Multiple sequence alignment - TraesCS7D01G163800

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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 TraesCS7D01G163800 chr7D 100.000 2384 0 0 1 2384 113349400 113347017 0.000000e+00 4403.0
1 TraesCS7D01G163800 chr7D 89.744 585 52 4 1803 2381 562753353 562753935 0.000000e+00 741.0
2 TraesCS7D01G163800 chr7A 90.272 1398 52 23 408 1734 118400999 118399615 0.000000e+00 1751.0
3 TraesCS7D01G163800 chr7A 100.000 37 0 0 2345 2381 32512029 32511993 4.250000e-08 69.4
4 TraesCS7D01G163800 chr7A 92.857 42 3 0 365 406 118401065 118401024 7.120000e-06 62.1
5 TraesCS7D01G163800 chr7B 90.259 1119 50 21 683 1749 72765039 72763928 0.000000e+00 1408.0
6 TraesCS7D01G163800 chr7B 90.095 525 48 2 1806 2330 44680102 44680622 0.000000e+00 678.0
7 TraesCS7D01G163800 chr7B 87.475 503 57 4 1803 2304 605854191 605854688 2.060000e-160 575.0
8 TraesCS7D01G163800 chr7B 93.798 258 14 2 408 664 72765610 72765354 1.030000e-103 387.0
9 TraesCS7D01G163800 chr7B 89.091 55 2 2 2331 2381 44680307 44680361 5.500000e-07 65.8
10 TraesCS7D01G163800 chr4D 85.876 531 63 9 1803 2330 332161654 332162175 2.680000e-154 555.0
11 TraesCS7D01G163800 chr4D 94.118 51 3 0 2331 2381 6306742 6306692 7.070000e-11 78.7
12 TraesCS7D01G163800 chr2A 84.302 516 64 13 1806 2315 681264270 681263766 2.750000e-134 488.0
13 TraesCS7D01G163800 chr6D 88.177 406 43 4 1925 2330 177969521 177969121 1.660000e-131 479.0
14 TraesCS7D01G163800 chr6D 84.322 236 34 3 1803 2037 55035862 55035629 6.630000e-56 228.0
15 TraesCS7D01G163800 chrUn 83.206 524 70 11 1810 2330 94014988 94015496 4.640000e-127 464.0
16 TraesCS7D01G163800 chr3B 94.118 306 17 1 2026 2330 788064260 788064565 4.640000e-127 464.0
17 TraesCS7D01G163800 chr3B 94.118 51 3 0 2331 2381 203721377 203721327 7.070000e-11 78.7
18 TraesCS7D01G163800 chr6A 88.830 376 29 11 1958 2330 230607197 230606832 1.300000e-122 449.0
19 TraesCS7D01G163800 chr4B 84.739 249 32 6 1806 2052 59830340 59830584 6.580000e-61 244.0
20 TraesCS7D01G163800 chr1D 83.534 249 36 4 1811 2057 287989662 287989417 6.630000e-56 228.0
21 TraesCS7D01G163800 chr1D 100.000 37 0 0 2345 2381 31737952 31737988 4.250000e-08 69.4
22 TraesCS7D01G163800 chr3A 83.691 233 32 6 1806 2036 699970343 699970115 5.160000e-52 215.0
23 TraesCS7D01G163800 chr2D 82.353 119 17 4 1030 1146 121360525 121360641 1.510000e-17 100.0
24 TraesCS7D01G163800 chr1B 74.396 207 37 12 408 601 627148311 627148514 9.140000e-10 75.0
25 TraesCS7D01G163800 chr3D 90.741 54 5 0 2331 2384 564716047 564715994 3.290000e-09 73.1
26 TraesCS7D01G163800 chr5B 92.308 52 0 3 2331 2381 68508110 68508158 1.180000e-08 71.3
27 TraesCS7D01G163800 chr4A 90.196 51 4 1 2331 2381 617324833 617324882 5.500000e-07 65.8


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 TraesCS7D01G163800 chr7D 113347017 113349400 2383 True 4403.00 4403 100.0000 1 2384 1 chr7D.!!$R1 2383
1 TraesCS7D01G163800 chr7D 562753353 562753935 582 False 741.00 741 89.7440 1803 2381 1 chr7D.!!$F1 578
2 TraesCS7D01G163800 chr7A 118399615 118401065 1450 True 906.55 1751 91.5645 365 1734 2 chr7A.!!$R2 1369
3 TraesCS7D01G163800 chr7B 72763928 72765610 1682 True 897.50 1408 92.0285 408 1749 2 chr7B.!!$R1 1341
4 TraesCS7D01G163800 chr7B 44680102 44680622 520 False 371.90 678 89.5930 1806 2381 2 chr7B.!!$F2 575
5 TraesCS7D01G163800 chr4D 332161654 332162175 521 False 555.00 555 85.8760 1803 2330 1 chr4D.!!$F1 527
6 TraesCS7D01G163800 chr2A 681263766 681264270 504 True 488.00 488 84.3020 1806 2315 1 chr2A.!!$R1 509
7 TraesCS7D01G163800 chrUn 94014988 94015496 508 False 464.00 464 83.2060 1810 2330 1 chrUn.!!$F1 520

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
477 502 0.037975 CATGAAAACAGCAGGTGGGC 60.038 55.0 4.26 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1395 1766 0.250124 CAACAACCCACCACGAGCTA 60.25 55.0 0.0 0.0 0.0 3.32 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
21 22 4.385358 AAAACCACGAACTTGCTGAATT 57.615 36.364 0.00 0.00 0.00 2.17
22 23 5.508200 AAAACCACGAACTTGCTGAATTA 57.492 34.783 0.00 0.00 0.00 1.40
23 24 4.749245 AACCACGAACTTGCTGAATTAG 57.251 40.909 0.00 0.00 0.00 1.73
41 42 8.791327 TGAATTAGCAAGTTGATTATCACTGA 57.209 30.769 7.16 0.00 0.00 3.41
42 43 9.399797 TGAATTAGCAAGTTGATTATCACTGAT 57.600 29.630 7.16 0.00 0.00 2.90
48 49 8.186821 AGCAAGTTGATTATCACTGATTAAAGC 58.813 33.333 7.16 0.00 0.00 3.51
49 50 7.970061 GCAAGTTGATTATCACTGATTAAAGCA 59.030 33.333 7.16 0.00 0.00 3.91
60 61 8.389779 TCACTGATTAAAGCATTTAGTGTTCA 57.610 30.769 0.00 0.00 42.24 3.18
61 62 9.013229 TCACTGATTAAAGCATTTAGTGTTCAT 57.987 29.630 0.00 0.00 42.24 2.57
62 63 9.630098 CACTGATTAAAGCATTTAGTGTTCATT 57.370 29.630 0.00 0.00 42.24 2.57
65 66 9.638239 TGATTAAAGCATTTAGTGTTCATTTCC 57.362 29.630 0.00 0.00 42.24 3.13
66 67 9.638239 GATTAAAGCATTTAGTGTTCATTTCCA 57.362 29.630 0.00 0.00 42.24 3.53
67 68 9.643693 ATTAAAGCATTTAGTGTTCATTTCCAG 57.356 29.630 0.00 0.00 42.24 3.86
68 69 6.655078 AAGCATTTAGTGTTCATTTCCAGT 57.345 33.333 0.00 0.00 0.00 4.00
69 70 7.759489 AAGCATTTAGTGTTCATTTCCAGTA 57.241 32.000 0.00 0.00 0.00 2.74
70 71 7.145932 AGCATTTAGTGTTCATTTCCAGTAC 57.854 36.000 0.00 0.00 0.00 2.73
71 72 6.714810 AGCATTTAGTGTTCATTTCCAGTACA 59.285 34.615 0.00 0.00 0.00 2.90
72 73 6.801862 GCATTTAGTGTTCATTTCCAGTACAC 59.198 38.462 0.00 0.00 37.49 2.90
73 74 7.308589 GCATTTAGTGTTCATTTCCAGTACACT 60.309 37.037 10.55 10.55 45.49 3.55
74 75 8.567948 CATTTAGTGTTCATTTCCAGTACACTT 58.432 33.333 10.93 0.00 42.49 3.16
75 76 7.490962 TTAGTGTTCATTTCCAGTACACTTG 57.509 36.000 10.93 0.00 42.49 3.16
76 77 4.821805 AGTGTTCATTTCCAGTACACTTGG 59.178 41.667 0.00 0.00 42.49 3.61
77 78 4.819630 GTGTTCATTTCCAGTACACTTGGA 59.180 41.667 0.00 0.00 35.31 3.53
78 79 5.049405 GTGTTCATTTCCAGTACACTTGGAG 60.049 44.000 2.88 0.00 35.31 3.86
79 80 3.674997 TCATTTCCAGTACACTTGGAGC 58.325 45.455 2.88 0.00 32.79 4.70
80 81 3.327757 TCATTTCCAGTACACTTGGAGCT 59.672 43.478 2.88 0.00 32.79 4.09
81 82 4.530553 TCATTTCCAGTACACTTGGAGCTA 59.469 41.667 2.88 0.00 32.79 3.32
82 83 5.189736 TCATTTCCAGTACACTTGGAGCTAT 59.810 40.000 2.88 0.00 32.79 2.97
83 84 5.499004 TTTCCAGTACACTTGGAGCTATT 57.501 39.130 2.88 0.00 32.79 1.73
84 85 6.614694 TTTCCAGTACACTTGGAGCTATTA 57.385 37.500 2.88 0.00 32.79 0.98
85 86 6.808321 TTCCAGTACACTTGGAGCTATTAT 57.192 37.500 2.88 0.00 32.79 1.28
86 87 7.907841 TTCCAGTACACTTGGAGCTATTATA 57.092 36.000 2.88 0.00 32.79 0.98
87 88 7.907841 TCCAGTACACTTGGAGCTATTATAA 57.092 36.000 0.00 0.00 0.00 0.98
88 89 8.492415 TCCAGTACACTTGGAGCTATTATAAT 57.508 34.615 2.97 2.97 0.00 1.28
89 90 9.596308 TCCAGTACACTTGGAGCTATTATAATA 57.404 33.333 5.10 5.10 0.00 0.98
90 91 9.640963 CCAGTACACTTGGAGCTATTATAATAC 57.359 37.037 0.81 0.16 0.00 1.89
93 94 9.857957 GTACACTTGGAGCTATTATAATACTCC 57.142 37.037 27.05 27.05 45.87 3.85
94 95 7.908453 ACACTTGGAGCTATTATAATACTCCC 58.092 38.462 28.61 18.78 45.22 4.30
95 96 7.735321 ACACTTGGAGCTATTATAATACTCCCT 59.265 37.037 28.61 18.63 45.22 4.20
96 97 8.254508 CACTTGGAGCTATTATAATACTCCCTC 58.745 40.741 28.61 19.26 45.22 4.30
97 98 8.180844 ACTTGGAGCTATTATAATACTCCCTCT 58.819 37.037 28.61 18.24 45.22 3.69
98 99 9.702253 CTTGGAGCTATTATAATACTCCCTCTA 57.298 37.037 28.61 18.49 45.22 2.43
100 101 9.869667 TGGAGCTATTATAATACTCCCTCTATC 57.130 37.037 28.61 15.88 45.22 2.08
101 102 9.304335 GGAGCTATTATAATACTCCCTCTATCC 57.696 40.741 25.38 11.53 40.91 2.59
102 103 9.869667 GAGCTATTATAATACTCCCTCTATCCA 57.130 37.037 16.41 0.00 0.00 3.41
113 114 7.883391 ACTCCCTCTATCCATATATACAACG 57.117 40.000 0.00 0.00 0.00 4.10
114 115 6.834451 ACTCCCTCTATCCATATATACAACGG 59.166 42.308 0.00 0.00 0.00 4.44
115 116 5.597182 TCCCTCTATCCATATATACAACGGC 59.403 44.000 0.00 0.00 0.00 5.68
116 117 5.598830 CCCTCTATCCATATATACAACGGCT 59.401 44.000 0.00 0.00 0.00 5.52
117 118 6.776116 CCCTCTATCCATATATACAACGGCTA 59.224 42.308 0.00 0.00 0.00 3.93
118 119 7.287005 CCCTCTATCCATATATACAACGGCTAA 59.713 40.741 0.00 0.00 0.00 3.09
119 120 8.861086 CCTCTATCCATATATACAACGGCTAAT 58.139 37.037 0.00 0.00 0.00 1.73
122 123 9.608617 CTATCCATATATACAACGGCTAATACG 57.391 37.037 0.00 0.00 37.36 3.06
123 124 7.628769 TCCATATATACAACGGCTAATACGA 57.371 36.000 0.00 0.00 34.93 3.43
124 125 8.229253 TCCATATATACAACGGCTAATACGAT 57.771 34.615 0.00 0.00 34.93 3.73
125 126 8.689061 TCCATATATACAACGGCTAATACGATT 58.311 33.333 0.00 0.00 34.93 3.34
126 127 9.309516 CCATATATACAACGGCTAATACGATTT 57.690 33.333 0.00 0.00 34.93 2.17
129 130 8.821147 ATATACAACGGCTAATACGATTTTCA 57.179 30.769 0.00 0.00 34.93 2.69
130 131 5.866335 ACAACGGCTAATACGATTTTCAA 57.134 34.783 0.00 0.00 34.93 2.69
131 132 5.864986 ACAACGGCTAATACGATTTTCAAG 58.135 37.500 0.00 0.00 34.93 3.02
132 133 5.163794 ACAACGGCTAATACGATTTTCAAGG 60.164 40.000 0.00 0.00 34.93 3.61
133 134 4.510571 ACGGCTAATACGATTTTCAAGGT 58.489 39.130 0.00 0.00 34.93 3.50
134 135 4.939439 ACGGCTAATACGATTTTCAAGGTT 59.061 37.500 0.00 0.00 34.93 3.50
135 136 6.108015 ACGGCTAATACGATTTTCAAGGTTA 58.892 36.000 0.00 0.00 34.93 2.85
136 137 6.764560 ACGGCTAATACGATTTTCAAGGTTAT 59.235 34.615 0.00 0.00 34.93 1.89
137 138 7.042254 ACGGCTAATACGATTTTCAAGGTTATC 60.042 37.037 0.00 0.00 34.93 1.75
138 139 7.170998 CGGCTAATACGATTTTCAAGGTTATCT 59.829 37.037 0.00 0.00 0.00 1.98
139 140 8.837389 GGCTAATACGATTTTCAAGGTTATCTT 58.163 33.333 0.00 0.00 35.79 2.40
144 145 6.909909 ACGATTTTCAAGGTTATCTTTGACC 58.090 36.000 0.00 0.00 38.92 4.02
145 146 6.488683 ACGATTTTCAAGGTTATCTTTGACCA 59.511 34.615 0.00 0.00 38.92 4.02
146 147 6.801862 CGATTTTCAAGGTTATCTTTGACCAC 59.198 38.462 0.00 0.00 38.92 4.16
147 148 7.521423 CGATTTTCAAGGTTATCTTTGACCACA 60.521 37.037 0.00 0.00 38.92 4.17
148 149 6.633500 TTTCAAGGTTATCTTTGACCACAG 57.367 37.500 0.00 0.00 38.92 3.66
149 150 4.072131 TCAAGGTTATCTTTGACCACAGC 58.928 43.478 0.00 0.00 38.42 4.40
150 151 4.074970 CAAGGTTATCTTTGACCACAGCT 58.925 43.478 0.00 0.00 38.42 4.24
151 152 4.373156 AGGTTATCTTTGACCACAGCTT 57.627 40.909 0.00 0.00 38.42 3.74
152 153 5.499004 AGGTTATCTTTGACCACAGCTTA 57.501 39.130 0.00 0.00 38.42 3.09
153 154 5.876357 AGGTTATCTTTGACCACAGCTTAA 58.124 37.500 0.00 0.00 38.42 1.85
154 155 6.303839 AGGTTATCTTTGACCACAGCTTAAA 58.696 36.000 0.00 0.00 38.42 1.52
155 156 6.431234 AGGTTATCTTTGACCACAGCTTAAAG 59.569 38.462 0.00 0.00 38.42 1.85
156 157 6.206829 GGTTATCTTTGACCACAGCTTAAAGT 59.793 38.462 0.00 0.00 35.95 2.66
157 158 7.389607 GGTTATCTTTGACCACAGCTTAAAGTA 59.610 37.037 0.00 0.00 35.95 2.24
158 159 8.780249 GTTATCTTTGACCACAGCTTAAAGTAA 58.220 33.333 0.00 0.00 31.95 2.24
159 160 9.515226 TTATCTTTGACCACAGCTTAAAGTAAT 57.485 29.630 0.00 0.00 31.95 1.89
161 162 8.911918 TCTTTGACCACAGCTTAAAGTAATAA 57.088 30.769 0.00 0.00 31.95 1.40
162 163 9.515226 TCTTTGACCACAGCTTAAAGTAATAAT 57.485 29.630 0.00 0.00 31.95 1.28
180 181 8.443160 AGTAATAATATATGACATGCGTGTTGC 58.557 33.333 13.92 1.59 46.70 4.17
202 203 6.194031 GCACAAAGCATATCATCAAATTCG 57.806 37.500 0.00 0.00 44.79 3.34
203 204 5.745294 GCACAAAGCATATCATCAAATTCGT 59.255 36.000 0.00 0.00 44.79 3.85
204 205 6.912051 GCACAAAGCATATCATCAAATTCGTA 59.088 34.615 0.00 0.00 44.79 3.43
205 206 7.431960 GCACAAAGCATATCATCAAATTCGTAA 59.568 33.333 0.00 0.00 44.79 3.18
206 207 9.288124 CACAAAGCATATCATCAAATTCGTAAA 57.712 29.630 0.00 0.00 0.00 2.01
207 208 9.853555 ACAAAGCATATCATCAAATTCGTAAAA 57.146 25.926 0.00 0.00 0.00 1.52
210 211 9.941664 AAGCATATCATCAAATTCGTAAAAGAG 57.058 29.630 0.00 0.00 0.00 2.85
211 212 9.330063 AGCATATCATCAAATTCGTAAAAGAGA 57.670 29.630 0.00 0.00 0.00 3.10
287 288 9.829507 TTTTTCATCAACAATCAAATACAACCT 57.170 25.926 0.00 0.00 0.00 3.50
288 289 9.474920 TTTTCATCAACAATCAAATACAACCTC 57.525 29.630 0.00 0.00 0.00 3.85
289 290 7.757941 TCATCAACAATCAAATACAACCTCA 57.242 32.000 0.00 0.00 0.00 3.86
290 291 8.175925 TCATCAACAATCAAATACAACCTCAA 57.824 30.769 0.00 0.00 0.00 3.02
291 292 8.637099 TCATCAACAATCAAATACAACCTCAAA 58.363 29.630 0.00 0.00 0.00 2.69
292 293 9.258826 CATCAACAATCAAATACAACCTCAAAA 57.741 29.630 0.00 0.00 0.00 2.44
296 297 8.964420 ACAATCAAATACAACCTCAAAATACG 57.036 30.769 0.00 0.00 0.00 3.06
297 298 8.573035 ACAATCAAATACAACCTCAAAATACGT 58.427 29.630 0.00 0.00 0.00 3.57
304 305 6.673154 ACAACCTCAAAATACGTATTAGCC 57.327 37.500 20.62 0.00 0.00 3.93
305 306 5.587443 ACAACCTCAAAATACGTATTAGCCC 59.413 40.000 20.62 0.00 0.00 5.19
306 307 5.362105 ACCTCAAAATACGTATTAGCCCA 57.638 39.130 20.62 3.73 0.00 5.36
307 308 5.937111 ACCTCAAAATACGTATTAGCCCAT 58.063 37.500 20.62 1.72 0.00 4.00
308 309 7.069877 ACCTCAAAATACGTATTAGCCCATA 57.930 36.000 20.62 3.00 0.00 2.74
309 310 7.686434 ACCTCAAAATACGTATTAGCCCATAT 58.314 34.615 20.62 0.24 0.00 1.78
310 311 8.818860 ACCTCAAAATACGTATTAGCCCATATA 58.181 33.333 20.62 0.00 0.00 0.86
311 312 9.832445 CCTCAAAATACGTATTAGCCCATATAT 57.168 33.333 20.62 0.00 0.00 0.86
326 327 8.907829 AGCCCATATATATATACTGATGGAGG 57.092 38.462 21.38 12.54 0.00 4.30
327 328 7.903481 AGCCCATATATATATACTGATGGAGGG 59.097 40.741 21.38 11.18 0.00 4.30
328 329 7.901322 GCCCATATATATATACTGATGGAGGGA 59.099 40.741 21.38 0.00 0.00 4.20
329 330 9.486123 CCCATATATATATACTGATGGAGGGAG 57.514 40.741 21.38 8.83 0.00 4.30
336 337 9.845214 ATATATACTGATGGAGGGAGTAGTTTT 57.155 33.333 0.00 0.00 0.00 2.43
337 338 6.893020 ATACTGATGGAGGGAGTAGTTTTT 57.107 37.500 0.00 0.00 0.00 1.94
362 363 9.715121 TTTATCACAACTACTAGTTTACTTGGG 57.285 33.333 0.00 0.00 36.03 4.12
363 364 6.105397 TCACAACTACTAGTTTACTTGGGG 57.895 41.667 0.00 0.00 36.03 4.96
364 365 5.840149 TCACAACTACTAGTTTACTTGGGGA 59.160 40.000 0.00 0.00 36.03 4.81
365 366 6.327104 TCACAACTACTAGTTTACTTGGGGAA 59.673 38.462 0.00 0.00 36.03 3.97
366 367 6.993902 CACAACTACTAGTTTACTTGGGGAAA 59.006 38.462 0.00 0.00 36.03 3.13
367 368 7.499895 CACAACTACTAGTTTACTTGGGGAAAA 59.500 37.037 0.00 0.00 36.03 2.29
434 458 3.034721 ACACTCCTGTCGCGATAAAAA 57.965 42.857 14.06 0.00 0.00 1.94
436 460 2.093783 CACTCCTGTCGCGATAAAAACC 59.906 50.000 14.06 0.00 0.00 3.27
437 461 2.289195 ACTCCTGTCGCGATAAAAACCA 60.289 45.455 14.06 2.04 0.00 3.67
457 481 2.983930 GAGAGCGACGTGTCAGGCT 61.984 63.158 0.00 2.62 38.70 4.58
472 497 1.201647 CAGGCTCATGAAAACAGCAGG 59.798 52.381 6.27 0.00 34.62 4.85
473 498 1.202976 AGGCTCATGAAAACAGCAGGT 60.203 47.619 6.27 0.00 34.62 4.00
477 502 0.037975 CATGAAAACAGCAGGTGGGC 60.038 55.000 4.26 0.00 0.00 5.36
603 629 1.079888 CCACGCATTCAAAAGGCCC 60.080 57.895 0.00 0.00 0.00 5.80
856 1179 1.807165 CCTGACTGCGATGACACCG 60.807 63.158 0.00 0.00 0.00 4.94
888 1211 1.300156 TCATCATCGCCGTAGCAGC 60.300 57.895 0.00 0.00 39.83 5.25
980 1318 0.175989 CTGGGAGAAGGAGCGGTAAC 59.824 60.000 0.00 0.00 0.00 2.50
986 1324 1.275573 AGAAGGAGCGGTAACTGGTTC 59.724 52.381 0.00 0.00 0.00 3.62
990 1328 1.406539 GGAGCGGTAACTGGTTCGATA 59.593 52.381 0.00 0.00 0.00 2.92
991 1329 2.035576 GGAGCGGTAACTGGTTCGATAT 59.964 50.000 0.00 0.00 0.00 1.63
993 1331 4.082354 GGAGCGGTAACTGGTTCGATATAT 60.082 45.833 0.00 0.00 0.00 0.86
994 1332 5.464030 AGCGGTAACTGGTTCGATATATT 57.536 39.130 0.00 0.00 0.00 1.28
996 1334 4.387862 GCGGTAACTGGTTCGATATATTGG 59.612 45.833 0.00 0.00 0.00 3.16
997 1335 5.535333 CGGTAACTGGTTCGATATATTGGT 58.465 41.667 0.00 0.00 0.00 3.67
1001 1339 5.723672 ACTGGTTCGATATATTGGTCGAT 57.276 39.130 7.92 0.00 45.13 3.59
1017 1365 1.153086 GATGGCGAGCATGGAGGTT 60.153 57.895 0.00 0.00 0.00 3.50
1023 1371 1.606531 GAGCATGGAGGTTGAGGCT 59.393 57.895 0.00 0.00 30.41 4.58
1388 1736 1.707632 GCCGAGGATGATTGATCGAG 58.292 55.000 0.00 0.00 37.35 4.04
1389 1737 1.671261 GCCGAGGATGATTGATCGAGG 60.671 57.143 0.00 0.00 37.35 4.63
1390 1738 1.889170 CCGAGGATGATTGATCGAGGA 59.111 52.381 0.00 0.00 37.35 3.71
1395 1766 4.352009 AGGATGATTGATCGAGGATAGCT 58.648 43.478 0.00 0.00 30.87 3.32
1520 1901 5.679734 ATGAATAATTTGCGTCCTAGCTG 57.320 39.130 0.00 0.00 38.13 4.24
1575 1956 5.287274 CCGTATGATCGAGCATGAAGTTATC 59.713 44.000 25.65 5.44 0.00 1.75
1585 1966 6.416750 CGAGCATGAAGTTATCACGTAATGTA 59.583 38.462 0.00 0.00 41.93 2.29
1588 1969 8.410912 AGCATGAAGTTATCACGTAATGTACTA 58.589 33.333 0.00 0.00 41.93 1.82
1716 2104 4.374399 TCTTGTAAGGTTTTCAGACGGAC 58.626 43.478 0.00 0.00 0.00 4.79
1717 2105 3.823281 TGTAAGGTTTTCAGACGGACA 57.177 42.857 0.00 0.00 0.00 4.02
1718 2106 4.345859 TGTAAGGTTTTCAGACGGACAT 57.654 40.909 0.00 0.00 0.00 3.06
1720 2108 2.930826 AGGTTTTCAGACGGACATGT 57.069 45.000 0.00 0.00 0.00 3.21
1722 2110 4.345859 AGGTTTTCAGACGGACATGTAA 57.654 40.909 0.00 0.00 0.00 2.41
1739 2129 9.503427 GGACATGTAAAAAGTAGTATTCATTGC 57.497 33.333 0.00 0.00 0.00 3.56
1740 2130 9.503427 GACATGTAAAAAGTAGTATTCATTGCC 57.497 33.333 0.00 0.00 0.00 4.52
1741 2131 9.243105 ACATGTAAAAAGTAGTATTCATTGCCT 57.757 29.630 0.00 0.00 0.00 4.75
1799 2189 8.863872 AAGGCAATGAATACTACTTTACTTGT 57.136 30.769 0.00 0.00 0.00 3.16
1800 2190 8.494016 AGGCAATGAATACTACTTTACTTGTC 57.506 34.615 0.00 0.00 0.00 3.18
1801 2191 7.553044 AGGCAATGAATACTACTTTACTTGTCC 59.447 37.037 0.00 0.00 0.00 4.02
1802 2192 7.399523 GCAATGAATACTACTTTACTTGTCCG 58.600 38.462 0.00 0.00 0.00 4.79
1803 2193 7.064253 GCAATGAATACTACTTTACTTGTCCGT 59.936 37.037 0.00 0.00 0.00 4.69
1804 2194 8.592998 CAATGAATACTACTTTACTTGTCCGTC 58.407 37.037 0.00 0.00 0.00 4.79
1840 2230 1.803943 CTCGCTAGTTGAGAGGCGT 59.196 57.895 8.04 0.00 46.37 5.68
1846 2236 0.315886 TAGTTGAGAGGCGTTCGCAA 59.684 50.000 18.46 4.65 42.30 4.85
1859 2249 3.424433 GCGTTCGCAACAGTTTATAAGCT 60.424 43.478 12.33 0.00 0.00 3.74
1887 2277 0.172803 GCTTCCGTTTCGAGCTCCTA 59.827 55.000 8.47 0.00 33.72 2.94
1923 2313 0.391263 GTGGGCCTAACGAACCTCTG 60.391 60.000 4.53 0.00 0.00 3.35
1951 2341 0.404426 GTGGGGCCTACTTTTCCTGT 59.596 55.000 13.48 0.00 0.00 4.00
1966 2356 1.001764 CTGTGGGCTTGCATCCTGA 60.002 57.895 5.62 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 8.886719 TCAGTGATAATCAACTTGCTAATTCAG 58.113 33.333 0.00 0.00 0.00 3.02
16 17 8.791327 TCAGTGATAATCAACTTGCTAATTCA 57.209 30.769 0.00 0.00 0.00 2.57
22 23 8.186821 GCTTTAATCAGTGATAATCAACTTGCT 58.813 33.333 5.94 0.00 0.00 3.91
23 24 7.970061 TGCTTTAATCAGTGATAATCAACTTGC 59.030 33.333 5.94 3.04 0.00 4.01
34 35 9.013229 TGAACACTAAATGCTTTAATCAGTGAT 57.987 29.630 16.40 0.00 0.00 3.06
35 36 8.389779 TGAACACTAAATGCTTTAATCAGTGA 57.610 30.769 16.40 0.00 0.00 3.41
36 37 9.630098 AATGAACACTAAATGCTTTAATCAGTG 57.370 29.630 11.48 11.48 0.00 3.66
39 40 9.638239 GGAAATGAACACTAAATGCTTTAATCA 57.362 29.630 0.00 0.00 0.00 2.57
40 41 9.638239 TGGAAATGAACACTAAATGCTTTAATC 57.362 29.630 0.00 0.00 0.00 1.75
41 42 9.643693 CTGGAAATGAACACTAAATGCTTTAAT 57.356 29.630 0.00 0.00 0.00 1.40
42 43 8.637986 ACTGGAAATGAACACTAAATGCTTTAA 58.362 29.630 0.00 0.00 0.00 1.52
43 44 8.177119 ACTGGAAATGAACACTAAATGCTTTA 57.823 30.769 0.00 0.00 0.00 1.85
44 45 7.054491 ACTGGAAATGAACACTAAATGCTTT 57.946 32.000 0.00 0.00 0.00 3.51
45 46 6.655078 ACTGGAAATGAACACTAAATGCTT 57.345 33.333 0.00 0.00 0.00 3.91
46 47 6.714810 TGTACTGGAAATGAACACTAAATGCT 59.285 34.615 0.00 0.00 0.00 3.79
47 48 6.801862 GTGTACTGGAAATGAACACTAAATGC 59.198 38.462 0.00 0.00 37.92 3.56
48 49 8.099364 AGTGTACTGGAAATGAACACTAAATG 57.901 34.615 4.70 0.00 46.58 2.32
54 55 4.819630 TCCAAGTGTACTGGAAATGAACAC 59.180 41.667 0.00 0.00 40.53 3.32
55 56 5.042463 TCCAAGTGTACTGGAAATGAACA 57.958 39.130 0.00 0.00 0.00 3.18
56 57 4.083271 GCTCCAAGTGTACTGGAAATGAAC 60.083 45.833 4.10 0.00 0.00 3.18
57 58 4.072131 GCTCCAAGTGTACTGGAAATGAA 58.928 43.478 4.10 0.00 0.00 2.57
58 59 3.327757 AGCTCCAAGTGTACTGGAAATGA 59.672 43.478 4.10 0.00 0.00 2.57
59 60 3.679389 AGCTCCAAGTGTACTGGAAATG 58.321 45.455 4.10 0.00 0.00 2.32
60 61 5.700402 ATAGCTCCAAGTGTACTGGAAAT 57.300 39.130 4.10 0.00 0.00 2.17
61 62 5.499004 AATAGCTCCAAGTGTACTGGAAA 57.501 39.130 4.10 0.00 0.00 3.13
62 63 6.808321 ATAATAGCTCCAAGTGTACTGGAA 57.192 37.500 4.10 0.00 0.00 3.53
63 64 7.907841 TTATAATAGCTCCAAGTGTACTGGA 57.092 36.000 0.00 2.62 0.00 3.86
64 65 9.640963 GTATTATAATAGCTCCAAGTGTACTGG 57.359 37.037 5.39 0.00 0.00 4.00
67 68 9.857957 GGAGTATTATAATAGCTCCAAGTGTAC 57.142 37.037 27.85 11.11 38.13 2.90
68 69 9.032624 GGGAGTATTATAATAGCTCCAAGTGTA 57.967 37.037 30.35 4.82 38.96 2.90
69 70 7.735321 AGGGAGTATTATAATAGCTCCAAGTGT 59.265 37.037 30.35 18.51 38.96 3.55
70 71 8.140112 AGGGAGTATTATAATAGCTCCAAGTG 57.860 38.462 30.35 0.00 38.96 3.16
71 72 8.180844 AGAGGGAGTATTATAATAGCTCCAAGT 58.819 37.037 30.35 22.50 38.96 3.16
72 73 8.602472 AGAGGGAGTATTATAATAGCTCCAAG 57.398 38.462 30.35 0.00 38.96 3.61
74 75 9.869667 GATAGAGGGAGTATTATAATAGCTCCA 57.130 37.037 30.35 20.97 38.96 3.86
75 76 9.304335 GGATAGAGGGAGTATTATAATAGCTCC 57.696 40.741 26.49 26.49 37.85 4.70
76 77 9.869667 TGGATAGAGGGAGTATTATAATAGCTC 57.130 37.037 17.77 17.77 0.00 4.09
87 88 9.575868 CGTTGTATATATGGATAGAGGGAGTAT 57.424 37.037 0.00 0.00 0.00 2.12
88 89 7.997223 CCGTTGTATATATGGATAGAGGGAGTA 59.003 40.741 0.00 0.00 0.00 2.59
89 90 6.834451 CCGTTGTATATATGGATAGAGGGAGT 59.166 42.308 0.00 0.00 0.00 3.85
90 91 6.239064 GCCGTTGTATATATGGATAGAGGGAG 60.239 46.154 0.00 0.00 0.00 4.30
91 92 5.597182 GCCGTTGTATATATGGATAGAGGGA 59.403 44.000 0.00 0.00 0.00 4.20
92 93 5.598830 AGCCGTTGTATATATGGATAGAGGG 59.401 44.000 0.00 0.00 0.00 4.30
93 94 6.716934 AGCCGTTGTATATATGGATAGAGG 57.283 41.667 0.00 0.00 0.00 3.69
96 97 9.608617 CGTATTAGCCGTTGTATATATGGATAG 57.391 37.037 0.00 0.00 0.00 2.08
97 98 9.341078 TCGTATTAGCCGTTGTATATATGGATA 57.659 33.333 0.00 0.00 0.00 2.59
98 99 8.229253 TCGTATTAGCCGTTGTATATATGGAT 57.771 34.615 0.00 0.00 0.00 3.41
99 100 7.628769 TCGTATTAGCCGTTGTATATATGGA 57.371 36.000 0.00 0.00 0.00 3.41
100 101 8.867112 AATCGTATTAGCCGTTGTATATATGG 57.133 34.615 0.00 0.00 0.00 2.74
103 104 9.911138 TGAAAATCGTATTAGCCGTTGTATATA 57.089 29.630 0.00 0.00 0.00 0.86
104 105 8.821147 TGAAAATCGTATTAGCCGTTGTATAT 57.179 30.769 0.00 0.00 0.00 0.86
105 106 8.645730 TTGAAAATCGTATTAGCCGTTGTATA 57.354 30.769 0.00 0.00 0.00 1.47
106 107 7.254658 CCTTGAAAATCGTATTAGCCGTTGTAT 60.255 37.037 0.00 0.00 0.00 2.29
107 108 6.036300 CCTTGAAAATCGTATTAGCCGTTGTA 59.964 38.462 0.00 0.00 0.00 2.41
108 109 5.163794 CCTTGAAAATCGTATTAGCCGTTGT 60.164 40.000 0.00 0.00 0.00 3.32
109 110 5.163794 ACCTTGAAAATCGTATTAGCCGTTG 60.164 40.000 0.00 0.00 0.00 4.10
110 111 4.939439 ACCTTGAAAATCGTATTAGCCGTT 59.061 37.500 0.00 0.00 0.00 4.44
111 112 4.510571 ACCTTGAAAATCGTATTAGCCGT 58.489 39.130 0.00 0.00 0.00 5.68
112 113 5.479716 AACCTTGAAAATCGTATTAGCCG 57.520 39.130 0.00 0.00 0.00 5.52
113 114 8.379457 AGATAACCTTGAAAATCGTATTAGCC 57.621 34.615 0.00 0.00 0.00 3.93
118 119 8.674607 GGTCAAAGATAACCTTGAAAATCGTAT 58.325 33.333 0.00 0.00 34.79 3.06
119 120 7.662258 TGGTCAAAGATAACCTTGAAAATCGTA 59.338 33.333 0.00 0.00 36.47 3.43
120 121 6.488683 TGGTCAAAGATAACCTTGAAAATCGT 59.511 34.615 0.00 0.00 36.47 3.73
121 122 6.801862 GTGGTCAAAGATAACCTTGAAAATCG 59.198 38.462 0.00 0.00 36.47 3.34
122 123 7.657336 TGTGGTCAAAGATAACCTTGAAAATC 58.343 34.615 0.00 0.00 36.47 2.17
123 124 7.595819 TGTGGTCAAAGATAACCTTGAAAAT 57.404 32.000 0.00 0.00 36.47 1.82
124 125 6.460953 GCTGTGGTCAAAGATAACCTTGAAAA 60.461 38.462 0.00 0.00 36.47 2.29
125 126 5.009610 GCTGTGGTCAAAGATAACCTTGAAA 59.990 40.000 0.00 0.00 36.47 2.69
126 127 4.518970 GCTGTGGTCAAAGATAACCTTGAA 59.481 41.667 0.00 0.00 36.47 2.69
127 128 4.072131 GCTGTGGTCAAAGATAACCTTGA 58.928 43.478 0.00 0.00 36.47 3.02
128 129 4.074970 AGCTGTGGTCAAAGATAACCTTG 58.925 43.478 0.00 0.00 36.47 3.61
129 130 4.373156 AGCTGTGGTCAAAGATAACCTT 57.627 40.909 0.00 0.00 36.47 3.50
130 131 4.373156 AAGCTGTGGTCAAAGATAACCT 57.627 40.909 0.00 0.00 36.47 3.50
131 132 6.206829 ACTTTAAGCTGTGGTCAAAGATAACC 59.793 38.462 0.00 0.00 36.03 2.85
132 133 7.203255 ACTTTAAGCTGTGGTCAAAGATAAC 57.797 36.000 0.00 0.00 32.02 1.89
133 134 8.911918 TTACTTTAAGCTGTGGTCAAAGATAA 57.088 30.769 0.00 0.00 32.02 1.75
135 136 9.515226 TTATTACTTTAAGCTGTGGTCAAAGAT 57.485 29.630 0.00 0.00 32.02 2.40
136 137 8.911918 TTATTACTTTAAGCTGTGGTCAAAGA 57.088 30.769 0.00 0.00 32.02 2.52
154 155 8.443160 GCAACACGCATGTCATATATTATTACT 58.557 33.333 0.00 0.00 38.45 2.24
155 156 8.587627 GCAACACGCATGTCATATATTATTAC 57.412 34.615 0.00 0.00 38.45 1.89
179 180 5.745294 ACGAATTTGATGATATGCTTTGTGC 59.255 36.000 0.00 0.00 43.25 4.57
180 181 8.839947 TTACGAATTTGATGATATGCTTTGTG 57.160 30.769 0.00 0.00 0.00 3.33
181 182 9.853555 TTTTACGAATTTGATGATATGCTTTGT 57.146 25.926 0.00 0.00 0.00 2.83
184 185 9.941664 CTCTTTTACGAATTTGATGATATGCTT 57.058 29.630 0.00 0.00 0.00 3.91
185 186 9.330063 TCTCTTTTACGAATTTGATGATATGCT 57.670 29.630 0.00 0.00 0.00 3.79
261 262 9.829507 AGGTTGTATTTGATTGTTGATGAAAAA 57.170 25.926 0.00 0.00 0.00 1.94
262 263 9.474920 GAGGTTGTATTTGATTGTTGATGAAAA 57.525 29.630 0.00 0.00 0.00 2.29
263 264 8.637099 TGAGGTTGTATTTGATTGTTGATGAAA 58.363 29.630 0.00 0.00 0.00 2.69
264 265 8.175925 TGAGGTTGTATTTGATTGTTGATGAA 57.824 30.769 0.00 0.00 0.00 2.57
265 266 7.757941 TGAGGTTGTATTTGATTGTTGATGA 57.242 32.000 0.00 0.00 0.00 2.92
266 267 8.815141 TTTGAGGTTGTATTTGATTGTTGATG 57.185 30.769 0.00 0.00 0.00 3.07
270 271 9.405587 CGTATTTTGAGGTTGTATTTGATTGTT 57.594 29.630 0.00 0.00 0.00 2.83
271 272 8.573035 ACGTATTTTGAGGTTGTATTTGATTGT 58.427 29.630 0.00 0.00 0.00 2.71
272 273 8.964420 ACGTATTTTGAGGTTGTATTTGATTG 57.036 30.769 0.00 0.00 0.00 2.67
278 279 8.833493 GGCTAATACGTATTTTGAGGTTGTATT 58.167 33.333 24.81 1.06 35.76 1.89
279 280 7.443272 GGGCTAATACGTATTTTGAGGTTGTAT 59.557 37.037 24.81 0.00 0.00 2.29
280 281 6.762661 GGGCTAATACGTATTTTGAGGTTGTA 59.237 38.462 24.81 3.31 0.00 2.41
281 282 5.587443 GGGCTAATACGTATTTTGAGGTTGT 59.413 40.000 24.81 0.35 0.00 3.32
282 283 5.587043 TGGGCTAATACGTATTTTGAGGTTG 59.413 40.000 24.81 2.56 0.00 3.77
283 284 5.747342 TGGGCTAATACGTATTTTGAGGTT 58.253 37.500 24.81 2.67 0.00 3.50
284 285 5.362105 TGGGCTAATACGTATTTTGAGGT 57.638 39.130 24.81 2.57 0.00 3.85
285 286 9.832445 ATATATGGGCTAATACGTATTTTGAGG 57.168 33.333 24.81 11.72 0.00 3.86
300 301 9.997172 CCTCCATCAGTATATATATATGGGCTA 57.003 37.037 20.58 9.48 0.00 3.93
301 302 7.903481 CCCTCCATCAGTATATATATATGGGCT 59.097 40.741 20.58 7.67 0.00 5.19
302 303 7.901322 TCCCTCCATCAGTATATATATATGGGC 59.099 40.741 20.58 5.81 0.00 5.36
303 304 9.486123 CTCCCTCCATCAGTATATATATATGGG 57.514 40.741 20.58 12.28 0.00 4.00
310 311 9.845214 AAAACTACTCCCTCCATCAGTATATAT 57.155 33.333 0.00 0.00 0.00 0.86
311 312 9.670442 AAAAACTACTCCCTCCATCAGTATATA 57.330 33.333 0.00 0.00 0.00 0.86
312 313 8.568617 AAAAACTACTCCCTCCATCAGTATAT 57.431 34.615 0.00 0.00 0.00 0.86
313 314 7.989947 AAAAACTACTCCCTCCATCAGTATA 57.010 36.000 0.00 0.00 0.00 1.47
314 315 6.893020 AAAAACTACTCCCTCCATCAGTAT 57.107 37.500 0.00 0.00 0.00 2.12
336 337 9.715121 CCCAAGTAAACTAGTAGTTGTGATAAA 57.285 33.333 16.22 0.00 38.66 1.40
337 338 8.316214 CCCCAAGTAAACTAGTAGTTGTGATAA 58.684 37.037 16.22 0.00 38.66 1.75
338 339 7.675195 TCCCCAAGTAAACTAGTAGTTGTGATA 59.325 37.037 16.22 2.47 38.66 2.15
339 340 6.499350 TCCCCAAGTAAACTAGTAGTTGTGAT 59.501 38.462 16.22 3.44 38.66 3.06
340 341 5.840149 TCCCCAAGTAAACTAGTAGTTGTGA 59.160 40.000 16.22 2.74 38.66 3.58
341 342 6.105397 TCCCCAAGTAAACTAGTAGTTGTG 57.895 41.667 16.22 11.45 38.66 3.33
342 343 6.752285 TTCCCCAAGTAAACTAGTAGTTGT 57.248 37.500 16.22 9.09 38.66 3.32
343 344 8.454570 TTTTTCCCCAAGTAAACTAGTAGTTG 57.545 34.615 16.22 4.27 38.66 3.16
366 367 7.352079 CCTCCAATCATAAGGCTACATTTTT 57.648 36.000 0.00 0.00 0.00 1.94
367 368 6.966534 CCTCCAATCATAAGGCTACATTTT 57.033 37.500 0.00 0.00 0.00 1.82
376 377 2.734755 TGGTGCCTCCAATCATAAGG 57.265 50.000 0.00 0.00 44.12 2.69
406 407 1.002792 GCGACAGGAGTGTTTTTGTCC 60.003 52.381 0.00 0.00 36.88 4.02
434 458 1.286260 GACACGTCGCTCTCTTGGT 59.714 57.895 0.00 0.00 0.00 3.67
436 460 0.730834 CCTGACACGTCGCTCTCTTG 60.731 60.000 0.00 0.00 0.00 3.02
437 461 1.581954 CCTGACACGTCGCTCTCTT 59.418 57.895 0.00 0.00 0.00 2.85
457 481 1.619654 CCCACCTGCTGTTTTCATGA 58.380 50.000 0.00 0.00 0.00 3.07
560 586 0.457851 GAGTACTGACAGCTGGCGAT 59.542 55.000 19.93 9.83 0.00 4.58
665 959 4.143333 CCTCCTGTACGGGCCGTG 62.143 72.222 39.80 23.88 41.39 4.94
840 1163 2.261361 CCGGTGTCATCGCAGTCA 59.739 61.111 0.00 0.00 0.00 3.41
986 1324 3.108881 CTCGCCATCGACCAATATATCG 58.891 50.000 0.00 0.00 40.21 2.92
990 1328 0.392706 TGCTCGCCATCGACCAATAT 59.607 50.000 0.00 0.00 40.21 1.28
991 1329 0.392706 ATGCTCGCCATCGACCAATA 59.607 50.000 0.00 0.00 40.21 1.90
993 1331 1.815003 CATGCTCGCCATCGACCAA 60.815 57.895 0.00 0.00 40.21 3.67
994 1332 2.202919 CATGCTCGCCATCGACCA 60.203 61.111 0.00 0.00 40.21 4.02
996 1334 1.953138 CTCCATGCTCGCCATCGAC 60.953 63.158 0.00 0.00 40.21 4.20
997 1335 2.418777 CTCCATGCTCGCCATCGA 59.581 61.111 0.00 0.00 43.28 3.59
1001 1339 2.046023 CAACCTCCATGCTCGCCA 60.046 61.111 0.00 0.00 0.00 5.69
1379 1727 4.981806 GAGCTAGCTATCCTCGATCAAT 57.018 45.455 19.38 0.00 0.00 2.57
1388 1736 0.315568 CCACCACGAGCTAGCTATCC 59.684 60.000 19.38 4.32 0.00 2.59
1389 1737 0.315568 CCCACCACGAGCTAGCTATC 59.684 60.000 19.38 5.46 0.00 2.08
1390 1738 0.397254 ACCCACCACGAGCTAGCTAT 60.397 55.000 19.38 6.14 0.00 2.97
1395 1766 0.250124 CAACAACCCACCACGAGCTA 60.250 55.000 0.00 0.00 0.00 3.32
1520 1901 2.741612 CTCCTGTCTCGAGCAATCATC 58.258 52.381 7.81 0.00 0.00 2.92
1585 1966 7.307632 CGGATACTACTACAAATGCTACGTAGT 60.308 40.741 22.98 5.79 45.78 2.73
1588 1969 5.278169 CCGGATACTACTACAAATGCTACGT 60.278 44.000 0.00 0.00 0.00 3.57
1681 2069 3.378427 CCTTACAAGAAGCCTGCATAACC 59.622 47.826 0.00 0.00 0.00 2.85
1773 2163 9.953565 ACAAGTAAAGTAGTATTCATTGCCTTA 57.046 29.630 0.00 0.00 0.00 2.69
1774 2164 8.863872 ACAAGTAAAGTAGTATTCATTGCCTT 57.136 30.769 0.00 0.00 0.00 4.35
1775 2165 7.553044 GGACAAGTAAAGTAGTATTCATTGCCT 59.447 37.037 0.00 0.00 0.00 4.75
1776 2166 7.465513 CGGACAAGTAAAGTAGTATTCATTGCC 60.466 40.741 0.00 0.00 0.00 4.52
1777 2167 7.064253 ACGGACAAGTAAAGTAGTATTCATTGC 59.936 37.037 0.00 0.00 0.00 3.56
1778 2168 8.475331 ACGGACAAGTAAAGTAGTATTCATTG 57.525 34.615 0.00 0.00 0.00 2.82
1779 2169 8.529476 AGACGGACAAGTAAAGTAGTATTCATT 58.471 33.333 0.00 0.00 0.00 2.57
1780 2170 7.974501 CAGACGGACAAGTAAAGTAGTATTCAT 59.025 37.037 0.00 0.00 0.00 2.57
1781 2171 7.175467 TCAGACGGACAAGTAAAGTAGTATTCA 59.825 37.037 0.00 0.00 0.00 2.57
1782 2172 7.533426 TCAGACGGACAAGTAAAGTAGTATTC 58.467 38.462 0.00 0.00 0.00 1.75
1783 2173 7.458409 TCAGACGGACAAGTAAAGTAGTATT 57.542 36.000 0.00 0.00 0.00 1.89
1784 2174 7.458409 TTCAGACGGACAAGTAAAGTAGTAT 57.542 36.000 0.00 0.00 0.00 2.12
1785 2175 6.882610 TTCAGACGGACAAGTAAAGTAGTA 57.117 37.500 0.00 0.00 0.00 1.82
1786 2176 5.779529 TTCAGACGGACAAGTAAAGTAGT 57.220 39.130 0.00 0.00 0.00 2.73
1787 2177 6.214399 ACTTTCAGACGGACAAGTAAAGTAG 58.786 40.000 0.00 0.00 34.79 2.57
1788 2178 6.152932 ACTTTCAGACGGACAAGTAAAGTA 57.847 37.500 0.00 0.00 34.79 2.24
1789 2179 5.019785 ACTTTCAGACGGACAAGTAAAGT 57.980 39.130 0.00 0.00 32.44 2.66
1790 2180 5.986004 AACTTTCAGACGGACAAGTAAAG 57.014 39.130 0.00 0.00 31.26 1.85
1791 2181 7.043565 ACTAAACTTTCAGACGGACAAGTAAA 58.956 34.615 0.00 0.00 31.26 2.01
1792 2182 6.576185 ACTAAACTTTCAGACGGACAAGTAA 58.424 36.000 0.00 0.00 31.26 2.24
1793 2183 6.152932 ACTAAACTTTCAGACGGACAAGTA 57.847 37.500 0.00 0.00 31.26 2.24
1794 2184 5.019785 ACTAAACTTTCAGACGGACAAGT 57.980 39.130 0.00 0.00 32.14 3.16
1795 2185 4.448060 GGACTAAACTTTCAGACGGACAAG 59.552 45.833 0.00 0.00 0.00 3.16
1796 2186 4.374399 GGACTAAACTTTCAGACGGACAA 58.626 43.478 0.00 0.00 0.00 3.18
1797 2187 3.243975 GGGACTAAACTTTCAGACGGACA 60.244 47.826 0.00 0.00 0.00 4.02
1798 2188 3.243975 TGGGACTAAACTTTCAGACGGAC 60.244 47.826 0.00 0.00 0.00 4.79
1799 2189 2.967201 TGGGACTAAACTTTCAGACGGA 59.033 45.455 0.00 0.00 0.00 4.69
1800 2190 3.064931 GTGGGACTAAACTTTCAGACGG 58.935 50.000 0.00 0.00 0.00 4.79
1801 2191 3.064931 GGTGGGACTAAACTTTCAGACG 58.935 50.000 0.00 0.00 0.00 4.18
1802 2192 4.316645 GAGGTGGGACTAAACTTTCAGAC 58.683 47.826 0.00 0.00 0.00 3.51
1803 2193 3.006537 CGAGGTGGGACTAAACTTTCAGA 59.993 47.826 0.00 0.00 0.00 3.27
1804 2194 3.326747 CGAGGTGGGACTAAACTTTCAG 58.673 50.000 0.00 0.00 0.00 3.02
1840 2230 4.142902 GCAGAGCTTATAAACTGTTGCGAA 60.143 41.667 0.00 0.00 33.57 4.70
1846 2236 2.280628 GCGGCAGAGCTTATAAACTGT 58.719 47.619 0.00 0.00 33.57 3.55
1887 2277 1.340405 CCACACAGGCCTGCTTTAGAT 60.340 52.381 33.06 8.48 0.00 1.98
1946 2336 2.356278 GGATGCAAGCCCACAGGA 59.644 61.111 0.00 0.00 35.29 3.86
1956 2346 1.985159 ACTAGTTGGGTCAGGATGCAA 59.015 47.619 0.00 0.00 34.76 4.08
1991 2381 1.358725 CCACAACGACCTGCATACGG 61.359 60.000 10.89 1.04 0.00 4.02


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

AutoCloner maintained by Alex Coulton.