Multiple sequence alignment - TraesCS7A01G393200

Loading Multiple Alignment...

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 TraesCS7A01G393200 chr7A 100.000 3087 0 0 1 3087 571270203 571273289 0.000000e+00 5701.0
1 TraesCS7A01G393200 chr7A 98.204 167 2 1 1 167 448970234 448970069 1.080000e-74 291.0
2 TraesCS7A01G393200 chr7A 98.182 165 3 0 1 165 571262568 571262732 3.890000e-74 289.0
3 TraesCS7A01G393200 chr7A 97.590 166 4 0 1 166 683064128 683063963 5.040000e-73 285.0
4 TraesCS7A01G393200 chr2B 97.805 1686 34 2 165 1849 140746651 140748334 0.000000e+00 2905.0
5 TraesCS7A01G393200 chr2A 96.501 1686 58 1 165 1849 87853010 87854695 0.000000e+00 2785.0
6 TraesCS7A01G393200 chr2A 98.182 165 3 0 1 165 349418709 349418545 3.890000e-74 289.0
7 TraesCS7A01G393200 chr1A 86.994 1261 109 26 1847 3085 518053776 518052549 0.000000e+00 1369.0
8 TraesCS7A01G393200 chr1A 88.725 745 56 18 2362 3085 586702003 586702740 0.000000e+00 885.0
9 TraesCS7A01G393200 chr1A 87.885 487 55 4 1847 2329 586701521 586702007 1.240000e-158 569.0
10 TraesCS7A01G393200 chr3A 85.170 1261 105 33 1847 3085 54349719 54350919 0.000000e+00 1218.0
11 TraesCS7A01G393200 chr3A 84.774 1261 103 34 1847 3085 54362825 54364018 0.000000e+00 1182.0
12 TraesCS7A01G393200 chr3A 84.524 1260 103 36 1847 3085 54327948 54329136 0.000000e+00 1162.0
13 TraesCS7A01G393200 chr3A 98.182 165 3 0 1 165 144102023 144102187 3.890000e-74 289.0
14 TraesCS7A01G393200 chr3A 97.590 166 4 0 1 166 215999557 215999392 5.040000e-73 285.0
15 TraesCS7A01G393200 chr3A 78.056 319 55 12 2770 3085 746447435 746447129 1.460000e-43 187.0
16 TraesCS7A01G393200 chr3A 87.000 100 11 2 287 385 392319447 392319349 9.050000e-21 111.0
17 TraesCS7A01G393200 chr5B 91.775 766 40 12 2335 3085 595294768 595294011 0.000000e+00 1044.0
18 TraesCS7A01G393200 chr5B 90.674 193 11 2 1850 2041 595295329 595295143 1.840000e-62 250.0
19 TraesCS7A01G393200 chr5B 89.340 197 20 1 2093 2289 595295142 595294947 2.380000e-61 246.0
20 TraesCS7A01G393200 chr5B 76.549 452 79 12 2637 3085 704546512 704546085 4.010000e-54 222.0
21 TraesCS7A01G393200 chr5B 73.090 301 70 10 962 1257 686541901 686542195 2.530000e-16 97.1
22 TraesCS7A01G393200 chr3B 91.102 753 55 9 2335 3085 809220903 809220161 0.000000e+00 1009.0
23 TraesCS7A01G393200 chr3B 85.591 465 45 12 1858 2320 809221334 809220890 4.660000e-128 468.0
24 TraesCS7A01G393200 chr2D 88.729 763 49 21 2335 3085 119820313 119819576 0.000000e+00 898.0
25 TraesCS7A01G393200 chr2D 95.339 472 22 0 1378 1849 87663391 87663862 0.000000e+00 750.0
26 TraesCS7A01G393200 chr2D 88.060 402 36 6 1852 2246 119820733 119820337 1.680000e-127 466.0
27 TraesCS7A01G393200 chr2D 74.630 473 93 22 2625 3084 471067080 471066622 1.890000e-42 183.0
28 TraesCS7A01G393200 chr1B 89.246 623 50 10 2335 2943 29583428 29582809 0.000000e+00 763.0
29 TraesCS7A01G393200 chr1B 82.413 489 45 14 1852 2330 29583861 29583404 3.730000e-104 388.0
30 TraesCS7A01G393200 chr1B 76.600 453 78 12 2637 3085 553889489 553889917 1.110000e-54 224.0
31 TraesCS7A01G393200 chr4D 91.266 229 15 3 165 392 75039606 75039382 1.080000e-79 307.0
32 TraesCS7A01G393200 chr4D 78.840 293 48 11 2572 2858 488426036 488426320 5.260000e-43 185.0
33 TraesCS7A01G393200 chr4D 80.085 236 39 6 2626 2858 362700046 362699816 5.290000e-38 169.0
34 TraesCS7A01G393200 chr6D 77.757 526 86 19 2563 3084 447920765 447920267 8.370000e-76 294.0
35 TraesCS7A01G393200 chr6D 86.000 100 12 2 287 385 86717795 86717697 4.210000e-19 106.0
36 TraesCS7A01G393200 chr6D 86.000 100 12 2 287 385 291698902 291699000 4.210000e-19 106.0
37 TraesCS7A01G393200 chr6A 98.171 164 3 0 1 164 586336391 586336228 1.400000e-73 287.0
38 TraesCS7A01G393200 chr6A 97.590 166 4 0 1 166 120832059 120831894 5.040000e-73 285.0
39 TraesCS7A01G393200 chr6A 81.897 116 16 5 270 385 251562114 251562004 3.280000e-15 93.5
40 TraesCS7A01G393200 chr5A 97.041 169 4 1 1 168 606322798 606322630 1.810000e-72 283.0
41 TraesCS7A01G393200 chr7D 79.181 293 47 11 2572 2858 536317012 536317296 1.130000e-44 191.0
42 TraesCS7A01G393200 chr7D 82.963 135 22 1 2640 2774 71119153 71119286 1.500000e-23 121.0
43 TraesCS7A01G393200 chr7D 85.000 100 13 2 287 385 340233482 340233580 1.960000e-17 100.0
44 TraesCS7A01G393200 chr6B 82.500 200 31 4 2520 2719 253308455 253308260 4.090000e-39 172.0
45 TraesCS7A01G393200 chr1D 84.181 177 25 3 2514 2690 322065936 322066109 5.290000e-38 169.0
46 TraesCS7A01G393200 chr1D 80.444 225 39 3 2625 2845 22558035 22558258 1.900000e-37 167.0
47 TraesCS7A01G393200 chr1D 86.139 101 12 2 287 386 26203208 26203307 1.170000e-19 108.0
48 TraesCS7A01G393200 chr4A 70.744 605 150 21 962 1554 624228061 624228650 9.050000e-21 111.0


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 TraesCS7A01G393200 chr7A 571270203 571273289 3086 False 5701.000000 5701 100.000000 1 3087 1 chr7A.!!$F2 3086
1 TraesCS7A01G393200 chr2B 140746651 140748334 1683 False 2905.000000 2905 97.805000 165 1849 1 chr2B.!!$F1 1684
2 TraesCS7A01G393200 chr2A 87853010 87854695 1685 False 2785.000000 2785 96.501000 165 1849 1 chr2A.!!$F1 1684
3 TraesCS7A01G393200 chr1A 518052549 518053776 1227 True 1369.000000 1369 86.994000 1847 3085 1 chr1A.!!$R1 1238
4 TraesCS7A01G393200 chr1A 586701521 586702740 1219 False 727.000000 885 88.305000 1847 3085 2 chr1A.!!$F1 1238
5 TraesCS7A01G393200 chr3A 54349719 54350919 1200 False 1218.000000 1218 85.170000 1847 3085 1 chr3A.!!$F2 1238
6 TraesCS7A01G393200 chr3A 54362825 54364018 1193 False 1182.000000 1182 84.774000 1847 3085 1 chr3A.!!$F3 1238
7 TraesCS7A01G393200 chr3A 54327948 54329136 1188 False 1162.000000 1162 84.524000 1847 3085 1 chr3A.!!$F1 1238
8 TraesCS7A01G393200 chr5B 595294011 595295329 1318 True 513.333333 1044 90.596333 1850 3085 3 chr5B.!!$R2 1235
9 TraesCS7A01G393200 chr3B 809220161 809221334 1173 True 738.500000 1009 88.346500 1858 3085 2 chr3B.!!$R1 1227
10 TraesCS7A01G393200 chr2D 119819576 119820733 1157 True 682.000000 898 88.394500 1852 3085 2 chr2D.!!$R2 1233
11 TraesCS7A01G393200 chr1B 29582809 29583861 1052 True 575.500000 763 85.829500 1852 2943 2 chr1B.!!$R1 1091

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
127 128 0.109272 TGCCTCTAAGTCGTGCTTCG 60.109 55.0 0.00 0.00 38.57 3.79 F
128 129 0.170561 GCCTCTAAGTCGTGCTTCGA 59.829 55.0 0.92 0.92 46.83 3.71 F
1763 1767 0.038166 GTTCCATCCCTCAAGGTGCA 59.962 55.0 0.00 0.00 36.75 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1763 1767 0.114168 TGCACCACAAATAAGGCCCT 59.886 50.000 0.00 0.0 0.00 5.19 R
1931 1937 1.065199 AGCGGATCCAGCAGAAATTCA 60.065 47.619 24.07 0.0 37.01 2.57 R
2705 2910 0.032952 TCCCCGAGTGAGTGAAAACG 59.967 55.000 0.00 0.0 0.00 3.60 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
20 21 3.455619 GTGTGAAGTGGCGATTGTAAG 57.544 47.619 0.00 0.00 0.00 2.34
21 22 1.804151 TGTGAAGTGGCGATTGTAAGC 59.196 47.619 0.00 0.00 0.00 3.09
32 33 5.924475 GCGATTGTAAGCCAACTATGTAT 57.076 39.130 0.00 0.00 35.44 2.29
33 34 6.300354 GCGATTGTAAGCCAACTATGTATT 57.700 37.500 0.00 0.00 35.44 1.89
34 35 6.725246 GCGATTGTAAGCCAACTATGTATTT 58.275 36.000 0.00 0.00 35.44 1.40
35 36 6.851330 GCGATTGTAAGCCAACTATGTATTTC 59.149 38.462 0.00 0.00 35.44 2.17
36 37 7.254795 GCGATTGTAAGCCAACTATGTATTTCT 60.255 37.037 0.00 0.00 35.44 2.52
37 38 8.612619 CGATTGTAAGCCAACTATGTATTTCTT 58.387 33.333 0.00 0.00 35.44 2.52
41 42 8.736244 TGTAAGCCAACTATGTATTTCTTTTCC 58.264 33.333 0.00 0.00 0.00 3.13
42 43 6.775594 AGCCAACTATGTATTTCTTTTCCC 57.224 37.500 0.00 0.00 0.00 3.97
43 44 6.494059 AGCCAACTATGTATTTCTTTTCCCT 58.506 36.000 0.00 0.00 0.00 4.20
44 45 6.954102 AGCCAACTATGTATTTCTTTTCCCTT 59.046 34.615 0.00 0.00 0.00 3.95
45 46 8.113462 AGCCAACTATGTATTTCTTTTCCCTTA 58.887 33.333 0.00 0.00 0.00 2.69
46 47 8.914011 GCCAACTATGTATTTCTTTTCCCTTAT 58.086 33.333 0.00 0.00 0.00 1.73
67 68 9.691362 CCTTATTGTATTATATGGGTTGTTTGC 57.309 33.333 0.00 0.00 0.00 3.68
68 69 9.393249 CTTATTGTATTATATGGGTTGTTTGCG 57.607 33.333 0.00 0.00 0.00 4.85
69 70 7.575414 ATTGTATTATATGGGTTGTTTGCGA 57.425 32.000 0.00 0.00 0.00 5.10
70 71 7.392494 TTGTATTATATGGGTTGTTTGCGAA 57.608 32.000 0.00 0.00 0.00 4.70
71 72 7.022055 TGTATTATATGGGTTGTTTGCGAAG 57.978 36.000 0.00 0.00 0.00 3.79
72 73 6.824196 TGTATTATATGGGTTGTTTGCGAAGA 59.176 34.615 0.00 0.00 0.00 2.87
73 74 6.959639 ATTATATGGGTTGTTTGCGAAGAT 57.040 33.333 0.00 0.00 0.00 2.40
74 75 6.767524 TTATATGGGTTGTTTGCGAAGATT 57.232 33.333 0.00 0.00 0.00 2.40
75 76 7.867305 TTATATGGGTTGTTTGCGAAGATTA 57.133 32.000 0.00 0.00 0.00 1.75
76 77 3.907894 TGGGTTGTTTGCGAAGATTAC 57.092 42.857 0.00 0.00 0.00 1.89
77 78 2.554893 TGGGTTGTTTGCGAAGATTACC 59.445 45.455 0.00 0.00 0.00 2.85
78 79 2.817844 GGGTTGTTTGCGAAGATTACCT 59.182 45.455 5.03 0.00 0.00 3.08
79 80 3.119955 GGGTTGTTTGCGAAGATTACCTC 60.120 47.826 5.03 0.00 0.00 3.85
80 81 3.500680 GGTTGTTTGCGAAGATTACCTCA 59.499 43.478 0.00 0.00 0.00 3.86
81 82 4.464112 GTTGTTTGCGAAGATTACCTCAC 58.536 43.478 0.00 0.00 0.00 3.51
82 83 4.002906 TGTTTGCGAAGATTACCTCACT 57.997 40.909 0.00 0.00 0.00 3.41
83 84 4.385825 TGTTTGCGAAGATTACCTCACTT 58.614 39.130 0.00 0.00 0.00 3.16
84 85 4.213270 TGTTTGCGAAGATTACCTCACTTG 59.787 41.667 0.00 0.00 0.00 3.16
85 86 2.346803 TGCGAAGATTACCTCACTTGC 58.653 47.619 0.00 0.00 0.00 4.01
86 87 1.324736 GCGAAGATTACCTCACTTGCG 59.675 52.381 0.00 0.00 0.00 4.85
87 88 2.876091 CGAAGATTACCTCACTTGCGA 58.124 47.619 0.00 0.00 0.00 5.10
88 89 2.599082 CGAAGATTACCTCACTTGCGAC 59.401 50.000 0.00 0.00 0.00 5.19
89 90 3.585862 GAAGATTACCTCACTTGCGACA 58.414 45.455 0.00 0.00 0.00 4.35
90 91 3.895232 AGATTACCTCACTTGCGACAT 57.105 42.857 0.00 0.00 0.00 3.06
91 92 4.207891 AGATTACCTCACTTGCGACATT 57.792 40.909 0.00 0.00 0.00 2.71
92 93 3.935203 AGATTACCTCACTTGCGACATTG 59.065 43.478 0.00 0.00 0.00 2.82
93 94 1.438651 TACCTCACTTGCGACATTGC 58.561 50.000 0.00 0.00 0.00 3.56
94 95 0.250467 ACCTCACTTGCGACATTGCT 60.250 50.000 0.00 0.00 35.36 3.91
95 96 0.877071 CCTCACTTGCGACATTGCTT 59.123 50.000 0.00 0.00 35.36 3.91
96 97 1.267806 CCTCACTTGCGACATTGCTTT 59.732 47.619 0.00 0.00 35.36 3.51
97 98 2.578495 CTCACTTGCGACATTGCTTTC 58.422 47.619 0.00 0.00 35.36 2.62
98 99 1.946081 TCACTTGCGACATTGCTTTCA 59.054 42.857 0.00 0.00 35.36 2.69
99 100 2.357323 TCACTTGCGACATTGCTTTCAA 59.643 40.909 0.00 0.00 36.51 2.69
100 101 3.004629 TCACTTGCGACATTGCTTTCAAT 59.995 39.130 0.00 0.00 43.31 2.57
110 111 2.276472 TGCTTTCAATGCGGTTATGC 57.724 45.000 0.00 0.00 0.00 3.14
111 112 1.135141 TGCTTTCAATGCGGTTATGCC 60.135 47.619 0.00 0.00 0.00 4.40
112 113 1.134946 GCTTTCAATGCGGTTATGCCT 59.865 47.619 0.00 0.00 34.25 4.75
113 114 2.796032 GCTTTCAATGCGGTTATGCCTC 60.796 50.000 0.00 0.00 34.25 4.70
114 115 2.418368 TTCAATGCGGTTATGCCTCT 57.582 45.000 0.00 0.00 34.25 3.69
115 116 3.552132 TTCAATGCGGTTATGCCTCTA 57.448 42.857 0.00 0.00 34.25 2.43
116 117 3.552132 TCAATGCGGTTATGCCTCTAA 57.448 42.857 0.00 0.00 34.25 2.10
117 118 3.466836 TCAATGCGGTTATGCCTCTAAG 58.533 45.455 0.00 0.00 34.25 2.18
118 119 3.118408 TCAATGCGGTTATGCCTCTAAGT 60.118 43.478 0.00 0.00 34.25 2.24
119 120 2.596904 TGCGGTTATGCCTCTAAGTC 57.403 50.000 0.00 0.00 34.25 3.01
120 121 1.202371 TGCGGTTATGCCTCTAAGTCG 60.202 52.381 0.00 0.00 34.25 4.18
121 122 1.202382 GCGGTTATGCCTCTAAGTCGT 60.202 52.381 0.00 0.00 34.25 4.34
122 123 2.460918 CGGTTATGCCTCTAAGTCGTG 58.539 52.381 0.00 0.00 34.25 4.35
123 124 2.202566 GGTTATGCCTCTAAGTCGTGC 58.797 52.381 0.00 0.00 0.00 5.34
124 125 2.159085 GGTTATGCCTCTAAGTCGTGCT 60.159 50.000 0.00 0.00 0.00 4.40
125 126 3.522553 GTTATGCCTCTAAGTCGTGCTT 58.477 45.455 0.00 1.30 41.05 3.91
126 127 2.301577 ATGCCTCTAAGTCGTGCTTC 57.698 50.000 0.00 0.00 38.57 3.86
127 128 0.109272 TGCCTCTAAGTCGTGCTTCG 60.109 55.000 0.00 0.00 38.57 3.79
128 129 0.170561 GCCTCTAAGTCGTGCTTCGA 59.829 55.000 0.92 0.92 46.83 3.71
137 138 2.028484 GTGCTTCGACACGTGGGA 59.972 61.111 21.57 13.88 0.00 4.37
138 139 2.022129 GTGCTTCGACACGTGGGAG 61.022 63.158 21.57 8.15 0.00 4.30
139 140 2.197605 TGCTTCGACACGTGGGAGA 61.198 57.895 21.57 12.82 0.00 3.71
140 141 1.215647 GCTTCGACACGTGGGAGAT 59.784 57.895 21.57 0.00 0.00 2.75
141 142 0.454600 GCTTCGACACGTGGGAGATA 59.545 55.000 21.57 1.34 0.00 1.98
142 143 1.067212 GCTTCGACACGTGGGAGATAT 59.933 52.381 21.57 0.00 0.00 1.63
143 144 2.292569 GCTTCGACACGTGGGAGATATA 59.707 50.000 21.57 0.63 0.00 0.86
144 145 3.609644 GCTTCGACACGTGGGAGATATAG 60.610 52.174 21.57 11.01 0.00 1.31
145 146 1.878088 TCGACACGTGGGAGATATAGC 59.122 52.381 21.57 0.00 0.00 2.97
146 147 1.880675 CGACACGTGGGAGATATAGCT 59.119 52.381 21.57 0.00 0.00 3.32
147 148 2.350868 CGACACGTGGGAGATATAGCTG 60.351 54.545 21.57 0.00 0.00 4.24
148 149 1.341531 ACACGTGGGAGATATAGCTGC 59.658 52.381 21.57 0.13 0.00 5.25
149 150 1.341209 CACGTGGGAGATATAGCTGCA 59.659 52.381 11.78 0.00 0.00 4.41
150 151 2.028658 CACGTGGGAGATATAGCTGCAT 60.029 50.000 11.78 0.00 0.00 3.96
151 152 2.232452 ACGTGGGAGATATAGCTGCATC 59.768 50.000 11.78 0.00 0.00 3.91
152 153 2.733542 CGTGGGAGATATAGCTGCATCG 60.734 54.545 11.78 10.71 0.00 3.84
153 154 2.493675 GTGGGAGATATAGCTGCATCGA 59.506 50.000 11.78 0.00 0.00 3.59
154 155 2.757314 TGGGAGATATAGCTGCATCGAG 59.243 50.000 11.78 0.00 0.00 4.04
155 156 2.100584 GGGAGATATAGCTGCATCGAGG 59.899 54.545 11.78 0.00 0.00 4.63
156 157 2.100584 GGAGATATAGCTGCATCGAGGG 59.899 54.545 4.46 0.00 0.00 4.30
157 158 1.480137 AGATATAGCTGCATCGAGGGC 59.520 52.381 1.02 1.55 0.00 5.19
158 159 1.205655 GATATAGCTGCATCGAGGGCA 59.794 52.381 13.17 13.17 39.32 5.36
159 160 1.269958 TATAGCTGCATCGAGGGCAT 58.730 50.000 14.06 4.46 41.06 4.40
160 161 0.399454 ATAGCTGCATCGAGGGCATT 59.601 50.000 14.06 8.93 41.06 3.56
161 162 1.047801 TAGCTGCATCGAGGGCATTA 58.952 50.000 14.06 8.11 41.06 1.90
162 163 0.533755 AGCTGCATCGAGGGCATTAC 60.534 55.000 14.06 7.91 41.06 1.89
163 164 0.815213 GCTGCATCGAGGGCATTACA 60.815 55.000 14.06 0.00 41.06 2.41
174 175 4.578516 CGAGGGCATTACAAAATATGGACA 59.421 41.667 0.00 0.00 0.00 4.02
223 224 2.039084 ACCTGACCAAACAGAGGACATC 59.961 50.000 0.00 0.00 39.94 3.06
263 264 5.827797 GGAAAATATGGGCATCTTGTGAGTA 59.172 40.000 0.00 0.00 0.00 2.59
267 268 7.902920 AATATGGGCATCTTGTGAGTAAAAT 57.097 32.000 0.00 0.00 0.00 1.82
399 401 7.847711 ATGTGCTAGTTTCTATCCTATGAGT 57.152 36.000 0.00 0.00 0.00 3.41
463 465 6.327934 TCTTATAGCTGTTTCACGAGTAACC 58.672 40.000 0.00 0.00 0.00 2.85
587 589 4.792068 TGAACACTGGAAAAGGATTCTGT 58.208 39.130 0.00 0.00 0.00 3.41
625 627 6.876789 TGCTGCTAACTGCTAAGTACAATTTA 59.123 34.615 0.00 0.00 43.37 1.40
705 707 1.295792 GGAGCACGAGTTGTTGACAA 58.704 50.000 0.00 0.00 0.00 3.18
716 718 3.857093 AGTTGTTGACAAATTTGCACGTC 59.143 39.130 18.12 8.63 37.63 4.34
891 893 5.654650 AGTAGCTGCTCTGACTTACTATTGT 59.345 40.000 4.91 0.00 0.00 2.71
1132 1134 0.951040 GCTCAACCTTCGTGTCTGGG 60.951 60.000 0.00 0.00 0.00 4.45
1155 1157 2.042741 CTGCCCCATTCATGCCCA 60.043 61.111 0.00 0.00 0.00 5.36
1221 1223 4.918810 AACCAAAGCAACTAGGAGTTTG 57.081 40.909 0.00 0.00 36.03 2.93
1318 1320 3.566130 GAGATTGGCTCACTGGCTT 57.434 52.632 0.00 0.00 43.38 4.35
1392 1396 4.871871 TGAGAAGGATCCTAGAGACTGT 57.128 45.455 16.55 0.00 0.00 3.55
1393 1397 4.531854 TGAGAAGGATCCTAGAGACTGTG 58.468 47.826 16.55 0.00 0.00 3.66
1495 1499 4.737855 AAGCTCCGTCTGTATAATGTGT 57.262 40.909 0.00 0.00 0.00 3.72
1763 1767 0.038166 GTTCCATCCCTCAAGGTGCA 59.962 55.000 0.00 0.00 36.75 4.57
1950 1956 1.382522 TGAATTTCTGCTGGATCCGC 58.617 50.000 18.08 18.08 0.00 5.54
1991 2005 7.552459 TCCACTGTATTATTCTGTTCGATTCA 58.448 34.615 0.00 0.00 0.00 2.57
2042 2057 3.138304 TGACTGGTCTTCGATTTGTTGG 58.862 45.455 2.38 0.00 0.00 3.77
2063 2078 2.606587 ATGCCAGAGGTTCCCGCTT 61.607 57.895 0.00 0.00 29.38 4.68
2064 2079 2.747855 GCCAGAGGTTCCCGCTTG 60.748 66.667 0.00 0.00 29.38 4.01
2110 2125 2.024655 AGCCAGATCCATTGGTGTTGAT 60.025 45.455 1.86 0.00 38.02 2.57
2178 2194 2.280524 CGGTTGGACAACTCGGCA 60.281 61.111 14.14 0.00 40.94 5.69
2184 2200 3.044305 GACAACTCGGCAGCGCTT 61.044 61.111 7.50 0.00 0.00 4.68
2236 2252 2.436115 GTAGCCAACCCAGTCCGC 60.436 66.667 0.00 0.00 0.00 5.54
2241 2257 2.030562 CAACCCAGTCCGCGAGTT 59.969 61.111 8.23 0.00 0.00 3.01
2321 2498 4.222588 CAGTGTTCTTTCTCTCTGGATCCT 59.777 45.833 14.23 0.00 0.00 3.24
2323 2500 5.309282 AGTGTTCTTTCTCTCTGGATCCTTT 59.691 40.000 14.23 0.00 0.00 3.11
2344 2521 1.604604 TTTTGCGGGTTTCTCTCTGG 58.395 50.000 0.00 0.00 0.00 3.86
2345 2522 0.762418 TTTGCGGGTTTCTCTCTGGA 59.238 50.000 0.00 0.00 0.00 3.86
2346 2523 0.984230 TTGCGGGTTTCTCTCTGGAT 59.016 50.000 0.00 0.00 0.00 3.41
2347 2524 0.537188 TGCGGGTTTCTCTCTGGATC 59.463 55.000 0.00 0.00 0.00 3.36
2348 2525 0.179070 GCGGGTTTCTCTCTGGATCC 60.179 60.000 4.20 4.20 0.00 3.36
2349 2526 1.195115 CGGGTTTCTCTCTGGATCCA 58.805 55.000 15.27 15.27 0.00 3.41
2350 2527 1.765314 CGGGTTTCTCTCTGGATCCAT 59.235 52.381 16.63 0.00 0.00 3.41
2351 2528 2.484417 CGGGTTTCTCTCTGGATCCATG 60.484 54.545 16.63 11.60 0.00 3.66
2354 2531 4.568592 GGGTTTCTCTCTGGATCCATGTTT 60.569 45.833 16.63 0.00 0.00 2.83
2432 2611 0.988832 TAGCTGACCCCCGATTTTGT 59.011 50.000 0.00 0.00 0.00 2.83
2489 2682 6.095440 GTGTTTTGTGGGCAGATATCATTACT 59.905 38.462 5.32 0.00 0.00 2.24
2519 2713 3.603770 GTGCTGATACACAAAAATCACGC 59.396 43.478 0.00 0.00 40.40 5.34
2570 2765 6.527023 GCATCATCTCAAAACTGTGAATTCAG 59.473 38.462 8.80 0.24 40.80 3.02
2586 2788 7.012327 TGTGAATTCAGTTTCAGGTTAAGAGTG 59.988 37.037 8.80 0.00 36.34 3.51
2632 2837 1.748493 CCTGTCCAGCTAGAGTCACTC 59.252 57.143 0.00 0.00 0.00 3.51
2691 2896 3.055530 CCCTCAGACAATGTAGTGAAGCT 60.056 47.826 0.00 0.00 0.00 3.74
2705 2910 3.137533 GTGAAGCTAGAGATTGGGATGC 58.862 50.000 0.00 0.00 0.00 3.91
2732 2937 1.115467 CTCACTCGGGGAAGCATACT 58.885 55.000 0.00 0.00 0.00 2.12
2759 2964 7.989947 TTCTATAACCTGTATTCTTGGGAGT 57.010 36.000 0.00 0.00 0.00 3.85
2766 2971 4.884164 CCTGTATTCTTGGGAGTTTGGATC 59.116 45.833 0.00 0.00 0.00 3.36
2781 2986 7.309867 GGAGTTTGGATCTGGTATACGATATGT 60.310 40.741 0.00 0.00 0.00 2.29
2788 2993 4.219944 TCTGGTATACGATATGTCAAGGGC 59.780 45.833 0.00 0.00 0.00 5.19
2789 2994 3.259876 TGGTATACGATATGTCAAGGGCC 59.740 47.826 0.00 0.00 0.00 5.80
2819 3050 1.271379 TCGAGCGGACAAAGTGTATGT 59.729 47.619 0.00 0.00 0.00 2.29
2862 3100 2.614779 GGTTAGCACTTAAGACCCGAC 58.385 52.381 10.09 2.36 0.00 4.79
2986 3230 5.129320 TGAGCAGCAGAATAACCTATCTTGA 59.871 40.000 0.00 0.00 0.00 3.02
3086 3330 2.921126 CAACCATTCGTTGTCTCTTGC 58.079 47.619 0.00 0.00 45.79 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.412847 GCTTACAATCGCCACTTCACAC 60.413 50.000 0.00 0.00 0.00 3.82
2 3 1.130561 GGCTTACAATCGCCACTTCAC 59.869 52.381 0.00 0.00 45.59 3.18
3 4 1.448985 GGCTTACAATCGCCACTTCA 58.551 50.000 0.00 0.00 45.59 3.02
9 10 2.943033 ACATAGTTGGCTTACAATCGCC 59.057 45.455 0.00 0.00 46.46 5.54
10 11 5.924475 ATACATAGTTGGCTTACAATCGC 57.076 39.130 0.00 0.00 41.95 4.58
11 12 8.142994 AGAAATACATAGTTGGCTTACAATCG 57.857 34.615 0.00 0.00 41.95 3.34
15 16 8.736244 GGAAAAGAAATACATAGTTGGCTTACA 58.264 33.333 0.00 0.00 0.00 2.41
16 17 8.188799 GGGAAAAGAAATACATAGTTGGCTTAC 58.811 37.037 0.00 0.00 0.00 2.34
17 18 8.113462 AGGGAAAAGAAATACATAGTTGGCTTA 58.887 33.333 0.00 0.00 0.00 3.09
18 19 6.954102 AGGGAAAAGAAATACATAGTTGGCTT 59.046 34.615 0.00 0.00 0.00 4.35
19 20 6.494059 AGGGAAAAGAAATACATAGTTGGCT 58.506 36.000 0.00 0.00 0.00 4.75
20 21 6.775594 AGGGAAAAGAAATACATAGTTGGC 57.224 37.500 0.00 0.00 0.00 4.52
41 42 9.691362 GCAAACAACCCATATAATACAATAAGG 57.309 33.333 0.00 0.00 0.00 2.69
42 43 9.393249 CGCAAACAACCCATATAATACAATAAG 57.607 33.333 0.00 0.00 0.00 1.73
43 44 9.121658 TCGCAAACAACCCATATAATACAATAA 57.878 29.630 0.00 0.00 0.00 1.40
44 45 8.678593 TCGCAAACAACCCATATAATACAATA 57.321 30.769 0.00 0.00 0.00 1.90
45 46 7.575414 TCGCAAACAACCCATATAATACAAT 57.425 32.000 0.00 0.00 0.00 2.71
46 47 7.337184 TCTTCGCAAACAACCCATATAATACAA 59.663 33.333 0.00 0.00 0.00 2.41
47 48 6.824196 TCTTCGCAAACAACCCATATAATACA 59.176 34.615 0.00 0.00 0.00 2.29
48 49 7.254227 TCTTCGCAAACAACCCATATAATAC 57.746 36.000 0.00 0.00 0.00 1.89
49 50 8.458573 AATCTTCGCAAACAACCCATATAATA 57.541 30.769 0.00 0.00 0.00 0.98
50 51 6.959639 ATCTTCGCAAACAACCCATATAAT 57.040 33.333 0.00 0.00 0.00 1.28
51 52 6.767524 AATCTTCGCAAACAACCCATATAA 57.232 33.333 0.00 0.00 0.00 0.98
52 53 6.261381 GGTAATCTTCGCAAACAACCCATATA 59.739 38.462 0.00 0.00 0.00 0.86
53 54 5.067283 GGTAATCTTCGCAAACAACCCATAT 59.933 40.000 0.00 0.00 0.00 1.78
54 55 4.396790 GGTAATCTTCGCAAACAACCCATA 59.603 41.667 0.00 0.00 0.00 2.74
55 56 3.192633 GGTAATCTTCGCAAACAACCCAT 59.807 43.478 0.00 0.00 0.00 4.00
56 57 2.554893 GGTAATCTTCGCAAACAACCCA 59.445 45.455 0.00 0.00 0.00 4.51
57 58 2.817844 AGGTAATCTTCGCAAACAACCC 59.182 45.455 0.00 0.00 0.00 4.11
58 59 3.500680 TGAGGTAATCTTCGCAAACAACC 59.499 43.478 0.00 0.00 0.00 3.77
59 60 4.213482 AGTGAGGTAATCTTCGCAAACAAC 59.787 41.667 0.00 0.00 33.52 3.32
60 61 4.385825 AGTGAGGTAATCTTCGCAAACAA 58.614 39.130 0.00 0.00 33.52 2.83
61 62 4.002906 AGTGAGGTAATCTTCGCAAACA 57.997 40.909 0.00 0.00 33.52 2.83
62 63 4.712763 CAAGTGAGGTAATCTTCGCAAAC 58.287 43.478 0.00 0.00 33.52 2.93
63 64 3.188460 GCAAGTGAGGTAATCTTCGCAAA 59.812 43.478 0.00 0.00 33.52 3.68
64 65 2.742053 GCAAGTGAGGTAATCTTCGCAA 59.258 45.455 0.00 0.00 33.52 4.85
65 66 2.346803 GCAAGTGAGGTAATCTTCGCA 58.653 47.619 0.00 0.00 33.52 5.10
66 67 1.324736 CGCAAGTGAGGTAATCTTCGC 59.675 52.381 0.00 0.00 0.00 4.70
67 68 2.599082 GTCGCAAGTGAGGTAATCTTCG 59.401 50.000 0.00 0.00 39.48 3.79
68 69 3.585862 TGTCGCAAGTGAGGTAATCTTC 58.414 45.455 0.00 0.00 39.48 2.87
69 70 3.678056 TGTCGCAAGTGAGGTAATCTT 57.322 42.857 0.00 0.00 39.48 2.40
70 71 3.895232 ATGTCGCAAGTGAGGTAATCT 57.105 42.857 0.00 0.00 39.48 2.40
71 72 3.485877 GCAATGTCGCAAGTGAGGTAATC 60.486 47.826 0.00 0.00 39.48 1.75
72 73 2.420022 GCAATGTCGCAAGTGAGGTAAT 59.580 45.455 0.00 0.00 39.48 1.89
73 74 1.804151 GCAATGTCGCAAGTGAGGTAA 59.196 47.619 0.00 0.00 39.48 2.85
74 75 1.001974 AGCAATGTCGCAAGTGAGGTA 59.998 47.619 0.00 0.00 39.48 3.08
75 76 0.250467 AGCAATGTCGCAAGTGAGGT 60.250 50.000 0.00 0.00 39.48 3.85
76 77 0.877071 AAGCAATGTCGCAAGTGAGG 59.123 50.000 0.00 0.00 39.48 3.86
77 78 2.031769 TGAAAGCAATGTCGCAAGTGAG 60.032 45.455 0.00 0.00 39.48 3.51
78 79 1.946081 TGAAAGCAATGTCGCAAGTGA 59.054 42.857 0.00 0.00 39.48 3.41
79 80 2.404265 TGAAAGCAATGTCGCAAGTG 57.596 45.000 0.00 0.00 39.48 3.16
80 81 3.648339 ATTGAAAGCAATGTCGCAAGT 57.352 38.095 0.00 0.00 42.91 3.16
89 90 3.189285 GCATAACCGCATTGAAAGCAAT 58.811 40.909 0.00 0.00 45.33 3.56
90 91 2.605030 GCATAACCGCATTGAAAGCAA 58.395 42.857 0.00 0.00 38.60 3.91
91 92 1.135141 GGCATAACCGCATTGAAAGCA 60.135 47.619 0.00 0.00 0.00 3.91
92 93 1.134946 AGGCATAACCGCATTGAAAGC 59.865 47.619 0.00 0.00 46.52 3.51
93 94 2.684881 AGAGGCATAACCGCATTGAAAG 59.315 45.455 0.00 0.00 46.52 2.62
94 95 2.722094 AGAGGCATAACCGCATTGAAA 58.278 42.857 0.00 0.00 46.52 2.69
95 96 2.418368 AGAGGCATAACCGCATTGAA 57.582 45.000 0.00 0.00 46.52 2.69
96 97 3.118408 ACTTAGAGGCATAACCGCATTGA 60.118 43.478 0.00 0.00 46.52 2.57
97 98 3.206150 ACTTAGAGGCATAACCGCATTG 58.794 45.455 0.00 0.00 46.52 2.82
98 99 3.467803 GACTTAGAGGCATAACCGCATT 58.532 45.455 0.00 0.00 46.52 3.56
99 100 2.545952 CGACTTAGAGGCATAACCGCAT 60.546 50.000 0.00 0.00 46.52 4.73
100 101 1.202371 CGACTTAGAGGCATAACCGCA 60.202 52.381 0.00 0.00 46.52 5.69
101 102 1.202382 ACGACTTAGAGGCATAACCGC 60.202 52.381 0.00 0.00 46.52 5.68
102 103 2.460918 CACGACTTAGAGGCATAACCG 58.539 52.381 0.00 0.00 46.52 4.44
103 104 2.159085 AGCACGACTTAGAGGCATAACC 60.159 50.000 0.00 0.00 39.61 2.85
104 105 3.166489 AGCACGACTTAGAGGCATAAC 57.834 47.619 0.00 0.00 0.00 1.89
105 106 3.733988 CGAAGCACGACTTAGAGGCATAA 60.734 47.826 0.00 0.00 45.77 1.90
106 107 2.223502 CGAAGCACGACTTAGAGGCATA 60.224 50.000 0.00 0.00 45.77 3.14
107 108 1.469940 CGAAGCACGACTTAGAGGCAT 60.470 52.381 0.00 0.00 45.77 4.40
108 109 0.109272 CGAAGCACGACTTAGAGGCA 60.109 55.000 0.00 0.00 45.77 4.75
109 110 0.170561 TCGAAGCACGACTTAGAGGC 59.829 55.000 2.09 0.00 46.45 4.70
120 121 2.022129 CTCCCACGTGTCGAAGCAC 61.022 63.158 15.65 0.00 36.12 4.40
121 122 1.532604 ATCTCCCACGTGTCGAAGCA 61.533 55.000 15.65 0.00 0.00 3.91
122 123 0.454600 TATCTCCCACGTGTCGAAGC 59.545 55.000 15.65 0.00 0.00 3.86
123 124 3.609644 GCTATATCTCCCACGTGTCGAAG 60.610 52.174 15.65 6.13 0.00 3.79
124 125 2.292569 GCTATATCTCCCACGTGTCGAA 59.707 50.000 15.65 0.00 0.00 3.71
125 126 1.878088 GCTATATCTCCCACGTGTCGA 59.122 52.381 15.65 8.55 0.00 4.20
126 127 1.880675 AGCTATATCTCCCACGTGTCG 59.119 52.381 15.65 4.04 0.00 4.35
127 128 2.608261 GCAGCTATATCTCCCACGTGTC 60.608 54.545 15.65 0.00 0.00 3.67
128 129 1.341531 GCAGCTATATCTCCCACGTGT 59.658 52.381 15.65 0.00 0.00 4.49
129 130 1.341209 TGCAGCTATATCTCCCACGTG 59.659 52.381 9.08 9.08 0.00 4.49
130 131 1.704641 TGCAGCTATATCTCCCACGT 58.295 50.000 0.00 0.00 0.00 4.49
131 132 2.733542 CGATGCAGCTATATCTCCCACG 60.734 54.545 0.00 0.00 0.00 4.94
132 133 2.493675 TCGATGCAGCTATATCTCCCAC 59.506 50.000 0.00 0.00 0.00 4.61
133 134 2.757314 CTCGATGCAGCTATATCTCCCA 59.243 50.000 0.00 0.00 0.00 4.37
134 135 2.100584 CCTCGATGCAGCTATATCTCCC 59.899 54.545 0.00 0.00 0.00 4.30
135 136 2.100584 CCCTCGATGCAGCTATATCTCC 59.899 54.545 0.00 0.00 0.00 3.71
136 137 2.481104 GCCCTCGATGCAGCTATATCTC 60.481 54.545 0.00 0.00 0.00 2.75
137 138 1.480137 GCCCTCGATGCAGCTATATCT 59.520 52.381 0.00 0.00 0.00 1.98
138 139 1.205655 TGCCCTCGATGCAGCTATATC 59.794 52.381 0.00 0.00 34.05 1.63
139 140 1.269958 TGCCCTCGATGCAGCTATAT 58.730 50.000 0.00 0.00 34.05 0.86
140 141 1.269958 ATGCCCTCGATGCAGCTATA 58.730 50.000 14.12 0.00 42.92 1.31
141 142 0.399454 AATGCCCTCGATGCAGCTAT 59.601 50.000 14.12 0.00 42.92 2.97
142 143 1.047801 TAATGCCCTCGATGCAGCTA 58.952 50.000 14.12 6.71 42.92 3.32
143 144 0.533755 GTAATGCCCTCGATGCAGCT 60.534 55.000 14.12 7.51 42.92 4.24
144 145 0.815213 TGTAATGCCCTCGATGCAGC 60.815 55.000 14.12 0.00 42.92 5.25
145 146 1.667236 TTGTAATGCCCTCGATGCAG 58.333 50.000 14.12 0.00 42.92 4.41
146 147 2.121291 TTTGTAATGCCCTCGATGCA 57.879 45.000 11.59 11.59 43.97 3.96
147 148 3.715628 ATTTTGTAATGCCCTCGATGC 57.284 42.857 0.38 0.38 0.00 3.91
148 149 5.473162 TCCATATTTTGTAATGCCCTCGATG 59.527 40.000 0.00 0.00 0.00 3.84
149 150 5.473504 GTCCATATTTTGTAATGCCCTCGAT 59.526 40.000 0.00 0.00 0.00 3.59
150 151 4.819630 GTCCATATTTTGTAATGCCCTCGA 59.180 41.667 0.00 0.00 0.00 4.04
151 152 4.578516 TGTCCATATTTTGTAATGCCCTCG 59.421 41.667 0.00 0.00 0.00 4.63
152 153 6.449698 CATGTCCATATTTTGTAATGCCCTC 58.550 40.000 0.00 0.00 0.00 4.30
153 154 5.221501 GCATGTCCATATTTTGTAATGCCCT 60.222 40.000 0.00 0.00 0.00 5.19
154 155 4.990426 GCATGTCCATATTTTGTAATGCCC 59.010 41.667 0.00 0.00 0.00 5.36
155 156 5.846203 AGCATGTCCATATTTTGTAATGCC 58.154 37.500 0.00 0.00 32.33 4.40
156 157 8.870160 TTAAGCATGTCCATATTTTGTAATGC 57.130 30.769 0.00 0.00 0.00 3.56
159 160 8.465999 CCACTTAAGCATGTCCATATTTTGTAA 58.534 33.333 1.29 0.00 0.00 2.41
160 161 7.831690 TCCACTTAAGCATGTCCATATTTTGTA 59.168 33.333 1.29 0.00 0.00 2.41
161 162 6.663093 TCCACTTAAGCATGTCCATATTTTGT 59.337 34.615 1.29 0.00 0.00 2.83
162 163 6.974622 GTCCACTTAAGCATGTCCATATTTTG 59.025 38.462 1.29 0.00 0.00 2.44
163 164 6.096846 GGTCCACTTAAGCATGTCCATATTTT 59.903 38.462 1.29 0.00 0.00 1.82
174 175 0.034089 GCCTGGGTCCACTTAAGCAT 60.034 55.000 1.29 0.00 0.00 3.79
399 401 3.248024 TCCAAGCTAAGGTCTCCTTTGA 58.752 45.455 12.53 0.00 41.69 2.69
463 465 2.859538 ACGTACCAAACACACACTTACG 59.140 45.455 0.00 0.00 37.46 3.18
625 627 7.772757 GTCAAGAGTTCTGATTATTCTGGGATT 59.227 37.037 0.00 0.00 0.00 3.01
705 707 2.806244 AGAAAGCTACGACGTGCAAATT 59.194 40.909 11.56 8.77 0.00 1.82
716 718 1.061131 CACATCGCCAAGAAAGCTACG 59.939 52.381 0.00 0.00 0.00 3.51
1132 1134 2.484241 GGCATGAATGGGGCAGAAAATC 60.484 50.000 0.00 0.00 0.00 2.17
1155 1157 1.180029 GATGTGCTGCAATGGGTTCT 58.820 50.000 2.77 0.00 0.00 3.01
1318 1320 2.399217 GCAATCAATCGCGTCGCA 59.601 55.556 18.75 4.89 0.00 5.10
1351 1353 3.007074 TCATCAACAATTGCAAGGCACAT 59.993 39.130 4.94 0.00 38.71 3.21
1495 1499 2.945440 GCATATCCCACTCAGCAAACCA 60.945 50.000 0.00 0.00 0.00 3.67
1763 1767 0.114168 TGCACCACAAATAAGGCCCT 59.886 50.000 0.00 0.00 0.00 5.19
1870 1876 3.952675 CCGCCGCCATTGATTCGG 61.953 66.667 7.35 7.35 45.46 4.30
1931 1937 1.065199 AGCGGATCCAGCAGAAATTCA 60.065 47.619 24.07 0.00 37.01 2.57
1950 1956 5.308825 ACAGTGGAGAAATTACCTGTCAAG 58.691 41.667 0.00 0.00 0.00 3.02
1991 2005 2.579787 CTCGCGCGTCTTCGGATT 60.580 61.111 30.98 0.00 37.56 3.01
2063 2078 1.305297 ATCCGCAGTGACCTCTCCA 60.305 57.895 0.00 0.00 0.00 3.86
2064 2079 1.142748 CATCCGCAGTGACCTCTCC 59.857 63.158 0.00 0.00 0.00 3.71
2154 2169 4.178169 TTGTCCAACCGCACCCGT 62.178 61.111 0.00 0.00 0.00 5.28
2161 2177 2.280524 TGCCGAGTTGTCCAACCG 60.281 61.111 6.55 9.52 42.06 4.44
2184 2200 2.895680 GGGATCGCTGTGCTCAGA 59.104 61.111 19.61 0.00 43.76 3.27
2236 2252 3.690745 ACCTACCCGGTGAACTCG 58.309 61.111 0.00 0.00 46.80 4.18
2274 2290 9.613428 CTGAATTTTATGTATACCTTCTGGTCA 57.387 33.333 0.00 0.00 44.78 4.02
2326 2503 0.762418 TCCAGAGAGAAACCCGCAAA 59.238 50.000 0.00 0.00 0.00 3.68
2327 2504 0.984230 ATCCAGAGAGAAACCCGCAA 59.016 50.000 0.00 0.00 0.00 4.85
2328 2505 0.537188 GATCCAGAGAGAAACCCGCA 59.463 55.000 0.00 0.00 0.00 5.69
2329 2506 0.179070 GGATCCAGAGAGAAACCCGC 60.179 60.000 6.95 0.00 0.00 6.13
2330 2507 1.195115 TGGATCCAGAGAGAAACCCG 58.805 55.000 11.44 0.00 0.00 5.28
2331 2508 2.507471 ACATGGATCCAGAGAGAAACCC 59.493 50.000 21.33 0.00 0.00 4.11
2332 2509 3.922171 ACATGGATCCAGAGAGAAACC 57.078 47.619 21.33 0.00 0.00 3.27
2333 2510 6.581171 AAAAACATGGATCCAGAGAGAAAC 57.419 37.500 21.33 0.00 0.00 2.78
2432 2611 2.371910 TTACACGCATGGATGACGAA 57.628 45.000 9.43 0.00 33.66 3.85
2519 2713 6.008696 TCCTTTTACATATAACAGTGGGGG 57.991 41.667 0.00 0.00 0.00 5.40
2570 2765 3.064931 CGTCCCACTCTTAACCTGAAAC 58.935 50.000 0.00 0.00 0.00 2.78
2602 2806 1.054406 GCTGGACAGGGTGCCCTATA 61.054 60.000 9.81 0.00 46.28 1.31
2632 2837 5.591877 CCTCCTGATTGTTTCTTCTAATGGG 59.408 44.000 0.00 0.00 0.00 4.00
2691 2896 3.938963 GTGAAAACGCATCCCAATCTCTA 59.061 43.478 0.00 0.00 0.00 2.43
2705 2910 0.032952 TCCCCGAGTGAGTGAAAACG 59.967 55.000 0.00 0.00 0.00 3.60
2759 2964 7.533289 TGACATATCGTATACCAGATCCAAA 57.467 36.000 0.00 0.00 0.00 3.28
2766 2971 4.495422 GCCCTTGACATATCGTATACCAG 58.505 47.826 0.00 0.00 0.00 4.00
2781 2986 2.819984 GATGTTCAGCCGGCCCTTGA 62.820 60.000 26.15 18.53 0.00 3.02
2788 2993 3.257561 CGCTCGATGTTCAGCCGG 61.258 66.667 0.00 0.00 31.37 6.13
2789 2994 3.257561 CCGCTCGATGTTCAGCCG 61.258 66.667 0.00 0.00 31.37 5.52
2819 3050 4.517285 GAGCATCCACAAACAATCTCCTA 58.483 43.478 0.00 0.00 0.00 2.94
2938 3181 5.667172 AGGCTTCCCCTGCAAAATAATATTT 59.333 36.000 0.00 0.00 44.28 1.40
2939 3182 5.218959 AGGCTTCCCCTGCAAAATAATATT 58.781 37.500 0.00 0.00 44.28 1.28
2940 3183 4.819610 AGGCTTCCCCTGCAAAATAATAT 58.180 39.130 0.00 0.00 44.28 1.28
2941 3184 4.264373 AGGCTTCCCCTGCAAAATAATA 57.736 40.909 0.00 0.00 44.28 0.98
2979 3223 0.457853 GCACTCGCACCGTCAAGATA 60.458 55.000 0.00 0.00 38.36 1.98


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

AutoCloner maintained by Alex Coulton.