Multiple sequence alignment - TraesCS7B01G463800

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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 TraesCS7B01G463800 chr7B 100.000 2366 0 0 1 2366 720792970 720790605 0.000000e+00 4370.0
1 TraesCS7B01G463800 chr7B 88.628 853 83 9 1265 2114 720705959 720705118 0.000000e+00 1026.0
2 TraesCS7B01G463800 chr7B 87.934 605 63 5 1512 2114 720925204 720924608 0.000000e+00 704.0
3 TraesCS7B01G463800 chr7B 93.893 262 16 0 1 262 136743927 136744188 1.700000e-106 396.0
4 TraesCS7B01G463800 chr7B 93.536 263 16 1 1 262 528779108 528778846 7.930000e-105 390.0
5 TraesCS7B01G463800 chr7B 91.589 107 9 0 800 906 720706653 720706547 5.270000e-32 148.0
6 TraesCS7B01G463800 chr7D 90.812 1687 95 16 449 2114 623393107 623394754 0.000000e+00 2202.0
7 TraesCS7B01G463800 chr7D 88.889 648 60 8 929 1574 623342492 623343129 0.000000e+00 787.0
8 TraesCS7B01G463800 chr7D 89.744 390 34 4 1726 2114 623343506 623343890 5.870000e-136 494.0
9 TraesCS7B01G463800 chr7D 84.491 432 42 11 500 906 623342083 623342514 1.020000e-108 403.0
10 TraesCS7B01G463800 chr7D 93.050 259 15 3 2109 2366 623394838 623395094 2.220000e-100 375.0
11 TraesCS7B01G463800 chr7D 92.135 178 14 0 278 455 623392894 623393071 3.900000e-63 252.0
12 TraesCS7B01G463800 chr7A 87.064 1693 122 36 449 2114 718205036 718203414 0.000000e+00 1823.0
13 TraesCS7B01G463800 chr7A 90.400 750 65 3 979 1727 718294809 718294066 0.000000e+00 979.0
14 TraesCS7B01G463800 chr7A 90.000 750 69 2 979 1727 718292709 718291965 0.000000e+00 965.0
15 TraesCS7B01G463800 chr7A 89.867 750 70 2 979 1727 718286420 718285676 0.000000e+00 959.0
16 TraesCS7B01G463800 chr7A 89.733 750 71 2 979 1727 718290609 718289865 0.000000e+00 953.0
17 TraesCS7B01G463800 chr7A 89.733 750 71 2 979 1727 718296908 718296164 0.000000e+00 953.0
18 TraesCS7B01G463800 chr7A 89.600 750 72 2 979 1727 718288520 718287776 0.000000e+00 948.0
19 TraesCS7B01G463800 chr7A 89.390 754 74 2 975 1727 718311066 718310318 0.000000e+00 944.0
20 TraesCS7B01G463800 chr7A 84.314 408 34 12 1726 2114 718285428 718285032 2.870000e-99 372.0
21 TraesCS7B01G463800 chr7A 84.069 408 35 12 1726 2114 718287517 718287121 1.340000e-97 366.0
22 TraesCS7B01G463800 chr7A 84.069 408 35 12 1726 2114 718291706 718291310 1.340000e-97 366.0
23 TraesCS7B01G463800 chr7A 84.069 408 35 14 1726 2114 718293807 718293411 1.340000e-97 366.0
24 TraesCS7B01G463800 chr7A 84.069 408 35 12 1726 2114 718295905 718295509 1.340000e-97 366.0
25 TraesCS7B01G463800 chr7A 82.436 427 43 10 500 905 718311484 718311069 6.260000e-91 344.0
26 TraesCS7B01G463800 chr7A 86.486 259 27 6 1807 2062 718419232 718418979 6.440000e-71 278.0
27 TraesCS7B01G463800 chr4A 95.057 263 12 1 1 262 738840709 738840971 1.690000e-111 412.0
28 TraesCS7B01G463800 chr4A 94.275 262 15 0 1 262 664608052 664607791 3.660000e-108 401.0
29 TraesCS7B01G463800 chr2D 94.656 262 14 0 1 262 621853601 621853340 7.870000e-110 407.0
30 TraesCS7B01G463800 chr6B 93.893 262 16 0 1 262 692121085 692120824 1.700000e-106 396.0
31 TraesCS7B01G463800 chr6B 93.156 263 16 2 1 262 54106194 54105933 3.690000e-103 385.0
32 TraesCS7B01G463800 chr1B 93.893 262 16 0 1 262 12149286 12149547 1.700000e-106 396.0
33 TraesCS7B01G463800 chr1B 97.059 34 1 0 2081 2114 17764876 17764843 9.130000e-05 58.4
34 TraesCS7B01G463800 chr3B 93.511 262 17 0 1 262 661584629 661584890 7.930000e-105 390.0
35 TraesCS7B01G463800 chr3B 92.982 57 4 0 2058 2114 94486454 94486398 1.510000e-12 84.2
36 TraesCS7B01G463800 chr3B 91.228 57 4 1 2058 2114 93881937 93881882 2.520000e-10 76.8
37 TraesCS7B01G463800 chr3D 94.737 57 3 0 2058 2114 58510803 58510747 3.240000e-14 89.8
38 TraesCS7B01G463800 chr1D 90.566 53 4 1 2062 2114 12026394 12026343 4.220000e-08 69.4
39 TraesCS7B01G463800 chr1D 90.566 53 4 1 2062 2114 12157303 12157252 4.220000e-08 69.4


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 TraesCS7B01G463800 chr7B 720790605 720792970 2365 True 4370.000000 4370 100.000000 1 2366 1 chr7B.!!$R2 2365
1 TraesCS7B01G463800 chr7B 720924608 720925204 596 True 704.000000 704 87.934000 1512 2114 1 chr7B.!!$R3 602
2 TraesCS7B01G463800 chr7B 720705118 720706653 1535 True 587.000000 1026 90.108500 800 2114 2 chr7B.!!$R4 1314
3 TraesCS7B01G463800 chr7D 623392894 623395094 2200 False 943.000000 2202 91.999000 278 2366 3 chr7D.!!$F2 2088
4 TraesCS7B01G463800 chr7D 623342083 623343890 1807 False 561.333333 787 87.708000 500 2114 3 chr7D.!!$F1 1614
5 TraesCS7B01G463800 chr7A 718203414 718205036 1622 True 1823.000000 1823 87.064000 449 2114 1 chr7A.!!$R1 1665
6 TraesCS7B01G463800 chr7A 718285032 718296908 11876 True 690.272727 979 87.265727 979 2114 11 chr7A.!!$R3 1135
7 TraesCS7B01G463800 chr7A 718310318 718311484 1166 True 644.000000 944 85.913000 500 1727 2 chr7A.!!$R4 1227

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
240 241 0.098025 GCCAAAACGCGCTATTGCTA 59.902 50.0 5.73 0.0 36.97 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2181 13422 0.400594 CCCTCCTCTCCGGTTTGTTT 59.599 55.0 0.0 0.0 0.0 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
22 23 5.772825 TCAGAAAGGGTTGAAAGTTGATG 57.227 39.130 0.00 0.00 0.00 3.07
23 24 5.445069 TCAGAAAGGGTTGAAAGTTGATGA 58.555 37.500 0.00 0.00 0.00 2.92
24 25 6.070656 TCAGAAAGGGTTGAAAGTTGATGAT 58.929 36.000 0.00 0.00 0.00 2.45
25 26 6.016024 TCAGAAAGGGTTGAAAGTTGATGATG 60.016 38.462 0.00 0.00 0.00 3.07
26 27 5.835280 AGAAAGGGTTGAAAGTTGATGATGT 59.165 36.000 0.00 0.00 0.00 3.06
27 28 5.458041 AAGGGTTGAAAGTTGATGATGTG 57.542 39.130 0.00 0.00 0.00 3.21
28 29 3.828451 AGGGTTGAAAGTTGATGATGTGG 59.172 43.478 0.00 0.00 0.00 4.17
29 30 3.826157 GGGTTGAAAGTTGATGATGTGGA 59.174 43.478 0.00 0.00 0.00 4.02
30 31 4.463891 GGGTTGAAAGTTGATGATGTGGAT 59.536 41.667 0.00 0.00 0.00 3.41
31 32 5.047092 GGGTTGAAAGTTGATGATGTGGATT 60.047 40.000 0.00 0.00 0.00 3.01
32 33 6.458210 GGTTGAAAGTTGATGATGTGGATTT 58.542 36.000 0.00 0.00 0.00 2.17
33 34 6.366877 GGTTGAAAGTTGATGATGTGGATTTG 59.633 38.462 0.00 0.00 0.00 2.32
34 35 6.897706 TGAAAGTTGATGATGTGGATTTGA 57.102 33.333 0.00 0.00 0.00 2.69
35 36 7.287512 TGAAAGTTGATGATGTGGATTTGAA 57.712 32.000 0.00 0.00 0.00 2.69
36 37 7.898918 TGAAAGTTGATGATGTGGATTTGAAT 58.101 30.769 0.00 0.00 0.00 2.57
37 38 8.369424 TGAAAGTTGATGATGTGGATTTGAATT 58.631 29.630 0.00 0.00 0.00 2.17
38 39 8.542497 AAAGTTGATGATGTGGATTTGAATTG 57.458 30.769 0.00 0.00 0.00 2.32
39 40 7.235935 AGTTGATGATGTGGATTTGAATTGT 57.764 32.000 0.00 0.00 0.00 2.71
40 41 7.094631 AGTTGATGATGTGGATTTGAATTGTG 58.905 34.615 0.00 0.00 0.00 3.33
41 42 5.412640 TGATGATGTGGATTTGAATTGTGC 58.587 37.500 0.00 0.00 0.00 4.57
42 43 4.868314 TGATGTGGATTTGAATTGTGCA 57.132 36.364 0.00 0.00 0.00 4.57
43 44 5.408880 TGATGTGGATTTGAATTGTGCAT 57.591 34.783 0.00 0.00 0.00 3.96
44 45 5.412640 TGATGTGGATTTGAATTGTGCATC 58.587 37.500 0.00 0.00 0.00 3.91
45 46 5.186215 TGATGTGGATTTGAATTGTGCATCT 59.814 36.000 0.00 0.00 33.51 2.90
46 47 4.811908 TGTGGATTTGAATTGTGCATCTG 58.188 39.130 0.00 0.00 0.00 2.90
47 48 4.523558 TGTGGATTTGAATTGTGCATCTGA 59.476 37.500 0.00 0.00 0.00 3.27
48 49 5.010820 TGTGGATTTGAATTGTGCATCTGAA 59.989 36.000 0.00 0.00 0.00 3.02
49 50 5.346822 GTGGATTTGAATTGTGCATCTGAAC 59.653 40.000 0.00 0.00 0.00 3.18
50 51 4.560035 GGATTTGAATTGTGCATCTGAACG 59.440 41.667 0.00 0.00 0.00 3.95
51 52 2.617250 TGAATTGTGCATCTGAACGC 57.383 45.000 0.00 0.00 0.00 4.84
52 53 1.878734 TGAATTGTGCATCTGAACGCA 59.121 42.857 0.00 1.43 35.30 5.24
53 54 2.292845 TGAATTGTGCATCTGAACGCAA 59.707 40.909 11.00 11.00 40.44 4.85
54 55 3.243334 TGAATTGTGCATCTGAACGCAAA 60.243 39.130 12.17 3.31 40.44 3.68
55 56 2.859526 TTGTGCATCTGAACGCAAAA 57.140 40.000 6.69 5.51 40.44 2.44
56 57 2.859526 TGTGCATCTGAACGCAAAAA 57.140 40.000 6.69 0.00 40.44 1.94
73 74 2.052782 AAAAAGTTCGGAGTGGCACT 57.947 45.000 22.26 22.26 0.00 4.40
74 75 2.922740 AAAAGTTCGGAGTGGCACTA 57.077 45.000 22.11 1.49 0.00 2.74
75 76 2.922740 AAAGTTCGGAGTGGCACTAA 57.077 45.000 22.11 8.82 0.00 2.24
76 77 2.457366 AAGTTCGGAGTGGCACTAAG 57.543 50.000 22.11 17.12 0.00 2.18
77 78 1.339097 AGTTCGGAGTGGCACTAAGT 58.661 50.000 22.11 11.54 0.00 2.24
78 79 1.692519 AGTTCGGAGTGGCACTAAGTT 59.307 47.619 22.11 0.00 0.00 2.66
79 80 2.895404 AGTTCGGAGTGGCACTAAGTTA 59.105 45.455 22.11 7.56 0.00 2.24
80 81 3.514309 AGTTCGGAGTGGCACTAAGTTAT 59.486 43.478 22.11 2.97 0.00 1.89
81 82 4.020485 AGTTCGGAGTGGCACTAAGTTATT 60.020 41.667 22.11 1.05 0.00 1.40
82 83 5.186409 AGTTCGGAGTGGCACTAAGTTATTA 59.814 40.000 22.11 0.00 0.00 0.98
83 84 5.664294 TCGGAGTGGCACTAAGTTATTAA 57.336 39.130 22.11 0.00 0.00 1.40
84 85 6.040209 TCGGAGTGGCACTAAGTTATTAAA 57.960 37.500 22.11 0.00 0.00 1.52
85 86 6.465948 TCGGAGTGGCACTAAGTTATTAAAA 58.534 36.000 22.11 0.00 0.00 1.52
86 87 7.107542 TCGGAGTGGCACTAAGTTATTAAAAT 58.892 34.615 22.11 0.00 0.00 1.82
87 88 8.259411 TCGGAGTGGCACTAAGTTATTAAAATA 58.741 33.333 22.11 0.00 0.00 1.40
88 89 9.052759 CGGAGTGGCACTAAGTTATTAAAATAT 57.947 33.333 22.11 0.00 0.00 1.28
108 109 9.930693 AAAATATTGAATAGCCGGTTTAACAAA 57.069 25.926 1.90 0.00 0.00 2.83
110 111 9.528018 AATATTGAATAGCCGGTTTAACAAATG 57.472 29.630 1.90 0.00 0.00 2.32
111 112 6.576662 TTGAATAGCCGGTTTAACAAATGA 57.423 33.333 1.90 0.00 0.00 2.57
112 113 6.189677 TGAATAGCCGGTTTAACAAATGAG 57.810 37.500 1.90 0.00 0.00 2.90
113 114 5.708230 TGAATAGCCGGTTTAACAAATGAGT 59.292 36.000 1.90 0.00 0.00 3.41
114 115 6.207810 TGAATAGCCGGTTTAACAAATGAGTT 59.792 34.615 1.90 0.00 35.55 3.01
115 116 4.929819 AGCCGGTTTAACAAATGAGTTT 57.070 36.364 1.90 0.00 33.07 2.66
116 117 5.270893 AGCCGGTTTAACAAATGAGTTTT 57.729 34.783 1.90 0.00 33.07 2.43
117 118 5.286438 AGCCGGTTTAACAAATGAGTTTTC 58.714 37.500 1.90 0.00 33.07 2.29
118 119 4.147479 GCCGGTTTAACAAATGAGTTTTCG 59.853 41.667 1.90 0.00 33.07 3.46
119 120 5.275494 CCGGTTTAACAAATGAGTTTTCGT 58.725 37.500 0.00 0.00 33.07 3.85
120 121 5.397240 CCGGTTTAACAAATGAGTTTTCGTC 59.603 40.000 0.00 0.00 33.07 4.20
121 122 5.397240 CGGTTTAACAAATGAGTTTTCGTCC 59.603 40.000 0.00 0.00 33.07 4.79
122 123 5.397240 GGTTTAACAAATGAGTTTTCGTCCG 59.603 40.000 0.00 0.00 33.07 4.79
123 124 5.987777 TTAACAAATGAGTTTTCGTCCGA 57.012 34.783 0.00 0.00 33.07 4.55
124 125 4.886247 AACAAATGAGTTTTCGTCCGAA 57.114 36.364 0.00 0.00 0.00 4.30
125 126 4.886247 ACAAATGAGTTTTCGTCCGAAA 57.114 36.364 10.55 10.55 41.69 3.46
126 127 4.594136 ACAAATGAGTTTTCGTCCGAAAC 58.406 39.130 13.86 9.64 42.88 2.78
127 128 3.891056 AATGAGTTTTCGTCCGAAACC 57.109 42.857 13.86 7.88 42.88 3.27
128 129 1.585297 TGAGTTTTCGTCCGAAACCC 58.415 50.000 13.86 8.27 42.88 4.11
129 130 1.139455 TGAGTTTTCGTCCGAAACCCT 59.861 47.619 13.86 12.36 42.88 4.34
130 131 1.529865 GAGTTTTCGTCCGAAACCCTG 59.470 52.381 13.86 0.00 42.88 4.45
131 132 1.139455 AGTTTTCGTCCGAAACCCTGA 59.861 47.619 13.86 0.00 42.88 3.86
132 133 2.148768 GTTTTCGTCCGAAACCCTGAT 58.851 47.619 13.86 0.00 42.88 2.90
133 134 3.007182 AGTTTTCGTCCGAAACCCTGATA 59.993 43.478 13.86 0.00 42.88 2.15
134 135 2.660189 TTCGTCCGAAACCCTGATAC 57.340 50.000 0.00 0.00 0.00 2.24
135 136 1.843368 TCGTCCGAAACCCTGATACT 58.157 50.000 0.00 0.00 0.00 2.12
136 137 2.173519 TCGTCCGAAACCCTGATACTT 58.826 47.619 0.00 0.00 0.00 2.24
137 138 2.165030 TCGTCCGAAACCCTGATACTTC 59.835 50.000 0.00 0.00 0.00 3.01
138 139 2.737679 CGTCCGAAACCCTGATACTTCC 60.738 54.545 0.00 0.00 0.00 3.46
139 140 2.500504 GTCCGAAACCCTGATACTTCCT 59.499 50.000 0.00 0.00 0.00 3.36
140 141 3.703052 GTCCGAAACCCTGATACTTCCTA 59.297 47.826 0.00 0.00 0.00 2.94
141 142 4.161001 GTCCGAAACCCTGATACTTCCTAA 59.839 45.833 0.00 0.00 0.00 2.69
142 143 4.404715 TCCGAAACCCTGATACTTCCTAAG 59.595 45.833 0.00 0.00 0.00 2.18
143 144 4.404715 CCGAAACCCTGATACTTCCTAAGA 59.595 45.833 0.00 0.00 0.00 2.10
144 145 5.452077 CCGAAACCCTGATACTTCCTAAGAG 60.452 48.000 0.00 0.00 0.00 2.85
145 146 5.360144 CGAAACCCTGATACTTCCTAAGAGA 59.640 44.000 0.00 0.00 0.00 3.10
146 147 6.041069 CGAAACCCTGATACTTCCTAAGAGAT 59.959 42.308 0.00 0.00 0.00 2.75
147 148 7.418025 CGAAACCCTGATACTTCCTAAGAGATT 60.418 40.741 0.00 0.00 0.00 2.40
148 149 6.739331 ACCCTGATACTTCCTAAGAGATTG 57.261 41.667 0.00 0.00 0.00 2.67
149 150 6.206042 ACCCTGATACTTCCTAAGAGATTGT 58.794 40.000 0.00 0.00 0.00 2.71
150 151 6.325286 ACCCTGATACTTCCTAAGAGATTGTC 59.675 42.308 0.00 0.00 0.00 3.18
151 152 6.239458 CCCTGATACTTCCTAAGAGATTGTCC 60.239 46.154 0.00 0.00 0.00 4.02
152 153 6.325028 CCTGATACTTCCTAAGAGATTGTCCA 59.675 42.308 0.00 0.00 0.00 4.02
153 154 7.353414 TGATACTTCCTAAGAGATTGTCCAG 57.647 40.000 0.00 0.00 0.00 3.86
154 155 6.897966 TGATACTTCCTAAGAGATTGTCCAGT 59.102 38.462 0.00 0.00 0.00 4.00
155 156 7.400339 TGATACTTCCTAAGAGATTGTCCAGTT 59.600 37.037 0.00 0.00 0.00 3.16
156 157 6.441088 ACTTCCTAAGAGATTGTCCAGTTT 57.559 37.500 0.00 0.00 0.00 2.66
157 158 6.234177 ACTTCCTAAGAGATTGTCCAGTTTG 58.766 40.000 0.00 0.00 0.00 2.93
158 159 6.043243 ACTTCCTAAGAGATTGTCCAGTTTGA 59.957 38.462 0.00 0.00 0.00 2.69
159 160 6.433847 TCCTAAGAGATTGTCCAGTTTGAA 57.566 37.500 0.00 0.00 0.00 2.69
160 161 6.231211 TCCTAAGAGATTGTCCAGTTTGAAC 58.769 40.000 0.00 0.00 0.00 3.18
161 162 5.412904 CCTAAGAGATTGTCCAGTTTGAACC 59.587 44.000 0.00 0.00 0.00 3.62
162 163 3.403038 AGAGATTGTCCAGTTTGAACCG 58.597 45.455 0.00 0.00 0.00 4.44
163 164 2.484264 GAGATTGTCCAGTTTGAACCGG 59.516 50.000 0.00 0.00 0.00 5.28
164 165 0.958822 ATTGTCCAGTTTGAACCGGC 59.041 50.000 0.00 0.00 0.00 6.13
165 166 0.106918 TTGTCCAGTTTGAACCGGCT 60.107 50.000 0.00 0.00 0.00 5.52
166 167 0.534203 TGTCCAGTTTGAACCGGCTC 60.534 55.000 0.00 0.00 0.00 4.70
167 168 0.250338 GTCCAGTTTGAACCGGCTCT 60.250 55.000 0.00 0.00 0.00 4.09
168 169 0.472471 TCCAGTTTGAACCGGCTCTT 59.528 50.000 0.00 0.00 0.00 2.85
169 170 0.593128 CCAGTTTGAACCGGCTCTTG 59.407 55.000 0.00 0.00 0.00 3.02
170 171 1.308998 CAGTTTGAACCGGCTCTTGT 58.691 50.000 0.00 0.00 0.00 3.16
171 172 1.002468 CAGTTTGAACCGGCTCTTGTG 60.002 52.381 0.00 0.00 0.00 3.33
172 173 1.021968 GTTTGAACCGGCTCTTGTGT 58.978 50.000 0.00 0.00 0.00 3.72
173 174 2.158871 AGTTTGAACCGGCTCTTGTGTA 60.159 45.455 0.00 0.00 0.00 2.90
174 175 2.614983 GTTTGAACCGGCTCTTGTGTAA 59.385 45.455 0.00 0.00 0.00 2.41
175 176 2.623878 TGAACCGGCTCTTGTGTAAA 57.376 45.000 0.00 0.00 0.00 2.01
176 177 2.215196 TGAACCGGCTCTTGTGTAAAC 58.785 47.619 0.00 0.00 0.00 2.01
177 178 2.215196 GAACCGGCTCTTGTGTAAACA 58.785 47.619 0.00 0.00 0.00 2.83
178 179 2.561478 ACCGGCTCTTGTGTAAACAT 57.439 45.000 0.00 0.00 0.00 2.71
179 180 2.151202 ACCGGCTCTTGTGTAAACATG 58.849 47.619 0.00 0.00 0.00 3.21
180 181 2.151202 CCGGCTCTTGTGTAAACATGT 58.849 47.619 0.00 0.00 0.00 3.21
181 182 3.244284 ACCGGCTCTTGTGTAAACATGTA 60.244 43.478 0.00 0.00 0.00 2.29
182 183 3.749088 CCGGCTCTTGTGTAAACATGTAA 59.251 43.478 0.00 0.00 0.00 2.41
183 184 4.214545 CCGGCTCTTGTGTAAACATGTAAA 59.785 41.667 0.00 0.00 0.00 2.01
184 185 5.278071 CCGGCTCTTGTGTAAACATGTAAAA 60.278 40.000 0.00 0.00 0.00 1.52
185 186 6.202937 CGGCTCTTGTGTAAACATGTAAAAA 58.797 36.000 0.00 0.00 0.00 1.94
186 187 6.861055 CGGCTCTTGTGTAAACATGTAAAAAT 59.139 34.615 0.00 0.00 0.00 1.82
187 188 8.018520 CGGCTCTTGTGTAAACATGTAAAAATA 58.981 33.333 0.00 0.00 0.00 1.40
188 189 9.855021 GGCTCTTGTGTAAACATGTAAAAATAT 57.145 29.630 0.00 0.00 0.00 1.28
215 216 8.840321 ACATAAAATACATTGATCAGTACTGCC 58.160 33.333 18.45 12.33 0.00 4.85
216 217 9.060347 CATAAAATACATTGATCAGTACTGCCT 57.940 33.333 18.45 7.72 0.00 4.75
217 218 7.944729 AAAATACATTGATCAGTACTGCCTT 57.055 32.000 18.45 5.29 0.00 4.35
218 219 7.944729 AAATACATTGATCAGTACTGCCTTT 57.055 32.000 18.45 2.72 0.00 3.11
219 220 7.559590 AATACATTGATCAGTACTGCCTTTC 57.440 36.000 18.45 11.87 0.00 2.62
220 221 4.910195 ACATTGATCAGTACTGCCTTTCA 58.090 39.130 18.45 14.08 0.00 2.69
222 223 2.977914 TGATCAGTACTGCCTTTCAGC 58.022 47.619 18.45 3.15 46.76 4.26
223 224 2.284190 GATCAGTACTGCCTTTCAGCC 58.716 52.381 18.45 0.00 46.76 4.85
224 225 1.055849 TCAGTACTGCCTTTCAGCCA 58.944 50.000 18.45 0.00 46.76 4.75
225 226 1.419762 TCAGTACTGCCTTTCAGCCAA 59.580 47.619 18.45 0.00 46.76 4.52
226 227 2.158682 TCAGTACTGCCTTTCAGCCAAA 60.159 45.455 18.45 0.00 46.76 3.28
227 228 2.622942 CAGTACTGCCTTTCAGCCAAAA 59.377 45.455 10.54 0.00 46.76 2.44
228 229 2.623416 AGTACTGCCTTTCAGCCAAAAC 59.377 45.455 0.00 0.00 46.76 2.43
229 230 0.385390 ACTGCCTTTCAGCCAAAACG 59.615 50.000 0.00 0.00 46.76 3.60
230 231 0.940991 CTGCCTTTCAGCCAAAACGC 60.941 55.000 0.00 0.00 35.78 4.84
231 232 2.016165 GCCTTTCAGCCAAAACGCG 61.016 57.895 3.53 3.53 0.00 6.01
232 233 2.016165 CCTTTCAGCCAAAACGCGC 61.016 57.895 5.73 0.00 0.00 6.86
233 234 1.008538 CTTTCAGCCAAAACGCGCT 60.009 52.632 5.73 0.00 35.10 5.92
234 235 0.237235 CTTTCAGCCAAAACGCGCTA 59.763 50.000 5.73 0.00 32.92 4.26
235 236 0.878416 TTTCAGCCAAAACGCGCTAT 59.122 45.000 5.73 0.00 32.92 2.97
236 237 0.878416 TTCAGCCAAAACGCGCTATT 59.122 45.000 5.73 0.00 32.92 1.73
237 238 0.167908 TCAGCCAAAACGCGCTATTG 59.832 50.000 5.73 9.17 32.92 1.90
238 239 1.154035 AGCCAAAACGCGCTATTGC 60.154 52.632 5.73 3.87 32.26 3.56
239 240 1.154035 GCCAAAACGCGCTATTGCT 60.154 52.632 5.73 0.00 36.97 3.91
240 241 0.098025 GCCAAAACGCGCTATTGCTA 59.902 50.000 5.73 0.00 36.97 3.49
241 242 1.810197 CCAAAACGCGCTATTGCTAC 58.190 50.000 5.73 0.00 36.97 3.58
242 243 1.129624 CCAAAACGCGCTATTGCTACA 59.870 47.619 5.73 0.00 36.97 2.74
243 244 2.430956 CAAAACGCGCTATTGCTACAG 58.569 47.619 5.73 0.00 36.97 2.74
244 245 1.006832 AAACGCGCTATTGCTACAGG 58.993 50.000 5.73 0.00 36.97 4.00
245 246 0.810031 AACGCGCTATTGCTACAGGG 60.810 55.000 5.73 0.00 36.97 4.45
246 247 1.067416 CGCGCTATTGCTACAGGGA 59.933 57.895 5.56 0.00 36.97 4.20
247 248 0.529773 CGCGCTATTGCTACAGGGAA 60.530 55.000 5.56 0.00 36.97 3.97
248 249 1.663695 GCGCTATTGCTACAGGGAAA 58.336 50.000 0.00 0.00 36.97 3.13
249 250 2.222027 GCGCTATTGCTACAGGGAAAT 58.778 47.619 0.00 0.00 36.97 2.17
250 251 3.399330 GCGCTATTGCTACAGGGAAATA 58.601 45.455 0.00 0.00 36.97 1.40
251 252 3.186613 GCGCTATTGCTACAGGGAAATAC 59.813 47.826 0.00 0.00 36.97 1.89
252 253 4.377021 CGCTATTGCTACAGGGAAATACA 58.623 43.478 0.00 0.00 36.97 2.29
253 254 4.997395 CGCTATTGCTACAGGGAAATACAT 59.003 41.667 0.00 0.00 36.97 2.29
254 255 5.120830 CGCTATTGCTACAGGGAAATACATC 59.879 44.000 0.00 0.00 36.97 3.06
255 256 5.997746 GCTATTGCTACAGGGAAATACATCA 59.002 40.000 0.00 0.00 36.03 3.07
256 257 6.486657 GCTATTGCTACAGGGAAATACATCAA 59.513 38.462 0.00 0.00 36.03 2.57
257 258 7.013274 GCTATTGCTACAGGGAAATACATCAAA 59.987 37.037 0.00 0.00 36.03 2.69
258 259 7.716799 ATTGCTACAGGGAAATACATCAAAA 57.283 32.000 0.00 0.00 0.00 2.44
259 260 7.531857 TTGCTACAGGGAAATACATCAAAAA 57.468 32.000 0.00 0.00 0.00 1.94
260 261 7.716799 TGCTACAGGGAAATACATCAAAAAT 57.283 32.000 0.00 0.00 0.00 1.82
261 262 8.815565 TGCTACAGGGAAATACATCAAAAATA 57.184 30.769 0.00 0.00 0.00 1.40
262 263 9.249053 TGCTACAGGGAAATACATCAAAAATAA 57.751 29.630 0.00 0.00 0.00 1.40
263 264 9.736023 GCTACAGGGAAATACATCAAAAATAAG 57.264 33.333 0.00 0.00 0.00 1.73
266 267 9.753674 ACAGGGAAATACATCAAAAATAAGAGA 57.246 29.630 0.00 0.00 0.00 3.10
294 295 8.586570 TGTATTTTTGATTTGACATCACCAAC 57.413 30.769 0.00 0.00 0.00 3.77
298 299 7.479897 TTTTGATTTGACATCACCAACATTG 57.520 32.000 0.00 0.00 0.00 2.82
319 320 2.261671 GACGCCCAAGCTCGAGAA 59.738 61.111 18.75 0.00 36.60 2.87
322 323 2.982130 GCCCAAGCTCGAGAAGGA 59.018 61.111 18.75 0.00 35.50 3.36
350 351 2.124612 CTGGCCATGGCGTCATCA 60.125 61.111 29.90 20.01 43.06 3.07
358 359 1.951602 CATGGCGTCATCATTGATGGT 59.048 47.619 23.07 4.04 40.15 3.55
360 361 2.445427 TGGCGTCATCATTGATGGTTT 58.555 42.857 23.07 0.00 40.15 3.27
361 362 2.423185 TGGCGTCATCATTGATGGTTTC 59.577 45.455 23.07 12.92 40.15 2.78
398 399 0.103208 GTGGGGTCGATGCTAGTCAG 59.897 60.000 0.00 0.00 0.00 3.51
431 432 4.533794 GGGGAGGGGCAGGGGTAT 62.534 72.222 0.00 0.00 0.00 2.73
555 600 4.464112 GTGAGCGATTACTTTGTTTGGAC 58.536 43.478 0.00 0.00 0.00 4.02
683 731 1.952621 TTTTCTCCAGACCGAGGGAT 58.047 50.000 0.00 0.00 31.57 3.85
762 812 3.119029 AGCGGTTAATACCACGTGTGTAT 60.119 43.478 15.65 17.30 45.31 2.29
860 928 0.320421 GCTTGGCGTGTTGTCCTCTA 60.320 55.000 0.00 0.00 0.00 2.43
893 961 4.452455 ACATTGCTAGCTTACTTCACACAC 59.548 41.667 17.23 0.00 0.00 3.82
894 962 2.672714 TGCTAGCTTACTTCACACACG 58.327 47.619 17.23 0.00 0.00 4.49
895 963 1.390463 GCTAGCTTACTTCACACACGC 59.610 52.381 7.70 0.00 0.00 5.34
896 964 2.672714 CTAGCTTACTTCACACACGCA 58.327 47.619 0.00 0.00 0.00 5.24
897 965 1.217882 AGCTTACTTCACACACGCAC 58.782 50.000 0.00 0.00 0.00 5.34
898 966 0.934496 GCTTACTTCACACACGCACA 59.066 50.000 0.00 0.00 0.00 4.57
899 967 1.332904 GCTTACTTCACACACGCACAC 60.333 52.381 0.00 0.00 0.00 3.82
900 968 1.930503 CTTACTTCACACACGCACACA 59.069 47.619 0.00 0.00 0.00 3.72
901 969 1.282817 TACTTCACACACGCACACAC 58.717 50.000 0.00 0.00 0.00 3.82
902 970 0.672091 ACTTCACACACGCACACACA 60.672 50.000 0.00 0.00 0.00 3.72
924 992 3.772560 CGCGCGCACACACACATA 61.773 61.111 32.61 0.00 0.00 2.29
925 993 2.096406 GCGCGCACACACACATAG 59.904 61.111 29.10 0.00 0.00 2.23
926 994 2.379634 GCGCGCACACACACATAGA 61.380 57.895 29.10 0.00 0.00 1.98
927 995 1.896339 GCGCGCACACACACATAGAA 61.896 55.000 29.10 0.00 0.00 2.10
928 996 0.510790 CGCGCACACACACATAGAAA 59.489 50.000 8.75 0.00 0.00 2.52
929 997 1.721489 CGCGCACACACACATAGAAAC 60.721 52.381 8.75 0.00 0.00 2.78
930 998 1.262950 GCGCACACACACATAGAAACA 59.737 47.619 0.30 0.00 0.00 2.83
931 999 2.903678 CGCACACACACATAGAAACAC 58.096 47.619 0.00 0.00 0.00 3.32
932 1000 2.286563 CGCACACACACATAGAAACACA 59.713 45.455 0.00 0.00 0.00 3.72
933 1001 3.242576 CGCACACACACATAGAAACACAA 60.243 43.478 0.00 0.00 0.00 3.33
943 1011 6.127758 ACACATAGAAACACAAACACACACAT 60.128 34.615 0.00 0.00 0.00 3.21
964 1032 7.609918 ACACATACACACACACAAACCATATAT 59.390 33.333 0.00 0.00 0.00 0.86
1011 1079 0.179137 CGAGCACTATGGAACGAGCA 60.179 55.000 0.00 0.00 0.00 4.26
1081 3248 2.265182 GCCTTGGTGCCAACGCTTA 61.265 57.895 14.66 0.00 35.89 3.09
1149 3316 3.946201 AGCTCGCAGGCACTTGGT 61.946 61.111 0.86 0.00 34.60 3.67
1168 3335 4.389576 GCCACCAGAACGCGCAAG 62.390 66.667 5.73 0.00 43.44 4.01
1253 3420 1.125093 TCAAGGTCAAGGAAGGCGGA 61.125 55.000 0.00 0.00 0.00 5.54
1413 5981 8.648097 CAATATAGGAGGATTCGTGTTATTTCG 58.352 37.037 0.00 0.00 0.00 3.46
1431 5999 4.436242 TTCGTGCTAGGTAAGTCAGAAG 57.564 45.455 0.00 0.00 0.00 2.85
1443 6011 6.037726 GGTAAGTCAGAAGCTAGCTACTTTC 58.962 44.000 27.24 22.90 0.00 2.62
1500 6077 1.468520 AGCAACAATTCGATCAACCGG 59.531 47.619 0.00 0.00 0.00 5.28
1541 6118 1.004927 GGCGTGTGTTAGATTCATCGC 60.005 52.381 0.00 0.00 38.79 4.58
1610 6187 2.450476 CCTTCCTGGTCCTTGAAATGG 58.550 52.381 0.00 0.00 0.00 3.16
1642 6219 3.840890 TCATTTCACCGGTTTGTATGC 57.159 42.857 2.97 0.00 0.00 3.14
1643 6220 2.490115 TCATTTCACCGGTTTGTATGCC 59.510 45.455 2.97 0.00 0.00 4.40
1644 6221 1.249407 TTTCACCGGTTTGTATGCCC 58.751 50.000 2.97 0.00 0.00 5.36
1645 6222 0.402504 TTCACCGGTTTGTATGCCCT 59.597 50.000 2.97 0.00 0.00 5.19
1646 6223 0.322098 TCACCGGTTTGTATGCCCTG 60.322 55.000 2.97 0.00 0.00 4.45
1669 6246 4.337555 GCCTTCTCATGCTAATCACATTGT 59.662 41.667 0.00 0.00 0.00 2.71
1679 6256 7.015226 TGCTAATCACATTGTAGGAAAATCG 57.985 36.000 0.00 0.00 0.00 3.34
1905 10949 1.480137 CCAGACCACAACCAAAAAGCA 59.520 47.619 0.00 0.00 0.00 3.91
1946 13094 3.339253 TCAGGACATGAATGGTGTCAG 57.661 47.619 0.00 1.27 45.99 3.51
2149 13390 5.429130 AGGTTGCCTAGAACTTATGTAAGC 58.571 41.667 0.00 0.00 31.99 3.09
2153 13394 4.101119 TGCCTAGAACTTATGTAAGCCCTC 59.899 45.833 0.00 0.00 36.79 4.30
2164 13405 3.889815 TGTAAGCCCTCCTTGATTGATG 58.110 45.455 0.00 0.00 34.95 3.07
2181 13422 6.829811 TGATTGATGATTTACAAGATGAGCCA 59.170 34.615 0.00 0.00 0.00 4.75
2193 13434 1.200020 GATGAGCCAAACAAACCGGAG 59.800 52.381 9.46 0.00 0.00 4.63
2226 13468 9.469807 GAGTATATGTTTGTCATAGTCAAGAGG 57.530 37.037 0.00 0.00 41.55 3.69
2227 13469 9.201989 AGTATATGTTTGTCATAGTCAAGAGGA 57.798 33.333 0.00 0.00 41.55 3.71
2231 13473 5.304357 TGTTTGTCATAGTCAAGAGGAGTGA 59.696 40.000 0.00 0.00 0.00 3.41
2292 13534 1.377856 GGCCAGTCCTCCTTTGCTC 60.378 63.158 0.00 0.00 0.00 4.26
2300 13542 3.330701 AGTCCTCCTTTGCTCCATTTACA 59.669 43.478 0.00 0.00 0.00 2.41
2303 13545 4.042809 TCCTCCTTTGCTCCATTTACAAGA 59.957 41.667 0.00 0.00 0.00 3.02
2332 13574 4.278678 GCATACCTGCTGTAACATTGAC 57.721 45.455 0.00 0.00 45.32 3.18
2335 13577 1.155889 CCTGCTGTAACATTGACGCA 58.844 50.000 0.00 0.00 0.00 5.24
2351 13593 3.243035 TGACGCAGACAAATGACAAAAGG 60.243 43.478 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.445069 TCATCAACTTTCAACCCTTTCTGA 58.555 37.500 0.00 0.00 0.00 3.27
1 2 5.772825 TCATCAACTTTCAACCCTTTCTG 57.227 39.130 0.00 0.00 0.00 3.02
2 3 5.835280 ACATCATCAACTTTCAACCCTTTCT 59.165 36.000 0.00 0.00 0.00 2.52
3 4 5.922544 CACATCATCAACTTTCAACCCTTTC 59.077 40.000 0.00 0.00 0.00 2.62
4 5 5.221501 CCACATCATCAACTTTCAACCCTTT 60.222 40.000 0.00 0.00 0.00 3.11
5 6 4.281688 CCACATCATCAACTTTCAACCCTT 59.718 41.667 0.00 0.00 0.00 3.95
6 7 3.828451 CCACATCATCAACTTTCAACCCT 59.172 43.478 0.00 0.00 0.00 4.34
7 8 3.826157 TCCACATCATCAACTTTCAACCC 59.174 43.478 0.00 0.00 0.00 4.11
8 9 5.649782 ATCCACATCATCAACTTTCAACC 57.350 39.130 0.00 0.00 0.00 3.77
9 10 7.147312 TCAAATCCACATCATCAACTTTCAAC 58.853 34.615 0.00 0.00 0.00 3.18
10 11 7.287512 TCAAATCCACATCATCAACTTTCAA 57.712 32.000 0.00 0.00 0.00 2.69
11 12 6.897706 TCAAATCCACATCATCAACTTTCA 57.102 33.333 0.00 0.00 0.00 2.69
12 13 8.653338 CAATTCAAATCCACATCATCAACTTTC 58.347 33.333 0.00 0.00 0.00 2.62
13 14 8.152246 ACAATTCAAATCCACATCATCAACTTT 58.848 29.630 0.00 0.00 0.00 2.66
14 15 7.601130 CACAATTCAAATCCACATCATCAACTT 59.399 33.333 0.00 0.00 0.00 2.66
15 16 7.094631 CACAATTCAAATCCACATCATCAACT 58.905 34.615 0.00 0.00 0.00 3.16
16 17 6.183360 GCACAATTCAAATCCACATCATCAAC 60.183 38.462 0.00 0.00 0.00 3.18
17 18 5.870433 GCACAATTCAAATCCACATCATCAA 59.130 36.000 0.00 0.00 0.00 2.57
18 19 5.047235 TGCACAATTCAAATCCACATCATCA 60.047 36.000 0.00 0.00 0.00 3.07
19 20 5.412640 TGCACAATTCAAATCCACATCATC 58.587 37.500 0.00 0.00 0.00 2.92
20 21 5.408880 TGCACAATTCAAATCCACATCAT 57.591 34.783 0.00 0.00 0.00 2.45
21 22 4.868314 TGCACAATTCAAATCCACATCA 57.132 36.364 0.00 0.00 0.00 3.07
22 23 5.518847 CAGATGCACAATTCAAATCCACATC 59.481 40.000 0.00 0.00 33.31 3.06
23 24 5.186215 TCAGATGCACAATTCAAATCCACAT 59.814 36.000 0.00 0.00 0.00 3.21
24 25 4.523558 TCAGATGCACAATTCAAATCCACA 59.476 37.500 0.00 0.00 0.00 4.17
25 26 5.063180 TCAGATGCACAATTCAAATCCAC 57.937 39.130 0.00 0.00 0.00 4.02
26 27 5.472148 GTTCAGATGCACAATTCAAATCCA 58.528 37.500 0.00 0.00 0.00 3.41
27 28 4.560035 CGTTCAGATGCACAATTCAAATCC 59.440 41.667 0.00 0.00 0.00 3.01
28 29 4.030977 GCGTTCAGATGCACAATTCAAATC 59.969 41.667 0.00 0.00 37.73 2.17
29 30 3.922240 GCGTTCAGATGCACAATTCAAAT 59.078 39.130 0.00 0.00 37.73 2.32
30 31 3.243334 TGCGTTCAGATGCACAATTCAAA 60.243 39.130 0.00 0.00 42.66 2.69
31 32 2.292845 TGCGTTCAGATGCACAATTCAA 59.707 40.909 0.00 0.00 42.66 2.69
32 33 1.878734 TGCGTTCAGATGCACAATTCA 59.121 42.857 0.00 0.00 42.66 2.57
33 34 2.617250 TGCGTTCAGATGCACAATTC 57.383 45.000 0.00 0.00 42.66 2.17
34 35 3.367992 TTTGCGTTCAGATGCACAATT 57.632 38.095 0.00 0.00 46.94 2.32
35 36 3.367992 TTTTGCGTTCAGATGCACAAT 57.632 38.095 0.00 0.00 46.94 2.71
36 37 2.859526 TTTTGCGTTCAGATGCACAA 57.140 40.000 0.00 0.00 46.94 3.33
37 38 2.859526 TTTTTGCGTTCAGATGCACA 57.140 40.000 0.00 0.00 46.94 4.57
54 55 2.052782 AGTGCCACTCCGAACTTTTT 57.947 45.000 0.00 0.00 0.00 1.94
55 56 2.922740 TAGTGCCACTCCGAACTTTT 57.077 45.000 0.00 0.00 0.00 2.27
56 57 2.104281 ACTTAGTGCCACTCCGAACTTT 59.896 45.455 0.00 0.00 0.00 2.66
57 58 1.692519 ACTTAGTGCCACTCCGAACTT 59.307 47.619 0.00 0.00 0.00 2.66
58 59 1.339097 ACTTAGTGCCACTCCGAACT 58.661 50.000 0.00 0.00 0.00 3.01
59 60 2.165319 AACTTAGTGCCACTCCGAAC 57.835 50.000 0.00 0.00 0.00 3.95
60 61 4.546829 AATAACTTAGTGCCACTCCGAA 57.453 40.909 0.00 0.00 0.00 4.30
61 62 5.664294 TTAATAACTTAGTGCCACTCCGA 57.336 39.130 0.00 0.00 0.00 4.55
62 63 6.730960 TTTTAATAACTTAGTGCCACTCCG 57.269 37.500 0.00 0.00 0.00 4.63
82 83 9.930693 TTTGTTAAACCGGCTATTCAATATTTT 57.069 25.926 0.00 0.00 0.00 1.82
84 85 9.528018 CATTTGTTAAACCGGCTATTCAATATT 57.472 29.630 0.00 0.00 0.00 1.28
85 86 8.908903 TCATTTGTTAAACCGGCTATTCAATAT 58.091 29.630 0.00 0.00 0.00 1.28
86 87 8.282455 TCATTTGTTAAACCGGCTATTCAATA 57.718 30.769 0.00 0.00 0.00 1.90
87 88 7.093945 ACTCATTTGTTAAACCGGCTATTCAAT 60.094 33.333 0.00 0.00 0.00 2.57
88 89 6.207810 ACTCATTTGTTAAACCGGCTATTCAA 59.792 34.615 0.00 0.00 0.00 2.69
89 90 5.708230 ACTCATTTGTTAAACCGGCTATTCA 59.292 36.000 0.00 0.00 0.00 2.57
90 91 6.190954 ACTCATTTGTTAAACCGGCTATTC 57.809 37.500 0.00 0.00 0.00 1.75
91 92 6.584185 AACTCATTTGTTAAACCGGCTATT 57.416 33.333 0.00 0.00 0.00 1.73
92 93 6.584185 AAACTCATTTGTTAAACCGGCTAT 57.416 33.333 0.00 0.00 0.00 2.97
93 94 6.394025 AAAACTCATTTGTTAAACCGGCTA 57.606 33.333 0.00 0.00 0.00 3.93
94 95 4.929819 AAACTCATTTGTTAAACCGGCT 57.070 36.364 0.00 0.00 0.00 5.52
95 96 4.147479 CGAAAACTCATTTGTTAAACCGGC 59.853 41.667 0.00 0.00 0.00 6.13
96 97 5.275494 ACGAAAACTCATTTGTTAAACCGG 58.725 37.500 0.00 0.00 0.00 5.28
97 98 5.397240 GGACGAAAACTCATTTGTTAAACCG 59.603 40.000 0.00 0.00 0.00 4.44
98 99 5.397240 CGGACGAAAACTCATTTGTTAAACC 59.603 40.000 0.00 0.00 0.00 3.27
99 100 6.193761 TCGGACGAAAACTCATTTGTTAAAC 58.806 36.000 0.00 0.00 0.00 2.01
100 101 6.360844 TCGGACGAAAACTCATTTGTTAAA 57.639 33.333 0.00 0.00 0.00 1.52
101 102 5.987777 TCGGACGAAAACTCATTTGTTAA 57.012 34.783 0.00 0.00 0.00 2.01
102 103 5.987777 TTCGGACGAAAACTCATTTGTTA 57.012 34.783 4.47 0.00 0.00 2.41
103 104 4.886247 TTCGGACGAAAACTCATTTGTT 57.114 36.364 4.47 0.00 0.00 2.83
104 105 4.496840 GGTTTCGGACGAAAACTCATTTGT 60.497 41.667 23.46 0.00 45.43 2.83
105 106 3.972502 GGTTTCGGACGAAAACTCATTTG 59.027 43.478 23.46 0.00 45.43 2.32
106 107 4.219143 GGTTTCGGACGAAAACTCATTT 57.781 40.909 23.46 0.00 45.43 2.32
107 108 3.891056 GGTTTCGGACGAAAACTCATT 57.109 42.857 23.46 0.00 45.43 2.57
113 114 2.554370 ATCAGGGTTTCGGACGAAAA 57.446 45.000 19.84 6.26 44.40 2.29
114 115 2.564062 AGTATCAGGGTTTCGGACGAAA 59.436 45.455 15.07 15.07 41.22 3.46
115 116 2.173519 AGTATCAGGGTTTCGGACGAA 58.826 47.619 2.62 2.62 0.00 3.85
116 117 1.843368 AGTATCAGGGTTTCGGACGA 58.157 50.000 0.00 0.00 0.00 4.20
117 118 2.537401 GAAGTATCAGGGTTTCGGACG 58.463 52.381 0.00 0.00 0.00 4.79
118 119 2.500504 AGGAAGTATCAGGGTTTCGGAC 59.499 50.000 0.00 0.00 0.00 4.79
119 120 2.829023 AGGAAGTATCAGGGTTTCGGA 58.171 47.619 0.00 0.00 0.00 4.55
120 121 4.404715 TCTTAGGAAGTATCAGGGTTTCGG 59.595 45.833 0.00 0.00 0.00 4.30
121 122 5.360144 TCTCTTAGGAAGTATCAGGGTTTCG 59.640 44.000 0.00 0.00 0.00 3.46
122 123 6.793505 TCTCTTAGGAAGTATCAGGGTTTC 57.206 41.667 0.00 0.00 0.00 2.78
123 124 7.182930 ACAATCTCTTAGGAAGTATCAGGGTTT 59.817 37.037 0.00 0.00 0.00 3.27
124 125 6.674419 ACAATCTCTTAGGAAGTATCAGGGTT 59.326 38.462 0.00 0.00 0.00 4.11
125 126 6.206042 ACAATCTCTTAGGAAGTATCAGGGT 58.794 40.000 0.00 0.00 0.00 4.34
126 127 6.239458 GGACAATCTCTTAGGAAGTATCAGGG 60.239 46.154 0.00 0.00 0.00 4.45
127 128 6.325028 TGGACAATCTCTTAGGAAGTATCAGG 59.675 42.308 0.00 0.00 0.00 3.86
128 129 7.069331 ACTGGACAATCTCTTAGGAAGTATCAG 59.931 40.741 0.00 0.00 0.00 2.90
129 130 6.897966 ACTGGACAATCTCTTAGGAAGTATCA 59.102 38.462 0.00 0.00 0.00 2.15
130 131 7.354751 ACTGGACAATCTCTTAGGAAGTATC 57.645 40.000 0.00 0.00 0.00 2.24
131 132 7.741554 AACTGGACAATCTCTTAGGAAGTAT 57.258 36.000 0.00 0.00 0.00 2.12
132 133 7.234782 TCAAACTGGACAATCTCTTAGGAAGTA 59.765 37.037 0.00 0.00 0.00 2.24
133 134 6.043243 TCAAACTGGACAATCTCTTAGGAAGT 59.957 38.462 0.00 0.00 0.00 3.01
134 135 6.467677 TCAAACTGGACAATCTCTTAGGAAG 58.532 40.000 0.00 0.00 0.00 3.46
135 136 6.433847 TCAAACTGGACAATCTCTTAGGAA 57.566 37.500 0.00 0.00 0.00 3.36
136 137 6.231211 GTTCAAACTGGACAATCTCTTAGGA 58.769 40.000 0.00 0.00 0.00 2.94
137 138 5.412904 GGTTCAAACTGGACAATCTCTTAGG 59.587 44.000 0.00 0.00 0.00 2.69
138 139 5.120830 CGGTTCAAACTGGACAATCTCTTAG 59.879 44.000 0.00 0.00 0.00 2.18
139 140 4.994852 CGGTTCAAACTGGACAATCTCTTA 59.005 41.667 0.00 0.00 0.00 2.10
140 141 3.815401 CGGTTCAAACTGGACAATCTCTT 59.185 43.478 0.00 0.00 0.00 2.85
141 142 3.403038 CGGTTCAAACTGGACAATCTCT 58.597 45.455 0.00 0.00 0.00 3.10
142 143 3.813529 CGGTTCAAACTGGACAATCTC 57.186 47.619 0.00 0.00 0.00 2.75
151 152 1.002468 CACAAGAGCCGGTTCAAACTG 60.002 52.381 21.22 13.39 35.04 3.16
152 153 1.308998 CACAAGAGCCGGTTCAAACT 58.691 50.000 21.22 0.00 0.00 2.66
153 154 1.021968 ACACAAGAGCCGGTTCAAAC 58.978 50.000 21.22 0.00 0.00 2.93
154 155 2.623878 TACACAAGAGCCGGTTCAAA 57.376 45.000 21.22 0.00 0.00 2.69
155 156 2.614983 GTTTACACAAGAGCCGGTTCAA 59.385 45.455 21.22 1.57 0.00 2.69
156 157 2.215196 GTTTACACAAGAGCCGGTTCA 58.785 47.619 21.22 0.00 0.00 3.18
157 158 2.215196 TGTTTACACAAGAGCCGGTTC 58.785 47.619 10.83 10.83 0.00 3.62
158 159 2.335316 TGTTTACACAAGAGCCGGTT 57.665 45.000 1.90 0.00 0.00 4.44
159 160 2.151202 CATGTTTACACAAGAGCCGGT 58.849 47.619 1.90 0.00 36.16 5.28
160 161 2.151202 ACATGTTTACACAAGAGCCGG 58.849 47.619 0.00 0.00 36.16 6.13
161 162 5.351233 TTTACATGTTTACACAAGAGCCG 57.649 39.130 2.30 0.00 36.16 5.52
162 163 9.855021 ATATTTTTACATGTTTACACAAGAGCC 57.145 29.630 2.30 0.00 36.16 4.70
189 190 8.840321 GGCAGTACTGATCAATGTATTTTATGT 58.160 33.333 27.08 0.00 0.00 2.29
190 191 9.060347 AGGCAGTACTGATCAATGTATTTTATG 57.940 33.333 27.08 0.00 0.00 1.90
191 192 9.632638 AAGGCAGTACTGATCAATGTATTTTAT 57.367 29.630 27.08 0.00 0.00 1.40
192 193 9.461312 AAAGGCAGTACTGATCAATGTATTTTA 57.539 29.630 27.08 0.00 0.00 1.52
193 194 7.944729 AAGGCAGTACTGATCAATGTATTTT 57.055 32.000 27.08 3.03 0.00 1.82
194 195 7.611467 TGAAAGGCAGTACTGATCAATGTATTT 59.389 33.333 27.08 11.63 0.00 1.40
195 196 7.112122 TGAAAGGCAGTACTGATCAATGTATT 58.888 34.615 27.08 7.09 0.00 1.89
196 197 6.653020 TGAAAGGCAGTACTGATCAATGTAT 58.347 36.000 27.08 1.86 0.00 2.29
197 198 6.048732 TGAAAGGCAGTACTGATCAATGTA 57.951 37.500 27.08 2.35 0.00 2.29
198 199 4.910195 TGAAAGGCAGTACTGATCAATGT 58.090 39.130 27.08 3.92 0.00 2.71
199 200 4.201891 GCTGAAAGGCAGTACTGATCAATG 60.202 45.833 27.08 12.99 46.62 2.82
200 201 3.944015 GCTGAAAGGCAGTACTGATCAAT 59.056 43.478 27.08 7.64 46.62 2.57
201 202 3.338249 GCTGAAAGGCAGTACTGATCAA 58.662 45.455 27.08 5.28 46.62 2.57
202 203 2.977914 GCTGAAAGGCAGTACTGATCA 58.022 47.619 27.08 20.03 46.62 2.92
214 215 2.016165 GCGCGTTTTGGCTGAAAGG 61.016 57.895 8.43 0.00 0.00 3.11
215 216 0.237235 TAGCGCGTTTTGGCTGAAAG 59.763 50.000 8.43 0.00 40.32 2.62
216 217 0.878416 ATAGCGCGTTTTGGCTGAAA 59.122 45.000 8.43 0.00 40.32 2.69
217 218 0.878416 AATAGCGCGTTTTGGCTGAA 59.122 45.000 8.43 0.00 40.32 3.02
218 219 0.167908 CAATAGCGCGTTTTGGCTGA 59.832 50.000 8.43 0.00 40.32 4.26
219 220 1.405469 GCAATAGCGCGTTTTGGCTG 61.405 55.000 8.43 0.00 40.32 4.85
220 221 1.154035 GCAATAGCGCGTTTTGGCT 60.154 52.632 8.43 0.00 43.12 4.75
221 222 3.373278 GCAATAGCGCGTTTTGGC 58.627 55.556 8.43 1.64 0.00 4.52
231 232 5.997746 TGATGTATTTCCCTGTAGCAATAGC 59.002 40.000 0.00 0.00 42.56 2.97
232 233 8.450578 TTTGATGTATTTCCCTGTAGCAATAG 57.549 34.615 0.00 0.00 0.00 1.73
233 234 8.815565 TTTTGATGTATTTCCCTGTAGCAATA 57.184 30.769 0.00 0.00 0.00 1.90
234 235 7.716799 TTTTGATGTATTTCCCTGTAGCAAT 57.283 32.000 0.00 0.00 0.00 3.56
235 236 7.531857 TTTTTGATGTATTTCCCTGTAGCAA 57.468 32.000 0.00 0.00 0.00 3.91
236 237 7.716799 ATTTTTGATGTATTTCCCTGTAGCA 57.283 32.000 0.00 0.00 0.00 3.49
237 238 9.736023 CTTATTTTTGATGTATTTCCCTGTAGC 57.264 33.333 0.00 0.00 0.00 3.58
240 241 9.753674 TCTCTTATTTTTGATGTATTTCCCTGT 57.246 29.630 0.00 0.00 0.00 4.00
266 267 9.775854 TGGTGATGTCAAATCAAAAATACAAAT 57.224 25.926 0.00 0.00 0.00 2.32
267 268 9.605275 TTGGTGATGTCAAATCAAAAATACAAA 57.395 25.926 0.00 0.00 0.00 2.83
268 269 9.039870 GTTGGTGATGTCAAATCAAAAATACAA 57.960 29.630 0.00 0.00 0.00 2.41
269 270 8.200120 TGTTGGTGATGTCAAATCAAAAATACA 58.800 29.630 0.00 0.00 0.00 2.29
270 271 8.586570 TGTTGGTGATGTCAAATCAAAAATAC 57.413 30.769 0.00 0.00 0.00 1.89
271 272 9.775854 AATGTTGGTGATGTCAAATCAAAAATA 57.224 25.926 0.00 0.00 0.00 1.40
272 273 8.561212 CAATGTTGGTGATGTCAAATCAAAAAT 58.439 29.630 0.00 0.00 0.00 1.82
273 274 7.012138 CCAATGTTGGTGATGTCAAATCAAAAA 59.988 33.333 3.58 0.00 43.43 1.94
274 275 6.482641 CCAATGTTGGTGATGTCAAATCAAAA 59.517 34.615 3.58 0.00 43.43 2.44
275 276 5.990386 CCAATGTTGGTGATGTCAAATCAAA 59.010 36.000 3.58 0.00 43.43 2.69
276 277 5.539979 CCAATGTTGGTGATGTCAAATCAA 58.460 37.500 3.58 0.00 43.43 2.57
294 295 3.039202 GCTTGGGCGTCGTCCAATG 62.039 63.158 30.11 23.13 46.68 2.82
319 320 1.476007 GGCCAGCCACGATATCTCCT 61.476 60.000 3.12 0.00 35.81 3.69
322 323 3.970332 TGGCCAGCCACGATATCT 58.030 55.556 7.43 0.00 41.89 1.98
347 348 4.728860 AGGTCCTAGGAAACCATCAATGAT 59.271 41.667 14.65 0.00 38.06 2.45
350 351 4.080299 GTGAGGTCCTAGGAAACCATCAAT 60.080 45.833 14.65 0.00 38.06 2.57
358 359 2.821437 CTCTGGTGAGGTCCTAGGAAA 58.179 52.381 14.65 0.00 36.70 3.13
438 439 1.633852 GCTCGAACAAGCAGCTCCTG 61.634 60.000 0.00 0.00 42.05 3.86
480 523 5.180492 CGTGTTAGGCTAAAATGGAAACTGA 59.820 40.000 8.86 0.00 0.00 3.41
481 524 5.390613 CGTGTTAGGCTAAAATGGAAACTG 58.609 41.667 8.86 0.00 0.00 3.16
482 525 4.457949 CCGTGTTAGGCTAAAATGGAAACT 59.542 41.667 25.62 0.00 34.53 2.66
529 574 5.277825 CAAACAAAGTAATCGCTCACCAAA 58.722 37.500 0.00 0.00 0.00 3.28
615 660 9.502091 GGGTATAGTTATCATTCTGTGCAATAA 57.498 33.333 0.00 0.00 0.00 1.40
616 661 8.655901 TGGGTATAGTTATCATTCTGTGCAATA 58.344 33.333 0.00 0.00 0.00 1.90
635 680 2.438021 CTGGCCAGCTTACTTGGGTATA 59.562 50.000 22.33 0.00 36.19 1.47
636 681 1.212935 CTGGCCAGCTTACTTGGGTAT 59.787 52.381 22.33 0.00 36.19 2.73
648 696 0.319405 AAAATGAGCAACTGGCCAGC 59.681 50.000 33.06 20.21 46.50 4.85
683 731 3.706373 GCCAGGCCCAGTCGAGAA 61.706 66.667 0.00 0.00 0.00 2.87
762 812 3.646637 GGATTGAGGCCCTAGCTAGTTTA 59.353 47.826 19.31 0.00 39.73 2.01
860 928 8.970859 AGTAAGCTAGCAATGTTCAAATCTAT 57.029 30.769 18.83 0.00 0.00 1.98
923 991 6.371825 TGTGTATGTGTGTGTTTGTGTTTCTA 59.628 34.615 0.00 0.00 0.00 2.10
924 992 5.182190 TGTGTATGTGTGTGTTTGTGTTTCT 59.818 36.000 0.00 0.00 0.00 2.52
925 993 5.285134 GTGTGTATGTGTGTGTTTGTGTTTC 59.715 40.000 0.00 0.00 0.00 2.78
926 994 5.157781 GTGTGTATGTGTGTGTTTGTGTTT 58.842 37.500 0.00 0.00 0.00 2.83
927 995 4.216472 TGTGTGTATGTGTGTGTTTGTGTT 59.784 37.500 0.00 0.00 0.00 3.32
928 996 3.753797 TGTGTGTATGTGTGTGTTTGTGT 59.246 39.130 0.00 0.00 0.00 3.72
929 997 4.094911 GTGTGTGTATGTGTGTGTTTGTG 58.905 43.478 0.00 0.00 0.00 3.33
930 998 3.753797 TGTGTGTGTATGTGTGTGTTTGT 59.246 39.130 0.00 0.00 0.00 2.83
931 999 4.094911 GTGTGTGTGTATGTGTGTGTTTG 58.905 43.478 0.00 0.00 0.00 2.93
932 1000 3.753797 TGTGTGTGTGTATGTGTGTGTTT 59.246 39.130 0.00 0.00 0.00 2.83
933 1001 3.339141 TGTGTGTGTGTATGTGTGTGTT 58.661 40.909 0.00 0.00 0.00 3.32
943 1011 7.547722 GTCTCATATATGGTTTGTGTGTGTGTA 59.452 37.037 12.78 0.00 0.00 2.90
964 1032 0.613572 TGGTCTATGGCCGTGTCTCA 60.614 55.000 8.05 0.00 0.00 3.27
1066 3233 1.527148 TGCTAAGCGTTGGCACCAA 60.527 52.632 0.00 0.00 42.49 3.67
1074 3241 1.666872 GTCCGGTGTGCTAAGCGTT 60.667 57.895 0.00 0.00 39.34 4.84
1079 3246 2.775032 GAAGCCGTCCGGTGTGCTAA 62.775 60.000 13.24 0.00 37.65 3.09
1081 3248 4.681978 GAAGCCGTCCGGTGTGCT 62.682 66.667 7.66 4.81 37.65 4.40
1387 5955 8.648097 CGAAATAACACGAATCCTCCTATATTG 58.352 37.037 0.00 0.00 0.00 1.90
1413 5981 3.878160 AGCTTCTGACTTACCTAGCAC 57.122 47.619 0.00 0.00 0.00 4.40
1490 6067 3.810373 CTTGAAAGAAACCGGTTGATCG 58.190 45.455 23.08 0.55 0.00 3.69
1500 6077 4.301628 CCCAACATGAGCTTGAAAGAAAC 58.698 43.478 0.00 0.00 0.00 2.78
1610 6187 3.674753 CGGTGAAATGAAGGATTTTGTGC 59.325 43.478 0.00 0.00 34.18 4.57
1642 6219 2.158711 TGATTAGCATGAGAAGGCAGGG 60.159 50.000 0.00 0.00 0.00 4.45
1643 6220 2.877168 GTGATTAGCATGAGAAGGCAGG 59.123 50.000 0.00 0.00 0.00 4.85
1644 6221 3.538591 TGTGATTAGCATGAGAAGGCAG 58.461 45.455 0.00 0.00 0.00 4.85
1645 6222 3.632643 TGTGATTAGCATGAGAAGGCA 57.367 42.857 0.00 0.00 0.00 4.75
1646 6223 4.337555 ACAATGTGATTAGCATGAGAAGGC 59.662 41.667 0.00 0.00 0.00 4.35
1669 6246 8.705594 AGATTTTGGTAGATCTCGATTTTCCTA 58.294 33.333 0.00 0.00 0.00 2.94
1729 8667 6.265196 GCTACACCCCAATTTCATGATGATTA 59.735 38.462 0.00 0.00 0.00 1.75
1732 8670 3.953612 GCTACACCCCAATTTCATGATGA 59.046 43.478 0.00 0.00 0.00 2.92
1842 8785 2.356382 TCTGCGTTCCAAATTGTCGTTT 59.644 40.909 0.00 0.00 0.00 3.60
1905 10949 9.408648 TCCTGAAAATAACTTTCTCAAGAGTTT 57.591 29.630 0.00 0.00 43.42 2.66
1972 13120 7.116090 TGGAACATGATTTGAAGCAATAAAACG 59.884 33.333 0.00 0.00 0.00 3.60
2031 13179 4.237349 TCAAAAATGGAAAGGAGCGAAC 57.763 40.909 0.00 0.00 0.00 3.95
2070 13219 6.951198 TGAGCCTTACCAATTGGAAAATTCTA 59.049 34.615 31.22 8.04 38.94 2.10
2085 13234 2.026262 TCCCAAGACAATGAGCCTTACC 60.026 50.000 0.00 0.00 0.00 2.85
2149 13390 6.830324 TCTTGTAAATCATCAATCAAGGAGGG 59.170 38.462 0.00 0.00 34.82 4.30
2153 13394 7.861372 GCTCATCTTGTAAATCATCAATCAAGG 59.139 37.037 0.00 0.00 34.82 3.61
2164 13405 6.366061 GGTTTGTTTGGCTCATCTTGTAAATC 59.634 38.462 0.00 0.00 0.00 2.17
2181 13422 0.400594 CCCTCCTCTCCGGTTTGTTT 59.599 55.000 0.00 0.00 0.00 2.83
2193 13434 5.871396 TGACAAACATATACTCCCTCCTC 57.129 43.478 0.00 0.00 0.00 3.71
2236 13478 2.975489 AGGACTTCAAGATCTGTGGTGT 59.025 45.455 0.00 0.63 0.00 4.16
2292 13534 9.561069 AGGTATGCTACTTATTCTTGTAAATGG 57.439 33.333 0.00 0.00 0.00 3.16
2322 13564 4.846137 GTCATTTGTCTGCGTCAATGTTAC 59.154 41.667 0.00 0.00 0.00 2.50
2332 13574 2.053627 GCCTTTTGTCATTTGTCTGCG 58.946 47.619 0.00 0.00 0.00 5.18
2335 13577 1.970640 GGGGCCTTTTGTCATTTGTCT 59.029 47.619 0.84 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.