Multiple sequence alignment - TraesCS5A01G272700

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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 TraesCS5A01G272700 chr5A 100.000 3263 0 0 1 3263 482354299 482357561 0.000000e+00 6026
1 TraesCS5A01G272700 chr5A 94.492 2324 126 2 420 2741 482368802 482371125 0.000000e+00 3581
2 TraesCS5A01G272700 chr5A 84.832 1457 192 17 1809 3263 482366278 482367707 0.000000e+00 1439
3 TraesCS5A01G272700 chr5A 84.402 1154 147 14 2106 3253 482423070 482424196 0.000000e+00 1103
4 TraesCS5A01G272700 chr5A 83.282 969 145 10 1809 2774 482381235 482382189 0.000000e+00 876
5 TraesCS5A01G272700 chr5A 88.283 495 31 6 2769 3263 482371121 482371588 4.720000e-158 568
6 TraesCS5A01G272700 chr6D 93.320 3009 146 9 257 3263 467787688 467784733 0.000000e+00 4392
7 TraesCS5A01G272700 chr6D 82.889 3039 451 48 259 3253 467828922 467831935 0.000000e+00 2667
8 TraesCS5A01G272700 chr6D 82.964 2888 430 34 257 3095 467802015 467799141 0.000000e+00 2551
9 TraesCS5A01G272700 chr6A 85.419 2901 377 30 260 3139 613949677 613952552 0.000000e+00 2972
10 TraesCS5A01G272700 chr6A 83.595 2932 410 36 258 3147 613896102 613893200 0.000000e+00 2684
11 TraesCS5A01G272700 chr6A 85.577 1456 184 13 1809 3263 613879880 613878450 0.000000e+00 1502
12 TraesCS5A01G272700 chr6B 84.613 2905 403 30 258 3145 713720045 713722922 0.000000e+00 2848
13 TraesCS5A01G272700 chr6B 83.247 3074 423 44 257 3254 713146009 713149066 0.000000e+00 2739
14 TraesCS5A01G272700 chr6B 78.593 1009 167 32 2170 3151 713939998 713939012 3.580000e-174 621
15 TraesCS5A01G272700 chr6B 79.059 893 140 31 2170 3036 713453508 713452637 1.310000e-158 569
16 TraesCS5A01G272700 chr6B 88.123 261 23 7 1 257 3312167 3311911 1.470000e-78 303
17 TraesCS5A01G272700 chr7A 75.255 2651 581 64 531 3138 6165118 6167736 0.000000e+00 1192
18 TraesCS5A01G272700 chr7A 75.160 2649 587 59 531 3138 5526687 5529305 0.000000e+00 1181
19 TraesCS5A01G272700 chr7B 96.875 256 4 1 1 256 433509601 433509350 3.010000e-115 425
20 TraesCS5A01G272700 chr7B 97.740 177 4 0 80 256 433514900 433514724 4.090000e-79 305
21 TraesCS5A01G272700 chr4B 95.720 257 8 2 1 256 270830435 270830689 8.430000e-111 411
22 TraesCS5A01G272700 chr4B 91.051 257 22 1 1 256 665967354 665967610 2.410000e-91 346
23 TraesCS5A01G272700 chr5B 95.588 204 9 0 1 204 65711925 65711722 8.730000e-86 327
24 TraesCS5A01G272700 chr1A 88.846 260 23 6 1 257 554344065 554343809 6.800000e-82 315
25 TraesCS5A01G272700 chr1A 88.846 260 23 6 1 257 554361591 554361335 6.800000e-82 315
26 TraesCS5A01G272700 chr1A 87.552 241 18 11 1 236 554895594 554895827 5.370000e-68 268


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 TraesCS5A01G272700 chr5A 482354299 482357561 3262 False 6026.000000 6026 100.000000 1 3263 1 chr5A.!!$F1 3262
1 TraesCS5A01G272700 chr5A 482366278 482371588 5310 False 1862.666667 3581 89.202333 420 3263 3 chr5A.!!$F4 2843
2 TraesCS5A01G272700 chr5A 482423070 482424196 1126 False 1103.000000 1103 84.402000 2106 3253 1 chr5A.!!$F3 1147
3 TraesCS5A01G272700 chr5A 482381235 482382189 954 False 876.000000 876 83.282000 1809 2774 1 chr5A.!!$F2 965
4 TraesCS5A01G272700 chr6D 467784733 467787688 2955 True 4392.000000 4392 93.320000 257 3263 1 chr6D.!!$R1 3006
5 TraesCS5A01G272700 chr6D 467828922 467831935 3013 False 2667.000000 2667 82.889000 259 3253 1 chr6D.!!$F1 2994
6 TraesCS5A01G272700 chr6D 467799141 467802015 2874 True 2551.000000 2551 82.964000 257 3095 1 chr6D.!!$R2 2838
7 TraesCS5A01G272700 chr6A 613949677 613952552 2875 False 2972.000000 2972 85.419000 260 3139 1 chr6A.!!$F1 2879
8 TraesCS5A01G272700 chr6A 613893200 613896102 2902 True 2684.000000 2684 83.595000 258 3147 1 chr6A.!!$R2 2889
9 TraesCS5A01G272700 chr6A 613878450 613879880 1430 True 1502.000000 1502 85.577000 1809 3263 1 chr6A.!!$R1 1454
10 TraesCS5A01G272700 chr6B 713720045 713722922 2877 False 2848.000000 2848 84.613000 258 3145 1 chr6B.!!$F2 2887
11 TraesCS5A01G272700 chr6B 713146009 713149066 3057 False 2739.000000 2739 83.247000 257 3254 1 chr6B.!!$F1 2997
12 TraesCS5A01G272700 chr6B 713939012 713939998 986 True 621.000000 621 78.593000 2170 3151 1 chr6B.!!$R3 981
13 TraesCS5A01G272700 chr6B 713452637 713453508 871 True 569.000000 569 79.059000 2170 3036 1 chr6B.!!$R2 866
14 TraesCS5A01G272700 chr7A 6165118 6167736 2618 False 1192.000000 1192 75.255000 531 3138 1 chr7A.!!$F2 2607
15 TraesCS5A01G272700 chr7A 5526687 5529305 2618 False 1181.000000 1181 75.160000 531 3138 1 chr7A.!!$F1 2607

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
68 69 0.107312 CATGGAGAAGGCACCTGGAG 60.107 60.0 0.0 0.0 0.0 3.86 F
73 74 0.178921 AGAAGGCACCTGGAGTCTGA 60.179 55.0 0.0 0.0 0.0 3.27 F
77 78 0.466124 GGCACCTGGAGTCTGATACC 59.534 60.0 0.0 0.0 0.0 2.73 F
355 356 0.845768 CAAAAGCAAAGGTTGTCGCG 59.154 50.0 0.0 0.0 0.0 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1682 3849 2.169330 GATAGTACCGTCCCATCTCCC 58.831 57.143 0.00 0.0 0.00 4.30 R
1726 3893 3.378112 TCAAGTTCAACCTGCTCAAACAG 59.622 43.478 0.00 0.0 37.42 3.16 R
1760 3990 3.552132 TCAGGCCGCAAATAACATAGA 57.448 42.857 0.00 0.0 0.00 1.98 R
2328 4562 2.096220 ACTCTCTGCATGTTGCTCAG 57.904 50.000 0.75 0.0 45.31 3.35 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
19 20 3.461773 GCTGAGCTAGTGGCCGGA 61.462 66.667 5.05 0.00 43.05 5.14
20 21 2.811101 CTGAGCTAGTGGCCGGAG 59.189 66.667 5.05 0.00 43.05 4.63
21 22 1.754621 CTGAGCTAGTGGCCGGAGA 60.755 63.158 5.05 0.00 43.05 3.71
23 24 2.443016 AGCTAGTGGCCGGAGAGG 60.443 66.667 5.05 0.00 43.05 3.69
25 26 3.082579 GCTAGTGGCCGGAGAGGTG 62.083 68.421 5.05 0.00 43.70 4.00
32 33 3.465403 CCGGAGAGGTGGCAGAGG 61.465 72.222 0.00 0.00 34.51 3.69
33 34 2.363018 CGGAGAGGTGGCAGAGGA 60.363 66.667 0.00 0.00 0.00 3.71
34 35 2.422231 CGGAGAGGTGGCAGAGGAG 61.422 68.421 0.00 0.00 0.00 3.69
35 36 2.063378 GGAGAGGTGGCAGAGGAGG 61.063 68.421 0.00 0.00 0.00 4.30
36 37 1.305718 GAGAGGTGGCAGAGGAGGT 60.306 63.158 0.00 0.00 0.00 3.85
37 38 1.611851 AGAGGTGGCAGAGGAGGTG 60.612 63.158 0.00 0.00 0.00 4.00
38 39 2.608988 AGGTGGCAGAGGAGGTGG 60.609 66.667 0.00 0.00 0.00 4.61
40 41 2.664081 GGTGGCAGAGGAGGTGGAG 61.664 68.421 0.00 0.00 0.00 3.86
43 44 1.194781 TGGCAGAGGAGGTGGAGTTC 61.195 60.000 0.00 0.00 0.00 3.01
44 45 0.907230 GGCAGAGGAGGTGGAGTTCT 60.907 60.000 0.00 0.00 0.00 3.01
46 47 1.930251 CAGAGGAGGTGGAGTTCTCA 58.070 55.000 2.24 0.00 0.00 3.27
47 48 1.824230 CAGAGGAGGTGGAGTTCTCAG 59.176 57.143 2.24 0.00 0.00 3.35
48 49 0.534873 GAGGAGGTGGAGTTCTCAGC 59.465 60.000 2.24 0.00 0.00 4.26
51 52 0.908198 GAGGTGGAGTTCTCAGCCAT 59.092 55.000 11.96 1.68 33.66 4.40
52 53 0.617413 AGGTGGAGTTCTCAGCCATG 59.383 55.000 11.96 0.00 33.66 3.66
53 54 0.393537 GGTGGAGTTCTCAGCCATGG 60.394 60.000 7.63 7.63 33.66 3.66
54 55 0.615331 GTGGAGTTCTCAGCCATGGA 59.385 55.000 18.40 0.00 33.66 3.41
55 56 0.907486 TGGAGTTCTCAGCCATGGAG 59.093 55.000 18.40 7.16 0.00 3.86
56 57 1.198713 GGAGTTCTCAGCCATGGAGA 58.801 55.000 18.40 11.64 39.53 3.71
57 58 1.556911 GGAGTTCTCAGCCATGGAGAA 59.443 52.381 18.40 13.19 46.21 2.87
65 66 4.651867 CCATGGAGAAGGCACCTG 57.348 61.111 5.56 0.00 0.00 4.00
66 67 1.077212 CCATGGAGAAGGCACCTGG 60.077 63.158 5.56 0.00 0.00 4.45
67 68 1.565390 CCATGGAGAAGGCACCTGGA 61.565 60.000 5.56 0.00 30.43 3.86
68 69 0.107312 CATGGAGAAGGCACCTGGAG 60.107 60.000 0.00 0.00 0.00 3.86
69 70 0.548682 ATGGAGAAGGCACCTGGAGT 60.549 55.000 0.00 0.00 0.00 3.85
70 71 1.194781 TGGAGAAGGCACCTGGAGTC 61.195 60.000 0.00 0.00 0.00 3.36
71 72 0.907230 GGAGAAGGCACCTGGAGTCT 60.907 60.000 0.00 0.00 0.00 3.24
72 73 0.248843 GAGAAGGCACCTGGAGTCTG 59.751 60.000 0.00 0.00 0.00 3.51
73 74 0.178921 AGAAGGCACCTGGAGTCTGA 60.179 55.000 0.00 0.00 0.00 3.27
76 77 1.490574 AGGCACCTGGAGTCTGATAC 58.509 55.000 0.00 0.00 0.00 2.24
77 78 0.466124 GGCACCTGGAGTCTGATACC 59.534 60.000 0.00 0.00 0.00 2.73
78 79 1.195115 GCACCTGGAGTCTGATACCA 58.805 55.000 0.00 5.84 0.00 3.25
79 80 1.555075 GCACCTGGAGTCTGATACCAA 59.445 52.381 0.00 0.00 33.14 3.67
80 81 2.419297 GCACCTGGAGTCTGATACCAAG 60.419 54.545 0.00 4.44 33.14 3.61
81 82 2.834549 CACCTGGAGTCTGATACCAAGT 59.165 50.000 0.00 4.94 33.14 3.16
82 83 4.023980 CACCTGGAGTCTGATACCAAGTA 58.976 47.826 0.00 0.00 33.14 2.24
83 84 4.098654 CACCTGGAGTCTGATACCAAGTAG 59.901 50.000 0.00 0.00 33.14 2.57
84 85 3.639094 CCTGGAGTCTGATACCAAGTAGG 59.361 52.174 7.09 0.00 45.67 3.18
86 87 4.279145 TGGAGTCTGATACCAAGTAGGAC 58.721 47.826 3.87 0.00 41.22 3.85
87 88 3.315749 GGAGTCTGATACCAAGTAGGACG 59.684 52.174 0.00 0.00 41.22 4.79
88 89 4.197750 GAGTCTGATACCAAGTAGGACGA 58.802 47.826 0.00 0.00 41.22 4.20
89 90 4.794334 AGTCTGATACCAAGTAGGACGAT 58.206 43.478 0.00 0.00 41.22 3.73
90 91 4.822896 AGTCTGATACCAAGTAGGACGATC 59.177 45.833 0.00 0.00 41.22 3.69
91 92 4.579340 GTCTGATACCAAGTAGGACGATCA 59.421 45.833 0.00 0.00 41.22 2.92
92 93 5.067413 GTCTGATACCAAGTAGGACGATCAA 59.933 44.000 0.00 0.00 41.22 2.57
93 94 5.833667 TCTGATACCAAGTAGGACGATCAAT 59.166 40.000 0.00 0.00 41.22 2.57
94 95 6.323996 TCTGATACCAAGTAGGACGATCAATT 59.676 38.462 0.00 0.00 41.22 2.32
95 96 6.280643 TGATACCAAGTAGGACGATCAATTG 58.719 40.000 0.00 0.00 41.22 2.32
96 97 4.553330 ACCAAGTAGGACGATCAATTGT 57.447 40.909 5.13 0.00 41.22 2.71
97 98 4.253685 ACCAAGTAGGACGATCAATTGTG 58.746 43.478 5.13 0.00 41.22 3.33
100 101 5.171476 CAAGTAGGACGATCAATTGTGTCT 58.829 41.667 19.74 12.49 0.00 3.41
102 103 3.685139 AGGACGATCAATTGTGTCTGT 57.315 42.857 19.74 14.30 0.00 3.41
103 104 3.589988 AGGACGATCAATTGTGTCTGTC 58.410 45.455 19.74 18.83 0.00 3.51
104 105 3.006859 AGGACGATCAATTGTGTCTGTCA 59.993 43.478 19.74 0.00 0.00 3.58
105 106 3.935203 GGACGATCAATTGTGTCTGTCAT 59.065 43.478 19.74 1.26 0.00 3.06
106 107 4.393062 GGACGATCAATTGTGTCTGTCATT 59.607 41.667 19.74 0.00 0.00 2.57
107 108 5.446473 GGACGATCAATTGTGTCTGTCATTC 60.446 44.000 19.74 10.02 0.00 2.67
111 112 6.685828 CGATCAATTGTGTCTGTCATTCAATC 59.314 38.462 5.13 0.00 0.00 2.67
112 113 6.880942 TCAATTGTGTCTGTCATTCAATCA 57.119 33.333 5.13 0.00 0.00 2.57
113 114 7.457024 TCAATTGTGTCTGTCATTCAATCAT 57.543 32.000 5.13 0.00 0.00 2.45
115 116 7.175293 TCAATTGTGTCTGTCATTCAATCATCA 59.825 33.333 5.13 0.00 0.00 3.07
117 118 6.431198 TGTGTCTGTCATTCAATCATCATG 57.569 37.500 0.00 0.00 0.00 3.07
118 119 5.163693 TGTGTCTGTCATTCAATCATCATGC 60.164 40.000 0.00 0.00 0.00 4.06
119 120 4.944930 TGTCTGTCATTCAATCATCATGCA 59.055 37.500 0.00 0.00 0.00 3.96
120 121 5.592688 TGTCTGTCATTCAATCATCATGCAT 59.407 36.000 0.00 0.00 0.00 3.96
121 122 6.096282 TGTCTGTCATTCAATCATCATGCATT 59.904 34.615 0.00 0.00 0.00 3.56
122 123 6.417930 GTCTGTCATTCAATCATCATGCATTG 59.582 38.462 0.00 0.00 0.00 2.82
123 124 6.096282 TCTGTCATTCAATCATCATGCATTGT 59.904 34.615 0.00 0.00 32.67 2.71
125 126 7.197703 TGTCATTCAATCATCATGCATTGTAC 58.802 34.615 0.00 0.00 32.67 2.90
128 129 7.703197 TCATTCAATCATCATGCATTGTACAAC 59.297 33.333 11.22 0.00 32.67 3.32
129 130 6.512342 TCAATCATCATGCATTGTACAACA 57.488 33.333 11.22 5.87 32.67 3.33
131 132 8.223177 TCAATCATCATGCATTGTACAACATA 57.777 30.769 11.22 0.01 32.67 2.29
132 133 8.852135 TCAATCATCATGCATTGTACAACATAT 58.148 29.630 11.22 2.57 32.67 1.78
138 139 7.962917 TCATGCATTGTACAACATATATAGCG 58.037 34.615 11.22 0.00 0.00 4.26
139 140 6.164408 TGCATTGTACAACATATATAGCGC 57.836 37.500 11.22 0.00 0.00 5.92
141 142 7.093992 TGCATTGTACAACATATATAGCGCTA 58.906 34.615 21.30 21.30 0.00 4.26
142 143 7.275560 TGCATTGTACAACATATATAGCGCTAG 59.724 37.037 23.37 11.06 0.00 3.42
143 144 7.488150 GCATTGTACAACATATATAGCGCTAGA 59.512 37.037 23.37 19.41 0.00 2.43
144 145 9.014533 CATTGTACAACATATATAGCGCTAGAG 57.985 37.037 23.37 9.18 0.00 2.43
145 146 7.683437 TGTACAACATATATAGCGCTAGAGT 57.317 36.000 23.37 13.16 0.00 3.24
147 148 8.880750 TGTACAACATATATAGCGCTAGAGTAG 58.119 37.037 23.37 13.53 0.00 2.57
148 149 7.925043 ACAACATATATAGCGCTAGAGTAGT 57.075 36.000 23.37 14.15 0.00 2.73
151 152 9.705471 CAACATATATAGCGCTAGAGTAGTTAC 57.295 37.037 23.37 0.00 0.00 2.50
154 155 6.988622 ATATAGCGCTAGAGTAGTTACAGG 57.011 41.667 23.37 0.00 0.00 4.00
155 156 3.278668 AGCGCTAGAGTAGTTACAGGA 57.721 47.619 8.99 0.00 0.00 3.86
157 158 3.118334 AGCGCTAGAGTAGTTACAGGAGA 60.118 47.826 8.99 0.00 0.00 3.71
158 159 3.249080 GCGCTAGAGTAGTTACAGGAGAG 59.751 52.174 0.00 0.00 0.00 3.20
159 160 3.249080 CGCTAGAGTAGTTACAGGAGAGC 59.751 52.174 0.00 0.00 0.00 4.09
161 162 3.021177 AGAGTAGTTACAGGAGAGCCC 57.979 52.381 0.00 0.00 33.31 5.19
163 164 1.284198 AGTAGTTACAGGAGAGCCCGA 59.716 52.381 0.00 0.00 40.87 5.14
164 165 2.097825 GTAGTTACAGGAGAGCCCGAA 58.902 52.381 0.00 0.00 40.87 4.30
165 166 1.187087 AGTTACAGGAGAGCCCGAAG 58.813 55.000 0.00 0.00 40.87 3.79
193 194 4.925861 GCAGGCCTGGGCGAGATC 62.926 72.222 33.46 10.92 43.06 2.75
194 195 3.160047 CAGGCCTGGGCGAGATCT 61.160 66.667 26.14 0.00 43.06 2.75
195 196 1.834378 CAGGCCTGGGCGAGATCTA 60.834 63.158 26.14 0.00 43.06 1.98
196 197 1.157276 AGGCCTGGGCGAGATCTAT 59.843 57.895 15.17 0.00 43.06 1.98
197 198 1.190833 AGGCCTGGGCGAGATCTATG 61.191 60.000 15.17 0.00 43.06 2.23
198 199 1.188219 GGCCTGGGCGAGATCTATGA 61.188 60.000 3.84 0.00 43.06 2.15
199 200 0.901124 GCCTGGGCGAGATCTATGAT 59.099 55.000 0.00 0.00 0.00 2.45
200 201 1.134848 GCCTGGGCGAGATCTATGATC 60.135 57.143 0.00 0.00 0.00 2.92
201 202 1.480137 CCTGGGCGAGATCTATGATCC 59.520 57.143 0.00 0.00 0.00 3.36
202 203 2.455557 CTGGGCGAGATCTATGATCCT 58.544 52.381 0.00 0.00 0.00 3.24
203 204 3.625853 CTGGGCGAGATCTATGATCCTA 58.374 50.000 0.00 0.00 0.00 2.94
204 205 4.214310 CTGGGCGAGATCTATGATCCTAT 58.786 47.826 0.00 0.00 0.00 2.57
205 206 5.380900 CTGGGCGAGATCTATGATCCTATA 58.619 45.833 0.00 0.00 0.00 1.31
206 207 5.958321 TGGGCGAGATCTATGATCCTATAT 58.042 41.667 0.00 0.00 0.00 0.86
207 208 7.091533 TGGGCGAGATCTATGATCCTATATA 57.908 40.000 0.00 0.00 0.00 0.86
208 209 6.943146 TGGGCGAGATCTATGATCCTATATAC 59.057 42.308 0.00 0.00 0.00 1.47
209 210 7.172342 GGGCGAGATCTATGATCCTATATACT 58.828 42.308 0.00 0.00 0.00 2.12
210 211 8.322828 GGGCGAGATCTATGATCCTATATACTA 58.677 40.741 0.00 0.00 0.00 1.82
211 212 9.378551 GGCGAGATCTATGATCCTATATACTAG 57.621 40.741 0.00 0.00 0.00 2.57
212 213 9.378551 GCGAGATCTATGATCCTATATACTAGG 57.621 40.741 0.00 0.00 36.06 3.02
236 237 8.809066 AGGAATACAAGTACATACAGTTACACA 58.191 33.333 0.00 0.00 0.00 3.72
237 238 9.084164 GGAATACAAGTACATACAGTTACACAG 57.916 37.037 0.00 0.00 0.00 3.66
238 239 8.997621 AATACAAGTACATACAGTTACACAGG 57.002 34.615 0.00 0.00 0.00 4.00
239 240 6.415206 ACAAGTACATACAGTTACACAGGT 57.585 37.500 0.00 0.00 0.00 4.00
241 242 7.373493 ACAAGTACATACAGTTACACAGGTAC 58.627 38.462 0.00 0.00 0.00 3.34
243 244 7.528996 AGTACATACAGTTACACAGGTACAA 57.471 36.000 0.00 0.00 33.99 2.41
244 245 8.130671 AGTACATACAGTTACACAGGTACAAT 57.869 34.615 0.00 0.00 33.99 2.71
248 249 7.816031 ACATACAGTTACACAGGTACAATACAC 59.184 37.037 0.00 0.00 0.00 2.90
249 250 5.224888 ACAGTTACACAGGTACAATACACG 58.775 41.667 0.00 0.00 0.00 4.49
250 251 5.221303 ACAGTTACACAGGTACAATACACGT 60.221 40.000 0.00 0.00 0.00 4.49
252 253 6.862608 CAGTTACACAGGTACAATACACGTTA 59.137 38.462 0.00 0.00 0.00 3.18
253 254 7.381948 CAGTTACACAGGTACAATACACGTTAA 59.618 37.037 0.00 0.00 0.00 2.01
254 255 7.382218 AGTTACACAGGTACAATACACGTTAAC 59.618 37.037 0.00 0.00 0.00 2.01
255 256 5.599732 ACACAGGTACAATACACGTTAACA 58.400 37.500 6.39 0.00 0.00 2.41
355 356 0.845768 CAAAAGCAAAGGTTGTCGCG 59.154 50.000 0.00 0.00 0.00 5.87
407 412 7.832769 TCAAGGTACCTAAATTGTTTAATGCC 58.167 34.615 16.67 0.00 0.00 4.40
408 413 7.672239 TCAAGGTACCTAAATTGTTTAATGCCT 59.328 33.333 16.67 0.00 31.83 4.75
409 414 8.311109 CAAGGTACCTAAATTGTTTAATGCCTT 58.689 33.333 16.67 8.59 37.11 4.35
410 415 7.836842 AGGTACCTAAATTGTTTAATGCCTTG 58.163 34.615 14.41 0.00 28.46 3.61
412 417 8.741841 GGTACCTAAATTGTTTAATGCCTTGTA 58.258 33.333 4.06 0.00 0.00 2.41
414 419 7.608153 ACCTAAATTGTTTAATGCCTTGTACC 58.392 34.615 0.00 0.00 0.00 3.34
415 420 6.750039 CCTAAATTGTTTAATGCCTTGTACCG 59.250 38.462 0.00 0.00 0.00 4.02
416 421 5.968528 AATTGTTTAATGCCTTGTACCGA 57.031 34.783 0.00 0.00 0.00 4.69
417 422 4.752661 TTGTTTAATGCCTTGTACCGAC 57.247 40.909 0.00 0.00 0.00 4.79
419 424 3.499157 TGTTTAATGCCTTGTACCGACAC 59.501 43.478 0.00 0.00 34.48 3.67
420 425 3.404224 TTAATGCCTTGTACCGACACA 57.596 42.857 0.00 0.00 34.48 3.72
421 426 2.489938 AATGCCTTGTACCGACACAT 57.510 45.000 0.00 0.00 34.48 3.21
422 427 2.489938 ATGCCTTGTACCGACACATT 57.510 45.000 0.00 0.00 34.48 2.71
738 2903 2.547642 CCGGTGGTGCAATTTCAAATGT 60.548 45.455 0.00 0.00 0.00 2.71
766 2931 5.896106 TCAGAGTACAATCTCAGATCCATGT 59.104 40.000 0.00 0.00 36.97 3.21
903 3070 1.686325 TAGGCATCGGAGGAGTTGGC 61.686 60.000 0.00 0.00 36.86 4.52
1011 3178 9.778993 AATAAATTTGATGAAATGAGACTCACG 57.221 29.630 7.47 0.00 31.83 4.35
1161 3328 1.880894 CATGGATGATGGCCGATGC 59.119 57.895 0.00 0.00 0.00 3.91
1263 3430 4.461198 CCAAAAAGAGAGGTACAACTGGT 58.539 43.478 0.00 0.00 0.00 4.00
1360 3527 6.734104 ATTACAAAGAGCAAGCAAGTCTAG 57.266 37.500 0.00 0.00 0.00 2.43
1389 3556 8.409358 ACTTAGGACAGAAAATAGCACAAAAT 57.591 30.769 0.00 0.00 0.00 1.82
1463 3630 6.312141 TCATCTTACTGTGGATCATTGGAA 57.688 37.500 0.00 0.00 0.00 3.53
1545 3712 4.641989 GCCTTGAAGCTTTCCTATGATGAA 59.358 41.667 0.00 0.00 0.00 2.57
1604 3771 6.211986 TGTTCTATATTCCCCTACGGTTATGG 59.788 42.308 0.00 0.00 0.00 2.74
1644 3811 5.122396 GCTAGTTCGTCTTTGGATTTCACAT 59.878 40.000 0.00 0.00 0.00 3.21
1682 3849 6.402550 CGTGATCATTCAAGTAAGAGTTTGGG 60.403 42.308 0.00 0.00 32.48 4.12
1726 3893 4.280019 ACTTGGTGAACCGGGGCC 62.280 66.667 6.32 0.00 39.43 5.80
1760 3990 6.813152 CAGGTTGAACTTGAATGTCAAACTTT 59.187 34.615 0.61 0.00 36.35 2.66
1782 4012 5.222079 TCTATGTTATTTGCGGCCTGATA 57.778 39.130 0.00 0.00 0.00 2.15
1878 4108 5.450412 GCCAACTATACACCATTTGTCCATG 60.450 44.000 0.00 0.00 39.91 3.66
2056 4286 5.132502 TCCAAGATGTCTTTGAAGAAGCAA 58.867 37.500 0.00 0.00 36.68 3.91
2142 4372 3.055458 TGGCAAATCCTACACATCTTCGA 60.055 43.478 0.00 0.00 35.26 3.71
2241 4475 7.775120 AGTATTGGATGTGGCTTTCTTTAATG 58.225 34.615 0.00 0.00 0.00 1.90
2328 4562 5.177725 TCGGTTTCTTAAAAGGTTGAAGC 57.822 39.130 0.00 0.00 0.00 3.86
2720 4985 4.282195 GGATATGGACTTCCGAGTGAGATT 59.718 45.833 0.00 0.00 39.43 2.40
2917 5188 1.980765 AGAGCAGACCCATGAAGACAA 59.019 47.619 0.00 0.00 0.00 3.18
2992 5272 5.892348 AGATTGTGGAATAACAGGGAAGTT 58.108 37.500 0.00 0.00 35.55 2.66
3112 5392 7.693969 AGGTTCAATCAAACTTTATCTCAGG 57.306 36.000 0.00 0.00 0.00 3.86
3120 5400 5.245301 TCAAACTTTATCTCAGGTTCCGAGA 59.755 40.000 12.75 12.75 43.41 4.04
3153 5463 5.722923 TCAGGATATGTAGATGATGCATGGA 59.277 40.000 2.46 0.00 34.79 3.41
3157 5467 6.656270 GGATATGTAGATGATGCATGGACAAA 59.344 38.462 2.46 0.00 34.79 2.83
3162 5472 4.533815 AGATGATGCATGGACAAACTCAT 58.466 39.130 2.46 0.00 0.00 2.90
3199 5509 1.945394 GCACATTCCGCTGAATCTCAT 59.055 47.619 0.00 0.00 39.20 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.774528 CGGCCACTAGCTCAGCCA 61.775 66.667 2.24 0.00 46.08 4.75
1 2 4.537433 CCGGCCACTAGCTCAGCC 62.537 72.222 2.24 0.00 43.05 4.85
2 3 3.438017 CTCCGGCCACTAGCTCAGC 62.438 68.421 2.24 0.00 43.05 4.26
4 5 1.754621 CTCTCCGGCCACTAGCTCA 60.755 63.158 2.24 0.00 43.05 4.26
8 9 2.427245 CCACCTCTCCGGCCACTAG 61.427 68.421 2.24 0.00 35.61 2.57
9 10 2.363795 CCACCTCTCCGGCCACTA 60.364 66.667 2.24 0.00 35.61 2.74
16 17 2.363018 TCCTCTGCCACCTCTCCG 60.363 66.667 0.00 0.00 0.00 4.63
19 20 1.611851 CACCTCCTCTGCCACCTCT 60.612 63.158 0.00 0.00 0.00 3.69
20 21 2.664081 CCACCTCCTCTGCCACCTC 61.664 68.421 0.00 0.00 0.00 3.85
21 22 2.608988 CCACCTCCTCTGCCACCT 60.609 66.667 0.00 0.00 0.00 4.00
23 24 1.484444 AACTCCACCTCCTCTGCCAC 61.484 60.000 0.00 0.00 0.00 5.01
25 26 0.907230 AGAACTCCACCTCCTCTGCC 60.907 60.000 0.00 0.00 0.00 4.85
29 30 0.534873 GCTGAGAACTCCACCTCCTC 59.465 60.000 0.00 0.00 0.00 3.71
30 31 0.907230 GGCTGAGAACTCCACCTCCT 60.907 60.000 0.00 0.00 0.00 3.69
32 33 0.908198 ATGGCTGAGAACTCCACCTC 59.092 55.000 10.18 0.00 31.94 3.85
33 34 0.617413 CATGGCTGAGAACTCCACCT 59.383 55.000 10.18 0.00 31.94 4.00
34 35 0.393537 CCATGGCTGAGAACTCCACC 60.394 60.000 0.00 2.00 31.94 4.61
35 36 0.615331 TCCATGGCTGAGAACTCCAC 59.385 55.000 6.96 0.00 31.94 4.02
36 37 0.907486 CTCCATGGCTGAGAACTCCA 59.093 55.000 6.96 0.00 31.26 3.86
37 38 1.198713 TCTCCATGGCTGAGAACTCC 58.801 55.000 6.96 0.00 35.98 3.85
38 39 2.419851 CCTTCTCCATGGCTGAGAACTC 60.420 54.545 6.96 0.00 42.38 3.01
40 41 2.016096 GCCTTCTCCATGGCTGAGAAC 61.016 57.143 6.96 0.00 42.38 3.01
43 44 4.555610 GCCTTCTCCATGGCTGAG 57.444 61.111 6.96 0.00 45.26 3.35
48 49 1.077212 CCAGGTGCCTTCTCCATGG 60.077 63.158 4.97 4.97 0.00 3.66
51 52 1.152030 ACTCCAGGTGCCTTCTCCA 60.152 57.895 0.00 0.00 0.00 3.86
52 53 0.907230 AGACTCCAGGTGCCTTCTCC 60.907 60.000 0.00 0.00 0.00 3.71
53 54 0.248843 CAGACTCCAGGTGCCTTCTC 59.751 60.000 0.00 0.00 0.00 2.87
54 55 0.178921 TCAGACTCCAGGTGCCTTCT 60.179 55.000 0.00 0.00 0.00 2.85
55 56 0.908198 ATCAGACTCCAGGTGCCTTC 59.092 55.000 0.00 0.00 0.00 3.46
56 57 1.834263 GTATCAGACTCCAGGTGCCTT 59.166 52.381 0.00 0.00 0.00 4.35
57 58 1.490574 GTATCAGACTCCAGGTGCCT 58.509 55.000 0.00 0.00 0.00 4.75
58 59 0.466124 GGTATCAGACTCCAGGTGCC 59.534 60.000 0.00 0.00 0.00 5.01
59 60 1.195115 TGGTATCAGACTCCAGGTGC 58.805 55.000 0.00 0.00 0.00 5.01
60 61 2.834549 ACTTGGTATCAGACTCCAGGTG 59.165 50.000 8.91 0.00 39.46 4.00
61 62 3.191888 ACTTGGTATCAGACTCCAGGT 57.808 47.619 5.10 5.10 36.87 4.00
62 63 3.639094 CCTACTTGGTATCAGACTCCAGG 59.361 52.174 4.07 4.07 35.04 4.45
64 65 4.279145 GTCCTACTTGGTATCAGACTCCA 58.721 47.826 0.00 0.00 37.07 3.86
65 66 3.315749 CGTCCTACTTGGTATCAGACTCC 59.684 52.174 0.00 0.00 37.07 3.85
66 67 4.197750 TCGTCCTACTTGGTATCAGACTC 58.802 47.826 0.00 0.00 37.07 3.36
67 68 4.232188 TCGTCCTACTTGGTATCAGACT 57.768 45.455 0.00 0.00 37.07 3.24
68 69 4.579340 TGATCGTCCTACTTGGTATCAGAC 59.421 45.833 0.00 0.00 37.07 3.51
69 70 4.788679 TGATCGTCCTACTTGGTATCAGA 58.211 43.478 0.00 0.00 37.07 3.27
70 71 5.515797 TTGATCGTCCTACTTGGTATCAG 57.484 43.478 0.00 0.00 34.59 2.90
71 72 6.127168 ACAATTGATCGTCCTACTTGGTATCA 60.127 38.462 13.59 0.00 37.07 2.15
72 73 6.201044 CACAATTGATCGTCCTACTTGGTATC 59.799 42.308 13.59 0.00 37.07 2.24
73 74 6.049149 CACAATTGATCGTCCTACTTGGTAT 58.951 40.000 13.59 0.00 37.07 2.73
76 77 4.253685 ACACAATTGATCGTCCTACTTGG 58.746 43.478 13.59 0.00 37.10 3.61
77 78 5.062683 CAGACACAATTGATCGTCCTACTTG 59.937 44.000 13.59 5.98 0.00 3.16
78 79 5.171476 CAGACACAATTGATCGTCCTACTT 58.829 41.667 13.59 0.00 0.00 2.24
79 80 4.220821 ACAGACACAATTGATCGTCCTACT 59.779 41.667 13.59 0.00 0.00 2.57
80 81 4.495422 ACAGACACAATTGATCGTCCTAC 58.505 43.478 13.59 0.00 0.00 3.18
81 82 4.219725 TGACAGACACAATTGATCGTCCTA 59.780 41.667 13.59 4.63 0.00 2.94
82 83 3.006859 TGACAGACACAATTGATCGTCCT 59.993 43.478 13.59 4.12 0.00 3.85
83 84 3.325870 TGACAGACACAATTGATCGTCC 58.674 45.455 13.59 4.34 0.00 4.79
84 85 5.120674 TGAATGACAGACACAATTGATCGTC 59.879 40.000 13.59 17.69 0.00 4.20
86 87 5.535043 TGAATGACAGACACAATTGATCG 57.465 39.130 13.59 8.21 0.00 3.69
87 88 7.532571 TGATTGAATGACAGACACAATTGATC 58.467 34.615 13.59 9.28 32.50 2.92
88 89 7.457024 TGATTGAATGACAGACACAATTGAT 57.543 32.000 13.59 0.00 32.50 2.57
89 90 6.880942 TGATTGAATGACAGACACAATTGA 57.119 33.333 13.59 0.00 32.50 2.57
90 91 7.309920 TGATGATTGAATGACAGACACAATTG 58.690 34.615 3.24 3.24 32.50 2.32
91 92 7.457024 TGATGATTGAATGACAGACACAATT 57.543 32.000 0.00 0.00 32.50 2.32
92 93 7.480810 CATGATGATTGAATGACAGACACAAT 58.519 34.615 0.00 0.00 34.55 2.71
93 94 6.624204 GCATGATGATTGAATGACAGACACAA 60.624 38.462 0.00 0.00 0.00 3.33
94 95 5.163693 GCATGATGATTGAATGACAGACACA 60.164 40.000 0.00 0.00 0.00 3.72
95 96 5.163693 TGCATGATGATTGAATGACAGACAC 60.164 40.000 0.00 0.00 0.00 3.67
96 97 4.944930 TGCATGATGATTGAATGACAGACA 59.055 37.500 0.00 0.00 0.00 3.41
97 98 5.494632 TGCATGATGATTGAATGACAGAC 57.505 39.130 0.00 0.00 0.00 3.51
100 101 6.215495 ACAATGCATGATGATTGAATGACA 57.785 33.333 18.02 0.00 34.31 3.58
102 103 7.336161 TGTACAATGCATGATGATTGAATGA 57.664 32.000 18.02 4.65 34.31 2.57
103 104 7.489757 TGTTGTACAATGCATGATGATTGAATG 59.510 33.333 12.26 0.00 34.31 2.67
104 105 7.548967 TGTTGTACAATGCATGATGATTGAAT 58.451 30.769 12.26 5.75 34.31 2.57
105 106 6.921914 TGTTGTACAATGCATGATGATTGAA 58.078 32.000 12.26 5.81 34.31 2.69
106 107 6.512342 TGTTGTACAATGCATGATGATTGA 57.488 33.333 12.26 5.69 34.31 2.57
111 112 9.712359 GCTATATATGTTGTACAATGCATGATG 57.288 33.333 12.26 0.00 0.00 3.07
112 113 8.606602 CGCTATATATGTTGTACAATGCATGAT 58.393 33.333 12.26 11.13 0.00 2.45
113 114 7.412891 GCGCTATATATGTTGTACAATGCATGA 60.413 37.037 12.26 5.11 0.00 3.07
115 116 6.595326 AGCGCTATATATGTTGTACAATGCAT 59.405 34.615 8.99 13.40 0.00 3.96
117 118 6.408858 AGCGCTATATATGTTGTACAATGC 57.591 37.500 8.99 0.02 0.00 3.56
118 119 8.911247 TCTAGCGCTATATATGTTGTACAATG 57.089 34.615 19.19 0.00 0.00 2.82
119 120 8.740906 ACTCTAGCGCTATATATGTTGTACAAT 58.259 33.333 19.19 0.00 0.00 2.71
120 121 8.107399 ACTCTAGCGCTATATATGTTGTACAA 57.893 34.615 19.19 3.59 0.00 2.41
121 122 7.683437 ACTCTAGCGCTATATATGTTGTACA 57.317 36.000 19.19 0.00 0.00 2.90
122 123 8.881743 ACTACTCTAGCGCTATATATGTTGTAC 58.118 37.037 19.19 0.00 0.00 2.90
123 124 9.445878 AACTACTCTAGCGCTATATATGTTGTA 57.554 33.333 19.19 11.69 0.00 2.41
125 126 9.705471 GTAACTACTCTAGCGCTATATATGTTG 57.295 37.037 19.19 14.20 0.00 3.33
128 129 8.552865 CCTGTAACTACTCTAGCGCTATATATG 58.447 40.741 19.19 10.96 0.00 1.78
129 130 8.484575 TCCTGTAACTACTCTAGCGCTATATAT 58.515 37.037 19.19 6.72 0.00 0.86
131 132 6.709281 TCCTGTAACTACTCTAGCGCTATAT 58.291 40.000 19.19 8.94 0.00 0.86
132 133 6.014755 TCTCCTGTAACTACTCTAGCGCTATA 60.015 42.308 19.19 10.23 0.00 1.31
134 135 4.100653 TCTCCTGTAACTACTCTAGCGCTA 59.899 45.833 17.75 17.75 0.00 4.26
135 136 3.118334 TCTCCTGTAACTACTCTAGCGCT 60.118 47.826 17.26 17.26 0.00 5.92
136 137 3.204526 TCTCCTGTAACTACTCTAGCGC 58.795 50.000 0.00 0.00 0.00 5.92
138 139 3.566742 GGCTCTCCTGTAACTACTCTAGC 59.433 52.174 0.00 0.00 0.00 3.42
139 140 4.139038 GGGCTCTCCTGTAACTACTCTAG 58.861 52.174 0.00 0.00 0.00 2.43
141 142 2.684334 CGGGCTCTCCTGTAACTACTCT 60.684 54.545 0.00 0.00 33.91 3.24
142 143 1.677052 CGGGCTCTCCTGTAACTACTC 59.323 57.143 0.00 0.00 33.91 2.59
143 144 1.284198 TCGGGCTCTCCTGTAACTACT 59.716 52.381 0.00 0.00 39.81 2.57
144 145 1.760192 TCGGGCTCTCCTGTAACTAC 58.240 55.000 0.00 0.00 39.81 2.73
145 146 2.376109 CTTCGGGCTCTCCTGTAACTA 58.624 52.381 0.00 0.00 39.81 2.24
147 148 0.175989 CCTTCGGGCTCTCCTGTAAC 59.824 60.000 0.00 0.00 39.81 2.50
148 149 0.040646 TCCTTCGGGCTCTCCTGTAA 59.959 55.000 0.00 0.00 39.81 2.41
151 152 1.333636 ACATCCTTCGGGCTCTCCTG 61.334 60.000 0.00 0.00 40.23 3.86
154 155 1.144936 CCACATCCTTCGGGCTCTC 59.855 63.158 0.00 0.00 34.44 3.20
155 156 3.036429 GCCACATCCTTCGGGCTCT 62.036 63.158 0.00 0.00 43.09 4.09
157 158 3.329889 TGCCACATCCTTCGGGCT 61.330 61.111 0.00 0.00 46.53 5.19
158 159 3.134127 GTGCCACATCCTTCGGGC 61.134 66.667 0.00 0.00 46.58 6.13
159 160 2.819595 CGTGCCACATCCTTCGGG 60.820 66.667 0.00 0.00 0.00 5.14
161 162 2.741985 TGCGTGCCACATCCTTCG 60.742 61.111 0.00 0.00 0.00 3.79
163 164 2.360350 CCTGCGTGCCACATCCTT 60.360 61.111 0.00 0.00 0.00 3.36
177 178 1.190833 ATAGATCTCGCCCAGGCCTG 61.191 60.000 26.87 26.87 37.98 4.85
178 179 1.157276 ATAGATCTCGCCCAGGCCT 59.843 57.895 0.00 0.00 37.98 5.19
179 180 1.188219 TCATAGATCTCGCCCAGGCC 61.188 60.000 0.00 0.00 37.98 5.19
180 181 0.901124 ATCATAGATCTCGCCCAGGC 59.099 55.000 0.00 0.00 37.85 4.85
181 182 1.480137 GGATCATAGATCTCGCCCAGG 59.520 57.143 0.00 0.00 0.00 4.45
183 184 2.612285 AGGATCATAGATCTCGCCCA 57.388 50.000 0.00 0.00 0.00 5.36
184 185 7.172342 AGTATATAGGATCATAGATCTCGCCC 58.828 42.308 0.00 0.00 0.00 6.13
186 187 9.378551 CCTAGTATATAGGATCATAGATCTCGC 57.621 40.741 0.00 0.00 36.85 5.03
210 211 8.809066 TGTGTAACTGTATGTACTTGTATTCCT 58.191 33.333 0.00 0.00 38.04 3.36
211 212 8.991243 TGTGTAACTGTATGTACTTGTATTCC 57.009 34.615 0.00 0.00 38.04 3.01
212 213 9.084164 CCTGTGTAACTGTATGTACTTGTATTC 57.916 37.037 0.00 0.00 38.04 1.75
213 214 8.591072 ACCTGTGTAACTGTATGTACTTGTATT 58.409 33.333 0.00 0.00 38.04 1.89
214 215 8.130671 ACCTGTGTAACTGTATGTACTTGTAT 57.869 34.615 0.00 0.00 38.04 2.29
215 216 7.528996 ACCTGTGTAACTGTATGTACTTGTA 57.471 36.000 0.00 0.00 38.04 2.41
217 218 7.372714 TGTACCTGTGTAACTGTATGTACTTG 58.627 38.462 0.00 0.00 38.04 3.16
219 220 7.528996 TTGTACCTGTGTAACTGTATGTACT 57.471 36.000 0.00 0.00 38.04 2.73
220 221 9.294030 GTATTGTACCTGTGTAACTGTATGTAC 57.706 37.037 0.00 0.00 38.04 2.90
221 222 9.022884 TGTATTGTACCTGTGTAACTGTATGTA 57.977 33.333 0.00 0.00 38.04 2.29
222 223 7.816031 GTGTATTGTACCTGTGTAACTGTATGT 59.184 37.037 0.00 0.00 38.04 2.29
223 224 7.008901 CGTGTATTGTACCTGTGTAACTGTATG 59.991 40.741 0.00 0.00 38.04 2.39
224 225 7.031372 CGTGTATTGTACCTGTGTAACTGTAT 58.969 38.462 0.00 0.00 38.04 2.29
225 226 6.016360 ACGTGTATTGTACCTGTGTAACTGTA 60.016 38.462 0.00 0.00 38.04 2.74
227 228 5.224888 ACGTGTATTGTACCTGTGTAACTG 58.775 41.667 0.00 0.00 38.04 3.16
228 229 5.458041 ACGTGTATTGTACCTGTGTAACT 57.542 39.130 0.00 0.00 38.04 2.24
229 230 7.168972 TGTTAACGTGTATTGTACCTGTGTAAC 59.831 37.037 0.26 0.00 37.35 2.50
231 232 6.743110 TGTTAACGTGTATTGTACCTGTGTA 58.257 36.000 0.26 0.00 0.00 2.90
232 233 5.599732 TGTTAACGTGTATTGTACCTGTGT 58.400 37.500 0.26 0.00 0.00 3.72
234 235 4.687483 GCTGTTAACGTGTATTGTACCTGT 59.313 41.667 0.26 0.00 0.00 4.00
235 236 4.092383 GGCTGTTAACGTGTATTGTACCTG 59.908 45.833 0.26 0.00 0.00 4.00
236 237 4.248058 GGCTGTTAACGTGTATTGTACCT 58.752 43.478 0.26 0.00 0.00 3.08
237 238 3.995705 TGGCTGTTAACGTGTATTGTACC 59.004 43.478 0.26 0.00 0.00 3.34
238 239 4.925054 TCTGGCTGTTAACGTGTATTGTAC 59.075 41.667 0.26 0.00 0.00 2.90
239 240 5.136816 TCTGGCTGTTAACGTGTATTGTA 57.863 39.130 0.26 0.00 0.00 2.41
241 242 3.181520 GCTCTGGCTGTTAACGTGTATTG 60.182 47.826 0.26 0.00 35.22 1.90
243 244 2.028476 TGCTCTGGCTGTTAACGTGTAT 60.028 45.455 0.26 0.00 39.59 2.29
244 245 1.341852 TGCTCTGGCTGTTAACGTGTA 59.658 47.619 0.26 0.00 39.59 2.90
248 249 1.795768 TCTTGCTCTGGCTGTTAACG 58.204 50.000 0.26 0.00 39.59 3.18
249 250 3.077359 ACATCTTGCTCTGGCTGTTAAC 58.923 45.455 0.00 0.00 39.59 2.01
250 251 3.423539 ACATCTTGCTCTGGCTGTTAA 57.576 42.857 0.00 0.00 39.59 2.01
252 253 3.008375 TCTTACATCTTGCTCTGGCTGTT 59.992 43.478 0.00 0.00 39.59 3.16
253 254 2.568956 TCTTACATCTTGCTCTGGCTGT 59.431 45.455 0.00 0.00 39.59 4.40
254 255 3.196463 CTCTTACATCTTGCTCTGGCTG 58.804 50.000 0.00 0.00 39.59 4.85
255 256 2.419851 GCTCTTACATCTTGCTCTGGCT 60.420 50.000 0.00 0.00 39.59 4.75
355 356 1.527311 GTCACTTGCTCCACGTTTCTC 59.473 52.381 0.00 0.00 0.00 2.87
407 412 7.201582 GGGACTAATAAAATGTGTCGGTACAAG 60.202 40.741 0.00 0.00 37.36 3.16
408 413 6.594937 GGGACTAATAAAATGTGTCGGTACAA 59.405 38.462 0.00 0.00 37.36 2.41
409 414 6.070653 AGGGACTAATAAAATGTGTCGGTACA 60.071 38.462 0.00 0.00 36.02 2.90
410 415 6.343703 AGGGACTAATAAAATGTGTCGGTAC 58.656 40.000 0.00 0.00 36.02 3.34
412 417 5.431179 AGGGACTAATAAAATGTGTCGGT 57.569 39.130 0.00 0.00 36.02 4.69
414 419 7.611213 AAGAAGGGACTAATAAAATGTGTCG 57.389 36.000 0.00 0.00 38.49 4.35
415 420 9.626045 CAAAAGAAGGGACTAATAAAATGTGTC 57.374 33.333 0.00 0.00 38.49 3.67
416 421 9.143155 ACAAAAGAAGGGACTAATAAAATGTGT 57.857 29.630 0.00 0.00 38.49 3.72
417 422 9.410556 CACAAAAGAAGGGACTAATAAAATGTG 57.589 33.333 0.00 0.00 38.49 3.21
419 424 8.087750 TGCACAAAAGAAGGGACTAATAAAATG 58.912 33.333 0.00 0.00 38.49 2.32
420 425 8.189119 TGCACAAAAGAAGGGACTAATAAAAT 57.811 30.769 0.00 0.00 38.49 1.82
421 426 7.589958 TGCACAAAAGAAGGGACTAATAAAA 57.410 32.000 0.00 0.00 38.49 1.52
422 427 7.450014 TGATGCACAAAAGAAGGGACTAATAAA 59.550 33.333 0.00 0.00 38.49 1.40
461 2599 1.873698 TCGGCAGTGACAACCTTAAC 58.126 50.000 0.00 0.00 0.00 2.01
738 2903 5.592282 GGATCTGAGATTGTACTCTGACAGA 59.408 44.000 4.78 4.78 43.63 3.41
766 2931 5.670485 TGAACAAGACTTGCTGTTCTTCTA 58.330 37.500 15.24 0.00 40.67 2.10
1011 3178 5.049680 GGAGACGTGATCTAACATCTCTCTC 60.050 48.000 8.59 0.00 38.00 3.20
1161 3328 4.854399 TGAACGGAGCTAACAATTTGTTG 58.146 39.130 22.04 13.78 41.30 3.33
1292 3459 5.632347 GCTTTGAACATTGACCAGAAATCAG 59.368 40.000 0.00 0.00 0.00 2.90
1360 3527 5.351740 GTGCTATTTTCTGTCCTAAGTCACC 59.648 44.000 0.00 0.00 0.00 4.02
1389 3556 5.129485 TGTTGCTAATGGGTTTCCTTTCAAA 59.871 36.000 0.00 0.00 33.22 2.69
1463 3630 8.324306 TCCAATCTTCAGTCTTCAGAATGTTAT 58.676 33.333 4.30 0.00 40.61 1.89
1644 3811 2.777094 TGATCACGCTTCACAAATCCA 58.223 42.857 0.00 0.00 0.00 3.41
1682 3849 2.169330 GATAGTACCGTCCCATCTCCC 58.831 57.143 0.00 0.00 0.00 4.30
1726 3893 3.378112 TCAAGTTCAACCTGCTCAAACAG 59.622 43.478 0.00 0.00 37.42 3.16
1760 3990 3.552132 TCAGGCCGCAAATAACATAGA 57.448 42.857 0.00 0.00 0.00 1.98
1782 4012 5.010922 TGAAACTAGCCTTGCAAAATCATGT 59.989 36.000 0.00 0.00 0.00 3.21
1902 4132 4.841246 GGTATATTCCCAGTCTGACCATCT 59.159 45.833 3.76 0.00 0.00 2.90
1981 4211 6.947733 TCTCCAATTAACACCAATGTTCTCAT 59.052 34.615 0.00 0.00 46.46 2.90
2056 4286 5.586243 ACATTTGTAGCAGACGCAGATTATT 59.414 36.000 0.00 0.00 42.27 1.40
2157 4387 4.262808 GCCTTCTGCTCAGTATGACCATAT 60.263 45.833 0.00 0.00 42.56 1.78
2158 4388 3.070159 GCCTTCTGCTCAGTATGACCATA 59.930 47.826 0.00 0.00 42.56 2.74
2241 4475 5.178996 CCTCTAGATGAACTGTATGCAATGC 59.821 44.000 0.00 0.00 0.00 3.56
2328 4562 2.096220 ACTCTCTGCATGTTGCTCAG 57.904 50.000 0.75 0.00 45.31 3.35
2720 4985 6.649973 CCAAAATTTTGTCATTGAGTGCCATA 59.350 34.615 25.25 0.00 36.45 2.74
3153 5463 4.894784 ACTCCGTCAACATATGAGTTTGT 58.105 39.130 10.38 0.00 39.19 2.83
3157 5467 3.422417 CGACTCCGTCAACATATGAGT 57.578 47.619 10.38 0.00 39.19 3.41
3199 5509 5.836358 GGGCATTTACCAATGGTTATCCTTA 59.164 40.000 11.41 0.00 40.36 2.69


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

AutoCloner maintained by Alex Coulton.