Multiple sequence alignment - TraesCS5B01G278000

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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 TraesCS5B01G278000 chr5B 100.000 2270 0 0 1 2270 463946086 463943817 0.000000e+00 4193
1 TraesCS5B01G278000 chr5B 89.123 616 29 19 733 1340 463912641 463912056 0.000000e+00 732
2 TraesCS5B01G278000 chr5B 89.130 460 39 6 1787 2244 463918210 463917760 1.520000e-156 562
3 TraesCS5B01G278000 chr5B 89.474 437 39 3 1809 2244 463937376 463936946 1.530000e-151 545
4 TraesCS5B01G278000 chr5B 84.524 504 41 13 1755 2241 463911922 463911439 4.420000e-127 464
5 TraesCS5B01G278000 chr5D 94.726 1934 62 8 333 2249 386068063 386066153 0.000000e+00 2970
6 TraesCS5B01G278000 chr5D 92.893 605 33 2 722 1326 386036130 386035536 0.000000e+00 870
7 TraesCS5B01G278000 chr5D 83.801 963 67 34 1335 2244 386057733 386056807 0.000000e+00 832
8 TraesCS5B01G278000 chr5D 92.551 537 33 5 788 1321 386058317 386057785 0.000000e+00 763
9 TraesCS5B01G278000 chr5D 86.446 664 36 19 692 1326 385978847 385978209 0.000000e+00 678
10 TraesCS5B01G278000 chr5D 89.815 540 36 5 788 1316 386046292 386045761 0.000000e+00 675
11 TraesCS5B01G278000 chr5D 91.463 328 26 2 1917 2243 386035243 386034917 1.240000e-122 449
12 TraesCS5B01G278000 chr5D 93.309 269 13 5 1 266 14737131 14736865 2.110000e-105 392
13 TraesCS5B01G278000 chr5D 92.803 264 13 5 1 261 318011895 318011635 5.920000e-101 377
14 TraesCS5B01G278000 chr5D 96.250 80 2 1 259 338 386087304 386087226 1.830000e-26 130
15 TraesCS5B01G278000 chr5A 94.708 1644 52 11 627 2249 488009250 488007621 0.000000e+00 2521
16 TraesCS5B01G278000 chr5A 82.589 1522 127 65 788 2244 487985127 487983679 0.000000e+00 1216
17 TraesCS5B01G278000 chr5A 88.789 669 49 12 692 1336 487918974 487918308 0.000000e+00 797
18 TraesCS5B01G278000 chr5A 88.585 622 52 7 723 1336 487949249 487948639 0.000000e+00 737
19 TraesCS5B01G278000 chr5A 88.057 561 47 10 1693 2244 487940252 487939703 0.000000e+00 647
20 TraesCS5B01G278000 chr5A 85.133 639 48 22 702 1326 487941128 487940523 5.360000e-171 610
21 TraesCS5B01G278000 chr5A 85.714 462 44 10 1787 2243 487918171 487917727 3.410000e-128 468
22 TraesCS5B01G278000 chr5A 94.318 264 10 4 1 262 465288028 465288288 1.260000e-107 399
23 TraesCS5B01G278000 chr5A 84.123 359 34 11 259 617 488010254 488009919 2.170000e-85 326
24 TraesCS5B01G278000 chr5A 89.773 176 17 1 2069 2244 487924112 487923938 8.160000e-55 224
25 TraesCS5B01G278000 chr5A 87.963 108 7 2 722 823 487925190 487925083 3.060000e-24 122
26 TraesCS5B01G278000 chr2D 94.275 262 10 4 1 260 601173120 601173378 1.630000e-106 396
27 TraesCS5B01G278000 chr4D 95.547 247 9 2 1 245 360095639 360095393 5.880000e-106 394
28 TraesCS5B01G278000 chr4B 93.822 259 13 3 1 258 76563175 76563431 9.830000e-104 387
29 TraesCS5B01G278000 chr1D 93.130 262 14 4 1 259 464267872 464267612 4.580000e-102 381
30 TraesCS5B01G278000 chr6D 93.103 261 12 5 1 258 18424736 18424479 5.920000e-101 377
31 TraesCS5B01G278000 chr6B 93.077 260 14 4 1 259 691141568 691141824 5.920000e-101 377


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 TraesCS5B01G278000 chr5B 463943817 463946086 2269 True 4193.0 4193 100.0000 1 2270 1 chr5B.!!$R3 2269
1 TraesCS5B01G278000 chr5B 463911439 463912641 1202 True 598.0 732 86.8235 733 2241 2 chr5B.!!$R4 1508
2 TraesCS5B01G278000 chr5D 386066153 386068063 1910 True 2970.0 2970 94.7260 333 2249 1 chr5D.!!$R5 1916
3 TraesCS5B01G278000 chr5D 386056807 386058317 1510 True 797.5 832 88.1760 788 2244 2 chr5D.!!$R8 1456
4 TraesCS5B01G278000 chr5D 385978209 385978847 638 True 678.0 678 86.4460 692 1326 1 chr5D.!!$R3 634
5 TraesCS5B01G278000 chr5D 386045761 386046292 531 True 675.0 675 89.8150 788 1316 1 chr5D.!!$R4 528
6 TraesCS5B01G278000 chr5D 386034917 386036130 1213 True 659.5 870 92.1780 722 2243 2 chr5D.!!$R7 1521
7 TraesCS5B01G278000 chr5A 488007621 488010254 2633 True 1423.5 2521 89.4155 259 2249 2 chr5A.!!$R6 1990
8 TraesCS5B01G278000 chr5A 487983679 487985127 1448 True 1216.0 1216 82.5890 788 2244 1 chr5A.!!$R2 1456
9 TraesCS5B01G278000 chr5A 487948639 487949249 610 True 737.0 737 88.5850 723 1336 1 chr5A.!!$R1 613
10 TraesCS5B01G278000 chr5A 487917727 487918974 1247 True 632.5 797 87.2515 692 2243 2 chr5A.!!$R3 1551
11 TraesCS5B01G278000 chr5A 487939703 487941128 1425 True 628.5 647 86.5950 702 2244 2 chr5A.!!$R5 1542

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
66 67 0.035056 GGTATGGCTGCAAGGTCTGT 60.035 55.0 0.5 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2004 3019 0.109597 CAAGTGCCCACAATCTTCGC 60.11 55.0 0.82 0.0 0.0 4.7 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
17 18 4.910585 CCATACCCGGCAGGCGTC 62.911 72.222 16.17 0.00 40.58 5.19
18 19 4.910585 CATACCCGGCAGGCGTCC 62.911 72.222 16.17 0.00 40.58 4.79
33 34 4.232905 TCCTGGTTGGGACCTCAG 57.767 61.111 0.00 0.00 46.66 3.35
34 35 1.538876 TCCTGGTTGGGACCTCAGG 60.539 63.158 15.03 15.03 46.66 3.86
35 36 1.847968 CCTGGTTGGGACCTCAGGT 60.848 63.158 0.00 0.00 46.66 4.00
49 50 4.949121 ACCTCAGGTCTTAGATGTTAGGT 58.051 43.478 0.00 4.26 0.00 3.08
50 51 6.088541 ACCTCAGGTCTTAGATGTTAGGTA 57.911 41.667 0.00 0.00 33.17 3.08
51 52 6.684538 ACCTCAGGTCTTAGATGTTAGGTAT 58.315 40.000 0.00 0.00 33.17 2.73
52 53 6.551601 ACCTCAGGTCTTAGATGTTAGGTATG 59.448 42.308 0.00 0.00 33.17 2.39
53 54 6.015010 CCTCAGGTCTTAGATGTTAGGTATGG 60.015 46.154 0.00 0.00 0.00 2.74
54 55 5.304614 TCAGGTCTTAGATGTTAGGTATGGC 59.695 44.000 0.00 0.00 0.00 4.40
55 56 5.305644 CAGGTCTTAGATGTTAGGTATGGCT 59.694 44.000 0.00 0.00 0.00 4.75
56 57 5.305644 AGGTCTTAGATGTTAGGTATGGCTG 59.694 44.000 0.00 0.00 0.00 4.85
57 58 4.991687 GTCTTAGATGTTAGGTATGGCTGC 59.008 45.833 0.00 0.00 0.00 5.25
58 59 4.653801 TCTTAGATGTTAGGTATGGCTGCA 59.346 41.667 0.50 0.00 0.00 4.41
59 60 3.931907 AGATGTTAGGTATGGCTGCAA 57.068 42.857 0.50 0.00 0.00 4.08
60 61 3.813443 AGATGTTAGGTATGGCTGCAAG 58.187 45.455 0.50 0.00 0.00 4.01
61 62 2.418368 TGTTAGGTATGGCTGCAAGG 57.582 50.000 0.50 0.00 0.00 3.61
62 63 1.633432 TGTTAGGTATGGCTGCAAGGT 59.367 47.619 0.50 0.00 0.00 3.50
63 64 2.289565 GTTAGGTATGGCTGCAAGGTC 58.710 52.381 0.50 0.00 0.00 3.85
64 65 1.879575 TAGGTATGGCTGCAAGGTCT 58.120 50.000 0.50 0.00 0.00 3.85
65 66 0.254178 AGGTATGGCTGCAAGGTCTG 59.746 55.000 0.50 0.00 0.00 3.51
66 67 0.035056 GGTATGGCTGCAAGGTCTGT 60.035 55.000 0.50 0.00 0.00 3.41
67 68 1.614317 GGTATGGCTGCAAGGTCTGTT 60.614 52.381 0.50 0.00 0.00 3.16
68 69 2.162681 GTATGGCTGCAAGGTCTGTTT 58.837 47.619 0.50 0.00 0.00 2.83
69 70 0.963962 ATGGCTGCAAGGTCTGTTTG 59.036 50.000 0.50 0.00 0.00 2.93
70 71 1.108727 TGGCTGCAAGGTCTGTTTGG 61.109 55.000 0.50 0.00 0.00 3.28
71 72 1.109323 GGCTGCAAGGTCTGTTTGGT 61.109 55.000 0.50 0.00 0.00 3.67
72 73 1.604604 GCTGCAAGGTCTGTTTGGTA 58.395 50.000 0.00 0.00 0.00 3.25
73 74 2.162681 GCTGCAAGGTCTGTTTGGTAT 58.837 47.619 0.00 0.00 0.00 2.73
74 75 2.558359 GCTGCAAGGTCTGTTTGGTATT 59.442 45.455 0.00 0.00 0.00 1.89
75 76 3.756434 GCTGCAAGGTCTGTTTGGTATTA 59.244 43.478 0.00 0.00 0.00 0.98
76 77 4.142600 GCTGCAAGGTCTGTTTGGTATTAG 60.143 45.833 0.00 0.00 0.00 1.73
77 78 5.235850 TGCAAGGTCTGTTTGGTATTAGA 57.764 39.130 0.00 0.00 0.00 2.10
78 79 5.001232 TGCAAGGTCTGTTTGGTATTAGAC 58.999 41.667 0.00 0.00 38.98 2.59
91 92 5.394224 GGTATTAGACCCAGACTATCAGC 57.606 47.826 0.00 0.00 43.25 4.26
92 93 4.833380 GGTATTAGACCCAGACTATCAGCA 59.167 45.833 0.00 0.00 43.25 4.41
93 94 5.482175 GGTATTAGACCCAGACTATCAGCAT 59.518 44.000 0.00 0.00 43.25 3.79
94 95 5.736951 ATTAGACCCAGACTATCAGCATC 57.263 43.478 0.00 0.00 0.00 3.91
95 96 2.324541 AGACCCAGACTATCAGCATCC 58.675 52.381 0.00 0.00 0.00 3.51
96 97 1.346068 GACCCAGACTATCAGCATCCC 59.654 57.143 0.00 0.00 0.00 3.85
97 98 1.061812 ACCCAGACTATCAGCATCCCT 60.062 52.381 0.00 0.00 0.00 4.20
98 99 2.053244 CCCAGACTATCAGCATCCCTT 58.947 52.381 0.00 0.00 0.00 3.95
99 100 2.038295 CCCAGACTATCAGCATCCCTTC 59.962 54.545 0.00 0.00 0.00 3.46
100 101 2.702478 CCAGACTATCAGCATCCCTTCA 59.298 50.000 0.00 0.00 0.00 3.02
101 102 3.327172 CCAGACTATCAGCATCCCTTCAT 59.673 47.826 0.00 0.00 0.00 2.57
102 103 4.563168 CCAGACTATCAGCATCCCTTCATC 60.563 50.000 0.00 0.00 0.00 2.92
103 104 4.040095 CAGACTATCAGCATCCCTTCATCA 59.960 45.833 0.00 0.00 0.00 3.07
104 105 4.845225 AGACTATCAGCATCCCTTCATCAT 59.155 41.667 0.00 0.00 0.00 2.45
105 106 5.310068 AGACTATCAGCATCCCTTCATCATT 59.690 40.000 0.00 0.00 0.00 2.57
106 107 5.950023 ACTATCAGCATCCCTTCATCATTT 58.050 37.500 0.00 0.00 0.00 2.32
107 108 5.768662 ACTATCAGCATCCCTTCATCATTTG 59.231 40.000 0.00 0.00 0.00 2.32
108 109 3.293337 TCAGCATCCCTTCATCATTTGG 58.707 45.455 0.00 0.00 0.00 3.28
109 110 3.053470 TCAGCATCCCTTCATCATTTGGA 60.053 43.478 0.00 0.00 0.00 3.53
110 111 3.895656 CAGCATCCCTTCATCATTTGGAT 59.104 43.478 0.00 0.00 36.26 3.41
111 112 5.074804 CAGCATCCCTTCATCATTTGGATA 58.925 41.667 0.00 0.00 34.12 2.59
112 113 5.183331 CAGCATCCCTTCATCATTTGGATAG 59.817 44.000 0.00 0.00 34.12 2.08
113 114 4.461781 GCATCCCTTCATCATTTGGATAGG 59.538 45.833 0.00 0.00 34.12 2.57
114 115 5.749928 GCATCCCTTCATCATTTGGATAGGA 60.750 44.000 0.00 0.00 34.78 2.94
115 116 5.573380 TCCCTTCATCATTTGGATAGGAG 57.427 43.478 0.00 0.00 34.78 3.69
116 117 4.977739 TCCCTTCATCATTTGGATAGGAGT 59.022 41.667 0.00 0.00 34.78 3.85
117 118 6.150332 TCCCTTCATCATTTGGATAGGAGTA 58.850 40.000 0.00 0.00 34.78 2.59
118 119 6.270927 TCCCTTCATCATTTGGATAGGAGTAG 59.729 42.308 0.00 0.00 34.78 2.57
119 120 5.936956 CCTTCATCATTTGGATAGGAGTAGC 59.063 44.000 0.00 0.00 34.78 3.58
120 121 5.139435 TCATCATTTGGATAGGAGTAGCG 57.861 43.478 0.00 0.00 33.95 4.26
121 122 4.832823 TCATCATTTGGATAGGAGTAGCGA 59.167 41.667 0.00 0.00 33.95 4.93
122 123 4.585955 TCATTTGGATAGGAGTAGCGAC 57.414 45.455 0.00 0.00 0.00 5.19
123 124 3.958147 TCATTTGGATAGGAGTAGCGACA 59.042 43.478 0.00 0.00 0.00 4.35
124 125 3.795623 TTTGGATAGGAGTAGCGACAC 57.204 47.619 0.00 0.00 0.00 3.67
125 126 2.730934 TGGATAGGAGTAGCGACACT 57.269 50.000 0.00 0.00 0.00 3.55
126 127 3.014304 TGGATAGGAGTAGCGACACTT 57.986 47.619 0.00 0.00 0.00 3.16
127 128 3.362706 TGGATAGGAGTAGCGACACTTT 58.637 45.455 0.00 0.00 0.00 2.66
128 129 3.767673 TGGATAGGAGTAGCGACACTTTT 59.232 43.478 0.00 0.00 0.00 2.27
129 130 4.113354 GGATAGGAGTAGCGACACTTTTG 58.887 47.826 0.00 0.00 0.00 2.44
130 131 4.381718 GGATAGGAGTAGCGACACTTTTGT 60.382 45.833 0.00 0.00 39.32 2.83
131 132 3.470645 AGGAGTAGCGACACTTTTGTT 57.529 42.857 0.00 0.00 35.47 2.83
132 133 3.131396 AGGAGTAGCGACACTTTTGTTG 58.869 45.455 0.00 0.00 39.86 3.33
139 140 3.521524 CGACACTTTTGTTGCCTAGAC 57.478 47.619 0.00 0.00 35.47 2.59
140 141 2.096909 CGACACTTTTGTTGCCTAGACG 60.097 50.000 0.00 0.00 35.47 4.18
141 142 2.218603 ACACTTTTGTTGCCTAGACGG 58.781 47.619 0.00 0.00 28.43 4.79
142 143 2.218603 CACTTTTGTTGCCTAGACGGT 58.781 47.619 0.00 0.00 34.25 4.83
143 144 2.032030 CACTTTTGTTGCCTAGACGGTG 60.032 50.000 0.00 0.00 34.25 4.94
144 145 1.535462 CTTTTGTTGCCTAGACGGTGG 59.465 52.381 0.00 0.00 34.25 4.61
149 150 2.202756 GCCTAGACGGTGGCTTCG 60.203 66.667 1.01 0.00 45.26 3.79
150 151 2.707849 GCCTAGACGGTGGCTTCGA 61.708 63.158 7.01 0.00 45.26 3.71
151 152 1.139095 CCTAGACGGTGGCTTCGAC 59.861 63.158 7.01 1.50 0.00 4.20
152 153 1.139095 CTAGACGGTGGCTTCGACC 59.861 63.158 7.01 0.00 0.00 4.79
153 154 1.303888 TAGACGGTGGCTTCGACCT 60.304 57.895 7.01 6.17 0.00 3.85
154 155 0.035152 TAGACGGTGGCTTCGACCTA 60.035 55.000 7.01 5.41 0.00 3.08
155 156 1.153881 GACGGTGGCTTCGACCTAC 60.154 63.158 7.01 0.00 0.00 3.18
156 157 1.593296 GACGGTGGCTTCGACCTACT 61.593 60.000 7.01 0.00 0.00 2.57
157 158 1.153823 CGGTGGCTTCGACCTACTG 60.154 63.158 0.00 0.00 0.00 2.74
158 159 1.874345 CGGTGGCTTCGACCTACTGT 61.874 60.000 0.00 0.00 0.00 3.55
159 160 0.320697 GGTGGCTTCGACCTACTGTT 59.679 55.000 0.00 0.00 0.00 3.16
160 161 1.429463 GTGGCTTCGACCTACTGTTG 58.571 55.000 0.00 0.00 0.00 3.33
161 162 1.045407 TGGCTTCGACCTACTGTTGT 58.955 50.000 0.00 0.00 0.00 3.32
162 163 2.029649 GTGGCTTCGACCTACTGTTGTA 60.030 50.000 0.00 0.00 0.00 2.41
163 164 2.829720 TGGCTTCGACCTACTGTTGTAT 59.170 45.455 0.00 0.00 0.00 2.29
164 165 3.187700 GGCTTCGACCTACTGTTGTATG 58.812 50.000 0.00 0.00 0.00 2.39
165 166 3.119245 GGCTTCGACCTACTGTTGTATGA 60.119 47.826 0.00 0.00 0.00 2.15
166 167 3.858238 GCTTCGACCTACTGTTGTATGAC 59.142 47.826 0.00 0.00 0.00 3.06
167 168 4.380655 GCTTCGACCTACTGTTGTATGACT 60.381 45.833 0.00 0.00 0.00 3.41
168 169 5.710984 CTTCGACCTACTGTTGTATGACTT 58.289 41.667 0.00 0.00 0.00 3.01
169 170 5.717078 TCGACCTACTGTTGTATGACTTT 57.283 39.130 0.00 0.00 0.00 2.66
170 171 5.466819 TCGACCTACTGTTGTATGACTTTG 58.533 41.667 0.00 0.00 0.00 2.77
171 172 5.010314 TCGACCTACTGTTGTATGACTTTGT 59.990 40.000 0.00 0.00 0.00 2.83
172 173 6.207221 TCGACCTACTGTTGTATGACTTTGTA 59.793 38.462 0.00 0.00 0.00 2.41
173 174 6.864685 CGACCTACTGTTGTATGACTTTGTAA 59.135 38.462 0.00 0.00 0.00 2.41
174 175 7.061905 CGACCTACTGTTGTATGACTTTGTAAG 59.938 40.741 0.00 0.00 0.00 2.34
175 176 7.159372 ACCTACTGTTGTATGACTTTGTAAGG 58.841 38.462 0.00 0.00 0.00 2.69
176 177 7.159372 CCTACTGTTGTATGACTTTGTAAGGT 58.841 38.462 0.00 0.00 0.00 3.50
177 178 7.331193 CCTACTGTTGTATGACTTTGTAAGGTC 59.669 40.741 0.44 0.44 0.00 3.85
178 179 6.827727 ACTGTTGTATGACTTTGTAAGGTCT 58.172 36.000 8.11 0.00 34.01 3.85
179 180 7.280356 ACTGTTGTATGACTTTGTAAGGTCTT 58.720 34.615 8.11 4.91 34.01 3.01
180 181 8.426489 ACTGTTGTATGACTTTGTAAGGTCTTA 58.574 33.333 8.11 4.09 34.01 2.10
181 182 9.436957 CTGTTGTATGACTTTGTAAGGTCTTAT 57.563 33.333 8.11 0.00 34.01 1.73
182 183 9.214957 TGTTGTATGACTTTGTAAGGTCTTATG 57.785 33.333 8.11 0.00 34.01 1.90
183 184 9.216117 GTTGTATGACTTTGTAAGGTCTTATGT 57.784 33.333 8.11 0.00 34.01 2.29
184 185 8.771920 TGTATGACTTTGTAAGGTCTTATGTG 57.228 34.615 8.11 0.00 34.01 3.21
185 186 8.590204 TGTATGACTTTGTAAGGTCTTATGTGA 58.410 33.333 8.11 0.00 34.01 3.58
186 187 9.431887 GTATGACTTTGTAAGGTCTTATGTGAA 57.568 33.333 8.11 0.00 34.01 3.18
206 207 8.060931 TGTGAATAATTAATAAAGTGGCTGCA 57.939 30.769 0.50 0.00 0.00 4.41
207 208 8.694540 TGTGAATAATTAATAAAGTGGCTGCAT 58.305 29.630 0.50 0.00 0.00 3.96
208 209 8.971321 GTGAATAATTAATAAAGTGGCTGCATG 58.029 33.333 0.50 0.00 0.00 4.06
209 210 7.652909 TGAATAATTAATAAAGTGGCTGCATGC 59.347 33.333 11.82 11.82 41.94 4.06
210 211 3.419264 TTAATAAAGTGGCTGCATGCG 57.581 42.857 14.09 9.16 44.05 4.73
211 212 1.176527 AATAAAGTGGCTGCATGCGT 58.823 45.000 14.09 0.00 44.05 5.24
212 213 0.734889 ATAAAGTGGCTGCATGCGTC 59.265 50.000 14.09 10.12 44.05 5.19
213 214 1.634757 TAAAGTGGCTGCATGCGTCG 61.635 55.000 14.09 5.12 44.05 5.12
214 215 4.687215 AGTGGCTGCATGCGTCGT 62.687 61.111 14.09 0.00 44.05 4.34
215 216 4.152625 GTGGCTGCATGCGTCGTC 62.153 66.667 14.09 6.15 44.05 4.20
218 219 3.857854 GCTGCATGCGTCGTCCAG 61.858 66.667 14.09 3.76 0.00 3.86
219 220 2.125952 CTGCATGCGTCGTCCAGA 60.126 61.111 14.09 0.00 0.00 3.86
220 221 1.520120 CTGCATGCGTCGTCCAGAT 60.520 57.895 14.09 0.00 0.00 2.90
221 222 1.759293 CTGCATGCGTCGTCCAGATG 61.759 60.000 14.09 0.00 38.88 2.90
227 228 2.586418 CGTCGTCCAGATGCAGATG 58.414 57.895 0.00 0.00 0.00 2.90
228 229 1.485838 CGTCGTCCAGATGCAGATGC 61.486 60.000 0.00 0.00 42.50 3.91
229 230 1.144716 TCGTCCAGATGCAGATGCC 59.855 57.895 1.72 0.00 41.18 4.40
230 231 2.242572 CGTCCAGATGCAGATGCCG 61.243 63.158 1.72 0.00 41.18 5.69
231 232 1.890979 GTCCAGATGCAGATGCCGG 60.891 63.158 0.00 0.00 41.18 6.13
232 233 2.593725 CCAGATGCAGATGCCGGG 60.594 66.667 2.18 0.00 41.18 5.73
233 234 2.507452 CAGATGCAGATGCCGGGA 59.493 61.111 2.18 0.00 41.18 5.14
234 235 1.072678 CAGATGCAGATGCCGGGAT 59.927 57.895 8.79 8.79 41.18 3.85
235 236 0.954449 CAGATGCAGATGCCGGGATC 60.954 60.000 27.11 27.11 41.18 3.36
236 237 1.673665 GATGCAGATGCCGGGATCC 60.674 63.158 30.03 17.44 41.18 3.36
237 238 2.121992 GATGCAGATGCCGGGATCCT 62.122 60.000 30.03 15.89 41.18 3.24
238 239 2.031768 GCAGATGCCGGGATCCTC 59.968 66.667 30.03 18.86 34.31 3.71
239 240 2.746359 CAGATGCCGGGATCCTCC 59.254 66.667 30.03 8.32 35.23 4.30
240 241 1.840650 CAGATGCCGGGATCCTCCT 60.841 63.158 30.03 10.92 36.57 3.69
241 242 1.535202 AGATGCCGGGATCCTCCTC 60.535 63.158 30.03 8.15 36.57 3.71
242 243 1.838846 GATGCCGGGATCCTCCTCA 60.839 63.158 24.44 5.41 36.57 3.86
243 244 1.151943 ATGCCGGGATCCTCCTCAT 60.152 57.895 12.58 7.51 36.57 2.90
244 245 0.769776 ATGCCGGGATCCTCCTCATT 60.770 55.000 12.58 0.00 36.57 2.57
245 246 1.373059 GCCGGGATCCTCCTCATTC 59.627 63.158 12.58 0.00 36.57 2.67
246 247 1.124477 GCCGGGATCCTCCTCATTCT 61.124 60.000 12.58 0.00 36.57 2.40
247 248 0.972883 CCGGGATCCTCCTCATTCTC 59.027 60.000 12.58 0.00 36.57 2.87
248 249 1.482177 CCGGGATCCTCCTCATTCTCT 60.482 57.143 12.58 0.00 36.57 3.10
249 250 1.892474 CGGGATCCTCCTCATTCTCTC 59.108 57.143 12.58 0.00 36.57 3.20
250 251 2.490718 CGGGATCCTCCTCATTCTCTCT 60.491 54.545 12.58 0.00 36.57 3.10
251 252 3.245087 CGGGATCCTCCTCATTCTCTCTA 60.245 52.174 12.58 0.00 36.57 2.43
252 253 4.746466 GGGATCCTCCTCATTCTCTCTAA 58.254 47.826 12.58 0.00 36.57 2.10
253 254 5.151454 GGGATCCTCCTCATTCTCTCTAAA 58.849 45.833 12.58 0.00 36.57 1.85
254 255 5.604650 GGGATCCTCCTCATTCTCTCTAAAA 59.395 44.000 12.58 0.00 36.57 1.52
255 256 6.100424 GGGATCCTCCTCATTCTCTCTAAAAA 59.900 42.308 12.58 0.00 36.57 1.94
290 291 3.431626 CGGGTGTATGTGAGCTTGGAATA 60.432 47.826 0.00 0.00 0.00 1.75
291 292 4.523083 GGGTGTATGTGAGCTTGGAATAA 58.477 43.478 0.00 0.00 0.00 1.40
329 330 8.660373 GTCCACTTAGATCTGTAATCTTTTGTG 58.340 37.037 5.18 0.00 0.00 3.33
344 345 6.060028 TCTTTTGTGTTAGATGTTGCTGAC 57.940 37.500 0.00 0.00 0.00 3.51
366 367 0.801067 GCTGGCGTAGTGTAGGTTCG 60.801 60.000 0.00 0.00 0.00 3.95
408 409 1.745087 CCGCTCCATAGTGCACATTTT 59.255 47.619 21.04 0.00 32.66 1.82
422 423 2.228582 CACATTTTGATTGGAGGCGTGA 59.771 45.455 0.00 0.00 0.00 4.35
500 506 7.442364 CCTTCTGAATCTCTTGAACAGTTGTAA 59.558 37.037 0.00 0.00 34.65 2.41
505 513 9.950680 TGAATCTCTTGAACAGTTGTAATTTTC 57.049 29.630 0.00 0.00 0.00 2.29
510 518 9.226345 CTCTTGAACAGTTGTAATTTTCTTGAC 57.774 33.333 0.00 0.00 0.00 3.18
513 521 7.479980 TGAACAGTTGTAATTTTCTTGACCTG 58.520 34.615 0.00 0.00 0.00 4.00
603 611 3.311110 GCCGGTGTCTGGGACTGA 61.311 66.667 1.90 0.00 33.15 3.41
642 1309 1.880894 CAGTGCCATGCAGTTGAGG 59.119 57.895 0.00 0.00 40.54 3.86
756 1426 2.868583 CAGCACCAGAATCTACATTCCG 59.131 50.000 0.00 0.00 39.58 4.30
823 1507 2.447047 ACTGACCTTTCAATCCCCAAGT 59.553 45.455 0.00 0.00 0.00 3.16
826 1514 1.271926 ACCTTTCAATCCCCAAGTCGG 60.272 52.381 0.00 0.00 0.00 4.79
1508 2406 6.579666 AACATCAGTGTGATTGCACTATTT 57.420 33.333 0.00 0.00 46.81 1.40
1532 2449 7.769272 TTTATTGCACATAATTTAAGCCTGC 57.231 32.000 0.00 0.00 0.00 4.85
1652 2575 0.813821 GGCTGGGAATTGAAGTCTGC 59.186 55.000 0.00 0.00 0.00 4.26
1691 2625 1.000385 CCAAAAACCAGATTGCAGCGA 60.000 47.619 0.00 0.00 0.00 4.93
2004 3019 6.805271 AGCAAGCGTAATTATGTACCGTATAG 59.195 38.462 6.55 0.00 0.00 1.31
2164 3180 5.494390 TTACTCCTCCCCAGTAAGTTTTC 57.506 43.478 0.00 0.00 32.48 2.29
2174 3190 5.178809 CCCCAGTAAGTTTTCGAGTAAACAG 59.821 44.000 13.63 0.95 39.82 3.16
2249 3272 6.096705 TGGTAGAATATTCCTGTTTGCCAATG 59.903 38.462 11.92 0.00 0.00 2.82
2250 3273 6.096846 GGTAGAATATTCCTGTTTGCCAATGT 59.903 38.462 11.92 0.00 0.00 2.71
2251 3274 6.610075 AGAATATTCCTGTTTGCCAATGTT 57.390 33.333 11.92 0.00 0.00 2.71
2252 3275 6.400568 AGAATATTCCTGTTTGCCAATGTTG 58.599 36.000 11.92 0.00 0.00 3.33
2253 3276 5.999205 ATATTCCTGTTTGCCAATGTTGA 57.001 34.783 0.00 0.00 0.00 3.18
2254 3277 3.731652 TTCCTGTTTGCCAATGTTGAG 57.268 42.857 0.00 0.00 0.00 3.02
2255 3278 2.665165 TCCTGTTTGCCAATGTTGAGT 58.335 42.857 0.00 0.00 0.00 3.41
2256 3279 3.826524 TCCTGTTTGCCAATGTTGAGTA 58.173 40.909 0.00 0.00 0.00 2.59
2257 3280 4.406456 TCCTGTTTGCCAATGTTGAGTAT 58.594 39.130 0.00 0.00 0.00 2.12
2258 3281 4.458989 TCCTGTTTGCCAATGTTGAGTATC 59.541 41.667 0.00 0.00 0.00 2.24
2259 3282 4.406069 CTGTTTGCCAATGTTGAGTATCG 58.594 43.478 0.00 0.00 38.61 2.92
2260 3283 3.818210 TGTTTGCCAATGTTGAGTATCGT 59.182 39.130 0.00 0.00 38.61 3.73
2261 3284 4.158384 GTTTGCCAATGTTGAGTATCGTG 58.842 43.478 0.00 0.00 38.61 4.35
2262 3285 3.326836 TGCCAATGTTGAGTATCGTGA 57.673 42.857 0.00 0.00 38.61 4.35
2263 3286 3.872696 TGCCAATGTTGAGTATCGTGAT 58.127 40.909 0.00 0.00 38.61 3.06
2264 3287 4.260985 TGCCAATGTTGAGTATCGTGATT 58.739 39.130 0.00 0.00 38.61 2.57
2265 3288 5.423886 TGCCAATGTTGAGTATCGTGATTA 58.576 37.500 0.00 0.00 38.61 1.75
2266 3289 6.054941 TGCCAATGTTGAGTATCGTGATTAT 58.945 36.000 0.00 0.00 38.61 1.28
2267 3290 6.542005 TGCCAATGTTGAGTATCGTGATTATT 59.458 34.615 0.00 0.00 38.61 1.40
2268 3291 7.713073 TGCCAATGTTGAGTATCGTGATTATTA 59.287 33.333 0.00 0.00 38.61 0.98
2269 3292 8.223769 GCCAATGTTGAGTATCGTGATTATTAG 58.776 37.037 0.00 0.00 38.61 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.910585 GACGCCTGCCGGGTATGG 62.911 72.222 2.18 0.00 42.52 2.74
1 2 4.910585 GGACGCCTGCCGGGTATG 62.911 72.222 2.18 0.00 42.52 2.39
11 12 3.637273 GTCCCAACCAGGACGCCT 61.637 66.667 0.00 0.00 46.57 5.52
27 28 4.949121 ACCTAACATCTAAGACCTGAGGT 58.051 43.478 2.41 2.41 39.44 3.85
28 29 6.015010 CCATACCTAACATCTAAGACCTGAGG 60.015 46.154 0.00 0.00 0.00 3.86
29 30 6.517529 GCCATACCTAACATCTAAGACCTGAG 60.518 46.154 0.00 0.00 0.00 3.35
30 31 5.304614 GCCATACCTAACATCTAAGACCTGA 59.695 44.000 0.00 0.00 0.00 3.86
31 32 5.305644 AGCCATACCTAACATCTAAGACCTG 59.694 44.000 0.00 0.00 0.00 4.00
32 33 5.305644 CAGCCATACCTAACATCTAAGACCT 59.694 44.000 0.00 0.00 0.00 3.85
33 34 5.542779 CAGCCATACCTAACATCTAAGACC 58.457 45.833 0.00 0.00 0.00 3.85
34 35 4.991687 GCAGCCATACCTAACATCTAAGAC 59.008 45.833 0.00 0.00 0.00 3.01
35 36 4.653801 TGCAGCCATACCTAACATCTAAGA 59.346 41.667 0.00 0.00 0.00 2.10
36 37 4.960938 TGCAGCCATACCTAACATCTAAG 58.039 43.478 0.00 0.00 0.00 2.18
37 38 5.366482 TTGCAGCCATACCTAACATCTAA 57.634 39.130 0.00 0.00 0.00 2.10
38 39 4.202357 CCTTGCAGCCATACCTAACATCTA 60.202 45.833 0.00 0.00 0.00 1.98
39 40 3.434167 CCTTGCAGCCATACCTAACATCT 60.434 47.826 0.00 0.00 0.00 2.90
40 41 2.880890 CCTTGCAGCCATACCTAACATC 59.119 50.000 0.00 0.00 0.00 3.06
41 42 2.242196 ACCTTGCAGCCATACCTAACAT 59.758 45.455 0.00 0.00 0.00 2.71
42 43 1.633432 ACCTTGCAGCCATACCTAACA 59.367 47.619 0.00 0.00 0.00 2.41
43 44 2.092914 AGACCTTGCAGCCATACCTAAC 60.093 50.000 0.00 0.00 0.00 2.34
44 45 2.092968 CAGACCTTGCAGCCATACCTAA 60.093 50.000 0.00 0.00 0.00 2.69
45 46 1.486310 CAGACCTTGCAGCCATACCTA 59.514 52.381 0.00 0.00 0.00 3.08
46 47 0.254178 CAGACCTTGCAGCCATACCT 59.746 55.000 0.00 0.00 0.00 3.08
47 48 0.035056 ACAGACCTTGCAGCCATACC 60.035 55.000 0.00 0.00 0.00 2.73
48 49 1.826385 AACAGACCTTGCAGCCATAC 58.174 50.000 0.00 0.00 0.00 2.39
49 50 2.161855 CAAACAGACCTTGCAGCCATA 58.838 47.619 0.00 0.00 0.00 2.74
50 51 0.963962 CAAACAGACCTTGCAGCCAT 59.036 50.000 0.00 0.00 0.00 4.40
51 52 1.108727 CCAAACAGACCTTGCAGCCA 61.109 55.000 0.00 0.00 0.00 4.75
52 53 1.109323 ACCAAACAGACCTTGCAGCC 61.109 55.000 0.00 0.00 0.00 4.85
53 54 1.604604 TACCAAACAGACCTTGCAGC 58.395 50.000 0.00 0.00 0.00 5.25
54 55 5.122396 GTCTAATACCAAACAGACCTTGCAG 59.878 44.000 0.00 0.00 32.93 4.41
55 56 5.001232 GTCTAATACCAAACAGACCTTGCA 58.999 41.667 0.00 0.00 32.93 4.08
56 57 5.547181 GTCTAATACCAAACAGACCTTGC 57.453 43.478 0.00 0.00 32.93 4.01
70 71 6.350612 GGATGCTGATAGTCTGGGTCTAATAC 60.351 46.154 0.00 0.00 0.00 1.89
71 72 5.717178 GGATGCTGATAGTCTGGGTCTAATA 59.283 44.000 0.00 0.00 0.00 0.98
72 73 4.530161 GGATGCTGATAGTCTGGGTCTAAT 59.470 45.833 0.00 0.00 0.00 1.73
73 74 3.898123 GGATGCTGATAGTCTGGGTCTAA 59.102 47.826 0.00 0.00 0.00 2.10
74 75 3.501349 GGATGCTGATAGTCTGGGTCTA 58.499 50.000 0.00 0.00 0.00 2.59
75 76 2.324541 GGATGCTGATAGTCTGGGTCT 58.675 52.381 0.00 0.00 0.00 3.85
76 77 1.346068 GGGATGCTGATAGTCTGGGTC 59.654 57.143 0.00 0.00 0.00 4.46
77 78 1.061812 AGGGATGCTGATAGTCTGGGT 60.062 52.381 0.00 0.00 0.00 4.51
78 79 1.727062 AGGGATGCTGATAGTCTGGG 58.273 55.000 0.00 0.00 0.00 4.45
79 80 2.702478 TGAAGGGATGCTGATAGTCTGG 59.298 50.000 0.00 0.00 0.00 3.86
80 81 4.040095 TGATGAAGGGATGCTGATAGTCTG 59.960 45.833 0.00 0.00 0.00 3.51
81 82 4.229639 TGATGAAGGGATGCTGATAGTCT 58.770 43.478 0.00 0.00 0.00 3.24
82 83 4.613925 TGATGAAGGGATGCTGATAGTC 57.386 45.455 0.00 0.00 0.00 2.59
83 84 5.579753 AATGATGAAGGGATGCTGATAGT 57.420 39.130 0.00 0.00 0.00 2.12
84 85 5.183331 CCAAATGATGAAGGGATGCTGATAG 59.817 44.000 0.00 0.00 0.00 2.08
85 86 5.074804 CCAAATGATGAAGGGATGCTGATA 58.925 41.667 0.00 0.00 0.00 2.15
86 87 3.895656 CCAAATGATGAAGGGATGCTGAT 59.104 43.478 0.00 0.00 0.00 2.90
87 88 3.053470 TCCAAATGATGAAGGGATGCTGA 60.053 43.478 0.00 0.00 0.00 4.26
88 89 3.293337 TCCAAATGATGAAGGGATGCTG 58.707 45.455 0.00 0.00 0.00 4.41
89 90 3.675348 TCCAAATGATGAAGGGATGCT 57.325 42.857 0.00 0.00 0.00 3.79
90 91 4.461781 CCTATCCAAATGATGAAGGGATGC 59.538 45.833 0.00 0.00 38.72 3.91
91 92 5.884322 TCCTATCCAAATGATGAAGGGATG 58.116 41.667 0.00 0.00 38.72 3.51
92 93 5.614402 ACTCCTATCCAAATGATGAAGGGAT 59.386 40.000 0.00 0.00 41.13 3.85
93 94 4.977739 ACTCCTATCCAAATGATGAAGGGA 59.022 41.667 0.00 0.00 34.76 4.20
94 95 5.316158 ACTCCTATCCAAATGATGAAGGG 57.684 43.478 0.00 0.00 34.76 3.95
95 96 5.936956 GCTACTCCTATCCAAATGATGAAGG 59.063 44.000 0.00 0.00 34.76 3.46
96 97 5.636965 CGCTACTCCTATCCAAATGATGAAG 59.363 44.000 0.00 0.00 34.76 3.02
97 98 5.304357 TCGCTACTCCTATCCAAATGATGAA 59.696 40.000 0.00 0.00 34.76 2.57
98 99 4.832823 TCGCTACTCCTATCCAAATGATGA 59.167 41.667 0.00 0.00 34.76 2.92
99 100 4.926238 GTCGCTACTCCTATCCAAATGATG 59.074 45.833 0.00 0.00 34.76 3.07
100 101 4.588951 TGTCGCTACTCCTATCCAAATGAT 59.411 41.667 0.00 0.00 37.49 2.45
101 102 3.958147 TGTCGCTACTCCTATCCAAATGA 59.042 43.478 0.00 0.00 0.00 2.57
102 103 4.051922 GTGTCGCTACTCCTATCCAAATG 58.948 47.826 0.00 0.00 0.00 2.32
103 104 3.961408 AGTGTCGCTACTCCTATCCAAAT 59.039 43.478 0.00 0.00 0.00 2.32
104 105 3.362706 AGTGTCGCTACTCCTATCCAAA 58.637 45.455 0.00 0.00 0.00 3.28
105 106 3.014304 AGTGTCGCTACTCCTATCCAA 57.986 47.619 0.00 0.00 0.00 3.53
106 107 2.730934 AGTGTCGCTACTCCTATCCA 57.269 50.000 0.00 0.00 0.00 3.41
107 108 4.113354 CAAAAGTGTCGCTACTCCTATCC 58.887 47.826 0.00 0.00 0.00 2.59
108 109 4.745649 ACAAAAGTGTCGCTACTCCTATC 58.254 43.478 0.00 0.00 29.49 2.08
109 110 4.803098 ACAAAAGTGTCGCTACTCCTAT 57.197 40.909 0.00 0.00 29.49 2.57
110 111 4.304110 CAACAAAAGTGTCGCTACTCCTA 58.696 43.478 0.00 0.00 36.80 2.94
111 112 3.131396 CAACAAAAGTGTCGCTACTCCT 58.869 45.455 0.00 0.00 36.80 3.69
112 113 2.349532 GCAACAAAAGTGTCGCTACTCC 60.350 50.000 0.00 0.00 34.67 3.85
113 114 2.349532 GGCAACAAAAGTGTCGCTACTC 60.350 50.000 0.00 0.00 37.83 2.59
114 115 1.602377 GGCAACAAAAGTGTCGCTACT 59.398 47.619 0.00 0.00 37.83 2.57
115 116 1.602377 AGGCAACAAAAGTGTCGCTAC 59.398 47.619 0.00 0.00 37.83 3.58
116 117 1.961793 AGGCAACAAAAGTGTCGCTA 58.038 45.000 0.00 0.00 37.83 4.26
117 118 1.873591 CTAGGCAACAAAAGTGTCGCT 59.126 47.619 0.00 0.00 37.83 4.93
118 119 1.871039 TCTAGGCAACAAAAGTGTCGC 59.129 47.619 0.00 0.00 36.92 5.19
119 120 2.096909 CGTCTAGGCAACAAAAGTGTCG 60.097 50.000 0.00 0.00 36.80 4.35
120 121 2.223377 CCGTCTAGGCAACAAAAGTGTC 59.777 50.000 0.00 0.00 36.80 3.67
121 122 2.218603 CCGTCTAGGCAACAAAAGTGT 58.781 47.619 0.00 0.00 40.75 3.55
122 123 2.032030 CACCGTCTAGGCAACAAAAGTG 60.032 50.000 0.00 0.00 46.52 3.16
123 124 2.218603 CACCGTCTAGGCAACAAAAGT 58.781 47.619 0.00 0.00 46.52 2.66
124 125 1.535462 CCACCGTCTAGGCAACAAAAG 59.465 52.381 0.00 0.00 46.52 2.27
125 126 1.600023 CCACCGTCTAGGCAACAAAA 58.400 50.000 0.00 0.00 46.52 2.44
126 127 3.315765 CCACCGTCTAGGCAACAAA 57.684 52.632 0.00 0.00 46.52 2.83
134 135 1.139095 GGTCGAAGCCACCGTCTAG 59.861 63.158 0.00 0.00 0.00 2.43
135 136 0.035152 TAGGTCGAAGCCACCGTCTA 60.035 55.000 0.00 0.00 39.13 2.59
136 137 1.303888 TAGGTCGAAGCCACCGTCT 60.304 57.895 0.00 0.00 39.13 4.18
137 138 1.153881 GTAGGTCGAAGCCACCGTC 60.154 63.158 0.00 0.00 39.13 4.79
138 139 1.605738 AGTAGGTCGAAGCCACCGT 60.606 57.895 0.00 0.00 39.13 4.83
139 140 1.153823 CAGTAGGTCGAAGCCACCG 60.154 63.158 0.00 0.00 39.13 4.94
140 141 0.320697 AACAGTAGGTCGAAGCCACC 59.679 55.000 0.00 0.00 0.00 4.61
141 142 1.270147 ACAACAGTAGGTCGAAGCCAC 60.270 52.381 0.00 0.00 0.00 5.01
142 143 1.045407 ACAACAGTAGGTCGAAGCCA 58.955 50.000 0.00 0.00 0.00 4.75
143 144 3.119245 TCATACAACAGTAGGTCGAAGCC 60.119 47.826 0.00 0.00 0.00 4.35
144 145 3.858238 GTCATACAACAGTAGGTCGAAGC 59.142 47.826 0.00 0.00 0.00 3.86
145 146 5.312120 AGTCATACAACAGTAGGTCGAAG 57.688 43.478 0.00 0.00 0.00 3.79
146 147 5.717078 AAGTCATACAACAGTAGGTCGAA 57.283 39.130 0.00 0.00 0.00 3.71
147 148 5.010314 ACAAAGTCATACAACAGTAGGTCGA 59.990 40.000 0.00 0.00 0.00 4.20
148 149 5.227908 ACAAAGTCATACAACAGTAGGTCG 58.772 41.667 0.00 0.00 0.00 4.79
149 150 7.331193 CCTTACAAAGTCATACAACAGTAGGTC 59.669 40.741 0.00 0.00 0.00 3.85
150 151 7.159372 CCTTACAAAGTCATACAACAGTAGGT 58.841 38.462 0.00 0.00 0.00 3.08
151 152 7.159372 ACCTTACAAAGTCATACAACAGTAGG 58.841 38.462 0.00 0.00 0.00 3.18
152 153 8.088981 AGACCTTACAAAGTCATACAACAGTAG 58.911 37.037 0.00 0.00 0.00 2.57
153 154 7.959175 AGACCTTACAAAGTCATACAACAGTA 58.041 34.615 0.00 0.00 0.00 2.74
154 155 6.827727 AGACCTTACAAAGTCATACAACAGT 58.172 36.000 0.00 0.00 0.00 3.55
155 156 7.730364 AAGACCTTACAAAGTCATACAACAG 57.270 36.000 0.00 0.00 0.00 3.16
156 157 9.214957 CATAAGACCTTACAAAGTCATACAACA 57.785 33.333 0.00 0.00 0.00 3.33
157 158 9.216117 ACATAAGACCTTACAAAGTCATACAAC 57.784 33.333 0.00 0.00 0.00 3.32
158 159 9.214957 CACATAAGACCTTACAAAGTCATACAA 57.785 33.333 0.00 0.00 0.00 2.41
159 160 8.590204 TCACATAAGACCTTACAAAGTCATACA 58.410 33.333 0.00 0.00 0.00 2.29
160 161 8.997621 TCACATAAGACCTTACAAAGTCATAC 57.002 34.615 0.00 0.00 0.00 2.39
180 181 8.694540 TGCAGCCACTTTATTAATTATTCACAT 58.305 29.630 0.00 0.00 0.00 3.21
181 182 8.060931 TGCAGCCACTTTATTAATTATTCACA 57.939 30.769 0.00 0.00 0.00 3.58
182 183 8.971321 CATGCAGCCACTTTATTAATTATTCAC 58.029 33.333 0.00 0.00 0.00 3.18
183 184 7.652909 GCATGCAGCCACTTTATTAATTATTCA 59.347 33.333 14.21 0.00 37.23 2.57
184 185 7.148918 CGCATGCAGCCACTTTATTAATTATTC 60.149 37.037 19.57 0.00 41.38 1.75
185 186 6.642131 CGCATGCAGCCACTTTATTAATTATT 59.358 34.615 19.57 0.00 41.38 1.40
186 187 6.151691 CGCATGCAGCCACTTTATTAATTAT 58.848 36.000 19.57 0.00 41.38 1.28
187 188 5.067153 ACGCATGCAGCCACTTTATTAATTA 59.933 36.000 19.57 0.00 41.38 1.40
188 189 4.142182 ACGCATGCAGCCACTTTATTAATT 60.142 37.500 19.57 0.00 41.38 1.40
189 190 3.381272 ACGCATGCAGCCACTTTATTAAT 59.619 39.130 19.57 0.00 41.38 1.40
190 191 2.752354 ACGCATGCAGCCACTTTATTAA 59.248 40.909 19.57 0.00 41.38 1.40
191 192 2.354510 GACGCATGCAGCCACTTTATTA 59.645 45.455 19.57 0.00 41.38 0.98
192 193 1.133025 GACGCATGCAGCCACTTTATT 59.867 47.619 19.57 0.00 41.38 1.40
193 194 0.734889 GACGCATGCAGCCACTTTAT 59.265 50.000 19.57 0.00 41.38 1.40
194 195 1.634757 CGACGCATGCAGCCACTTTA 61.635 55.000 19.57 0.00 41.38 1.85
195 196 2.956987 GACGCATGCAGCCACTTT 59.043 55.556 19.57 0.00 41.38 2.66
196 197 3.425713 CGACGCATGCAGCCACTT 61.426 61.111 19.57 0.00 41.38 3.16
197 198 4.687215 ACGACGCATGCAGCCACT 62.687 61.111 19.57 0.00 41.38 4.00
198 199 4.152625 GACGACGCATGCAGCCAC 62.153 66.667 19.57 1.90 41.38 5.01
201 202 3.857854 CTGGACGACGCATGCAGC 61.858 66.667 19.57 7.64 40.87 5.25
202 203 1.520120 ATCTGGACGACGCATGCAG 60.520 57.895 19.57 12.98 36.90 4.41
203 204 1.810853 CATCTGGACGACGCATGCA 60.811 57.895 19.57 0.00 0.00 3.96
204 205 3.009140 CATCTGGACGACGCATGC 58.991 61.111 7.91 7.91 0.00 4.06
205 206 1.759293 CTGCATCTGGACGACGCATG 61.759 60.000 0.00 0.00 31.10 4.06
206 207 1.520120 CTGCATCTGGACGACGCAT 60.520 57.895 0.00 0.00 31.10 4.73
207 208 1.948721 ATCTGCATCTGGACGACGCA 61.949 55.000 0.00 0.00 0.00 5.24
208 209 1.227089 ATCTGCATCTGGACGACGC 60.227 57.895 0.00 0.00 0.00 5.19
209 210 1.485838 GCATCTGCATCTGGACGACG 61.486 60.000 0.00 0.00 41.59 5.12
210 211 1.156645 GGCATCTGCATCTGGACGAC 61.157 60.000 4.33 0.00 44.36 4.34
211 212 1.144716 GGCATCTGCATCTGGACGA 59.855 57.895 4.33 0.00 44.36 4.20
212 213 2.242572 CGGCATCTGCATCTGGACG 61.243 63.158 4.33 0.00 44.36 4.79
213 214 1.890979 CCGGCATCTGCATCTGGAC 60.891 63.158 4.33 0.00 44.36 4.02
214 215 2.507452 CCGGCATCTGCATCTGGA 59.493 61.111 4.33 0.00 44.36 3.86
215 216 2.407440 ATCCCGGCATCTGCATCTGG 62.407 60.000 0.00 0.37 44.36 3.86
216 217 0.954449 GATCCCGGCATCTGCATCTG 60.954 60.000 0.00 0.00 44.36 2.90
217 218 1.374190 GATCCCGGCATCTGCATCT 59.626 57.895 0.00 0.00 44.36 2.90
218 219 1.673665 GGATCCCGGCATCTGCATC 60.674 63.158 5.11 0.00 44.36 3.91
219 220 2.121992 GAGGATCCCGGCATCTGCAT 62.122 60.000 8.55 0.00 44.36 3.96
220 221 2.769621 AGGATCCCGGCATCTGCA 60.770 61.111 8.55 0.00 44.36 4.41
221 222 2.031768 GAGGATCCCGGCATCTGC 59.968 66.667 8.55 0.00 41.14 4.26
254 255 0.753848 CACCCGGGTGGACAGTTTTT 60.754 55.000 41.16 5.78 42.00 1.94
255 256 1.152839 CACCCGGGTGGACAGTTTT 60.153 57.895 41.16 6.39 42.00 2.43
256 257 2.513895 CACCCGGGTGGACAGTTT 59.486 61.111 41.16 7.25 42.00 2.66
329 330 2.417933 CAGCAGGTCAGCAACATCTAAC 59.582 50.000 0.00 0.00 36.85 2.34
344 345 1.141881 CCTACACTACGCCAGCAGG 59.858 63.158 0.00 0.00 38.23 4.85
388 389 1.382522 AAATGTGCACTATGGAGCGG 58.617 50.000 19.41 0.00 31.76 5.52
408 409 0.396435 AACACTCACGCCTCCAATCA 59.604 50.000 0.00 0.00 0.00 2.57
422 423 3.380320 GCACTAACAAGAAACCCAACACT 59.620 43.478 0.00 0.00 0.00 3.55
500 506 7.823745 ATAACTGTTCACAGGTCAAGAAAAT 57.176 32.000 11.62 0.00 40.49 1.82
505 513 9.003658 AGAAAATATAACTGTTCACAGGTCAAG 57.996 33.333 11.62 0.00 40.49 3.02
591 599 2.103153 AGGAAACTCAGTCCCAGACA 57.897 50.000 0.00 0.00 32.90 3.41
603 611 5.048987 CTGCATCCACAGGTTAAGGAAACT 61.049 45.833 0.00 0.00 38.23 2.66
636 1303 0.949105 ATCCACGTCAACGCCTCAAC 60.949 55.000 1.81 0.00 44.43 3.18
642 1309 1.798368 CGATCGATCCACGTCAACGC 61.798 60.000 19.51 0.00 44.43 4.84
687 1354 1.732259 GCATAATTGGTAGATCCCGCG 59.268 52.381 0.00 0.00 34.77 6.46
826 1514 1.880027 GAATGGTATCGGGATTGCCAC 59.120 52.381 6.75 0.00 35.15 5.01
878 1574 0.970640 TGCCCGCTATTTATAGGCGA 59.029 50.000 8.12 0.00 46.92 5.54
1174 1921 4.689812 GTCGCTATCAAGGATCTCGTAGTA 59.310 45.833 0.00 0.00 0.00 1.82
1508 2406 7.277539 GTGCAGGCTTAAATTATGTGCAATAAA 59.722 33.333 5.99 0.00 40.85 1.40
1532 2449 2.862541 TCATGTTCAAGGTTCCTGGTG 58.137 47.619 0.00 0.00 0.00 4.17
1691 2625 3.801307 TCTGCAATCTGGGATATGCAT 57.199 42.857 3.79 3.79 46.59 3.96
2004 3019 0.109597 CAAGTGCCCACAATCTTCGC 60.110 55.000 0.82 0.00 0.00 4.70
2112 3128 8.012809 TGTACACAATGAAAAATACAAGCTACG 58.987 33.333 0.00 0.00 0.00 3.51
2164 3180 5.839262 TTTACATCACTGCTGTTTACTCG 57.161 39.130 0.00 0.00 0.00 4.18
2174 3190 3.004752 ACTGGGGATTTACATCACTGC 57.995 47.619 0.00 0.00 32.69 4.40


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

AutoCloner maintained by Alex Coulton.