Multiple sequence alignment - TraesCS1B01G452800

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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 TraesCS1B01G452800 chr1B 100.000 2363 0 0 1 2363 669463231 669460869 0.000000e+00 4364.0
1 TraesCS1B01G452800 chr1B 96.298 2134 53 4 246 2363 669703273 669701150 0.000000e+00 3480.0
2 TraesCS1B01G452800 chr1B 89.832 1013 86 7 392 1388 670401213 670402224 0.000000e+00 1284.0
3 TraesCS1B01G452800 chr1B 83.401 247 31 8 246 482 669331496 669331250 1.100000e-53 220.0
4 TraesCS1B01G452800 chr1D 89.014 1593 124 23 246 1797 481326671 481325089 0.000000e+00 1925.0
5 TraesCS1B01G452800 chr1D 89.551 1158 100 9 251 1388 481718183 481719339 0.000000e+00 1448.0
6 TraesCS1B01G452800 chr1D 77.178 1148 211 34 246 1355 481011562 481012696 2.580000e-174 621.0
7 TraesCS1B01G452800 chr1D 95.492 244 11 0 2 245 368388303 368388546 7.920000e-105 390.0
8 TraesCS1B01G452800 chr1A 90.915 1442 94 11 246 1669 577720051 577718629 0.000000e+00 1903.0
9 TraesCS1B01G452800 chr1A 89.369 1157 102 8 246 1382 578544939 578546094 0.000000e+00 1435.0
10 TraesCS1B01G452800 chr1A 77.083 1152 211 37 246 1355 577538914 577537774 1.200000e-172 616.0
11 TraesCS1B01G452800 chr2D 84.768 1162 148 20 246 1383 27970619 27969463 0.000000e+00 1138.0
12 TraesCS1B01G452800 chr2D 84.576 1167 143 24 246 1383 28969366 28970524 0.000000e+00 1123.0
13 TraesCS1B01G452800 chr2D 93.436 259 14 3 1 259 636326584 636326329 4.770000e-102 381.0
14 TraesCS1B01G452800 chr2D 89.091 55 4 2 1815 1868 592631038 592630985 1.520000e-07 67.6
15 TraesCS1B01G452800 chr2A 85.271 1127 140 14 246 1348 30869199 30870323 0.000000e+00 1138.0
16 TraesCS1B01G452800 chr3D 95.902 244 10 0 2 245 1829169 1828926 1.700000e-106 396.0
17 TraesCS1B01G452800 chr3D 95.510 245 11 0 1 245 465598677 465598921 2.200000e-105 392.0
18 TraesCS1B01G452800 chr3D 95.492 244 11 0 2 245 91461829 91462072 7.920000e-105 390.0
19 TraesCS1B01G452800 chr3D 91.837 49 4 0 1813 1861 499945148 499945100 4.210000e-08 69.4
20 TraesCS1B01G452800 chrUn 95.510 245 10 1 1 245 269256534 269256777 7.920000e-105 390.0
21 TraesCS1B01G452800 chrUn 95.510 245 10 1 1 245 269264968 269265211 7.920000e-105 390.0
22 TraesCS1B01G452800 chrUn 95.510 245 10 1 1 245 308556783 308557026 7.920000e-105 390.0
23 TraesCS1B01G452800 chrUn 84.932 73 10 1 1790 1861 30123122 30123194 3.260000e-09 73.1
24 TraesCS1B01G452800 chr5B 94.694 245 13 0 1 245 499575862 499576106 4.770000e-102 381.0
25 TraesCS1B01G452800 chr5A 78.986 414 47 17 646 1044 396488465 396488853 1.810000e-61 246.0
26 TraesCS1B01G452800 chr5A 80.928 194 26 6 744 936 9336269 9336452 2.450000e-30 143.0
27 TraesCS1B01G452800 chr5A 87.143 70 8 1 1793 1861 447544502 447544571 7.000000e-11 78.7
28 TraesCS1B01G452800 chr5A 93.750 48 3 0 1813 1860 678270083 678270130 3.260000e-09 73.1
29 TraesCS1B01G452800 chr5D 95.745 47 2 0 1813 1859 494775484 494775530 2.520000e-10 76.8
30 TraesCS1B01G452800 chr3A 94.000 50 2 1 1813 1861 7457455 7457504 9.060000e-10 75.0
31 TraesCS1B01G452800 chr3A 94.000 50 2 1 1813 1861 7464000 7464049 9.060000e-10 75.0


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 TraesCS1B01G452800 chr1B 669460869 669463231 2362 True 4364 4364 100.000 1 2363 1 chr1B.!!$R2 2362
1 TraesCS1B01G452800 chr1B 669701150 669703273 2123 True 3480 3480 96.298 246 2363 1 chr1B.!!$R3 2117
2 TraesCS1B01G452800 chr1B 670401213 670402224 1011 False 1284 1284 89.832 392 1388 1 chr1B.!!$F1 996
3 TraesCS1B01G452800 chr1D 481325089 481326671 1582 True 1925 1925 89.014 246 1797 1 chr1D.!!$R1 1551
4 TraesCS1B01G452800 chr1D 481718183 481719339 1156 False 1448 1448 89.551 251 1388 1 chr1D.!!$F3 1137
5 TraesCS1B01G452800 chr1D 481011562 481012696 1134 False 621 621 77.178 246 1355 1 chr1D.!!$F2 1109
6 TraesCS1B01G452800 chr1A 577718629 577720051 1422 True 1903 1903 90.915 246 1669 1 chr1A.!!$R2 1423
7 TraesCS1B01G452800 chr1A 578544939 578546094 1155 False 1435 1435 89.369 246 1382 1 chr1A.!!$F1 1136
8 TraesCS1B01G452800 chr1A 577537774 577538914 1140 True 616 616 77.083 246 1355 1 chr1A.!!$R1 1109
9 TraesCS1B01G452800 chr2D 27969463 27970619 1156 True 1138 1138 84.768 246 1383 1 chr2D.!!$R1 1137
10 TraesCS1B01G452800 chr2D 28969366 28970524 1158 False 1123 1123 84.576 246 1383 1 chr2D.!!$F1 1137
11 TraesCS1B01G452800 chr2A 30869199 30870323 1124 False 1138 1138 85.271 246 1348 1 chr2A.!!$F1 1102

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
160 161 0.246635 CGGACACGGGATGAAGTCTT 59.753 55.0 0.0 0.0 36.18 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2107 2193 1.175983 TGTTCGGCCAATGGTTGTCC 61.176 55.0 2.24 0.0 0.0 4.02 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
29 30 2.149973 TCCTACGGACTAAACCCTCC 57.850 55.000 0.00 0.00 0.00 4.30
45 46 5.541953 ACCCTCCGGTTTATATAGACAAC 57.458 43.478 0.00 0.00 40.58 3.32
46 47 4.038402 ACCCTCCGGTTTATATAGACAACG 59.962 45.833 0.00 1.46 40.58 4.10
47 48 4.553323 CCTCCGGTTTATATAGACAACGG 58.447 47.826 3.57 3.57 41.28 4.44
48 49 4.279169 CCTCCGGTTTATATAGACAACGGA 59.721 45.833 11.87 11.87 45.73 4.69
49 50 5.443185 TCCGGTTTATATAGACAACGGAG 57.557 43.478 8.57 4.06 43.43 4.63
50 51 4.279169 TCCGGTTTATATAGACAACGGAGG 59.721 45.833 8.57 7.81 43.43 4.30
51 52 4.553323 CGGTTTATATAGACAACGGAGGG 58.447 47.826 5.83 0.00 0.00 4.30
52 53 4.560108 CGGTTTATATAGACAACGGAGGGG 60.560 50.000 5.83 0.00 0.00 4.79
53 54 4.262765 GGTTTATATAGACAACGGAGGGGG 60.263 50.000 5.83 0.00 0.00 5.40
54 55 1.349067 ATATAGACAACGGAGGGGGC 58.651 55.000 0.00 0.00 0.00 5.80
55 56 0.263765 TATAGACAACGGAGGGGGCT 59.736 55.000 0.00 0.00 0.00 5.19
56 57 0.263765 ATAGACAACGGAGGGGGCTA 59.736 55.000 0.00 0.00 30.28 3.93
57 58 0.396695 TAGACAACGGAGGGGGCTAG 60.397 60.000 0.00 0.00 0.00 3.42
58 59 2.687566 ACAACGGAGGGGGCTAGG 60.688 66.667 0.00 0.00 0.00 3.02
59 60 3.480133 CAACGGAGGGGGCTAGGG 61.480 72.222 0.00 0.00 0.00 3.53
60 61 4.020878 AACGGAGGGGGCTAGGGT 62.021 66.667 0.00 0.00 0.00 4.34
61 62 3.574395 AACGGAGGGGGCTAGGGTT 62.574 63.158 0.00 0.00 0.00 4.11
62 63 2.185533 AACGGAGGGGGCTAGGGTTA 62.186 60.000 0.00 0.00 0.00 2.85
63 64 2.138831 CGGAGGGGGCTAGGGTTAC 61.139 68.421 0.00 0.00 0.00 2.50
64 65 1.003835 GGAGGGGGCTAGGGTTACA 59.996 63.158 0.00 0.00 0.00 2.41
65 66 1.343431 GGAGGGGGCTAGGGTTACAC 61.343 65.000 0.00 0.00 0.00 2.90
66 67 0.619543 GAGGGGGCTAGGGTTACACA 60.620 60.000 0.00 0.00 0.00 3.72
67 68 0.620700 AGGGGGCTAGGGTTACACAG 60.621 60.000 0.00 0.00 0.00 3.66
68 69 0.619543 GGGGGCTAGGGTTACACAGA 60.620 60.000 0.00 0.00 0.00 3.41
69 70 0.831307 GGGGCTAGGGTTACACAGAG 59.169 60.000 0.00 0.00 0.00 3.35
70 71 1.569653 GGGCTAGGGTTACACAGAGT 58.430 55.000 0.00 0.00 0.00 3.24
71 72 1.481363 GGGCTAGGGTTACACAGAGTC 59.519 57.143 0.00 0.00 0.00 3.36
72 73 1.134560 GGCTAGGGTTACACAGAGTCG 59.865 57.143 0.00 0.00 0.00 4.18
73 74 1.134560 GCTAGGGTTACACAGAGTCGG 59.865 57.143 0.00 0.00 0.00 4.79
74 75 2.444421 CTAGGGTTACACAGAGTCGGT 58.556 52.381 0.00 0.00 0.00 4.69
75 76 1.254954 AGGGTTACACAGAGTCGGTC 58.745 55.000 0.00 0.00 0.00 4.79
76 77 0.963962 GGGTTACACAGAGTCGGTCA 59.036 55.000 0.00 0.00 0.00 4.02
77 78 1.336609 GGGTTACACAGAGTCGGTCAC 60.337 57.143 0.00 0.00 0.00 3.67
78 79 1.338973 GGTTACACAGAGTCGGTCACA 59.661 52.381 0.00 0.00 0.00 3.58
79 80 2.607282 GGTTACACAGAGTCGGTCACAG 60.607 54.545 0.00 0.00 0.00 3.66
80 81 2.265589 TACACAGAGTCGGTCACAGA 57.734 50.000 0.00 0.00 0.00 3.41
81 82 0.955178 ACACAGAGTCGGTCACAGAG 59.045 55.000 0.00 0.00 0.00 3.35
82 83 1.239347 CACAGAGTCGGTCACAGAGA 58.761 55.000 0.00 0.00 0.00 3.10
83 84 1.609072 CACAGAGTCGGTCACAGAGAA 59.391 52.381 0.00 0.00 0.00 2.87
84 85 1.883275 ACAGAGTCGGTCACAGAGAAG 59.117 52.381 0.00 0.00 0.00 2.85
85 86 1.201181 CAGAGTCGGTCACAGAGAAGG 59.799 57.143 0.00 0.00 0.00 3.46
86 87 1.074084 AGAGTCGGTCACAGAGAAGGA 59.926 52.381 0.00 0.00 0.00 3.36
87 88 1.470890 GAGTCGGTCACAGAGAAGGAG 59.529 57.143 0.00 0.00 0.00 3.69
88 89 1.074084 AGTCGGTCACAGAGAAGGAGA 59.926 52.381 0.00 0.00 0.00 3.71
89 90 2.096248 GTCGGTCACAGAGAAGGAGAT 58.904 52.381 0.00 0.00 0.00 2.75
90 91 2.098443 GTCGGTCACAGAGAAGGAGATC 59.902 54.545 0.00 0.00 0.00 2.75
91 92 2.025793 TCGGTCACAGAGAAGGAGATCT 60.026 50.000 0.00 0.00 0.00 2.75
92 93 3.200165 TCGGTCACAGAGAAGGAGATCTA 59.800 47.826 0.00 0.00 0.00 1.98
93 94 3.314080 CGGTCACAGAGAAGGAGATCTAC 59.686 52.174 0.00 0.00 0.00 2.59
94 95 4.274147 GGTCACAGAGAAGGAGATCTACA 58.726 47.826 7.93 0.00 0.00 2.74
95 96 4.892934 GGTCACAGAGAAGGAGATCTACAT 59.107 45.833 7.93 0.00 0.00 2.29
96 97 6.065374 GGTCACAGAGAAGGAGATCTACATA 58.935 44.000 7.93 0.00 0.00 2.29
97 98 6.719370 GGTCACAGAGAAGGAGATCTACATAT 59.281 42.308 7.93 0.00 0.00 1.78
98 99 7.094377 GGTCACAGAGAAGGAGATCTACATATC 60.094 44.444 7.93 1.67 0.00 1.63
99 100 6.945435 TCACAGAGAAGGAGATCTACATATCC 59.055 42.308 7.93 0.00 40.35 2.59
100 101 5.943416 ACAGAGAAGGAGATCTACATATCCG 59.057 44.000 7.93 0.00 44.22 4.18
101 102 4.947388 AGAGAAGGAGATCTACATATCCGC 59.053 45.833 7.93 0.00 44.22 5.54
102 103 4.667573 AGAAGGAGATCTACATATCCGCA 58.332 43.478 7.93 0.00 44.22 5.69
103 104 5.268387 AGAAGGAGATCTACATATCCGCAT 58.732 41.667 7.93 0.00 44.22 4.73
104 105 5.359576 AGAAGGAGATCTACATATCCGCATC 59.640 44.000 7.93 0.68 44.22 3.91
105 106 3.629855 AGGAGATCTACATATCCGCATCG 59.370 47.826 7.93 0.00 44.22 3.84
106 107 3.367607 GAGATCTACATATCCGCATCGC 58.632 50.000 0.00 0.00 0.00 4.58
107 108 2.099921 AGATCTACATATCCGCATCGCC 59.900 50.000 0.00 0.00 0.00 5.54
108 109 1.253100 TCTACATATCCGCATCGCCA 58.747 50.000 0.00 0.00 0.00 5.69
109 110 1.616374 TCTACATATCCGCATCGCCAA 59.384 47.619 0.00 0.00 0.00 4.52
110 111 1.995484 CTACATATCCGCATCGCCAAG 59.005 52.381 0.00 0.00 0.00 3.61
111 112 1.230635 ACATATCCGCATCGCCAAGC 61.231 55.000 0.00 0.00 0.00 4.01
112 113 0.952497 CATATCCGCATCGCCAAGCT 60.952 55.000 0.00 0.00 0.00 3.74
113 114 0.250467 ATATCCGCATCGCCAAGCTT 60.250 50.000 0.00 0.00 0.00 3.74
114 115 1.159713 TATCCGCATCGCCAAGCTTG 61.160 55.000 19.93 19.93 0.00 4.01
115 116 4.842091 CCGCATCGCCAAGCTTGC 62.842 66.667 21.43 14.85 33.92 4.01
116 117 4.842091 CGCATCGCCAAGCTTGCC 62.842 66.667 21.43 9.45 33.78 4.52
117 118 3.446570 GCATCGCCAAGCTTGCCT 61.447 61.111 21.43 1.83 32.08 4.75
118 119 2.998279 GCATCGCCAAGCTTGCCTT 61.998 57.895 21.43 2.37 32.08 4.35
119 120 1.138247 CATCGCCAAGCTTGCCTTC 59.862 57.895 21.43 8.32 0.00 3.46
120 121 2.048603 ATCGCCAAGCTTGCCTTCC 61.049 57.895 21.43 5.26 0.00 3.46
121 122 2.769652 ATCGCCAAGCTTGCCTTCCA 62.770 55.000 21.43 1.33 0.00 3.53
122 123 2.653115 GCCAAGCTTGCCTTCCAC 59.347 61.111 21.43 0.12 0.00 4.02
123 124 2.956987 CCAAGCTTGCCTTCCACG 59.043 61.111 21.43 0.62 0.00 4.94
124 125 2.256461 CAAGCTTGCCTTCCACGC 59.744 61.111 14.65 0.00 38.87 5.34
126 127 3.068881 AGCTTGCCTTCCACGCTA 58.931 55.556 0.00 0.00 46.01 4.26
127 128 1.078848 AGCTTGCCTTCCACGCTAG 60.079 57.895 0.00 0.00 46.01 3.42
128 129 2.109126 GCTTGCCTTCCACGCTAGG 61.109 63.158 0.00 0.00 35.94 3.02
129 130 1.450312 CTTGCCTTCCACGCTAGGG 60.450 63.158 5.05 5.05 31.95 3.53
130 131 1.899437 CTTGCCTTCCACGCTAGGGA 61.899 60.000 14.59 0.00 31.95 4.20
131 132 1.899437 TTGCCTTCCACGCTAGGGAG 61.899 60.000 14.59 5.44 35.46 4.30
132 133 2.058595 GCCTTCCACGCTAGGGAGA 61.059 63.158 14.59 6.98 36.25 3.71
133 134 2.022240 GCCTTCCACGCTAGGGAGAG 62.022 65.000 14.59 5.36 36.25 3.20
134 135 0.684805 CCTTCCACGCTAGGGAGAGT 60.685 60.000 14.59 0.00 36.25 3.24
135 136 0.741915 CTTCCACGCTAGGGAGAGTC 59.258 60.000 14.59 0.00 36.25 3.36
136 137 0.683504 TTCCACGCTAGGGAGAGTCC 60.684 60.000 14.59 0.00 32.77 3.85
158 159 4.496670 CGGACACGGGATGAAGTC 57.503 61.111 0.00 0.00 36.18 3.01
159 160 1.890894 CGGACACGGGATGAAGTCT 59.109 57.895 0.00 0.00 36.18 3.24
160 161 0.246635 CGGACACGGGATGAAGTCTT 59.753 55.000 0.00 0.00 36.18 3.01
161 162 1.736032 CGGACACGGGATGAAGTCTTC 60.736 57.143 5.58 5.58 36.18 2.87
162 163 1.275291 GGACACGGGATGAAGTCTTCA 59.725 52.381 17.46 17.46 45.01 3.02
163 164 2.611518 GACACGGGATGAAGTCTTCAG 58.388 52.381 19.64 9.27 43.98 3.02
164 165 1.971357 ACACGGGATGAAGTCTTCAGT 59.029 47.619 19.64 9.87 43.98 3.41
165 166 2.028930 ACACGGGATGAAGTCTTCAGTC 60.029 50.000 19.64 15.64 43.98 3.51
166 167 2.232452 CACGGGATGAAGTCTTCAGTCT 59.768 50.000 19.64 4.26 43.98 3.24
167 168 2.900546 ACGGGATGAAGTCTTCAGTCTT 59.099 45.455 19.64 3.90 43.98 3.01
168 169 3.257393 CGGGATGAAGTCTTCAGTCTTG 58.743 50.000 19.64 5.97 43.98 3.02
169 170 3.306364 CGGGATGAAGTCTTCAGTCTTGT 60.306 47.826 19.64 2.81 43.98 3.16
170 171 4.082190 CGGGATGAAGTCTTCAGTCTTGTA 60.082 45.833 19.64 0.00 43.98 2.41
171 172 5.394663 CGGGATGAAGTCTTCAGTCTTGTAT 60.395 44.000 19.64 1.38 43.98 2.29
172 173 6.045955 GGGATGAAGTCTTCAGTCTTGTATC 58.954 44.000 19.64 9.98 43.98 2.24
173 174 6.127196 GGGATGAAGTCTTCAGTCTTGTATCT 60.127 42.308 19.64 0.00 43.98 1.98
174 175 7.327214 GGATGAAGTCTTCAGTCTTGTATCTT 58.673 38.462 19.64 0.00 43.98 2.40
175 176 7.491048 GGATGAAGTCTTCAGTCTTGTATCTTC 59.509 40.741 19.64 8.27 43.98 2.87
176 177 7.290110 TGAAGTCTTCAGTCTTGTATCTTCA 57.710 36.000 11.36 0.00 37.17 3.02
177 178 7.901029 TGAAGTCTTCAGTCTTGTATCTTCAT 58.099 34.615 11.36 0.00 35.47 2.57
178 179 9.025041 TGAAGTCTTCAGTCTTGTATCTTCATA 57.975 33.333 11.36 0.00 35.47 2.15
179 180 9.515020 GAAGTCTTCAGTCTTGTATCTTCATAG 57.485 37.037 7.76 0.00 32.10 2.23
180 181 8.588290 AGTCTTCAGTCTTGTATCTTCATAGT 57.412 34.615 0.00 0.00 0.00 2.12
181 182 8.465999 AGTCTTCAGTCTTGTATCTTCATAGTG 58.534 37.037 0.00 0.00 0.00 2.74
182 183 7.221838 GTCTTCAGTCTTGTATCTTCATAGTGC 59.778 40.741 0.00 0.00 0.00 4.40
183 184 6.530019 TCAGTCTTGTATCTTCATAGTGCA 57.470 37.500 0.00 0.00 0.00 4.57
184 185 6.935167 TCAGTCTTGTATCTTCATAGTGCAA 58.065 36.000 0.00 0.00 0.00 4.08
185 186 6.813649 TCAGTCTTGTATCTTCATAGTGCAAC 59.186 38.462 0.00 0.00 0.00 4.17
186 187 6.591448 CAGTCTTGTATCTTCATAGTGCAACA 59.409 38.462 0.00 0.00 41.43 3.33
187 188 6.815641 AGTCTTGTATCTTCATAGTGCAACAG 59.184 38.462 0.00 0.00 41.43 3.16
188 189 6.591834 GTCTTGTATCTTCATAGTGCAACAGT 59.408 38.462 0.00 0.00 41.43 3.55
189 190 6.813649 TCTTGTATCTTCATAGTGCAACAGTC 59.186 38.462 0.00 0.00 41.43 3.51
190 191 5.419542 TGTATCTTCATAGTGCAACAGTCC 58.580 41.667 0.00 0.00 41.43 3.85
191 192 2.959516 TCTTCATAGTGCAACAGTCCG 58.040 47.619 0.00 0.00 41.43 4.79
192 193 2.002586 CTTCATAGTGCAACAGTCCGG 58.997 52.381 0.00 0.00 41.43 5.14
193 194 0.391130 TCATAGTGCAACAGTCCGGC 60.391 55.000 0.00 0.00 41.43 6.13
194 195 1.078426 ATAGTGCAACAGTCCGGCC 60.078 57.895 0.00 0.00 41.43 6.13
195 196 1.836999 ATAGTGCAACAGTCCGGCCA 61.837 55.000 2.24 0.00 41.43 5.36
196 197 2.046009 TAGTGCAACAGTCCGGCCAA 62.046 55.000 2.24 0.00 41.43 4.52
197 198 2.124109 TGCAACAGTCCGGCCAAA 60.124 55.556 2.24 0.00 0.00 3.28
198 199 2.192861 TGCAACAGTCCGGCCAAAG 61.193 57.895 2.24 0.00 0.00 2.77
199 200 2.193536 GCAACAGTCCGGCCAAAGT 61.194 57.895 2.24 0.00 0.00 2.66
200 201 0.887387 GCAACAGTCCGGCCAAAGTA 60.887 55.000 2.24 0.00 0.00 2.24
201 202 1.821216 CAACAGTCCGGCCAAAGTAT 58.179 50.000 2.24 0.00 0.00 2.12
202 203 2.937873 GCAACAGTCCGGCCAAAGTATA 60.938 50.000 2.24 0.00 0.00 1.47
203 204 3.541632 CAACAGTCCGGCCAAAGTATAT 58.458 45.455 2.24 0.00 0.00 0.86
204 205 4.699637 CAACAGTCCGGCCAAAGTATATA 58.300 43.478 2.24 0.00 0.00 0.86
205 206 4.602340 ACAGTCCGGCCAAAGTATATAG 57.398 45.455 2.24 0.00 0.00 1.31
206 207 3.965347 ACAGTCCGGCCAAAGTATATAGT 59.035 43.478 2.24 0.00 0.00 2.12
207 208 4.038883 ACAGTCCGGCCAAAGTATATAGTC 59.961 45.833 2.24 0.00 0.00 2.59
208 209 3.577415 AGTCCGGCCAAAGTATATAGTCC 59.423 47.826 2.24 0.00 0.00 3.85
209 210 2.559668 TCCGGCCAAAGTATATAGTCCG 59.440 50.000 2.24 7.97 35.80 4.79
210 211 2.955614 CGGCCAAAGTATATAGTCCGG 58.044 52.381 2.24 0.00 32.75 5.14
211 212 2.696506 GGCCAAAGTATATAGTCCGGC 58.303 52.381 16.68 16.68 37.57 6.13
212 213 2.302157 GGCCAAAGTATATAGTCCGGCT 59.698 50.000 21.14 0.00 38.37 5.52
213 214 3.326747 GCCAAAGTATATAGTCCGGCTG 58.673 50.000 17.30 0.00 35.39 4.85
214 215 3.244112 GCCAAAGTATATAGTCCGGCTGT 60.244 47.826 17.30 0.00 35.39 4.40
215 216 4.557205 CCAAAGTATATAGTCCGGCTGTC 58.443 47.826 0.00 0.00 0.00 3.51
216 217 4.557205 CAAAGTATATAGTCCGGCTGTCC 58.443 47.826 0.00 0.00 0.00 4.02
217 218 3.520691 AGTATATAGTCCGGCTGTCCA 57.479 47.619 0.00 0.00 0.00 4.02
218 219 3.840991 AGTATATAGTCCGGCTGTCCAA 58.159 45.455 0.00 0.00 0.00 3.53
219 220 3.827302 AGTATATAGTCCGGCTGTCCAAG 59.173 47.826 0.00 0.00 0.00 3.61
220 221 1.410004 TATAGTCCGGCTGTCCAAGG 58.590 55.000 0.00 0.00 0.00 3.61
221 222 0.325296 ATAGTCCGGCTGTCCAAGGA 60.325 55.000 0.00 0.00 0.00 3.36
222 223 2.047179 GTCCGGCTGTCCAAGGAC 60.047 66.667 12.30 12.30 45.07 3.85
223 224 3.319198 TCCGGCTGTCCAAGGACC 61.319 66.667 16.18 2.15 43.97 4.46
224 225 4.410400 CCGGCTGTCCAAGGACCC 62.410 72.222 16.18 10.09 43.97 4.46
225 226 4.410400 CGGCTGTCCAAGGACCCC 62.410 72.222 16.18 14.49 43.97 4.95
226 227 4.048470 GGCTGTCCAAGGACCCCC 62.048 72.222 16.18 12.10 43.97 5.40
228 229 1.615424 GCTGTCCAAGGACCCCCTA 60.615 63.158 16.18 0.00 43.48 3.53
229 230 1.205460 GCTGTCCAAGGACCCCCTAA 61.205 60.000 16.18 0.00 43.48 2.69
230 231 1.596496 CTGTCCAAGGACCCCCTAAT 58.404 55.000 16.18 0.00 43.48 1.73
231 232 1.490910 CTGTCCAAGGACCCCCTAATC 59.509 57.143 16.18 0.00 43.48 1.75
232 233 0.844660 GTCCAAGGACCCCCTAATCC 59.155 60.000 8.06 0.00 43.48 3.01
233 234 0.423956 TCCAAGGACCCCCTAATCCA 59.576 55.000 0.00 0.00 43.48 3.41
234 235 0.846693 CCAAGGACCCCCTAATCCAG 59.153 60.000 0.00 0.00 43.48 3.86
235 236 0.846693 CAAGGACCCCCTAATCCAGG 59.153 60.000 0.00 0.00 43.48 4.45
255 256 2.036731 TCCCTCACCGGTCGACAT 59.963 61.111 18.91 0.00 0.00 3.06
259 260 3.295304 CTCACCGGTCGACATGCCA 62.295 63.158 18.91 0.00 0.00 4.92
366 383 4.537433 GCCTCGCTCTCCCGCAAT 62.537 66.667 0.00 0.00 0.00 3.56
373 390 1.907739 CTCTCCCGCAATCCCTTCA 59.092 57.895 0.00 0.00 0.00 3.02
375 392 0.909610 TCTCCCGCAATCCCTTCACT 60.910 55.000 0.00 0.00 0.00 3.41
413 430 1.603236 CTGCTCTTCCTCGACAGCCT 61.603 60.000 0.00 0.00 0.00 4.58
560 577 2.348888 GCCCGTTCTTCCTCTCCGA 61.349 63.158 0.00 0.00 0.00 4.55
623 640 1.674322 CCTTTGCCGTGAACCCGAT 60.674 57.895 0.00 0.00 0.00 4.18
1550 1627 0.972883 GGAGCCAACAGAGTCAGTCT 59.027 55.000 0.00 0.00 35.00 3.24
1552 1629 0.600557 AGCCAACAGAGTCAGTCTCG 59.399 55.000 0.00 0.00 46.86 4.04
1553 1630 0.315568 GCCAACAGAGTCAGTCTCGT 59.684 55.000 0.00 0.00 46.86 4.18
1554 1631 1.269831 GCCAACAGAGTCAGTCTCGTT 60.270 52.381 0.00 0.00 46.86 3.85
1555 1632 2.030185 GCCAACAGAGTCAGTCTCGTTA 60.030 50.000 0.00 0.00 46.86 3.18
1556 1633 3.552273 GCCAACAGAGTCAGTCTCGTTAA 60.552 47.826 0.00 0.00 46.86 2.01
1557 1634 4.810790 CCAACAGAGTCAGTCTCGTTAAT 58.189 43.478 0.00 0.00 46.86 1.40
1558 1635 4.623167 CCAACAGAGTCAGTCTCGTTAATG 59.377 45.833 0.00 0.00 46.86 1.90
1871 1957 2.159268 GGGAGTACTAAAGTGTCGGCTC 60.159 54.545 0.00 0.00 0.00 4.70
1984 2070 1.077429 GATCTTGCCCACCCTCCAC 60.077 63.158 0.00 0.00 0.00 4.02
2107 2193 0.603707 ACTGGTGACATTGCACGGAG 60.604 55.000 0.00 0.00 41.51 4.63
2114 2200 0.889186 ACATTGCACGGAGGACAACC 60.889 55.000 0.00 0.00 0.00 3.77
2244 2330 2.852495 ATTCTTGGATGCGTCGCCGT 62.852 55.000 15.88 2.95 36.15 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 5.443185 TCCGTTGTCTATATAAACCGGAG 57.557 43.478 9.46 0.00 0.00 4.63
27 28 4.279169 CCTCCGTTGTCTATATAAACCGGA 59.721 45.833 9.46 6.47 0.00 5.14
28 29 4.553323 CCTCCGTTGTCTATATAAACCGG 58.447 47.826 0.00 0.00 0.00 5.28
29 30 4.553323 CCCTCCGTTGTCTATATAAACCG 58.447 47.826 0.00 0.00 0.00 4.44
30 31 4.262765 CCCCCTCCGTTGTCTATATAAACC 60.263 50.000 0.00 0.00 0.00 3.27
31 32 4.801914 GCCCCCTCCGTTGTCTATATAAAC 60.802 50.000 0.00 0.00 0.00 2.01
32 33 3.325716 GCCCCCTCCGTTGTCTATATAAA 59.674 47.826 0.00 0.00 0.00 1.40
33 34 2.901839 GCCCCCTCCGTTGTCTATATAA 59.098 50.000 0.00 0.00 0.00 0.98
34 35 2.111255 AGCCCCCTCCGTTGTCTATATA 59.889 50.000 0.00 0.00 0.00 0.86
35 36 1.132817 AGCCCCCTCCGTTGTCTATAT 60.133 52.381 0.00 0.00 0.00 0.86
36 37 0.263765 AGCCCCCTCCGTTGTCTATA 59.736 55.000 0.00 0.00 0.00 1.31
37 38 0.263765 TAGCCCCCTCCGTTGTCTAT 59.736 55.000 0.00 0.00 0.00 1.98
38 39 0.396695 CTAGCCCCCTCCGTTGTCTA 60.397 60.000 0.00 0.00 0.00 2.59
39 40 1.686110 CTAGCCCCCTCCGTTGTCT 60.686 63.158 0.00 0.00 0.00 3.41
40 41 2.732619 CCTAGCCCCCTCCGTTGTC 61.733 68.421 0.00 0.00 0.00 3.18
41 42 2.687566 CCTAGCCCCCTCCGTTGT 60.688 66.667 0.00 0.00 0.00 3.32
42 43 3.480133 CCCTAGCCCCCTCCGTTG 61.480 72.222 0.00 0.00 0.00 4.10
43 44 2.185533 TAACCCTAGCCCCCTCCGTT 62.186 60.000 0.00 0.00 0.00 4.44
44 45 2.639690 TAACCCTAGCCCCCTCCGT 61.640 63.158 0.00 0.00 0.00 4.69
45 46 2.138831 GTAACCCTAGCCCCCTCCG 61.139 68.421 0.00 0.00 0.00 4.63
46 47 1.003835 TGTAACCCTAGCCCCCTCC 59.996 63.158 0.00 0.00 0.00 4.30
47 48 0.619543 TGTGTAACCCTAGCCCCCTC 60.620 60.000 0.00 0.00 34.36 4.30
48 49 0.620700 CTGTGTAACCCTAGCCCCCT 60.621 60.000 0.00 0.00 34.36 4.79
49 50 0.619543 TCTGTGTAACCCTAGCCCCC 60.620 60.000 0.00 0.00 34.36 5.40
50 51 0.831307 CTCTGTGTAACCCTAGCCCC 59.169 60.000 0.00 0.00 34.36 5.80
51 52 1.481363 GACTCTGTGTAACCCTAGCCC 59.519 57.143 0.00 0.00 34.36 5.19
52 53 1.134560 CGACTCTGTGTAACCCTAGCC 59.865 57.143 0.00 0.00 34.36 3.93
53 54 1.134560 CCGACTCTGTGTAACCCTAGC 59.865 57.143 0.00 0.00 34.36 3.42
54 55 2.422832 GACCGACTCTGTGTAACCCTAG 59.577 54.545 0.00 0.00 34.36 3.02
55 56 2.224843 TGACCGACTCTGTGTAACCCTA 60.225 50.000 0.00 0.00 34.36 3.53
56 57 1.254954 GACCGACTCTGTGTAACCCT 58.745 55.000 0.00 0.00 34.36 4.34
57 58 0.963962 TGACCGACTCTGTGTAACCC 59.036 55.000 0.00 0.00 34.36 4.11
58 59 1.338973 TGTGACCGACTCTGTGTAACC 59.661 52.381 0.00 0.00 34.36 2.85
59 60 2.292569 TCTGTGACCGACTCTGTGTAAC 59.707 50.000 0.00 0.00 37.35 2.50
60 61 2.552743 CTCTGTGACCGACTCTGTGTAA 59.447 50.000 0.00 0.00 0.00 2.41
61 62 2.152016 CTCTGTGACCGACTCTGTGTA 58.848 52.381 0.00 0.00 0.00 2.90
62 63 0.955178 CTCTGTGACCGACTCTGTGT 59.045 55.000 0.00 0.00 0.00 3.72
63 64 1.239347 TCTCTGTGACCGACTCTGTG 58.761 55.000 0.00 0.00 0.00 3.66
64 65 1.883275 CTTCTCTGTGACCGACTCTGT 59.117 52.381 0.00 0.00 0.00 3.41
65 66 1.201181 CCTTCTCTGTGACCGACTCTG 59.799 57.143 0.00 0.00 0.00 3.35
66 67 1.074084 TCCTTCTCTGTGACCGACTCT 59.926 52.381 0.00 0.00 0.00 3.24
67 68 1.470890 CTCCTTCTCTGTGACCGACTC 59.529 57.143 0.00 0.00 0.00 3.36
68 69 1.074084 TCTCCTTCTCTGTGACCGACT 59.926 52.381 0.00 0.00 0.00 4.18
69 70 1.535833 TCTCCTTCTCTGTGACCGAC 58.464 55.000 0.00 0.00 0.00 4.79
70 71 2.025793 AGATCTCCTTCTCTGTGACCGA 60.026 50.000 0.00 0.00 0.00 4.69
71 72 2.374184 AGATCTCCTTCTCTGTGACCG 58.626 52.381 0.00 0.00 0.00 4.79
72 73 4.274147 TGTAGATCTCCTTCTCTGTGACC 58.726 47.826 0.00 0.00 0.00 4.02
73 74 7.094377 GGATATGTAGATCTCCTTCTCTGTGAC 60.094 44.444 0.00 0.00 0.00 3.67
74 75 6.945435 GGATATGTAGATCTCCTTCTCTGTGA 59.055 42.308 0.00 0.00 0.00 3.58
75 76 6.128035 CGGATATGTAGATCTCCTTCTCTGTG 60.128 46.154 0.00 0.00 0.00 3.66
76 77 5.943416 CGGATATGTAGATCTCCTTCTCTGT 59.057 44.000 0.00 0.00 0.00 3.41
77 78 5.163663 GCGGATATGTAGATCTCCTTCTCTG 60.164 48.000 0.00 0.00 0.00 3.35
78 79 4.947388 GCGGATATGTAGATCTCCTTCTCT 59.053 45.833 0.00 0.00 0.00 3.10
79 80 4.702612 TGCGGATATGTAGATCTCCTTCTC 59.297 45.833 0.00 0.00 0.00 2.87
80 81 4.667573 TGCGGATATGTAGATCTCCTTCT 58.332 43.478 0.00 0.00 0.00 2.85
81 82 5.587289 GATGCGGATATGTAGATCTCCTTC 58.413 45.833 0.00 0.00 0.00 3.46
82 83 4.097135 CGATGCGGATATGTAGATCTCCTT 59.903 45.833 0.00 0.00 0.00 3.36
83 84 3.629855 CGATGCGGATATGTAGATCTCCT 59.370 47.826 0.00 0.00 0.00 3.69
84 85 3.793801 GCGATGCGGATATGTAGATCTCC 60.794 52.174 0.00 0.00 0.00 3.71
85 86 3.367607 GCGATGCGGATATGTAGATCTC 58.632 50.000 0.00 0.00 0.00 2.75
86 87 2.099921 GGCGATGCGGATATGTAGATCT 59.900 50.000 0.00 0.00 0.00 2.75
87 88 2.159240 TGGCGATGCGGATATGTAGATC 60.159 50.000 0.00 0.00 0.00 2.75
88 89 1.824852 TGGCGATGCGGATATGTAGAT 59.175 47.619 0.00 0.00 0.00 1.98
89 90 1.253100 TGGCGATGCGGATATGTAGA 58.747 50.000 0.00 0.00 0.00 2.59
90 91 1.995484 CTTGGCGATGCGGATATGTAG 59.005 52.381 0.00 0.00 0.00 2.74
91 92 1.939381 GCTTGGCGATGCGGATATGTA 60.939 52.381 0.00 0.00 0.00 2.29
92 93 1.230635 GCTTGGCGATGCGGATATGT 61.231 55.000 0.00 0.00 0.00 2.29
93 94 0.952497 AGCTTGGCGATGCGGATATG 60.952 55.000 0.00 0.00 0.00 1.78
94 95 0.250467 AAGCTTGGCGATGCGGATAT 60.250 50.000 0.00 0.00 0.00 1.63
95 96 1.146041 AAGCTTGGCGATGCGGATA 59.854 52.632 0.00 0.00 0.00 2.59
96 97 2.124570 AAGCTTGGCGATGCGGAT 60.125 55.556 0.00 0.00 0.00 4.18
97 98 3.126879 CAAGCTTGGCGATGCGGA 61.127 61.111 19.14 0.00 0.00 5.54
98 99 4.842091 GCAAGCTTGGCGATGCGG 62.842 66.667 27.10 0.00 36.80 5.69
99 100 4.842091 GGCAAGCTTGGCGATGCG 62.842 66.667 33.68 4.49 43.40 4.73
106 107 2.956987 CGTGGAAGGCAAGCTTGG 59.043 61.111 27.10 9.80 0.00 3.61
115 116 0.684805 ACTCTCCCTAGCGTGGAAGG 60.685 60.000 0.00 0.00 0.00 3.46
116 117 0.741915 GACTCTCCCTAGCGTGGAAG 59.258 60.000 0.00 0.00 0.00 3.46
117 118 0.683504 GGACTCTCCCTAGCGTGGAA 60.684 60.000 0.00 0.00 0.00 3.53
118 119 1.076923 GGACTCTCCCTAGCGTGGA 60.077 63.158 0.00 0.00 0.00 4.02
119 120 3.527641 GGACTCTCCCTAGCGTGG 58.472 66.667 0.00 0.00 0.00 4.94
141 142 0.246635 AAGACTTCATCCCGTGTCCG 59.753 55.000 0.00 0.00 0.00 4.79
142 143 1.275291 TGAAGACTTCATCCCGTGTCC 59.725 52.381 13.99 0.00 34.08 4.02
143 144 2.028930 ACTGAAGACTTCATCCCGTGTC 60.029 50.000 18.04 0.00 39.30 3.67
144 145 1.971357 ACTGAAGACTTCATCCCGTGT 59.029 47.619 18.04 8.76 39.30 4.49
145 146 2.232452 AGACTGAAGACTTCATCCCGTG 59.768 50.000 18.04 8.15 39.30 4.94
146 147 2.530701 AGACTGAAGACTTCATCCCGT 58.469 47.619 18.04 12.25 39.30 5.28
147 148 3.257393 CAAGACTGAAGACTTCATCCCG 58.743 50.000 18.04 9.18 39.30 5.14
148 149 4.278975 ACAAGACTGAAGACTTCATCCC 57.721 45.455 18.04 10.15 39.30 3.85
149 150 6.872920 AGATACAAGACTGAAGACTTCATCC 58.127 40.000 18.04 12.40 39.30 3.51
150 151 8.031864 TGAAGATACAAGACTGAAGACTTCATC 58.968 37.037 18.04 16.00 39.30 2.92
151 152 7.901029 TGAAGATACAAGACTGAAGACTTCAT 58.099 34.615 18.04 8.77 39.30 2.57
152 153 7.290110 TGAAGATACAAGACTGAAGACTTCA 57.710 36.000 16.86 16.86 38.77 3.02
153 154 9.515020 CTATGAAGATACAAGACTGAAGACTTC 57.485 37.037 8.34 8.34 34.03 3.01
154 155 9.030452 ACTATGAAGATACAAGACTGAAGACTT 57.970 33.333 0.00 0.00 0.00 3.01
155 156 8.465999 CACTATGAAGATACAAGACTGAAGACT 58.534 37.037 0.00 0.00 0.00 3.24
156 157 7.221838 GCACTATGAAGATACAAGACTGAAGAC 59.778 40.741 0.00 0.00 0.00 3.01
157 158 7.093771 TGCACTATGAAGATACAAGACTGAAGA 60.094 37.037 0.00 0.00 0.00 2.87
158 159 7.038048 TGCACTATGAAGATACAAGACTGAAG 58.962 38.462 0.00 0.00 0.00 3.02
159 160 6.935167 TGCACTATGAAGATACAAGACTGAA 58.065 36.000 0.00 0.00 0.00 3.02
160 161 6.530019 TGCACTATGAAGATACAAGACTGA 57.470 37.500 0.00 0.00 0.00 3.41
161 162 6.591448 TGTTGCACTATGAAGATACAAGACTG 59.409 38.462 0.00 0.00 0.00 3.51
162 163 6.701340 TGTTGCACTATGAAGATACAAGACT 58.299 36.000 0.00 0.00 0.00 3.24
163 164 6.591834 ACTGTTGCACTATGAAGATACAAGAC 59.408 38.462 0.00 0.00 0.00 3.01
164 165 6.701340 ACTGTTGCACTATGAAGATACAAGA 58.299 36.000 0.00 0.00 0.00 3.02
165 166 6.036517 GGACTGTTGCACTATGAAGATACAAG 59.963 42.308 0.00 0.00 0.00 3.16
166 167 5.874810 GGACTGTTGCACTATGAAGATACAA 59.125 40.000 0.00 0.00 0.00 2.41
167 168 5.419542 GGACTGTTGCACTATGAAGATACA 58.580 41.667 0.00 0.00 0.00 2.29
168 169 4.504461 CGGACTGTTGCACTATGAAGATAC 59.496 45.833 0.00 0.00 0.00 2.24
169 170 4.441495 CCGGACTGTTGCACTATGAAGATA 60.441 45.833 0.00 0.00 0.00 1.98
170 171 3.525537 CGGACTGTTGCACTATGAAGAT 58.474 45.455 0.00 0.00 0.00 2.40
171 172 2.353704 CCGGACTGTTGCACTATGAAGA 60.354 50.000 0.00 0.00 0.00 2.87
172 173 2.002586 CCGGACTGTTGCACTATGAAG 58.997 52.381 0.00 0.00 0.00 3.02
173 174 1.943968 GCCGGACTGTTGCACTATGAA 60.944 52.381 5.05 0.00 0.00 2.57
174 175 0.391130 GCCGGACTGTTGCACTATGA 60.391 55.000 5.05 0.00 0.00 2.15
175 176 1.369091 GGCCGGACTGTTGCACTATG 61.369 60.000 5.05 0.00 0.00 2.23
176 177 1.078426 GGCCGGACTGTTGCACTAT 60.078 57.895 5.05 0.00 0.00 2.12
177 178 2.046009 TTGGCCGGACTGTTGCACTA 62.046 55.000 9.82 0.00 0.00 2.74
178 179 2.902423 TTTGGCCGGACTGTTGCACT 62.902 55.000 9.82 0.00 0.00 4.40
179 180 2.406452 CTTTGGCCGGACTGTTGCAC 62.406 60.000 9.82 0.00 0.00 4.57
180 181 2.124109 TTTGGCCGGACTGTTGCA 60.124 55.556 9.82 0.00 0.00 4.08
181 182 0.887387 TACTTTGGCCGGACTGTTGC 60.887 55.000 9.82 0.00 0.00 4.17
182 183 1.821216 ATACTTTGGCCGGACTGTTG 58.179 50.000 9.82 0.00 0.00 3.33
183 184 3.926058 ATATACTTTGGCCGGACTGTT 57.074 42.857 9.82 0.00 0.00 3.16
184 185 3.965347 ACTATATACTTTGGCCGGACTGT 59.035 43.478 9.82 7.70 0.00 3.55
185 186 4.557205 GACTATATACTTTGGCCGGACTG 58.443 47.826 9.82 0.54 0.00 3.51
186 187 3.577415 GGACTATATACTTTGGCCGGACT 59.423 47.826 9.82 0.00 0.00 3.85
187 188 3.613432 CGGACTATATACTTTGGCCGGAC 60.613 52.174 5.05 0.56 34.29 4.79
188 189 2.559668 CGGACTATATACTTTGGCCGGA 59.440 50.000 5.05 0.00 34.29 5.14
189 190 2.955614 CGGACTATATACTTTGGCCGG 58.044 52.381 6.17 0.00 34.29 6.13
190 191 2.929592 GCCGGACTATATACTTTGGCCG 60.930 54.545 5.05 6.96 35.24 6.13
191 192 2.302157 AGCCGGACTATATACTTTGGCC 59.698 50.000 5.05 0.00 42.14 5.36
192 193 3.244112 ACAGCCGGACTATATACTTTGGC 60.244 47.826 5.05 0.00 41.50 4.52
193 194 4.557205 GACAGCCGGACTATATACTTTGG 58.443 47.826 5.05 0.00 0.00 3.28
194 195 4.038763 TGGACAGCCGGACTATATACTTTG 59.961 45.833 5.05 0.00 36.79 2.77
195 196 4.220724 TGGACAGCCGGACTATATACTTT 58.779 43.478 5.05 0.00 36.79 2.66
196 197 3.840991 TGGACAGCCGGACTATATACTT 58.159 45.455 5.05 0.00 36.79 2.24
197 198 3.520691 TGGACAGCCGGACTATATACT 57.479 47.619 5.05 0.00 36.79 2.12
198 199 3.056749 CCTTGGACAGCCGGACTATATAC 60.057 52.174 5.05 0.00 36.79 1.47
199 200 3.162666 CCTTGGACAGCCGGACTATATA 58.837 50.000 5.05 0.00 36.79 0.86
200 201 1.971357 CCTTGGACAGCCGGACTATAT 59.029 52.381 5.05 0.00 36.79 0.86
201 202 1.063492 TCCTTGGACAGCCGGACTATA 60.063 52.381 5.05 0.00 36.79 1.31
202 203 0.325296 TCCTTGGACAGCCGGACTAT 60.325 55.000 5.05 0.00 36.79 2.12
203 204 1.077805 TCCTTGGACAGCCGGACTA 59.922 57.895 5.05 0.00 36.79 2.59
204 205 2.203788 TCCTTGGACAGCCGGACT 60.204 61.111 5.05 0.00 36.79 3.85
205 206 2.047179 GTCCTTGGACAGCCGGAC 60.047 66.667 5.05 0.00 37.48 4.79
206 207 3.319198 GGTCCTTGGACAGCCGGA 61.319 66.667 19.90 0.00 36.79 5.14
207 208 4.410400 GGGTCCTTGGACAGCCGG 62.410 72.222 19.90 0.00 36.79 6.13
208 209 4.410400 GGGGTCCTTGGACAGCCG 62.410 72.222 19.90 0.00 36.79 5.52
209 210 4.048470 GGGGGTCCTTGGACAGCC 62.048 72.222 19.90 12.91 0.00 4.85
210 211 1.205460 TTAGGGGGTCCTTGGACAGC 61.205 60.000 19.90 5.04 41.56 4.40
211 212 1.490910 GATTAGGGGGTCCTTGGACAG 59.509 57.143 19.90 0.00 41.56 3.51
212 213 1.591768 GATTAGGGGGTCCTTGGACA 58.408 55.000 19.90 0.40 41.56 4.02
213 214 0.844660 GGATTAGGGGGTCCTTGGAC 59.155 60.000 11.13 11.13 41.56 4.02
214 215 0.423956 TGGATTAGGGGGTCCTTGGA 59.576 55.000 0.00 0.00 41.56 3.53
215 216 0.846693 CTGGATTAGGGGGTCCTTGG 59.153 60.000 0.00 0.00 41.56 3.61
216 217 0.846693 CCTGGATTAGGGGGTCCTTG 59.153 60.000 0.00 0.00 41.56 3.61
217 218 3.359669 CCTGGATTAGGGGGTCCTT 57.640 57.895 0.00 0.00 41.56 3.36
225 226 2.043227 GTGAGGGAGTCCTGGATTAGG 58.957 57.143 9.58 0.00 45.05 2.69
226 227 2.043227 GGTGAGGGAGTCCTGGATTAG 58.957 57.143 9.58 0.00 45.05 1.73
227 228 1.688311 CGGTGAGGGAGTCCTGGATTA 60.688 57.143 9.58 0.00 45.05 1.75
228 229 0.978146 CGGTGAGGGAGTCCTGGATT 60.978 60.000 9.58 0.00 45.05 3.01
229 230 1.381872 CGGTGAGGGAGTCCTGGAT 60.382 63.158 9.58 0.00 45.05 3.41
230 231 2.037367 CGGTGAGGGAGTCCTGGA 59.963 66.667 9.58 0.00 45.05 3.86
231 232 3.077556 CCGGTGAGGGAGTCCTGG 61.078 72.222 9.58 0.00 45.05 4.45
232 233 2.283966 ACCGGTGAGGGAGTCCTG 60.284 66.667 6.12 0.00 45.05 3.86
234 235 3.450115 CGACCGGTGAGGGAGTCC 61.450 72.222 14.63 0.00 46.96 3.85
235 236 2.360852 TCGACCGGTGAGGGAGTC 60.361 66.667 14.63 0.00 46.96 3.36
236 237 2.675772 GTCGACCGGTGAGGGAGT 60.676 66.667 14.63 0.00 46.96 3.85
237 238 2.052690 ATGTCGACCGGTGAGGGAG 61.053 63.158 14.63 0.00 46.96 4.30
238 239 2.036731 ATGTCGACCGGTGAGGGA 59.963 61.111 14.63 0.00 46.96 4.20
239 240 2.184322 CATGTCGACCGGTGAGGG 59.816 66.667 14.63 0.00 46.96 4.30
241 242 2.509336 GGCATGTCGACCGGTGAG 60.509 66.667 14.63 5.97 0.00 3.51
242 243 3.307108 TGGCATGTCGACCGGTGA 61.307 61.111 14.63 7.32 0.00 4.02
243 244 3.118454 GTGGCATGTCGACCGGTG 61.118 66.667 14.63 10.46 0.00 4.94
244 245 3.311110 AGTGGCATGTCGACCGGT 61.311 61.111 6.92 6.92 0.00 5.28
259 260 2.926779 TGCAGCCAGAGGAGCAGT 60.927 61.111 0.00 0.00 32.12 4.40
366 383 1.072505 GCGGTTCCAAGTGAAGGGA 59.927 57.895 0.00 0.00 32.37 4.20
373 390 2.668550 GAAGCGGCGGTTCCAAGT 60.669 61.111 34.43 9.59 34.45 3.16
413 430 3.889134 CTGAAGCCAGTGCCGAGCA 62.889 63.158 0.00 0.00 38.69 4.26
449 466 2.043953 GGTTGGTGGGGATGAGGC 60.044 66.667 0.00 0.00 0.00 4.70
502 519 0.809385 CTGGCGTCGAAGAAGGACTA 59.191 55.000 1.37 0.00 39.69 2.59
560 577 0.683973 CTTCCCGGCATAGCTCTCAT 59.316 55.000 0.00 0.00 0.00 2.90
570 587 4.382320 GGCACGTACTTCCCGGCA 62.382 66.667 0.00 0.00 0.00 5.69
605 622 1.674322 ATCGGGTTCACGGCAAAGG 60.674 57.895 0.00 0.00 0.00 3.11
609 626 4.015406 AGCATCGGGTTCACGGCA 62.015 61.111 0.00 0.00 0.00 5.69
838 855 2.125229 CTGCAGCCAGTCGAGCAT 60.125 61.111 0.00 0.00 36.28 3.79
1550 1627 7.915923 TGTTTTAAAGCAATGTGTCATTAACGA 59.084 29.630 1.84 0.00 0.00 3.85
1555 1632 8.945057 AGTTTTGTTTTAAAGCAATGTGTCATT 58.055 25.926 16.80 0.00 0.00 2.57
1556 1633 8.389603 CAGTTTTGTTTTAAAGCAATGTGTCAT 58.610 29.630 16.80 0.00 0.00 3.06
1557 1634 7.600375 TCAGTTTTGTTTTAAAGCAATGTGTCA 59.400 29.630 16.80 0.13 0.00 3.58
1558 1635 7.958674 TCAGTTTTGTTTTAAAGCAATGTGTC 58.041 30.769 16.80 7.39 0.00 3.67
1829 1915 9.397280 ACTCCCTCTGTAAAGAAATATAAAAGC 57.603 33.333 0.00 0.00 0.00 3.51
1847 1933 3.354467 CCGACACTTTAGTACTCCCTCT 58.646 50.000 0.00 0.00 0.00 3.69
1871 1957 3.255888 TGCTCTACCATTATAGCGACCAG 59.744 47.826 0.00 0.00 37.80 4.00
1984 2070 2.732412 AACAGTGACTCCATGACTCG 57.268 50.000 0.00 0.00 0.00 4.18
2107 2193 1.175983 TGTTCGGCCAATGGTTGTCC 61.176 55.000 2.24 0.00 0.00 4.02
2114 2200 1.201414 GGTTTAGGTGTTCGGCCAATG 59.799 52.381 2.24 0.00 0.00 2.82
2244 2330 3.540617 CATTGTGTTATGACGGGGATGA 58.459 45.455 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.