Multiple sequence alignment - TraesCS6B01G355000

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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 TraesCS6B01G355000 chr6B 100.000 2793 0 0 1 2793 623367917 623370709 0.000000e+00 5158.0
1 TraesCS6B01G355000 chr6B 92.292 1466 81 11 470 1930 623444890 623446328 0.000000e+00 2052.0
2 TraesCS6B01G355000 chr6B 79.713 557 55 35 471 998 623358236 623358763 1.590000e-92 350.0
3 TraesCS6B01G355000 chr6B 93.452 168 11 0 180 347 623444725 623444892 1.660000e-62 250.0
4 TraesCS6B01G355000 chr6B 89.908 109 4 3 1812 1913 623443772 623443880 1.750000e-27 134.0
5 TraesCS6B01G355000 chr6B 85.246 122 16 2 1166 1286 623445830 623445950 1.050000e-24 124.0
6 TraesCS6B01G355000 chr6A 92.414 1450 84 11 483 1930 558932973 558934398 0.000000e+00 2045.0
7 TraesCS6B01G355000 chr6A 90.909 1001 73 6 470 1464 558919916 558920904 0.000000e+00 1328.0
8 TraesCS6B01G355000 chr6A 97.289 627 16 1 1294 1920 558920824 558921449 0.000000e+00 1062.0
9 TraesCS6B01G355000 chr6A 93.452 168 11 0 180 347 558932778 558932945 1.660000e-62 250.0
10 TraesCS6B01G355000 chr6A 90.476 168 16 0 180 347 558919751 558919918 3.620000e-54 222.0
11 TraesCS6B01G355000 chr6A 95.000 140 5 2 332 471 457399492 457399355 4.680000e-53 219.0
12 TraesCS6B01G355000 chr6A 85.124 121 16 2 1166 1285 558933902 558934021 3.780000e-24 122.0
13 TraesCS6B01G355000 chr6A 89.655 87 7 2 1201 1286 558920998 558921083 2.940000e-20 110.0
14 TraesCS6B01G355000 chr6A 90.667 75 5 2 3 75 558919678 558919752 6.370000e-17 99.0
15 TraesCS6B01G355000 chr6A 91.045 67 2 2 1867 1930 558950866 558950931 1.380000e-13 87.9
16 TraesCS6B01G355000 chr6D 90.619 1002 72 10 470 1464 413382798 413383784 0.000000e+00 1310.0
17 TraesCS6B01G355000 chr6D 97.040 642 16 3 1290 1930 413383745 413384384 0.000000e+00 1077.0
18 TraesCS6B01G355000 chr6D 78.843 553 61 33 470 998 413380716 413381236 3.470000e-84 322.0
19 TraesCS6B01G355000 chr6D 92.857 168 12 0 180 347 413382633 413382800 7.730000e-61 244.0
20 TraesCS6B01G355000 chr6D 84.615 117 16 2 1170 1285 413383892 413384007 6.320000e-22 115.0
21 TraesCS6B01G355000 chr6D 94.521 73 4 0 3 75 413382562 413382634 2.270000e-21 113.0
22 TraesCS6B01G355000 chr2B 98.106 528 8 2 2268 2793 35023047 35022520 0.000000e+00 918.0
23 TraesCS6B01G355000 chr2B 96.306 379 11 2 1917 2294 35023442 35023066 1.100000e-173 619.0
24 TraesCS6B01G355000 chr2B 96.000 375 13 2 1921 2294 1258 885 2.380000e-170 608.0
25 TraesCS6B01G355000 chr7A 97.921 529 9 2 2266 2793 671183252 671182725 0.000000e+00 915.0
26 TraesCS6B01G355000 chr7A 97.543 529 11 2 2266 2793 88932274 88931747 0.000000e+00 904.0
27 TraesCS6B01G355000 chr7A 96.084 383 12 2 1913 2294 88932671 88932291 3.060000e-174 621.0
28 TraesCS6B01G355000 chr7A 96.533 375 11 2 1921 2294 671183642 671183269 1.100000e-173 619.0
29 TraesCS6B01G355000 chr7B 97.556 532 9 2 2266 2793 680677297 680677828 0.000000e+00 907.0
30 TraesCS6B01G355000 chr7B 93.542 542 21 3 2266 2793 746482545 746483086 0.000000e+00 795.0
31 TraesCS6B01G355000 chr7B 92.831 544 23 3 2266 2793 59947863 59947320 0.000000e+00 774.0
32 TraesCS6B01G355000 chr7B 96.533 375 12 1 1921 2294 747609221 747609595 1.100000e-173 619.0
33 TraesCS6B01G355000 chr7B 96.970 363 9 2 1921 2282 680676920 680677281 2.380000e-170 608.0
34 TraesCS6B01G355000 chr7B 98.425 127 2 0 345 471 505938654 505938528 1.010000e-54 224.0
35 TraesCS6B01G355000 chr7B 97.674 129 3 0 344 472 489146773 489146901 3.620000e-54 222.0
36 TraesCS6B01G355000 chr7B 94.783 115 5 1 68 181 676845826 676845940 7.950000e-41 178.0
37 TraesCS6B01G355000 chr3A 97.358 530 12 2 2266 2793 22538409 22538938 0.000000e+00 900.0
38 TraesCS6B01G355000 chr3A 97.067 375 10 1 1921 2294 22538018 22538392 5.080000e-177 630.0
39 TraesCS6B01G355000 chr3A 93.836 146 8 1 334 478 522181295 522181440 4.680000e-53 219.0
40 TraesCS6B01G355000 chr3A 96.552 116 4 0 70 185 621664488 621664603 2.840000e-45 193.0
41 TraesCS6B01G355000 chrUn 93.211 545 20 2 2266 2793 220231710 220232254 0.000000e+00 785.0
42 TraesCS6B01G355000 chrUn 93.028 545 21 2 2266 2793 146270395 146269851 0.000000e+00 780.0
43 TraesCS6B01G355000 chrUn 96.350 137 4 1 343 479 322720538 322720403 1.010000e-54 224.0
44 TraesCS6B01G355000 chr3B 96.800 375 11 1 1921 2294 89589797 89590171 2.360000e-175 625.0
45 TraesCS6B01G355000 chr4A 96.267 375 13 1 1921 2294 609301690 609302064 5.110000e-172 614.0
46 TraesCS6B01G355000 chr4A 97.674 129 3 0 345 473 200095980 200095852 3.620000e-54 222.0
47 TraesCS6B01G355000 chr5B 97.674 129 3 0 344 472 555175730 555175602 3.620000e-54 222.0
48 TraesCS6B01G355000 chr5B 97.674 129 3 0 345 473 711836952 711837080 3.620000e-54 222.0
49 TraesCS6B01G355000 chr5B 93.548 124 7 1 60 182 24237263 24237140 1.710000e-42 183.0
50 TraesCS6B01G355000 chr1A 95.620 137 6 0 344 480 505092392 505092528 1.300000e-53 220.0
51 TraesCS6B01G355000 chr3D 100.000 108 0 0 74 181 508071871 508071978 1.700000e-47 200.0
52 TraesCS6B01G355000 chr4B 97.345 113 2 1 69 181 613151738 613151849 1.020000e-44 191.0
53 TraesCS6B01G355000 chr4B 97.222 108 3 0 74 181 403837654 403837761 1.710000e-42 183.0
54 TraesCS6B01G355000 chr5D 94.958 119 4 2 73 189 81782997 81783115 4.750000e-43 185.0
55 TraesCS6B01G355000 chr7D 95.652 115 4 1 68 181 597623083 597622969 1.710000e-42 183.0
56 TraesCS6B01G355000 chr4D 96.460 113 1 3 70 181 483059527 483059637 1.710000e-42 183.0


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 TraesCS6B01G355000 chr6B 623367917 623370709 2792 False 5158.000000 5158 100.000000 1 2793 1 chr6B.!!$F2 2792
1 TraesCS6B01G355000 chr6B 623443772 623446328 2556 False 640.000000 2052 90.224500 180 1930 4 chr6B.!!$F3 1750
2 TraesCS6B01G355000 chr6B 623358236 623358763 527 False 350.000000 350 79.713000 471 998 1 chr6B.!!$F1 527
3 TraesCS6B01G355000 chr6A 558932778 558934398 1620 False 805.666667 2045 90.330000 180 1930 3 chr6A.!!$F3 1750
4 TraesCS6B01G355000 chr6A 558919678 558921449 1771 False 564.200000 1328 91.799200 3 1920 5 chr6A.!!$F2 1917
5 TraesCS6B01G355000 chr6D 413380716 413384384 3668 False 530.166667 1310 89.749167 3 1930 6 chr6D.!!$F1 1927
6 TraesCS6B01G355000 chr2B 35022520 35023442 922 True 768.500000 918 97.206000 1917 2793 2 chr2B.!!$R2 876
7 TraesCS6B01G355000 chr7A 671182725 671183642 917 True 767.000000 915 97.227000 1921 2793 2 chr7A.!!$R2 872
8 TraesCS6B01G355000 chr7A 88931747 88932671 924 True 762.500000 904 96.813500 1913 2793 2 chr7A.!!$R1 880
9 TraesCS6B01G355000 chr7B 746482545 746483086 541 False 795.000000 795 93.542000 2266 2793 1 chr7B.!!$F3 527
10 TraesCS6B01G355000 chr7B 59947320 59947863 543 True 774.000000 774 92.831000 2266 2793 1 chr7B.!!$R1 527
11 TraesCS6B01G355000 chr7B 680676920 680677828 908 False 757.500000 907 97.263000 1921 2793 2 chr7B.!!$F5 872
12 TraesCS6B01G355000 chr3A 22538018 22538938 920 False 765.000000 900 97.212500 1921 2793 2 chr3A.!!$F3 872
13 TraesCS6B01G355000 chrUn 220231710 220232254 544 False 785.000000 785 93.211000 2266 2793 1 chrUn.!!$F1 527
14 TraesCS6B01G355000 chrUn 146269851 146270395 544 True 780.000000 780 93.028000 2266 2793 1 chrUn.!!$R1 527

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
362 2133 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.0 5.23 0.0 44.66 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2136 4190 0.187606 TAGGCGGGCCTCATCTAAGA 59.812 55.0 16.87 0.0 44.43 2.1 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
25 26 1.071385 ACATGCCAGCCTGCTATCTAC 59.929 52.381 0.00 0.00 0.00 2.59
27 28 1.203237 TGCCAGCCTGCTATCTACAA 58.797 50.000 0.00 0.00 0.00 2.41
28 29 1.134401 TGCCAGCCTGCTATCTACAAC 60.134 52.381 0.00 0.00 0.00 3.32
29 30 1.811941 GCCAGCCTGCTATCTACAACC 60.812 57.143 0.00 0.00 0.00 3.77
30 31 1.765314 CCAGCCTGCTATCTACAACCT 59.235 52.381 0.00 0.00 0.00 3.50
31 32 2.965831 CCAGCCTGCTATCTACAACCTA 59.034 50.000 0.00 0.00 0.00 3.08
77 80 8.904099 ACCACAGCCATTAATTATTACTACTC 57.096 34.615 0.00 0.00 0.00 2.59
78 81 7.937394 ACCACAGCCATTAATTATTACTACTCC 59.063 37.037 0.00 0.00 0.00 3.85
79 82 7.390718 CCACAGCCATTAATTATTACTACTCCC 59.609 40.741 0.00 0.00 0.00 4.30
82 85 7.824779 CAGCCATTAATTATTACTACTCCCTCC 59.175 40.741 0.00 0.00 0.00 4.30
83 86 6.817140 GCCATTAATTATTACTACTCCCTCCG 59.183 42.308 0.00 0.00 0.00 4.63
85 88 8.373220 CCATTAATTATTACTACTCCCTCCGTT 58.627 37.037 0.00 0.00 0.00 4.44
86 89 9.420551 CATTAATTATTACTACTCCCTCCGTTC 57.579 37.037 0.00 0.00 0.00 3.95
87 90 5.702349 ATTATTACTACTCCCTCCGTTCG 57.298 43.478 0.00 0.00 0.00 3.95
92 95 2.366590 ACTACTCCCTCCGTTCGTTTTT 59.633 45.455 0.00 0.00 0.00 1.94
93 96 3.573967 ACTACTCCCTCCGTTCGTTTTTA 59.426 43.478 0.00 0.00 0.00 1.52
94 97 3.690475 ACTCCCTCCGTTCGTTTTTAT 57.310 42.857 0.00 0.00 0.00 1.40
95 98 4.806640 ACTCCCTCCGTTCGTTTTTATA 57.193 40.909 0.00 0.00 0.00 0.98
96 99 5.151297 ACTCCCTCCGTTCGTTTTTATAA 57.849 39.130 0.00 0.00 0.00 0.98
97 100 5.173664 ACTCCCTCCGTTCGTTTTTATAAG 58.826 41.667 0.00 0.00 0.00 1.73
98 101 4.506758 TCCCTCCGTTCGTTTTTATAAGG 58.493 43.478 0.00 0.00 0.00 2.69
100 103 3.242188 CCTCCGTTCGTTTTTATAAGGCG 60.242 47.826 0.00 0.00 0.00 5.52
101 104 3.324993 TCCGTTCGTTTTTATAAGGCGT 58.675 40.909 5.68 0.00 0.00 5.68
102 105 3.745458 TCCGTTCGTTTTTATAAGGCGTT 59.255 39.130 0.00 0.00 0.00 4.84
103 106 4.213059 TCCGTTCGTTTTTATAAGGCGTTT 59.787 37.500 0.00 0.00 0.00 3.60
104 107 5.406780 TCCGTTCGTTTTTATAAGGCGTTTA 59.593 36.000 0.00 0.00 0.00 2.01
105 108 6.073548 TCCGTTCGTTTTTATAAGGCGTTTAA 60.074 34.615 0.00 0.00 0.00 1.52
106 109 6.246956 CCGTTCGTTTTTATAAGGCGTTTAAG 59.753 38.462 0.00 0.00 0.00 1.85
107 110 7.008859 CGTTCGTTTTTATAAGGCGTTTAAGA 58.991 34.615 0.00 0.00 0.00 2.10
108 111 7.005593 CGTTCGTTTTTATAAGGCGTTTAAGAC 59.994 37.037 0.00 0.00 0.00 3.01
110 113 7.512297 TCGTTTTTATAAGGCGTTTAAGACAG 58.488 34.615 0.00 0.00 0.00 3.51
111 114 6.247791 CGTTTTTATAAGGCGTTTAAGACAGC 59.752 38.462 0.00 0.00 0.00 4.40
113 116 6.417191 TTTATAAGGCGTTTAAGACAGCTG 57.583 37.500 13.48 13.48 0.00 4.24
114 117 1.523758 AAGGCGTTTAAGACAGCTGG 58.476 50.000 19.93 0.00 0.00 4.85
118 121 2.034179 GGCGTTTAAGACAGCTGGTTTT 59.966 45.455 19.93 11.36 0.00 2.43
119 122 3.042887 GCGTTTAAGACAGCTGGTTTTG 58.957 45.455 19.93 0.97 0.00 2.44
120 123 3.242936 GCGTTTAAGACAGCTGGTTTTGA 60.243 43.478 19.93 3.19 0.00 2.69
121 124 4.732355 GCGTTTAAGACAGCTGGTTTTGAA 60.732 41.667 19.93 9.12 0.00 2.69
122 125 4.733405 CGTTTAAGACAGCTGGTTTTGAAC 59.267 41.667 19.93 18.15 36.99 3.18
123 126 5.448632 CGTTTAAGACAGCTGGTTTTGAACT 60.449 40.000 19.93 0.00 37.70 3.01
124 127 5.499139 TTAAGACAGCTGGTTTTGAACTG 57.501 39.130 19.93 0.00 0.00 3.16
125 128 3.004752 AGACAGCTGGTTTTGAACTGT 57.995 42.857 19.93 0.00 43.93 3.55
126 129 3.356290 AGACAGCTGGTTTTGAACTGTT 58.644 40.909 19.93 0.00 41.45 3.16
127 130 3.763897 AGACAGCTGGTTTTGAACTGTTT 59.236 39.130 19.93 0.00 41.45 2.83
129 132 5.066505 AGACAGCTGGTTTTGAACTGTTTAG 59.933 40.000 19.93 0.00 41.45 1.85
130 133 4.947388 ACAGCTGGTTTTGAACTGTTTAGA 59.053 37.500 19.93 0.00 38.38 2.10
131 134 5.066505 ACAGCTGGTTTTGAACTGTTTAGAG 59.933 40.000 19.93 0.00 38.38 2.43
132 135 4.036852 AGCTGGTTTTGAACTGTTTAGAGC 59.963 41.667 0.00 0.00 0.00 4.09
134 137 5.243426 TGGTTTTGAACTGTTTAGAGCAC 57.757 39.130 0.00 0.00 0.00 4.40
135 138 4.947388 TGGTTTTGAACTGTTTAGAGCACT 59.053 37.500 0.00 0.00 0.00 4.40
136 139 5.163663 TGGTTTTGAACTGTTTAGAGCACTG 60.164 40.000 0.00 0.00 0.00 3.66
137 140 5.163652 GGTTTTGAACTGTTTAGAGCACTGT 60.164 40.000 0.00 0.00 0.00 3.55
138 141 5.734855 TTTGAACTGTTTAGAGCACTGTC 57.265 39.130 0.00 0.00 0.00 3.51
139 142 4.672587 TGAACTGTTTAGAGCACTGTCT 57.327 40.909 0.00 0.00 0.00 3.41
141 144 4.099419 TGAACTGTTTAGAGCACTGTCTGA 59.901 41.667 0.00 0.00 0.00 3.27
142 145 4.672587 ACTGTTTAGAGCACTGTCTGAA 57.327 40.909 0.00 0.00 0.00 3.02
155 158 3.188159 TGTCTGAACAGGCTTAAACGT 57.812 42.857 7.89 0.00 33.37 3.99
156 159 3.128349 TGTCTGAACAGGCTTAAACGTC 58.872 45.455 7.89 0.00 33.37 4.34
157 160 3.181469 TGTCTGAACAGGCTTAAACGTCT 60.181 43.478 7.89 0.00 33.37 4.18
158 161 3.808174 GTCTGAACAGGCTTAAACGTCTT 59.192 43.478 0.00 0.00 0.00 3.01
159 162 4.986659 GTCTGAACAGGCTTAAACGTCTTA 59.013 41.667 0.00 0.00 0.00 2.10
160 163 5.638234 GTCTGAACAGGCTTAAACGTCTTAT 59.362 40.000 0.00 0.00 0.00 1.73
163 166 8.689061 TCTGAACAGGCTTAAACGTCTTATATA 58.311 33.333 1.93 0.00 0.00 0.86
164 167 9.309516 CTGAACAGGCTTAAACGTCTTATATAA 57.690 33.333 0.00 0.00 0.00 0.98
165 168 9.309516 TGAACAGGCTTAAACGTCTTATATAAG 57.690 33.333 15.25 15.25 34.65 1.73
166 169 9.310716 GAACAGGCTTAAACGTCTTATATAAGT 57.689 33.333 19.58 5.32 34.93 2.24
167 170 8.644318 ACAGGCTTAAACGTCTTATATAAGTG 57.356 34.615 19.58 15.80 34.93 3.16
168 171 8.472413 ACAGGCTTAAACGTCTTATATAAGTGA 58.528 33.333 19.58 1.84 34.93 3.41
169 172 9.309516 CAGGCTTAAACGTCTTATATAAGTGAA 57.690 33.333 19.58 0.90 34.93 3.18
170 173 9.310716 AGGCTTAAACGTCTTATATAAGTGAAC 57.689 33.333 19.58 11.26 34.93 3.18
171 174 9.090692 GGCTTAAACGTCTTATATAAGTGAACA 57.909 33.333 19.58 0.21 34.93 3.18
175 178 8.928270 AAACGTCTTATATAAGTGAACAGAGG 57.072 34.615 19.58 8.80 34.93 3.69
176 179 7.040473 ACGTCTTATATAAGTGAACAGAGGG 57.960 40.000 19.58 3.74 34.93 4.30
177 180 6.832384 ACGTCTTATATAAGTGAACAGAGGGA 59.168 38.462 19.58 0.00 34.93 4.20
178 181 7.013464 ACGTCTTATATAAGTGAACAGAGGGAG 59.987 40.741 19.58 2.63 34.93 4.30
273 2044 3.897239 TGGTATGGGTCTTTTAGGCATG 58.103 45.455 0.00 0.00 0.00 4.06
320 2091 6.327626 AGTGTGGAGTATTAGATAAGCATGGT 59.672 38.462 0.00 0.00 0.00 3.55
324 2095 7.547370 GTGGAGTATTAGATAAGCATGGTCATC 59.453 40.741 0.00 0.00 0.00 2.92
344 2115 7.309438 GGTCATCTGCTTGTTTCTTTTTCCTAT 60.309 37.037 0.00 0.00 0.00 2.57
345 2116 8.730680 GTCATCTGCTTGTTTCTTTTTCCTATA 58.269 33.333 0.00 0.00 0.00 1.31
346 2117 8.730680 TCATCTGCTTGTTTCTTTTTCCTATAC 58.269 33.333 0.00 0.00 0.00 1.47
347 2118 8.734386 CATCTGCTTGTTTCTTTTTCCTATACT 58.266 33.333 0.00 0.00 0.00 2.12
348 2119 8.324163 TCTGCTTGTTTCTTTTTCCTATACTC 57.676 34.615 0.00 0.00 0.00 2.59
349 2120 7.390718 TCTGCTTGTTTCTTTTTCCTATACTCC 59.609 37.037 0.00 0.00 0.00 3.85
350 2121 6.433093 TGCTTGTTTCTTTTTCCTATACTCCC 59.567 38.462 0.00 0.00 0.00 4.30
351 2122 6.659668 GCTTGTTTCTTTTTCCTATACTCCCT 59.340 38.462 0.00 0.00 0.00 4.20
352 2123 7.148222 GCTTGTTTCTTTTTCCTATACTCCCTC 60.148 40.741 0.00 0.00 0.00 4.30
353 2124 6.718294 TGTTTCTTTTTCCTATACTCCCTCC 58.282 40.000 0.00 0.00 0.00 4.30
354 2125 5.609533 TTCTTTTTCCTATACTCCCTCCG 57.390 43.478 0.00 0.00 0.00 4.63
355 2126 4.617593 TCTTTTTCCTATACTCCCTCCGT 58.382 43.478 0.00 0.00 0.00 4.69
356 2127 4.648307 TCTTTTTCCTATACTCCCTCCGTC 59.352 45.833 0.00 0.00 0.00 4.79
357 2128 2.671896 TTCCTATACTCCCTCCGTCC 57.328 55.000 0.00 0.00 0.00 4.79
358 2129 0.399454 TCCTATACTCCCTCCGTCCG 59.601 60.000 0.00 0.00 0.00 4.79
359 2130 0.608582 CCTATACTCCCTCCGTCCGG 60.609 65.000 0.00 0.00 0.00 5.14
360 2131 0.399454 CTATACTCCCTCCGTCCGGA 59.601 60.000 0.00 0.00 42.90 5.14
361 2132 0.846015 TATACTCCCTCCGTCCGGAA 59.154 55.000 5.23 0.00 44.66 4.30
362 2133 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
363 2134 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
364 2135 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
365 2136 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
366 2137 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
367 2138 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
368 2139 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
369 2140 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
370 2141 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
371 2142 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
372 2143 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
373 2144 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
374 2145 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
375 2146 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
376 2147 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
377 2148 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
378 2149 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
379 2150 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
380 2151 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
381 2152 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
382 2153 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
390 2161 9.918630 ACTTGTCATCAAAATGAATAAAAGGAG 57.081 29.630 0.00 0.00 43.42 3.69
428 2199 9.670442 TGTATTTAAGTTCTAGATACATCCCCT 57.330 33.333 0.00 0.00 30.60 4.79
432 2203 9.681062 TTTAAGTTCTAGATACATCCCCTTTTG 57.319 33.333 0.00 0.00 0.00 2.44
433 2204 6.893020 AGTTCTAGATACATCCCCTTTTGT 57.107 37.500 0.00 0.00 0.00 2.83
434 2205 6.890293 AGTTCTAGATACATCCCCTTTTGTC 58.110 40.000 0.00 0.00 0.00 3.18
435 2206 5.888982 TCTAGATACATCCCCTTTTGTCC 57.111 43.478 0.00 0.00 0.00 4.02
436 2207 5.285401 TCTAGATACATCCCCTTTTGTCCA 58.715 41.667 0.00 0.00 0.00 4.02
437 2208 5.911178 TCTAGATACATCCCCTTTTGTCCAT 59.089 40.000 0.00 0.00 0.00 3.41
438 2209 5.472301 AGATACATCCCCTTTTGTCCATT 57.528 39.130 0.00 0.00 0.00 3.16
439 2210 5.842339 AGATACATCCCCTTTTGTCCATTT 58.158 37.500 0.00 0.00 0.00 2.32
440 2211 6.263754 AGATACATCCCCTTTTGTCCATTTT 58.736 36.000 0.00 0.00 0.00 1.82
441 2212 4.622260 ACATCCCCTTTTGTCCATTTTG 57.378 40.909 0.00 0.00 0.00 2.44
442 2213 4.230455 ACATCCCCTTTTGTCCATTTTGA 58.770 39.130 0.00 0.00 0.00 2.69
443 2214 4.845796 ACATCCCCTTTTGTCCATTTTGAT 59.154 37.500 0.00 0.00 0.00 2.57
444 2215 4.888326 TCCCCTTTTGTCCATTTTGATG 57.112 40.909 0.00 0.00 0.00 3.07
445 2216 4.487804 TCCCCTTTTGTCCATTTTGATGA 58.512 39.130 0.00 0.00 0.00 2.92
446 2217 4.283212 TCCCCTTTTGTCCATTTTGATGAC 59.717 41.667 0.00 0.00 0.00 3.06
447 2218 4.040217 CCCCTTTTGTCCATTTTGATGACA 59.960 41.667 0.00 0.00 0.00 3.58
448 2219 5.454471 CCCCTTTTGTCCATTTTGATGACAA 60.454 40.000 0.00 0.00 34.47 3.18
449 2220 5.697633 CCCTTTTGTCCATTTTGATGACAAG 59.302 40.000 0.00 0.00 37.13 3.16
450 2221 6.282930 CCTTTTGTCCATTTTGATGACAAGT 58.717 36.000 0.00 0.00 37.13 3.16
451 2222 7.432869 CCTTTTGTCCATTTTGATGACAAGTA 58.567 34.615 0.00 0.00 37.13 2.24
452 2223 8.090214 CCTTTTGTCCATTTTGATGACAAGTAT 58.910 33.333 0.00 0.00 37.13 2.12
453 2224 9.480053 CTTTTGTCCATTTTGATGACAAGTATT 57.520 29.630 0.00 0.00 37.13 1.89
454 2225 9.829507 TTTTGTCCATTTTGATGACAAGTATTT 57.170 25.926 0.00 0.00 37.13 1.40
455 2226 9.829507 TTTGTCCATTTTGATGACAAGTATTTT 57.170 25.926 0.00 0.00 37.13 1.82
456 2227 9.474920 TTGTCCATTTTGATGACAAGTATTTTC 57.525 29.630 0.00 0.00 37.32 2.29
457 2228 7.807433 TGTCCATTTTGATGACAAGTATTTTCG 59.193 33.333 0.00 0.00 37.32 3.46
458 2229 7.273381 GTCCATTTTGATGACAAGTATTTTCGG 59.727 37.037 0.00 0.00 37.32 4.30
459 2230 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
460 2231 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
461 2232 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
462 2233 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
463 2234 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
464 2235 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
465 2236 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
466 2237 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
467 2238 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
468 2239 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
520 2309 1.069227 GTCACACTGGCCGTCAAATTC 60.069 52.381 0.00 0.00 0.00 2.17
551 2341 3.260205 TCCTCCCTTCTGAATCTGGTTT 58.740 45.455 0.00 0.00 0.00 3.27
553 2343 4.849810 TCCTCCCTTCTGAATCTGGTTTAA 59.150 41.667 0.00 0.00 0.00 1.52
581 2371 3.225104 TGTTTGCAGCCTCTGAATTCTT 58.775 40.909 7.05 0.00 32.44 2.52
582 2372 3.638160 TGTTTGCAGCCTCTGAATTCTTT 59.362 39.130 7.05 0.00 32.44 2.52
583 2373 4.099881 TGTTTGCAGCCTCTGAATTCTTTT 59.900 37.500 7.05 0.00 32.44 2.27
584 2374 4.510038 TTGCAGCCTCTGAATTCTTTTC 57.490 40.909 7.05 0.00 32.44 2.29
585 2375 3.759581 TGCAGCCTCTGAATTCTTTTCT 58.240 40.909 7.05 0.00 32.44 2.52
586 2376 4.910195 TGCAGCCTCTGAATTCTTTTCTA 58.090 39.130 7.05 0.00 32.44 2.10
587 2377 5.503927 TGCAGCCTCTGAATTCTTTTCTAT 58.496 37.500 7.05 0.00 32.44 1.98
588 2378 5.587844 TGCAGCCTCTGAATTCTTTTCTATC 59.412 40.000 7.05 0.00 32.44 2.08
589 2379 5.821995 GCAGCCTCTGAATTCTTTTCTATCT 59.178 40.000 7.05 0.00 32.44 1.98
590 2380 6.989169 GCAGCCTCTGAATTCTTTTCTATCTA 59.011 38.462 7.05 0.00 32.44 1.98
591 2381 7.497249 GCAGCCTCTGAATTCTTTTCTATCTAA 59.503 37.037 7.05 0.00 32.44 2.10
944 2760 3.747010 TGCACGCCGAAATTACTTTTCTA 59.253 39.130 0.00 0.00 41.37 2.10
974 2790 2.821546 GCGATGCCAATCTGTACTACA 58.178 47.619 0.00 0.00 0.00 2.74
1009 2834 9.881773 TTGCATCCTAAAAATCCCTATAAATCT 57.118 29.630 0.00 0.00 0.00 2.40
1051 2878 4.541085 TGATCACAATCATCATCAACGC 57.459 40.909 0.00 0.00 36.98 4.84
1109 2936 7.512746 AGAGTGTGGACTAGATCTAGAGAGTAT 59.487 40.741 31.91 11.85 36.97 2.12
1333 3382 2.825836 GATGGGGGCAAGCACGAG 60.826 66.667 0.00 0.00 0.00 4.18
1438 3487 0.804989 GCAGCGCCAACAAGAGTAAT 59.195 50.000 2.29 0.00 0.00 1.89
1490 3539 3.121030 CCGAGTTCAAGCAGGCCG 61.121 66.667 0.00 0.00 0.00 6.13
1809 3861 0.249120 TAGGATGCACCGTGAACTGG 59.751 55.000 1.65 0.00 44.74 4.00
2094 4148 4.988716 TGCCGTCGGGACCTCTGT 62.989 66.667 14.38 0.00 34.06 3.41
2378 4480 1.404181 CCACGTCATCGATCCACAACT 60.404 52.381 0.00 0.00 40.62 3.16
2501 4606 1.704641 TACCGTGGCAGAGATATGCT 58.295 50.000 0.00 0.00 45.75 3.79
2589 4694 0.389391 ACGTCATCGATCCATGACCC 59.611 55.000 22.75 4.74 46.95 4.46
2719 4854 8.723942 TTTTTACAATACAAATGTGCCTTGTT 57.276 26.923 8.50 0.00 38.05 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 6.040247 TCTGATATGTTGTAACGCTAGGTTG 58.960 40.000 6.81 0.00 39.75 3.77
27 28 5.847111 TCTGATATGTTGTAACGCTAGGT 57.153 39.130 0.00 0.00 0.00 3.08
28 29 7.328737 GGTTATCTGATATGTTGTAACGCTAGG 59.671 40.741 0.00 0.00 0.00 3.02
29 30 7.865889 TGGTTATCTGATATGTTGTAACGCTAG 59.134 37.037 0.00 0.00 0.00 3.42
30 31 7.650504 GTGGTTATCTGATATGTTGTAACGCTA 59.349 37.037 0.00 0.00 0.00 4.26
31 32 6.479001 GTGGTTATCTGATATGTTGTAACGCT 59.521 38.462 0.00 0.00 0.00 5.07
74 77 3.690475 ATAAAAACGAACGGAGGGAGT 57.310 42.857 0.00 0.00 0.00 3.85
75 78 4.569564 CCTTATAAAAACGAACGGAGGGAG 59.430 45.833 0.00 0.00 0.00 4.30
77 80 3.064408 GCCTTATAAAAACGAACGGAGGG 59.936 47.826 0.00 0.00 0.00 4.30
78 81 3.242188 CGCCTTATAAAAACGAACGGAGG 60.242 47.826 0.00 0.00 0.00 4.30
79 82 3.368843 ACGCCTTATAAAAACGAACGGAG 59.631 43.478 8.05 0.00 0.00 4.63
82 85 7.005593 GTCTTAAACGCCTTATAAAAACGAACG 59.994 37.037 8.05 0.00 0.00 3.95
83 86 7.798052 TGTCTTAAACGCCTTATAAAAACGAAC 59.202 33.333 8.05 0.00 0.00 3.95
85 88 7.418840 TGTCTTAAACGCCTTATAAAAACGA 57.581 32.000 8.05 0.00 0.00 3.85
86 89 6.247791 GCTGTCTTAAACGCCTTATAAAAACG 59.752 38.462 1.22 1.22 0.00 3.60
87 90 7.270579 CAGCTGTCTTAAACGCCTTATAAAAAC 59.729 37.037 5.25 0.00 0.00 2.43
92 95 4.081309 ACCAGCTGTCTTAAACGCCTTATA 60.081 41.667 13.81 0.00 0.00 0.98
93 96 3.270877 CCAGCTGTCTTAAACGCCTTAT 58.729 45.455 13.81 0.00 0.00 1.73
94 97 2.038033 ACCAGCTGTCTTAAACGCCTTA 59.962 45.455 13.81 0.00 0.00 2.69
95 98 1.202770 ACCAGCTGTCTTAAACGCCTT 60.203 47.619 13.81 0.00 0.00 4.35
96 99 0.396811 ACCAGCTGTCTTAAACGCCT 59.603 50.000 13.81 0.00 0.00 5.52
97 100 1.235724 AACCAGCTGTCTTAAACGCC 58.764 50.000 13.81 0.00 0.00 5.68
98 101 3.042887 CAAAACCAGCTGTCTTAAACGC 58.957 45.455 13.81 0.00 0.00 4.84
100 103 5.743872 CAGTTCAAAACCAGCTGTCTTAAAC 59.256 40.000 13.81 12.25 0.00 2.01
101 104 5.417580 ACAGTTCAAAACCAGCTGTCTTAAA 59.582 36.000 13.81 1.56 35.78 1.52
102 105 4.947388 ACAGTTCAAAACCAGCTGTCTTAA 59.053 37.500 13.81 0.00 35.78 1.85
103 106 4.523083 ACAGTTCAAAACCAGCTGTCTTA 58.477 39.130 13.81 0.00 35.78 2.10
104 107 3.356290 ACAGTTCAAAACCAGCTGTCTT 58.644 40.909 13.81 2.08 35.78 3.01
105 108 3.004752 ACAGTTCAAAACCAGCTGTCT 57.995 42.857 13.81 0.00 35.78 3.41
106 109 3.782889 AACAGTTCAAAACCAGCTGTC 57.217 42.857 13.81 0.00 39.19 3.51
107 110 4.947388 TCTAAACAGTTCAAAACCAGCTGT 59.053 37.500 13.81 0.00 41.51 4.40
108 111 5.499139 TCTAAACAGTTCAAAACCAGCTG 57.501 39.130 6.78 6.78 0.00 4.24
110 113 4.202010 TGCTCTAAACAGTTCAAAACCAGC 60.202 41.667 0.00 0.00 0.00 4.85
111 114 5.066505 AGTGCTCTAAACAGTTCAAAACCAG 59.933 40.000 0.00 0.00 0.00 4.00
113 116 5.163652 ACAGTGCTCTAAACAGTTCAAAACC 60.164 40.000 0.00 0.00 0.00 3.27
114 117 5.880341 ACAGTGCTCTAAACAGTTCAAAAC 58.120 37.500 0.00 0.00 0.00 2.43
118 121 4.099419 TCAGACAGTGCTCTAAACAGTTCA 59.901 41.667 0.00 0.00 0.00 3.18
119 122 4.621991 TCAGACAGTGCTCTAAACAGTTC 58.378 43.478 0.00 0.00 0.00 3.01
120 123 4.672587 TCAGACAGTGCTCTAAACAGTT 57.327 40.909 0.00 0.00 0.00 3.16
121 124 4.141937 TGTTCAGACAGTGCTCTAAACAGT 60.142 41.667 7.12 0.00 0.00 3.55
122 125 4.371786 TGTTCAGACAGTGCTCTAAACAG 58.628 43.478 7.12 0.00 0.00 3.16
123 126 4.371786 CTGTTCAGACAGTGCTCTAAACA 58.628 43.478 9.62 9.62 46.57 2.83
124 127 4.981389 CTGTTCAGACAGTGCTCTAAAC 57.019 45.455 0.00 0.00 46.57 2.01
135 138 3.128349 GACGTTTAAGCCTGTTCAGACA 58.872 45.455 1.00 0.00 0.00 3.41
136 139 3.391049 AGACGTTTAAGCCTGTTCAGAC 58.609 45.455 1.00 0.00 0.00 3.51
137 140 3.746045 AGACGTTTAAGCCTGTTCAGA 57.254 42.857 1.00 0.00 0.00 3.27
138 141 7.772332 ATATAAGACGTTTAAGCCTGTTCAG 57.228 36.000 0.00 0.00 0.00 3.02
139 142 9.309516 CTTATATAAGACGTTTAAGCCTGTTCA 57.690 33.333 16.21 0.00 35.33 3.18
141 144 9.095065 CACTTATATAAGACGTTTAAGCCTGTT 57.905 33.333 25.83 0.00 37.08 3.16
142 145 8.472413 TCACTTATATAAGACGTTTAAGCCTGT 58.528 33.333 25.83 0.00 37.08 4.00
145 148 9.090692 TGTTCACTTATATAAGACGTTTAAGCC 57.909 33.333 25.83 5.87 37.08 4.35
150 153 7.980099 CCCTCTGTTCACTTATATAAGACGTTT 59.020 37.037 25.83 3.40 37.08 3.60
151 154 7.341256 TCCCTCTGTTCACTTATATAAGACGTT 59.659 37.037 25.83 3.75 37.08 3.99
153 156 7.013464 ACTCCCTCTGTTCACTTATATAAGACG 59.987 40.741 25.83 16.70 37.08 4.18
154 157 8.240267 ACTCCCTCTGTTCACTTATATAAGAC 57.760 38.462 25.83 15.30 37.08 3.01
155 158 9.575868 CTACTCCCTCTGTTCACTTATATAAGA 57.424 37.037 25.83 5.05 37.08 2.10
156 159 9.575868 TCTACTCCCTCTGTTCACTTATATAAG 57.424 37.037 18.99 18.99 39.18 1.73
157 160 9.931698 TTCTACTCCCTCTGTTCACTTATATAA 57.068 33.333 0.00 0.00 0.00 0.98
158 161 9.931698 TTTCTACTCCCTCTGTTCACTTATATA 57.068 33.333 0.00 0.00 0.00 0.86
159 162 8.840200 TTTCTACTCCCTCTGTTCACTTATAT 57.160 34.615 0.00 0.00 0.00 0.86
160 163 8.660295 TTTTCTACTCCCTCTGTTCACTTATA 57.340 34.615 0.00 0.00 0.00 0.98
163 166 5.888982 TTTTCTACTCCCTCTGTTCACTT 57.111 39.130 0.00 0.00 0.00 3.16
164 167 5.888982 TTTTTCTACTCCCTCTGTTCACT 57.111 39.130 0.00 0.00 0.00 3.41
188 1959 1.252215 TGAGGACCACCGCAACGATA 61.252 55.000 0.00 0.00 42.60 2.92
273 2044 4.907879 ATAGTTGGCAAGCATTTAGAGC 57.092 40.909 0.00 0.00 0.00 4.09
283 2054 4.207891 ACTCCACACTATAGTTGGCAAG 57.792 45.455 20.56 17.31 0.00 4.01
320 2091 7.765695 ATAGGAAAAAGAAACAAGCAGATGA 57.234 32.000 0.00 0.00 0.00 2.92
324 2095 7.362142 GGGAGTATAGGAAAAAGAAACAAGCAG 60.362 40.741 0.00 0.00 0.00 4.24
344 2115 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
345 2116 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
346 2117 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
347 2118 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
348 2119 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
349 2120 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
350 2121 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
351 2122 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
352 2123 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
353 2124 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
354 2125 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
355 2126 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
356 2127 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
357 2128 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
364 2135 9.918630 CTCCTTTTATTCATTTTGATGACAAGT 57.081 29.630 0.00 0.00 37.32 3.16
402 2173 9.670442 AGGGGATGTATCTAGAACTTAAATACA 57.330 33.333 0.00 0.00 37.26 2.29
406 2177 9.681062 CAAAAGGGGATGTATCTAGAACTTAAA 57.319 33.333 0.00 0.00 0.00 1.52
407 2178 8.832735 ACAAAAGGGGATGTATCTAGAACTTAA 58.167 33.333 0.00 0.00 0.00 1.85
408 2179 8.388656 ACAAAAGGGGATGTATCTAGAACTTA 57.611 34.615 0.00 0.00 0.00 2.24
409 2180 7.272144 ACAAAAGGGGATGTATCTAGAACTT 57.728 36.000 0.00 0.00 0.00 2.66
410 2181 6.126739 GGACAAAAGGGGATGTATCTAGAACT 60.127 42.308 0.00 0.00 0.00 3.01
411 2182 6.056236 GGACAAAAGGGGATGTATCTAGAAC 58.944 44.000 0.00 0.00 0.00 3.01
412 2183 5.729229 TGGACAAAAGGGGATGTATCTAGAA 59.271 40.000 0.00 0.00 0.00 2.10
413 2184 5.285401 TGGACAAAAGGGGATGTATCTAGA 58.715 41.667 0.00 0.00 0.00 2.43
414 2185 5.630415 TGGACAAAAGGGGATGTATCTAG 57.370 43.478 0.00 0.00 0.00 2.43
415 2186 6.590656 AATGGACAAAAGGGGATGTATCTA 57.409 37.500 0.00 0.00 0.00 1.98
416 2187 5.472301 AATGGACAAAAGGGGATGTATCT 57.528 39.130 0.00 0.00 0.00 1.98
417 2188 6.154363 TCAAAATGGACAAAAGGGGATGTATC 59.846 38.462 0.00 0.00 0.00 2.24
418 2189 6.022315 TCAAAATGGACAAAAGGGGATGTAT 58.978 36.000 0.00 0.00 0.00 2.29
419 2190 5.398236 TCAAAATGGACAAAAGGGGATGTA 58.602 37.500 0.00 0.00 0.00 2.29
420 2191 4.230455 TCAAAATGGACAAAAGGGGATGT 58.770 39.130 0.00 0.00 0.00 3.06
421 2192 4.888326 TCAAAATGGACAAAAGGGGATG 57.112 40.909 0.00 0.00 0.00 3.51
422 2193 5.046376 GTCATCAAAATGGACAAAAGGGGAT 60.046 40.000 0.00 0.00 33.42 3.85
423 2194 4.283212 GTCATCAAAATGGACAAAAGGGGA 59.717 41.667 0.00 0.00 33.42 4.81
424 2195 4.040217 TGTCATCAAAATGGACAAAAGGGG 59.960 41.667 0.00 0.00 33.42 4.79
425 2196 5.212532 TGTCATCAAAATGGACAAAAGGG 57.787 39.130 0.00 0.00 33.42 3.95
426 2197 6.282930 ACTTGTCATCAAAATGGACAAAAGG 58.717 36.000 7.70 0.41 34.98 3.11
427 2198 9.480053 AATACTTGTCATCAAAATGGACAAAAG 57.520 29.630 7.70 0.73 34.98 2.27
428 2199 9.829507 AAATACTTGTCATCAAAATGGACAAAA 57.170 25.926 7.70 0.84 34.98 2.44
429 2200 9.829507 AAAATACTTGTCATCAAAATGGACAAA 57.170 25.926 7.70 0.00 34.98 2.83
430 2201 9.474920 GAAAATACTTGTCATCAAAATGGACAA 57.525 29.630 0.00 0.00 34.59 3.18
431 2202 7.807433 CGAAAATACTTGTCATCAAAATGGACA 59.193 33.333 0.00 0.00 33.42 4.02
432 2203 7.273381 CCGAAAATACTTGTCATCAAAATGGAC 59.727 37.037 0.00 0.00 33.42 4.02
433 2204 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
434 2205 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
435 2206 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
436 2207 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
437 2208 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
438 2209 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
439 2210 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
440 2211 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
441 2212 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
442 2213 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
443 2214 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
444 2215 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
445 2216 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
446 2217 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
447 2218 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
448 2219 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
449 2220 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
450 2221 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
451 2222 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
452 2223 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
453 2224 0.967380 GGTACTCCCTCCGTCCGAAA 60.967 60.000 0.00 0.00 0.00 3.46
454 2225 1.379044 GGTACTCCCTCCGTCCGAA 60.379 63.158 0.00 0.00 0.00 4.30
455 2226 1.856539 AAGGTACTCCCTCCGTCCGA 61.857 60.000 0.00 0.00 45.47 4.55
456 2227 1.379576 AAGGTACTCCCTCCGTCCG 60.380 63.158 0.00 0.00 45.47 4.79
457 2228 0.033306 AGAAGGTACTCCCTCCGTCC 60.033 60.000 0.00 0.00 45.47 4.79
458 2229 1.849977 AAGAAGGTACTCCCTCCGTC 58.150 55.000 0.00 0.00 45.47 4.79
459 2230 2.732763 GTAAGAAGGTACTCCCTCCGT 58.267 52.381 0.00 0.00 45.47 4.69
460 2231 1.674962 CGTAAGAAGGTACTCCCTCCG 59.325 57.143 0.00 0.00 45.47 4.63
461 2232 3.010200 TCGTAAGAAGGTACTCCCTCC 57.990 52.381 0.00 0.00 45.47 4.30
505 2294 1.909700 ATGTGAATTTGACGGCCAGT 58.090 45.000 2.24 0.72 0.00 4.00
506 2295 2.489329 AGAATGTGAATTTGACGGCCAG 59.511 45.455 2.24 0.00 0.00 4.85
520 2309 1.558756 AGAAGGGAGGAGCAGAATGTG 59.441 52.381 0.00 0.00 39.31 3.21
551 2341 3.071602 AGAGGCTGCAAACAAGAGACTTA 59.928 43.478 0.50 0.00 0.00 2.24
553 2343 1.419387 AGAGGCTGCAAACAAGAGACT 59.581 47.619 0.50 0.00 0.00 3.24
581 2371 8.165239 ACAACACAAAGCACATTAGATAGAAA 57.835 30.769 0.00 0.00 0.00 2.52
582 2372 7.744087 ACAACACAAAGCACATTAGATAGAA 57.256 32.000 0.00 0.00 0.00 2.10
583 2373 8.840833 TTACAACACAAAGCACATTAGATAGA 57.159 30.769 0.00 0.00 0.00 1.98
584 2374 9.891828 TTTTACAACACAAAGCACATTAGATAG 57.108 29.630 0.00 0.00 0.00 2.08
585 2375 9.672086 GTTTTACAACACAAAGCACATTAGATA 57.328 29.630 0.00 0.00 32.54 1.98
586 2376 7.651704 GGTTTTACAACACAAAGCACATTAGAT 59.348 33.333 0.00 0.00 34.15 1.98
587 2377 6.975772 GGTTTTACAACACAAAGCACATTAGA 59.024 34.615 0.00 0.00 34.15 2.10
588 2378 6.978080 AGGTTTTACAACACAAAGCACATTAG 59.022 34.615 0.00 0.00 34.15 1.73
589 2379 6.754209 CAGGTTTTACAACACAAAGCACATTA 59.246 34.615 0.00 0.00 34.15 1.90
590 2380 5.580297 CAGGTTTTACAACACAAAGCACATT 59.420 36.000 0.00 0.00 34.15 2.71
591 2381 5.105554 TCAGGTTTTACAACACAAAGCACAT 60.106 36.000 0.00 0.00 34.15 3.21
663 2454 2.147150 GTGAGTTGGAGAAGTGCCTTC 58.853 52.381 6.79 6.79 40.45 3.46
677 2468 0.608130 TGCTGACGCTATGGTGAGTT 59.392 50.000 0.00 0.00 36.97 3.01
1050 2877 3.784701 TTCGAGTCTTACAGATCTGGC 57.215 47.619 26.08 10.71 34.19 4.85
1051 2878 5.355630 TCTCTTTCGAGTCTTACAGATCTGG 59.644 44.000 26.08 9.26 38.45 3.86
1109 2936 3.629142 TGTCGACATCCTCTCACTCTA 57.371 47.619 15.76 0.00 0.00 2.43
1194 3021 0.671781 GAACTCTGTGCAGATGCGGT 60.672 55.000 2.06 0.00 45.83 5.68
1333 3382 4.393693 AGCTTGCTCTTGCTGGTC 57.606 55.556 0.00 0.00 38.21 4.02
1490 3539 2.537143 TCTCCACTTGAAGGGGTACTC 58.463 52.381 14.10 0.00 40.57 2.59
1859 3912 3.375922 CGGACCAGTACACAAGTTGTTTT 59.624 43.478 5.57 0.00 39.91 2.43
2042 4096 2.561956 CCCCGTCGGCGTAGATCAT 61.562 63.158 9.28 0.00 36.15 2.45
2136 4190 0.187606 TAGGCGGGCCTCATCTAAGA 59.812 55.000 16.87 0.00 44.43 2.10
2251 4308 6.128007 CCGTAGGCATAGTTTTTGTCTCATTT 60.128 38.462 0.00 0.00 46.14 2.32
2252 4309 5.354234 CCGTAGGCATAGTTTTTGTCTCATT 59.646 40.000 0.00 0.00 46.14 2.57
2378 4480 0.612744 TAGGCATAGCTGTGCACACA 59.387 50.000 32.58 14.16 46.81 3.72
2589 4694 1.660607 CGTAGGCATAGTTGTGCACAG 59.339 52.381 20.59 9.20 46.81 3.66
2719 4854 7.416964 CCATTGGGGTATGATTTCTGTTTAA 57.583 36.000 0.00 0.00 0.00 1.52


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

AutoCloner maintained by Alex Coulton.