Multiple sequence alignment - TraesCS4A01G439900

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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 TraesCS4A01G439900 chr4A 100.000 4261 0 0 1 4261 709026574 709022314 0.000000e+00 7869
1 TraesCS4A01G439900 chr4A 95.294 1615 68 6 216 1825 662045254 662043643 0.000000e+00 2555
2 TraesCS4A01G439900 chr4A 96.743 1535 40 6 2734 4261 662042987 662041456 0.000000e+00 2549
3 TraesCS4A01G439900 chr4A 93.506 77 4 1 4186 4261 619892592 619892668 3.480000e-21 113
4 TraesCS4A01G439900 chr6B 98.125 4053 69 6 211 4261 8906290 8910337 0.000000e+00 7057
5 TraesCS4A01G439900 chr6B 95.297 1531 66 2 2734 4259 116265070 116263541 0.000000e+00 2423
6 TraesCS4A01G439900 chr6B 94.531 1536 73 5 2734 4259 78499566 78498032 0.000000e+00 2361
7 TraesCS4A01G439900 chr6B 93.625 753 32 8 1817 2566 116265565 116264826 0.000000e+00 1110
8 TraesCS4A01G439900 chr7B 97.974 4048 77 5 215 4261 56932166 56928123 0.000000e+00 7016
9 TraesCS4A01G439900 chr7B 96.172 2560 89 9 211 2766 66276089 66278643 0.000000e+00 4176
10 TraesCS4A01G439900 chr7B 97.527 1739 36 4 2529 4261 66278201 66279938 0.000000e+00 2966
11 TraesCS4A01G439900 chr7B 94.620 1617 76 8 216 1825 748392044 748393656 0.000000e+00 2494
12 TraesCS4A01G439900 chr4B 97.678 4048 88 6 213 4259 188474446 188478488 0.000000e+00 6950
13 TraesCS4A01G439900 chr4B 89.973 748 54 10 1817 2561 553302031 553302760 0.000000e+00 946
14 TraesCS4A01G439900 chr2B 97.759 2543 52 5 212 2753 105873018 105875556 0.000000e+00 4375
15 TraesCS4A01G439900 chr2B 98.315 1662 24 3 2529 4188 105875126 105876785 0.000000e+00 2911
16 TraesCS4A01G439900 chr2B 97.196 214 5 1 1 214 63143676 63143464 1.130000e-95 361
17 TraesCS4A01G439900 chr3B 95.782 1612 61 7 216 1825 719995018 719993412 0.000000e+00 2593
18 TraesCS4A01G439900 chr3B 95.596 1612 63 8 216 1825 720012121 720010516 0.000000e+00 2577
19 TraesCS4A01G439900 chr3B 94.641 1642 63 15 2631 4261 719992854 719991227 0.000000e+00 2521
20 TraesCS4A01G439900 chr3B 93.625 753 32 8 1817 2566 799737874 799737135 0.000000e+00 1110
21 TraesCS4A01G439900 chr3B 93.316 748 34 8 1822 2566 719993247 719992513 0.000000e+00 1090
22 TraesCS4A01G439900 chr3B 91.114 754 46 9 1817 2566 64690736 64690000 0.000000e+00 1002
23 TraesCS4A01G439900 chr3B 94.309 246 10 3 2529 2771 799737379 799737135 1.450000e-99 374
24 TraesCS4A01G439900 chr3B 93.416 243 12 3 2532 2771 719992754 719992513 1.460000e-94 357
25 TraesCS4A01G439900 chr3B 95.876 97 3 1 118 214 25380063 25379968 5.700000e-34 156
26 TraesCS4A01G439900 chr1B 94.157 753 28 8 1817 2566 669868968 669868229 0.000000e+00 1133
27 TraesCS4A01G439900 chr1B 90.921 749 49 11 1817 2561 587058693 587059426 0.000000e+00 989
28 TraesCS4A01G439900 chr1B 90.921 749 49 11 1817 2561 587081077 587081810 0.000000e+00 989
29 TraesCS4A01G439900 chr4D 97.196 214 5 1 1 214 126220453 126220241 1.130000e-95 361
30 TraesCS4A01G439900 chr7A 96.729 214 6 1 1 214 733549550 733549338 5.240000e-94 355


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 TraesCS4A01G439900 chr4A 709022314 709026574 4260 True 7869.00 7869 100.00000 1 4261 1 chr4A.!!$R1 4260
1 TraesCS4A01G439900 chr4A 662041456 662045254 3798 True 2552.00 2555 96.01850 216 4261 2 chr4A.!!$R2 4045
2 TraesCS4A01G439900 chr6B 8906290 8910337 4047 False 7057.00 7057 98.12500 211 4261 1 chr6B.!!$F1 4050
3 TraesCS4A01G439900 chr6B 78498032 78499566 1534 True 2361.00 2361 94.53100 2734 4259 1 chr6B.!!$R1 1525
4 TraesCS4A01G439900 chr6B 116263541 116265565 2024 True 1766.50 2423 94.46100 1817 4259 2 chr6B.!!$R2 2442
5 TraesCS4A01G439900 chr7B 56928123 56932166 4043 True 7016.00 7016 97.97400 215 4261 1 chr7B.!!$R1 4046
6 TraesCS4A01G439900 chr7B 66276089 66279938 3849 False 3571.00 4176 96.84950 211 4261 2 chr7B.!!$F2 4050
7 TraesCS4A01G439900 chr7B 748392044 748393656 1612 False 2494.00 2494 94.62000 216 1825 1 chr7B.!!$F1 1609
8 TraesCS4A01G439900 chr4B 188474446 188478488 4042 False 6950.00 6950 97.67800 213 4259 1 chr4B.!!$F1 4046
9 TraesCS4A01G439900 chr4B 553302031 553302760 729 False 946.00 946 89.97300 1817 2561 1 chr4B.!!$F2 744
10 TraesCS4A01G439900 chr2B 105873018 105876785 3767 False 3643.00 4375 98.03700 212 4188 2 chr2B.!!$F1 3976
11 TraesCS4A01G439900 chr3B 720010516 720012121 1605 True 2577.00 2577 95.59600 216 1825 1 chr3B.!!$R3 1609
12 TraesCS4A01G439900 chr3B 719991227 719995018 3791 True 1640.25 2593 94.28875 216 4261 4 chr3B.!!$R4 4045
13 TraesCS4A01G439900 chr3B 64690000 64690736 736 True 1002.00 1002 91.11400 1817 2566 1 chr3B.!!$R2 749
14 TraesCS4A01G439900 chr3B 799737135 799737874 739 True 742.00 1110 93.96700 1817 2771 2 chr3B.!!$R5 954
15 TraesCS4A01G439900 chr1B 669868229 669868968 739 True 1133.00 1133 94.15700 1817 2566 1 chr1B.!!$R1 749
16 TraesCS4A01G439900 chr1B 587058693 587059426 733 False 989.00 989 90.92100 1817 2561 1 chr1B.!!$F1 744
17 TraesCS4A01G439900 chr1B 587081077 587081810 733 False 989.00 989 90.92100 1817 2561 1 chr1B.!!$F2 744

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
189 190 0.255318 AAGAGATGCAAGGAGCCAGG 59.745 55.0 0.00 0.0 44.83 4.45 F
204 205 0.463295 CCAGGCAGATGCGAGTTCAT 60.463 55.0 0.00 0.0 43.26 2.57 F
206 207 0.538584 AGGCAGATGCGAGTTCATCA 59.461 50.0 6.53 0.0 43.94 3.07 F
207 208 0.935898 GGCAGATGCGAGTTCATCAG 59.064 55.0 6.53 0.1 43.94 2.90 F
619 624 1.106944 CATGTACCCCCAAATCGGCC 61.107 60.0 0.00 0.0 0.00 6.13 F
1000 1005 1.622607 CCGAAGGCAGGTGGTGGATA 61.623 60.0 0.00 0.0 46.14 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 2039 1.636988 GCAATCTGCAATGTGCTTCC 58.363 50.000 7.67 0.0 45.31 3.46 R
2154 2335 7.820044 TTAATGACCAAACAACACAACTTTC 57.180 32.000 0.00 0.0 0.00 2.62 R
2732 2913 6.025896 CAGCTAAGTAATGCACAAACATCAG 58.974 40.000 0.00 0.0 0.00 2.90 R
3142 3739 1.141657 GCTCATACAGCCCATCCTTGA 59.858 52.381 0.00 0.0 43.17 3.02 R
3181 3782 0.399075 CCCACTCCTGGTTAAACCGT 59.601 55.000 0.00 0.0 42.58 4.83 R
3570 4174 0.654160 CATGTCCACTGTATGCAGCG 59.346 55.000 11.09 0.7 46.30 5.18 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
43 44 8.594881 CGGAGCTAGTTAATGATTTATTCTGT 57.405 34.615 0.00 0.00 0.00 3.41
44 45 8.704234 CGGAGCTAGTTAATGATTTATTCTGTC 58.296 37.037 0.00 0.00 0.00 3.51
45 46 8.994170 GGAGCTAGTTAATGATTTATTCTGTCC 58.006 37.037 0.00 0.00 0.00 4.02
46 47 8.594881 AGCTAGTTAATGATTTATTCTGTCCG 57.405 34.615 0.00 0.00 0.00 4.79
47 48 7.657761 AGCTAGTTAATGATTTATTCTGTCCGG 59.342 37.037 0.00 0.00 0.00 5.14
48 49 7.656137 GCTAGTTAATGATTTATTCTGTCCGGA 59.344 37.037 0.00 0.00 0.00 5.14
49 50 9.542462 CTAGTTAATGATTTATTCTGTCCGGAA 57.458 33.333 5.23 0.00 0.00 4.30
50 51 8.980481 AGTTAATGATTTATTCTGTCCGGAAT 57.020 30.769 5.23 0.00 39.06 3.01
54 55 6.801539 TGATTTATTCTGTCCGGAATATGC 57.198 37.500 5.23 0.00 37.81 3.14
55 56 5.408299 TGATTTATTCTGTCCGGAATATGCG 59.592 40.000 5.23 0.00 37.81 4.73
56 57 4.594123 TTATTCTGTCCGGAATATGCGA 57.406 40.909 5.23 0.00 37.81 5.10
57 58 2.971660 TTCTGTCCGGAATATGCGAA 57.028 45.000 5.23 0.00 30.86 4.70
58 59 2.971660 TCTGTCCGGAATATGCGAAA 57.028 45.000 5.23 0.00 30.86 3.46
59 60 2.821546 TCTGTCCGGAATATGCGAAAG 58.178 47.619 5.23 0.00 30.86 2.62
60 61 2.429250 TCTGTCCGGAATATGCGAAAGA 59.571 45.455 5.23 0.00 30.86 2.52
61 62 2.797156 CTGTCCGGAATATGCGAAAGAG 59.203 50.000 5.23 0.00 30.86 2.85
62 63 2.429250 TGTCCGGAATATGCGAAAGAGA 59.571 45.455 5.23 0.00 30.86 3.10
63 64 3.069586 TGTCCGGAATATGCGAAAGAGAT 59.930 43.478 5.23 0.00 30.86 2.75
64 65 4.279922 TGTCCGGAATATGCGAAAGAGATA 59.720 41.667 5.23 0.00 30.86 1.98
65 66 4.621886 GTCCGGAATATGCGAAAGAGATAC 59.378 45.833 5.23 0.00 30.86 2.24
66 67 4.523173 TCCGGAATATGCGAAAGAGATACT 59.477 41.667 0.00 0.00 30.86 2.12
67 68 5.010719 TCCGGAATATGCGAAAGAGATACTT 59.989 40.000 0.00 0.00 40.98 2.24
68 69 5.119279 CCGGAATATGCGAAAGAGATACTTG 59.881 44.000 0.00 0.00 38.98 3.16
69 70 5.388890 CGGAATATGCGAAAGAGATACTTGC 60.389 44.000 0.00 0.00 38.98 4.01
70 71 5.698545 GGAATATGCGAAAGAGATACTTGCT 59.301 40.000 0.00 0.00 38.98 3.91
71 72 6.868864 GGAATATGCGAAAGAGATACTTGCTA 59.131 38.462 0.00 0.00 38.98 3.49
72 73 7.547370 GGAATATGCGAAAGAGATACTTGCTAT 59.453 37.037 0.00 0.00 38.98 2.97
73 74 9.574458 GAATATGCGAAAGAGATACTTGCTATA 57.426 33.333 0.00 0.00 38.98 1.31
74 75 8.918961 ATATGCGAAAGAGATACTTGCTATAC 57.081 34.615 0.00 0.00 38.98 1.47
75 76 5.529791 TGCGAAAGAGATACTTGCTATACC 58.470 41.667 0.00 0.00 38.98 2.73
76 77 5.302059 TGCGAAAGAGATACTTGCTATACCT 59.698 40.000 0.00 0.00 38.98 3.08
77 78 5.859648 GCGAAAGAGATACTTGCTATACCTC 59.140 44.000 0.00 0.00 38.98 3.85
78 79 6.294286 GCGAAAGAGATACTTGCTATACCTCT 60.294 42.308 0.00 0.00 38.98 3.69
79 80 7.653647 CGAAAGAGATACTTGCTATACCTCTT 58.346 38.462 0.00 0.00 40.10 2.85
80 81 8.784994 CGAAAGAGATACTTGCTATACCTCTTA 58.215 37.037 0.00 0.00 38.21 2.10
82 83 9.869667 AAAGAGATACTTGCTATACCTCTTAGA 57.130 33.333 0.00 0.00 38.21 2.10
83 84 9.869667 AAGAGATACTTGCTATACCTCTTAGAA 57.130 33.333 0.00 0.00 37.63 2.10
84 85 9.515226 AGAGATACTTGCTATACCTCTTAGAAG 57.485 37.037 0.00 0.00 0.00 2.85
85 86 9.292195 GAGATACTTGCTATACCTCTTAGAAGT 57.708 37.037 0.00 0.00 0.00 3.01
86 87 9.073475 AGATACTTGCTATACCTCTTAGAAGTG 57.927 37.037 0.00 0.00 0.00 3.16
87 88 6.472686 ACTTGCTATACCTCTTAGAAGTGG 57.527 41.667 8.50 8.50 43.53 4.00
88 89 5.364157 ACTTGCTATACCTCTTAGAAGTGGG 59.636 44.000 13.47 8.33 42.51 4.61
89 90 5.138758 TGCTATACCTCTTAGAAGTGGGA 57.861 43.478 13.47 6.55 42.51 4.37
90 91 5.716979 TGCTATACCTCTTAGAAGTGGGAT 58.283 41.667 11.80 11.80 43.69 3.85
91 92 5.540337 TGCTATACCTCTTAGAAGTGGGATG 59.460 44.000 15.48 8.58 41.92 3.51
92 93 5.046950 GCTATACCTCTTAGAAGTGGGATGG 60.047 48.000 15.48 13.87 41.92 3.51
93 94 3.491766 ACCTCTTAGAAGTGGGATGGA 57.508 47.619 13.47 0.00 42.51 3.41
94 95 3.803340 ACCTCTTAGAAGTGGGATGGAA 58.197 45.455 13.47 0.00 42.51 3.53
95 96 3.777522 ACCTCTTAGAAGTGGGATGGAAG 59.222 47.826 13.47 0.00 42.51 3.46
96 97 4.033709 CCTCTTAGAAGTGGGATGGAAGA 58.966 47.826 2.94 0.00 36.33 2.87
97 98 4.657969 CCTCTTAGAAGTGGGATGGAAGAT 59.342 45.833 2.94 0.00 36.33 2.40
98 99 5.221621 CCTCTTAGAAGTGGGATGGAAGATC 60.222 48.000 2.94 0.00 36.33 2.75
99 100 5.280499 TCTTAGAAGTGGGATGGAAGATCA 58.720 41.667 0.00 0.00 0.00 2.92
100 101 5.907662 TCTTAGAAGTGGGATGGAAGATCAT 59.092 40.000 0.00 0.00 0.00 2.45
101 102 4.434545 AGAAGTGGGATGGAAGATCATG 57.565 45.455 0.00 0.00 0.00 3.07
102 103 3.784763 AGAAGTGGGATGGAAGATCATGT 59.215 43.478 0.00 0.00 0.00 3.21
103 104 4.971282 AGAAGTGGGATGGAAGATCATGTA 59.029 41.667 0.00 0.00 0.00 2.29
104 105 4.970860 AGTGGGATGGAAGATCATGTAG 57.029 45.455 0.00 0.00 0.00 2.74
105 106 3.072184 AGTGGGATGGAAGATCATGTAGC 59.928 47.826 0.00 0.00 0.00 3.58
106 107 3.072184 GTGGGATGGAAGATCATGTAGCT 59.928 47.826 0.00 0.00 0.00 3.32
107 108 3.718434 TGGGATGGAAGATCATGTAGCTT 59.282 43.478 0.00 0.00 36.24 3.74
108 109 4.070716 GGGATGGAAGATCATGTAGCTTG 58.929 47.826 0.00 0.00 32.82 4.01
109 110 4.070716 GGATGGAAGATCATGTAGCTTGG 58.929 47.826 0.00 0.00 32.82 3.61
110 111 2.923121 TGGAAGATCATGTAGCTTGGC 58.077 47.619 0.00 0.00 32.82 4.52
111 112 2.239402 TGGAAGATCATGTAGCTTGGCA 59.761 45.455 0.00 0.00 32.82 4.92
112 113 3.117776 TGGAAGATCATGTAGCTTGGCAT 60.118 43.478 0.00 0.00 32.82 4.40
113 114 3.887716 GGAAGATCATGTAGCTTGGCATT 59.112 43.478 0.00 0.00 32.82 3.56
114 115 4.340381 GGAAGATCATGTAGCTTGGCATTT 59.660 41.667 0.00 0.00 32.82 2.32
115 116 5.163478 GGAAGATCATGTAGCTTGGCATTTT 60.163 40.000 0.00 0.00 32.82 1.82
116 117 5.258456 AGATCATGTAGCTTGGCATTTTG 57.742 39.130 0.00 0.00 0.00 2.44
117 118 4.951715 AGATCATGTAGCTTGGCATTTTGA 59.048 37.500 0.00 0.00 0.00 2.69
118 119 5.597182 AGATCATGTAGCTTGGCATTTTGAT 59.403 36.000 0.00 0.00 0.00 2.57
119 120 6.774170 AGATCATGTAGCTTGGCATTTTGATA 59.226 34.615 0.00 0.00 0.00 2.15
120 121 6.381481 TCATGTAGCTTGGCATTTTGATAG 57.619 37.500 0.00 0.00 0.00 2.08
121 122 4.637483 TGTAGCTTGGCATTTTGATAGC 57.363 40.909 0.00 0.00 0.00 2.97
122 123 4.015764 TGTAGCTTGGCATTTTGATAGCA 58.984 39.130 7.72 0.00 0.00 3.49
123 124 4.462132 TGTAGCTTGGCATTTTGATAGCAA 59.538 37.500 7.72 0.00 0.00 3.91
124 125 4.119442 AGCTTGGCATTTTGATAGCAAG 57.881 40.909 7.72 0.00 35.04 4.01
125 126 3.118884 AGCTTGGCATTTTGATAGCAAGG 60.119 43.478 7.72 0.00 35.04 3.61
126 127 3.788937 CTTGGCATTTTGATAGCAAGGG 58.211 45.455 0.00 0.00 35.04 3.95
127 128 2.818921 TGGCATTTTGATAGCAAGGGT 58.181 42.857 0.00 0.00 35.04 4.34
128 129 2.496871 TGGCATTTTGATAGCAAGGGTG 59.503 45.455 0.00 0.00 35.04 4.61
129 130 2.497273 GGCATTTTGATAGCAAGGGTGT 59.503 45.455 0.00 0.00 35.04 4.16
130 131 3.055891 GGCATTTTGATAGCAAGGGTGTT 60.056 43.478 0.00 0.00 35.04 3.32
131 132 4.563374 GGCATTTTGATAGCAAGGGTGTTT 60.563 41.667 0.00 0.00 35.04 2.83
132 133 4.996758 GCATTTTGATAGCAAGGGTGTTTT 59.003 37.500 0.00 0.00 35.04 2.43
133 134 5.469760 GCATTTTGATAGCAAGGGTGTTTTT 59.530 36.000 0.00 0.00 35.04 1.94
169 170 5.756918 TGCATACAGACTAGGAGTTACTCT 58.243 41.667 12.41 1.35 0.00 3.24
170 171 6.896883 TGCATACAGACTAGGAGTTACTCTA 58.103 40.000 12.41 2.44 0.00 2.43
171 172 7.344134 TGCATACAGACTAGGAGTTACTCTAA 58.656 38.462 12.41 0.06 0.00 2.10
172 173 7.499563 TGCATACAGACTAGGAGTTACTCTAAG 59.500 40.741 12.41 11.65 0.00 2.18
173 174 7.716123 GCATACAGACTAGGAGTTACTCTAAGA 59.284 40.741 12.41 0.00 0.00 2.10
174 175 9.268268 CATACAGACTAGGAGTTACTCTAAGAG 57.732 40.741 12.41 6.99 35.52 2.85
175 176 7.499200 ACAGACTAGGAGTTACTCTAAGAGA 57.501 40.000 12.41 0.00 33.32 3.10
176 177 8.097791 ACAGACTAGGAGTTACTCTAAGAGAT 57.902 38.462 12.41 0.00 33.32 2.75
177 178 7.990886 ACAGACTAGGAGTTACTCTAAGAGATG 59.009 40.741 12.41 12.00 33.32 2.90
178 179 6.996282 AGACTAGGAGTTACTCTAAGAGATGC 59.004 42.308 12.41 0.00 33.32 3.91
179 180 6.664714 ACTAGGAGTTACTCTAAGAGATGCA 58.335 40.000 12.41 0.00 33.32 3.96
180 181 7.120051 ACTAGGAGTTACTCTAAGAGATGCAA 58.880 38.462 12.41 0.00 33.32 4.08
181 182 6.463995 AGGAGTTACTCTAAGAGATGCAAG 57.536 41.667 12.41 0.00 33.32 4.01
182 183 5.362430 AGGAGTTACTCTAAGAGATGCAAGG 59.638 44.000 12.41 0.00 33.32 3.61
183 184 5.361285 GGAGTTACTCTAAGAGATGCAAGGA 59.639 44.000 12.41 0.00 33.32 3.36
184 185 6.460953 GGAGTTACTCTAAGAGATGCAAGGAG 60.461 46.154 12.41 0.00 33.32 3.69
185 186 3.817709 ACTCTAAGAGATGCAAGGAGC 57.182 47.619 0.00 0.00 37.28 4.70
186 187 2.433970 ACTCTAAGAGATGCAAGGAGCC 59.566 50.000 0.00 0.00 36.49 4.70
187 188 2.433604 CTCTAAGAGATGCAAGGAGCCA 59.566 50.000 0.00 0.00 44.83 4.75
188 189 2.433604 TCTAAGAGATGCAAGGAGCCAG 59.566 50.000 0.00 0.00 44.83 4.85
189 190 0.255318 AAGAGATGCAAGGAGCCAGG 59.745 55.000 0.00 0.00 44.83 4.45
190 191 1.823041 GAGATGCAAGGAGCCAGGC 60.823 63.158 1.84 1.84 44.83 4.85
191 192 2.044650 GATGCAAGGAGCCAGGCA 60.045 61.111 15.80 7.42 44.83 4.75
192 193 2.044252 ATGCAAGGAGCCAGGCAG 60.044 61.111 15.80 0.00 44.83 4.85
193 194 2.547640 GATGCAAGGAGCCAGGCAGA 62.548 60.000 15.80 0.00 44.83 4.26
194 195 1.934459 ATGCAAGGAGCCAGGCAGAT 61.934 55.000 15.80 0.00 44.83 2.90
195 196 2.119655 GCAAGGAGCCAGGCAGATG 61.120 63.158 15.80 8.16 37.23 2.90
196 197 2.119655 CAAGGAGCCAGGCAGATGC 61.120 63.158 15.80 0.00 41.14 3.91
197 198 3.694058 AAGGAGCCAGGCAGATGCG 62.694 63.158 15.80 0.00 43.26 4.73
198 199 4.166888 GGAGCCAGGCAGATGCGA 62.167 66.667 15.80 0.00 43.26 5.10
199 200 2.588314 GAGCCAGGCAGATGCGAG 60.588 66.667 15.80 0.00 43.26 5.03
200 201 3.382803 GAGCCAGGCAGATGCGAGT 62.383 63.158 15.80 0.00 43.26 4.18
201 202 2.437359 GCCAGGCAGATGCGAGTT 60.437 61.111 6.55 0.00 43.26 3.01
202 203 2.467826 GCCAGGCAGATGCGAGTTC 61.468 63.158 6.55 0.00 43.26 3.01
203 204 1.078918 CCAGGCAGATGCGAGTTCA 60.079 57.895 0.00 0.00 43.26 3.18
204 205 0.463295 CCAGGCAGATGCGAGTTCAT 60.463 55.000 0.00 0.00 43.26 2.57
205 206 0.935898 CAGGCAGATGCGAGTTCATC 59.064 55.000 0.00 0.00 43.26 2.92
206 207 0.538584 AGGCAGATGCGAGTTCATCA 59.461 50.000 6.53 0.00 43.94 3.07
207 208 0.935898 GGCAGATGCGAGTTCATCAG 59.064 55.000 6.53 0.10 43.94 2.90
208 209 1.649664 GCAGATGCGAGTTCATCAGT 58.350 50.000 6.53 0.00 43.94 3.41
209 210 2.481969 GGCAGATGCGAGTTCATCAGTA 60.482 50.000 6.53 0.00 43.94 2.74
210 211 2.793790 GCAGATGCGAGTTCATCAGTAG 59.206 50.000 6.53 0.00 43.94 2.57
211 212 3.379240 CAGATGCGAGTTCATCAGTAGG 58.621 50.000 6.53 0.00 43.94 3.18
234 235 2.217038 TTTCTGCTCCGGTGCTCCT 61.217 57.895 27.24 0.00 0.00 3.69
292 297 2.290367 CGGCTGAGATGTGTCAAAAACA 59.710 45.455 0.00 0.00 34.78 2.83
541 546 1.262950 CGCGTCACATGAAAACTTCCA 59.737 47.619 0.00 0.00 0.00 3.53
619 624 1.106944 CATGTACCCCCAAATCGGCC 61.107 60.000 0.00 0.00 0.00 6.13
1000 1005 1.622607 CCGAAGGCAGGTGGTGGATA 61.623 60.000 0.00 0.00 46.14 2.59
1072 1078 7.122799 GCAGAAGATTTAGTAGATGGGGTTTTT 59.877 37.037 0.00 0.00 0.00 1.94
1158 1165 4.263331 GGTGAACCCCATTTCAGAGTTAGA 60.263 45.833 0.00 0.00 36.15 2.10
1205 1213 7.974482 TTGAATGCTAGAGACATCATAATGG 57.026 36.000 0.00 0.00 37.19 3.16
1267 1275 3.244735 TGCCCAGTTTATGTTCTGTGCTA 60.245 43.478 0.00 0.00 36.38 3.49
1670 1682 3.742369 CCTAGCACCAAAAATTGCACAAG 59.258 43.478 0.00 0.00 41.48 3.16
1858 2039 9.981114 AGGTCAAAGTTTCATTTTAGGTTATTG 57.019 29.630 0.00 0.00 0.00 1.90
2107 2288 6.265577 GTTGTTTGTTGATGATGCCCTATAC 58.734 40.000 0.00 0.00 0.00 1.47
2108 2289 5.754782 TGTTTGTTGATGATGCCCTATACT 58.245 37.500 0.00 0.00 0.00 2.12
2360 2541 9.507329 CATTACTTAGCTGTAAATGGGATATGT 57.493 33.333 0.00 0.00 36.22 2.29
2473 2654 8.610248 TTAGTTGTTTGTGCATTAAGTAGCTA 57.390 30.769 0.00 0.00 0.00 3.32
2669 2850 7.144661 TGGAACTATTTAGTTGTTTGTGCATG 58.855 34.615 7.68 0.00 45.84 4.06
2676 2857 6.935741 TTAGTTGTTTGTGCATGAAGTAGT 57.064 33.333 0.00 0.00 0.00 2.73
2725 2906 8.642935 TTGTTCATTACATTCCAGTAAATGGA 57.357 30.769 0.00 0.00 45.85 3.41
3142 3739 2.224867 ACTGCACCACTAAGCCAATTCT 60.225 45.455 0.00 0.00 0.00 2.40
3268 3869 2.248950 TGGGTCCCATCTAGTCACCATA 59.751 50.000 6.47 0.00 0.00 2.74
3307 3909 8.450385 GTGGAACTTATCATCGTTAGTATAGC 57.550 38.462 0.00 0.00 0.00 2.97
3393 3995 8.205512 TGTTTGTGAACTGTTAAGTAGTATGGA 58.794 33.333 0.00 0.00 34.77 3.41
3434 4036 4.513318 GGCAGACTCTTAATTATGGCAGAC 59.487 45.833 0.00 0.00 33.80 3.51
3503 4105 2.816087 CAGGTCAGCTATGCTTTGTTGT 59.184 45.455 0.00 0.00 36.40 3.32
3561 4165 3.253188 GGTGCTTCAATGTTGCTTCACTA 59.747 43.478 0.00 0.00 0.00 2.74
3570 4174 5.869753 ATGTTGCTTCACTAATGAGACAC 57.130 39.130 0.00 0.00 35.83 3.67
3591 4195 2.086869 GCTGCATACAGTGGACATGTT 58.913 47.619 0.00 0.00 46.30 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.417275 CTAGCTCCGCGTCCCACTG 62.417 68.421 4.92 0.00 0.00 3.66
9 10 3.141488 CTAGCTCCGCGTCCCACT 61.141 66.667 4.92 0.00 0.00 4.00
10 11 1.660560 TAACTAGCTCCGCGTCCCAC 61.661 60.000 4.92 0.00 0.00 4.61
11 12 0.966875 TTAACTAGCTCCGCGTCCCA 60.967 55.000 4.92 0.00 0.00 4.37
12 13 0.388294 ATTAACTAGCTCCGCGTCCC 59.612 55.000 4.92 0.00 0.00 4.46
13 14 1.066605 TCATTAACTAGCTCCGCGTCC 59.933 52.381 4.92 0.00 0.00 4.79
14 15 2.486951 TCATTAACTAGCTCCGCGTC 57.513 50.000 4.92 0.00 0.00 5.19
15 16 3.454371 AATCATTAACTAGCTCCGCGT 57.546 42.857 4.92 0.00 0.00 6.01
16 17 6.366332 AGAATAAATCATTAACTAGCTCCGCG 59.634 38.462 0.00 0.00 0.00 6.46
17 18 7.171678 ACAGAATAAATCATTAACTAGCTCCGC 59.828 37.037 0.00 0.00 0.00 5.54
18 19 8.594881 ACAGAATAAATCATTAACTAGCTCCG 57.405 34.615 0.00 0.00 0.00 4.63
19 20 8.994170 GGACAGAATAAATCATTAACTAGCTCC 58.006 37.037 0.00 0.00 0.00 4.70
20 21 8.704234 CGGACAGAATAAATCATTAACTAGCTC 58.296 37.037 0.00 0.00 0.00 4.09
21 22 7.657761 CCGGACAGAATAAATCATTAACTAGCT 59.342 37.037 0.00 0.00 0.00 3.32
22 23 7.656137 TCCGGACAGAATAAATCATTAACTAGC 59.344 37.037 0.00 0.00 0.00 3.42
23 24 9.542462 TTCCGGACAGAATAAATCATTAACTAG 57.458 33.333 1.83 0.00 0.00 2.57
25 26 8.980481 ATTCCGGACAGAATAAATCATTAACT 57.020 30.769 1.83 0.00 34.69 2.24
28 29 8.946085 GCATATTCCGGACAGAATAAATCATTA 58.054 33.333 1.83 0.00 40.98 1.90
29 30 7.361201 CGCATATTCCGGACAGAATAAATCATT 60.361 37.037 1.83 0.00 40.98 2.57
30 31 6.092670 CGCATATTCCGGACAGAATAAATCAT 59.907 38.462 1.83 0.00 40.98 2.45
31 32 5.408299 CGCATATTCCGGACAGAATAAATCA 59.592 40.000 1.83 0.00 40.98 2.57
32 33 5.637810 TCGCATATTCCGGACAGAATAAATC 59.362 40.000 1.83 0.00 40.98 2.17
33 34 5.547465 TCGCATATTCCGGACAGAATAAAT 58.453 37.500 1.83 0.00 40.98 1.40
34 35 4.951254 TCGCATATTCCGGACAGAATAAA 58.049 39.130 1.83 0.00 40.98 1.40
35 36 4.594123 TCGCATATTCCGGACAGAATAA 57.406 40.909 1.83 0.00 40.98 1.40
36 37 4.594123 TTCGCATATTCCGGACAGAATA 57.406 40.909 1.83 0.00 41.65 1.75
37 38 3.469008 TTCGCATATTCCGGACAGAAT 57.531 42.857 1.83 0.00 39.73 2.40
38 39 2.971660 TTCGCATATTCCGGACAGAA 57.028 45.000 1.83 0.78 0.00 3.02
39 40 2.429250 TCTTTCGCATATTCCGGACAGA 59.571 45.455 1.83 0.00 0.00 3.41
40 41 2.797156 CTCTTTCGCATATTCCGGACAG 59.203 50.000 1.83 0.00 0.00 3.51
41 42 2.429250 TCTCTTTCGCATATTCCGGACA 59.571 45.455 1.83 0.00 0.00 4.02
42 43 3.093717 TCTCTTTCGCATATTCCGGAC 57.906 47.619 1.83 0.00 0.00 4.79
43 44 4.523173 AGTATCTCTTTCGCATATTCCGGA 59.477 41.667 0.00 0.00 0.00 5.14
44 45 4.810790 AGTATCTCTTTCGCATATTCCGG 58.189 43.478 0.00 0.00 0.00 5.14
45 46 5.388890 GCAAGTATCTCTTTCGCATATTCCG 60.389 44.000 0.00 0.00 33.63 4.30
46 47 5.698545 AGCAAGTATCTCTTTCGCATATTCC 59.301 40.000 0.00 0.00 33.63 3.01
47 48 6.777526 AGCAAGTATCTCTTTCGCATATTC 57.222 37.500 0.00 0.00 33.63 1.75
48 49 9.360093 GTATAGCAAGTATCTCTTTCGCATATT 57.640 33.333 0.00 0.00 33.63 1.28
49 50 7.976734 GGTATAGCAAGTATCTCTTTCGCATAT 59.023 37.037 0.00 0.00 33.63 1.78
50 51 7.176865 AGGTATAGCAAGTATCTCTTTCGCATA 59.823 37.037 4.48 0.00 33.63 3.14
51 52 6.015010 AGGTATAGCAAGTATCTCTTTCGCAT 60.015 38.462 4.48 0.00 33.63 4.73
52 53 5.302059 AGGTATAGCAAGTATCTCTTTCGCA 59.698 40.000 4.48 0.00 33.63 5.10
53 54 5.774630 AGGTATAGCAAGTATCTCTTTCGC 58.225 41.667 4.48 0.00 33.63 4.70
54 55 7.209471 AGAGGTATAGCAAGTATCTCTTTCG 57.791 40.000 4.48 0.00 36.48 3.46
56 57 9.869667 TCTAAGAGGTATAGCAAGTATCTCTTT 57.130 33.333 17.90 7.80 43.60 2.52
57 58 9.869667 TTCTAAGAGGTATAGCAAGTATCTCTT 57.130 33.333 17.24 17.24 46.23 2.85
58 59 9.515226 CTTCTAAGAGGTATAGCAAGTATCTCT 57.485 37.037 4.48 1.33 40.47 3.10
59 60 9.292195 ACTTCTAAGAGGTATAGCAAGTATCTC 57.708 37.037 4.48 0.00 30.95 2.75
60 61 9.073475 CACTTCTAAGAGGTATAGCAAGTATCT 57.927 37.037 4.48 0.00 0.00 1.98
61 62 8.301002 CCACTTCTAAGAGGTATAGCAAGTATC 58.699 40.741 4.48 0.00 32.83 2.24
62 63 7.233757 CCCACTTCTAAGAGGTATAGCAAGTAT 59.766 40.741 4.48 0.00 35.31 2.12
63 64 6.550108 CCCACTTCTAAGAGGTATAGCAAGTA 59.450 42.308 4.48 0.00 35.31 2.24
64 65 5.364157 CCCACTTCTAAGAGGTATAGCAAGT 59.636 44.000 4.48 1.32 35.31 3.16
65 66 5.598830 TCCCACTTCTAAGAGGTATAGCAAG 59.401 44.000 4.48 0.69 35.31 4.01
66 67 5.525484 TCCCACTTCTAAGAGGTATAGCAA 58.475 41.667 4.48 0.00 35.31 3.91
67 68 5.138758 TCCCACTTCTAAGAGGTATAGCA 57.861 43.478 4.48 0.00 35.31 3.49
68 69 5.046950 CCATCCCACTTCTAAGAGGTATAGC 60.047 48.000 5.62 0.00 35.31 2.97
69 70 6.315714 TCCATCCCACTTCTAAGAGGTATAG 58.684 44.000 5.62 0.00 35.31 1.31
70 71 6.289482 TCCATCCCACTTCTAAGAGGTATA 57.711 41.667 5.62 0.00 35.31 1.47
71 72 5.157770 TCCATCCCACTTCTAAGAGGTAT 57.842 43.478 5.62 0.00 35.31 2.73
72 73 4.620086 TCCATCCCACTTCTAAGAGGTA 57.380 45.455 5.62 0.00 35.31 3.08
73 74 3.491766 TCCATCCCACTTCTAAGAGGT 57.508 47.619 5.62 0.00 35.31 3.85
74 75 4.033709 TCTTCCATCCCACTTCTAAGAGG 58.966 47.826 0.00 0.00 36.64 3.69
75 76 5.365025 TGATCTTCCATCCCACTTCTAAGAG 59.635 44.000 0.00 0.00 0.00 2.85
76 77 5.280499 TGATCTTCCATCCCACTTCTAAGA 58.720 41.667 0.00 0.00 0.00 2.10
77 78 5.620738 TGATCTTCCATCCCACTTCTAAG 57.379 43.478 0.00 0.00 0.00 2.18
78 79 5.429762 ACATGATCTTCCATCCCACTTCTAA 59.570 40.000 0.00 0.00 0.00 2.10
79 80 4.971282 ACATGATCTTCCATCCCACTTCTA 59.029 41.667 0.00 0.00 0.00 2.10
80 81 3.784763 ACATGATCTTCCATCCCACTTCT 59.215 43.478 0.00 0.00 0.00 2.85
81 82 4.162040 ACATGATCTTCCATCCCACTTC 57.838 45.455 0.00 0.00 0.00 3.01
82 83 4.445448 GCTACATGATCTTCCATCCCACTT 60.445 45.833 0.00 0.00 0.00 3.16
83 84 3.072184 GCTACATGATCTTCCATCCCACT 59.928 47.826 0.00 0.00 0.00 4.00
84 85 3.072184 AGCTACATGATCTTCCATCCCAC 59.928 47.826 0.00 0.00 0.00 4.61
85 86 3.321039 AGCTACATGATCTTCCATCCCA 58.679 45.455 0.00 0.00 0.00 4.37
86 87 4.070716 CAAGCTACATGATCTTCCATCCC 58.929 47.826 0.00 0.00 0.00 3.85
87 88 4.070716 CCAAGCTACATGATCTTCCATCC 58.929 47.826 0.00 0.00 0.00 3.51
88 89 3.501445 GCCAAGCTACATGATCTTCCATC 59.499 47.826 0.00 0.00 0.00 3.51
89 90 3.117776 TGCCAAGCTACATGATCTTCCAT 60.118 43.478 0.00 0.00 0.00 3.41
90 91 2.239402 TGCCAAGCTACATGATCTTCCA 59.761 45.455 0.00 0.00 0.00 3.53
91 92 2.923121 TGCCAAGCTACATGATCTTCC 58.077 47.619 0.00 0.00 0.00 3.46
92 93 5.511234 AAATGCCAAGCTACATGATCTTC 57.489 39.130 0.00 0.00 0.00 2.87
93 94 5.419788 TCAAAATGCCAAGCTACATGATCTT 59.580 36.000 0.00 0.00 0.00 2.40
94 95 4.951715 TCAAAATGCCAAGCTACATGATCT 59.048 37.500 0.00 0.00 0.00 2.75
95 96 5.252969 TCAAAATGCCAAGCTACATGATC 57.747 39.130 0.00 0.00 0.00 2.92
96 97 5.864418 ATCAAAATGCCAAGCTACATGAT 57.136 34.783 0.00 0.00 0.00 2.45
97 98 5.221106 GCTATCAAAATGCCAAGCTACATGA 60.221 40.000 0.00 0.00 0.00 3.07
98 99 4.980434 GCTATCAAAATGCCAAGCTACATG 59.020 41.667 0.00 0.00 0.00 3.21
99 100 4.646040 TGCTATCAAAATGCCAAGCTACAT 59.354 37.500 0.00 0.00 0.00 2.29
100 101 4.015764 TGCTATCAAAATGCCAAGCTACA 58.984 39.130 0.00 0.00 0.00 2.74
101 102 4.637483 TGCTATCAAAATGCCAAGCTAC 57.363 40.909 0.00 0.00 0.00 3.58
102 103 4.098349 CCTTGCTATCAAAATGCCAAGCTA 59.902 41.667 0.00 0.00 0.00 3.32
103 104 3.118884 CCTTGCTATCAAAATGCCAAGCT 60.119 43.478 0.00 0.00 0.00 3.74
104 105 3.192466 CCTTGCTATCAAAATGCCAAGC 58.808 45.455 0.00 0.00 0.00 4.01
105 106 3.196254 ACCCTTGCTATCAAAATGCCAAG 59.804 43.478 0.00 0.00 0.00 3.61
106 107 3.055963 CACCCTTGCTATCAAAATGCCAA 60.056 43.478 0.00 0.00 0.00 4.52
107 108 2.496871 CACCCTTGCTATCAAAATGCCA 59.503 45.455 0.00 0.00 0.00 4.92
108 109 2.497273 ACACCCTTGCTATCAAAATGCC 59.503 45.455 0.00 0.00 0.00 4.40
109 110 3.874392 ACACCCTTGCTATCAAAATGC 57.126 42.857 0.00 0.00 0.00 3.56
145 146 5.825679 AGAGTAACTCCTAGTCTGTATGCAG 59.174 44.000 4.14 4.14 38.64 4.41
146 147 5.756918 AGAGTAACTCCTAGTCTGTATGCA 58.243 41.667 0.00 0.00 38.64 3.96
147 148 7.716123 TCTTAGAGTAACTCCTAGTCTGTATGC 59.284 40.741 0.00 0.00 40.06 3.14
148 149 9.268268 CTCTTAGAGTAACTCCTAGTCTGTATG 57.732 40.741 0.22 0.00 40.06 2.39
149 150 9.216148 TCTCTTAGAGTAACTCCTAGTCTGTAT 57.784 37.037 9.25 0.00 40.06 2.29
150 151 8.606754 TCTCTTAGAGTAACTCCTAGTCTGTA 57.393 38.462 9.25 0.00 40.06 2.74
151 152 7.499200 TCTCTTAGAGTAACTCCTAGTCTGT 57.501 40.000 9.25 0.00 40.06 3.41
152 153 7.041372 GCATCTCTTAGAGTAACTCCTAGTCTG 60.041 44.444 9.25 0.00 40.06 3.51
153 154 6.996282 GCATCTCTTAGAGTAACTCCTAGTCT 59.004 42.308 9.25 0.00 42.12 3.24
154 155 6.768861 TGCATCTCTTAGAGTAACTCCTAGTC 59.231 42.308 9.25 0.00 0.00 2.59
155 156 6.664714 TGCATCTCTTAGAGTAACTCCTAGT 58.335 40.000 9.25 0.00 0.00 2.57
156 157 7.255451 CCTTGCATCTCTTAGAGTAACTCCTAG 60.255 44.444 9.25 1.00 0.00 3.02
157 158 6.547880 CCTTGCATCTCTTAGAGTAACTCCTA 59.452 42.308 9.25 0.00 0.00 2.94
158 159 5.362430 CCTTGCATCTCTTAGAGTAACTCCT 59.638 44.000 9.25 0.00 0.00 3.69
159 160 5.361285 TCCTTGCATCTCTTAGAGTAACTCC 59.639 44.000 9.25 0.00 0.00 3.85
160 161 6.458232 TCCTTGCATCTCTTAGAGTAACTC 57.542 41.667 9.25 0.00 0.00 3.01
161 162 5.163457 GCTCCTTGCATCTCTTAGAGTAACT 60.163 44.000 9.25 0.00 42.31 2.24
162 163 5.047188 GCTCCTTGCATCTCTTAGAGTAAC 58.953 45.833 9.25 0.74 42.31 2.50
163 164 4.100189 GGCTCCTTGCATCTCTTAGAGTAA 59.900 45.833 9.25 1.00 45.15 2.24
164 165 3.639094 GGCTCCTTGCATCTCTTAGAGTA 59.361 47.826 9.25 0.00 45.15 2.59
165 166 2.433970 GGCTCCTTGCATCTCTTAGAGT 59.566 50.000 9.25 0.00 45.15 3.24
166 167 2.433604 TGGCTCCTTGCATCTCTTAGAG 59.566 50.000 2.23 2.23 45.15 2.43
167 168 2.433604 CTGGCTCCTTGCATCTCTTAGA 59.566 50.000 0.00 0.00 45.15 2.10
168 169 2.485124 CCTGGCTCCTTGCATCTCTTAG 60.485 54.545 0.00 0.00 45.15 2.18
169 170 1.487976 CCTGGCTCCTTGCATCTCTTA 59.512 52.381 0.00 0.00 45.15 2.10
170 171 0.255318 CCTGGCTCCTTGCATCTCTT 59.745 55.000 0.00 0.00 45.15 2.85
171 172 1.913722 CCTGGCTCCTTGCATCTCT 59.086 57.895 0.00 0.00 45.15 3.10
172 173 1.823041 GCCTGGCTCCTTGCATCTC 60.823 63.158 12.43 0.00 45.15 2.75
173 174 2.274760 GCCTGGCTCCTTGCATCT 59.725 61.111 12.43 0.00 45.15 2.90
174 175 2.044650 TGCCTGGCTCCTTGCATC 60.045 61.111 21.03 0.00 45.15 3.91
175 176 1.934459 ATCTGCCTGGCTCCTTGCAT 61.934 55.000 21.03 0.00 45.15 3.96
176 177 2.609534 ATCTGCCTGGCTCCTTGCA 61.610 57.895 21.03 0.00 45.15 4.08
177 178 2.119655 CATCTGCCTGGCTCCTTGC 61.120 63.158 21.03 0.00 41.94 4.01
178 179 2.119655 GCATCTGCCTGGCTCCTTG 61.120 63.158 21.03 12.75 34.31 3.61
179 180 2.274760 GCATCTGCCTGGCTCCTT 59.725 61.111 21.03 0.00 34.31 3.36
180 181 4.172512 CGCATCTGCCTGGCTCCT 62.173 66.667 21.03 0.66 37.91 3.69
181 182 4.166888 TCGCATCTGCCTGGCTCC 62.167 66.667 21.03 2.66 37.91 4.70
182 183 2.588314 CTCGCATCTGCCTGGCTC 60.588 66.667 21.03 3.10 37.91 4.70
183 184 2.866085 GAACTCGCATCTGCCTGGCT 62.866 60.000 21.03 0.00 37.91 4.75
184 185 2.437359 AACTCGCATCTGCCTGGC 60.437 61.111 12.87 12.87 37.91 4.85
185 186 0.463295 ATGAACTCGCATCTGCCTGG 60.463 55.000 0.00 0.00 37.91 4.45
186 187 0.935898 GATGAACTCGCATCTGCCTG 59.064 55.000 0.00 0.00 41.09 4.85
187 188 0.538584 TGATGAACTCGCATCTGCCT 59.461 50.000 0.00 0.00 43.89 4.75
188 189 0.935898 CTGATGAACTCGCATCTGCC 59.064 55.000 0.00 0.00 43.89 4.85
189 190 1.649664 ACTGATGAACTCGCATCTGC 58.350 50.000 0.00 0.00 43.72 4.26
190 191 3.067320 TCCTACTGATGAACTCGCATCTG 59.933 47.826 0.00 0.00 43.89 2.90
191 192 3.291584 TCCTACTGATGAACTCGCATCT 58.708 45.455 0.00 0.00 43.89 2.90
192 193 3.717400 TCCTACTGATGAACTCGCATC 57.283 47.619 0.00 0.00 43.84 3.91
193 194 3.181471 CCTTCCTACTGATGAACTCGCAT 60.181 47.826 0.00 0.00 0.00 4.73
194 195 2.166459 CCTTCCTACTGATGAACTCGCA 59.834 50.000 0.00 0.00 0.00 5.10
195 196 2.166664 ACCTTCCTACTGATGAACTCGC 59.833 50.000 0.00 0.00 0.00 5.03
196 197 4.457834 AACCTTCCTACTGATGAACTCG 57.542 45.455 0.00 0.00 0.00 4.18
197 198 5.872070 CAGAAACCTTCCTACTGATGAACTC 59.128 44.000 0.00 0.00 0.00 3.01
198 199 5.799213 CAGAAACCTTCCTACTGATGAACT 58.201 41.667 0.00 0.00 0.00 3.01
199 200 4.393371 GCAGAAACCTTCCTACTGATGAAC 59.607 45.833 0.00 0.00 0.00 3.18
200 201 4.287067 AGCAGAAACCTTCCTACTGATGAA 59.713 41.667 0.00 0.00 0.00 2.57
201 202 3.840666 AGCAGAAACCTTCCTACTGATGA 59.159 43.478 0.00 0.00 0.00 2.92
202 203 4.187694 GAGCAGAAACCTTCCTACTGATG 58.812 47.826 0.00 0.00 0.00 3.07
203 204 3.198853 GGAGCAGAAACCTTCCTACTGAT 59.801 47.826 0.00 0.00 0.00 2.90
204 205 2.567615 GGAGCAGAAACCTTCCTACTGA 59.432 50.000 0.00 0.00 0.00 3.41
205 206 2.675317 CGGAGCAGAAACCTTCCTACTG 60.675 54.545 0.00 0.00 0.00 2.74
206 207 1.550976 CGGAGCAGAAACCTTCCTACT 59.449 52.381 0.00 0.00 0.00 2.57
207 208 1.405661 CCGGAGCAGAAACCTTCCTAC 60.406 57.143 0.00 0.00 0.00 3.18
208 209 0.902531 CCGGAGCAGAAACCTTCCTA 59.097 55.000 0.00 0.00 0.00 2.94
209 210 1.128188 ACCGGAGCAGAAACCTTCCT 61.128 55.000 9.46 0.00 0.00 3.36
210 211 0.955919 CACCGGAGCAGAAACCTTCC 60.956 60.000 9.46 0.00 0.00 3.46
211 212 1.578206 GCACCGGAGCAGAAACCTTC 61.578 60.000 19.70 0.00 0.00 3.46
234 235 4.323477 CGCGTTCAACCCAGGGGA 62.323 66.667 11.37 0.00 38.96 4.81
292 297 0.035458 CGTGCCCCTCTTCAGAAAGT 59.965 55.000 0.00 0.00 33.95 2.66
296 301 1.667154 CGATCGTGCCCCTCTTCAGA 61.667 60.000 7.03 0.00 0.00 3.27
297 302 1.227089 CGATCGTGCCCCTCTTCAG 60.227 63.158 7.03 0.00 0.00 3.02
603 608 2.124024 GGGCCGATTTGGGGGTAC 60.124 66.667 0.00 0.00 38.63 3.34
619 624 0.761802 GGCAAGGATAGAGGGACTGG 59.238 60.000 0.00 0.00 41.55 4.00
982 987 0.469917 ATATCCACCACCTGCCTTCG 59.530 55.000 0.00 0.00 0.00 3.79
1000 1005 2.421529 GGGGAACGAGAAGCATTACCAT 60.422 50.000 0.00 0.00 0.00 3.55
1670 1682 5.067023 CCATGAGCTTCAGGAAAGGAAATAC 59.933 44.000 0.00 0.00 35.37 1.89
1842 2023 7.531857 TGTGCTTCCAATAACCTAAAATGAA 57.468 32.000 0.00 0.00 0.00 2.57
1858 2039 1.636988 GCAATCTGCAATGTGCTTCC 58.363 50.000 7.67 0.00 45.31 3.46
2107 2288 9.903682 CATAACATTCCAATTTAGAGGCATTAG 57.096 33.333 0.00 0.00 0.00 1.73
2108 2289 9.420118 ACATAACATTCCAATTTAGAGGCATTA 57.580 29.630 0.00 0.00 0.00 1.90
2154 2335 7.820044 TTAATGACCAAACAACACAACTTTC 57.180 32.000 0.00 0.00 0.00 2.62
2732 2913 6.025896 CAGCTAAGTAATGCACAAACATCAG 58.974 40.000 0.00 0.00 0.00 2.90
3142 3739 1.141657 GCTCATACAGCCCATCCTTGA 59.858 52.381 0.00 0.00 43.17 3.02
3181 3782 0.399075 CCCACTCCTGGTTAAACCGT 59.601 55.000 0.00 0.00 42.58 4.83
3268 3869 2.639839 AGTTCCACTACCAGCTTCACAT 59.360 45.455 0.00 0.00 0.00 3.21
3307 3909 5.156355 AGCGCAAAAGTTAAACATCATCAG 58.844 37.500 11.47 0.00 0.00 2.90
3393 3995 8.770010 AGTCTGCCATAGTACTTAATAGTCTT 57.230 34.615 0.00 0.00 35.78 3.01
3561 4165 2.274437 CTGTATGCAGCGTGTCTCATT 58.726 47.619 0.00 0.00 35.77 2.57
3570 4174 0.654160 CATGTCCACTGTATGCAGCG 59.346 55.000 11.09 0.70 46.30 5.18
3591 4195 2.647683 TGCACACACCATTACCAAGA 57.352 45.000 0.00 0.00 0.00 3.02
3919 4525 9.090103 AGAAATGGAATATTCAATCATGCTCAT 57.910 29.630 17.07 5.24 0.00 2.90


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

AutoCloner maintained by Alex Coulton.