889186 GGTGCCACAAAGACGACCAT 60.889 55.000 0.00 0.00 0.00 3.55
6631 9031 1.120530 TAGGAATTGGTCTCGAGGCC 58.879 55.000 29.45 29.45 0.00 5.19
6658 9058 7.803189 GTCCACACATCAAATAAACACAAGTAG 59.197 37.037 0.00 0.00 0.00 2.57
6661 9061 6.502652 TGTCCACACATCAAATAAACACAAG 58.497 36.000 0.00 0.00 0.00 3.16
6687 9087 5.657826 ACTCCATGATCATAGGAAGATCG 57.342 43.478 20.42 13.93 43.73 3.69
6812 9212 3.851403 CCACACAATAAAATTCTTCGCGG 59.149 43.478 6.13 0.00 0.00 6.46
6859 9341 1.398692 TCCAAAAGAGTGCAACACCC 58.601 50.000 0.00 0.00 41.43 4.61
6891 9373 6.431198 AGTTAGGTGGTAAAATATTGCACG 57.569 37.500 0.00 0.00 0.00 5.34
6893 9375 7.777910 AGCATAGTTAGGTGGTAAAATATTGCA 59.222 33.333 0.00 0.00 0.00 4.08
6938 9420 6.205101 AGAAGATTGATGATGGCTTTTGTC 57.795 37.500 0.00 0.00 0.00 3.18
6941 9423 8.763984 ATCTTAGAAGATTGATGATGGCTTTT 57.236 30.769 0.00 0.00 42.96 2.27


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

AutoCloner maintained by Alex Coulton.