Multiple sequence alignment - TraesCS5A01G211400

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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 TraesCS5A01G211400 chr5A 100.000 2423 0 0 1 2423 426746166 426748588 0.000000e+00 4475.0
1 TraesCS5A01G211400 chr5A 95.238 42 2 0 255 296 510010936 510010977 1.550000e-07 67.6
2 TraesCS5A01G211400 chr5B 88.949 1285 68 21 305 1537 383032068 383030806 0.000000e+00 1519.0
3 TraesCS5A01G211400 chr5B 83.792 327 30 13 1721 2044 383030528 383030222 3.050000e-74 289.0
4 TraesCS5A01G211400 chr5B 88.393 224 13 5 1503 1714 383030784 383030562 8.600000e-65 257.0
5 TraesCS5A01G211400 chr5B 85.408 233 4 7 1 229 383032272 383032066 5.250000e-52 215.0
6 TraesCS5A01G211400 chr5D 88.673 874 38 17 682 1530 330073798 330072961 0.000000e+00 1009.0
7 TraesCS5A01G211400 chr5D 90.230 348 22 8 1721 2057 330072650 330072304 6.150000e-121 444.0
8 TraesCS5A01G211400 chr5D 90.435 230 14 4 1503 1725 330072903 330072675 1.820000e-76 296.0
9 TraesCS5A01G211400 chr5D 83.972 287 23 10 301 570 330074260 330073980 1.110000e-63 254.0
10 TraesCS5A01G211400 chr5D 78.799 283 37 16 2138 2419 330072284 330072024 4.140000e-38 169.0
11 TraesCS5A01G211400 chr5D 85.465 172 4 7 69 239 330074406 330074255 2.490000e-35 159.0
12 TraesCS5A01G211400 chr5D 89.796 49 5 0 260 308 482889112 482889064 2.010000e-06 63.9
13 TraesCS5A01G211400 chr7D 94.340 53 3 0 254 306 584302503 584302555 5.550000e-12 82.4
14 TraesCS5A01G211400 chr6B 97.826 46 1 0 254 299 118184688 118184733 2.000000e-11 80.5
15 TraesCS5A01G211400 chr6B 95.455 44 2 0 260 303 604075505 604075548 1.200000e-08 71.3
16 TraesCS5A01G211400 chr6A 97.778 45 1 0 255 299 1838658 1838702 7.180000e-11 78.7
17 TraesCS5A01G211400 chr3D 97.727 44 1 0 256 299 68836877 68836920 2.580000e-10 76.8
18 TraesCS5A01G211400 chr2A 93.750 48 2 1 260 306 256215754 256215707 1.200000e-08 71.3
19 TraesCS5A01G211400 chr7B 85.938 64 5 4 258 317 566473936 566473873 5.590000e-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 TraesCS5A01G211400 chr5A 426746166 426748588 2422 False 4475.0 4475 100.000000 1 2423 1 chr5A.!!$F1 2422
1 TraesCS5A01G211400 chr5B 383030222 383032272 2050 True 570.0 1519 86.635500 1 2044 4 chr5B.!!$R1 2043
2 TraesCS5A01G211400 chr5D 330072024 330074406 2382 True 388.5 1009 86.262333 69 2419 6 chr5D.!!$R2 2350

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
164 165 0.179227 CGTGTGTGTGTGTGTGTGTG 60.179 55.0 0.0 0.0 0.0 3.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1565 1793 0.249657 GTGCGATGGAGGAGATGTCC 60.25 60.0 0.0 0.0 44.33 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
21 22 4.371855 TCTCTATTCATGCTTCGTTCGT 57.628 40.909 0.00 0.00 0.00 3.85
22 23 4.105486 TCTCTATTCATGCTTCGTTCGTG 58.895 43.478 0.00 0.00 0.00 4.35
23 24 3.845178 TCTATTCATGCTTCGTTCGTGT 58.155 40.909 0.00 0.00 0.00 4.49
24 25 3.857665 TCTATTCATGCTTCGTTCGTGTC 59.142 43.478 0.00 0.00 0.00 3.67
139 140 4.024977 GGCATTAAACCACTGCTGTTTTTG 60.025 41.667 9.26 1.37 37.18 2.44
156 157 0.812014 TTGTAGGGCGTGTGTGTGTG 60.812 55.000 0.00 0.00 0.00 3.82
157 158 1.227438 GTAGGGCGTGTGTGTGTGT 60.227 57.895 0.00 0.00 0.00 3.72
158 159 1.227409 TAGGGCGTGTGTGTGTGTG 60.227 57.895 0.00 0.00 0.00 3.82
159 160 1.962321 TAGGGCGTGTGTGTGTGTGT 61.962 55.000 0.00 0.00 0.00 3.72
160 161 2.403186 GGCGTGTGTGTGTGTGTG 59.597 61.111 0.00 0.00 0.00 3.82
161 162 2.395360 GGCGTGTGTGTGTGTGTGT 61.395 57.895 0.00 0.00 0.00 3.72
162 163 1.225991 GCGTGTGTGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
163 164 1.906994 GCGTGTGTGTGTGTGTGTGT 61.907 55.000 0.00 0.00 0.00 3.72
164 165 0.179227 CGTGTGTGTGTGTGTGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
165 166 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
166 167 1.136085 GTGTGTGTGTGTGTGTGTGTC 60.136 52.381 0.00 0.00 0.00 3.67
167 168 0.446222 GTGTGTGTGTGTGTGTGTCC 59.554 55.000 0.00 0.00 0.00 4.02
168 169 0.675208 TGTGTGTGTGTGTGTGTCCC 60.675 55.000 0.00 0.00 0.00 4.46
169 170 0.675208 GTGTGTGTGTGTGTGTCCCA 60.675 55.000 0.00 0.00 0.00 4.37
170 171 0.254462 TGTGTGTGTGTGTGTCCCAT 59.746 50.000 0.00 0.00 0.00 4.00
171 172 1.486726 TGTGTGTGTGTGTGTCCCATA 59.513 47.619 0.00 0.00 0.00 2.74
172 173 2.143122 GTGTGTGTGTGTGTCCCATAG 58.857 52.381 0.00 0.00 0.00 2.23
173 174 1.071542 TGTGTGTGTGTGTCCCATAGG 59.928 52.381 0.00 0.00 0.00 2.57
235 240 3.893720 GCAGCTGGATGCATGTAATTAC 58.106 45.455 17.12 8.75 45.77 1.89
236 241 3.567164 GCAGCTGGATGCATGTAATTACT 59.433 43.478 17.12 0.00 45.77 2.24
237 242 4.756642 GCAGCTGGATGCATGTAATTACTA 59.243 41.667 17.12 4.00 45.77 1.82
238 243 5.334414 GCAGCTGGATGCATGTAATTACTAC 60.334 44.000 17.12 6.65 45.77 2.73
239 244 5.994054 CAGCTGGATGCATGTAATTACTACT 59.006 40.000 16.33 0.00 45.94 2.57
240 245 6.146837 CAGCTGGATGCATGTAATTACTACTC 59.853 42.308 16.33 6.47 45.94 2.59
241 246 5.409826 GCTGGATGCATGTAATTACTACTCC 59.590 44.000 16.33 13.95 42.31 3.85
242 247 5.865085 TGGATGCATGTAATTACTACTCCC 58.135 41.667 16.33 10.60 0.00 4.30
243 248 5.606749 TGGATGCATGTAATTACTACTCCCT 59.393 40.000 16.33 0.00 0.00 4.20
244 249 6.101150 TGGATGCATGTAATTACTACTCCCTT 59.899 38.462 16.33 0.00 0.00 3.95
245 250 6.651225 GGATGCATGTAATTACTACTCCCTTC 59.349 42.308 16.33 6.81 0.00 3.46
246 251 6.553953 TGCATGTAATTACTACTCCCTTCA 57.446 37.500 16.33 0.00 0.00 3.02
247 252 7.136822 TGCATGTAATTACTACTCCCTTCAT 57.863 36.000 16.33 0.00 0.00 2.57
248 253 7.573710 TGCATGTAATTACTACTCCCTTCATT 58.426 34.615 16.33 0.00 0.00 2.57
249 254 7.715249 TGCATGTAATTACTACTCCCTTCATTC 59.285 37.037 16.33 0.00 0.00 2.67
250 255 7.173390 GCATGTAATTACTACTCCCTTCATTCC 59.827 40.741 16.33 0.00 0.00 3.01
251 256 7.743116 TGTAATTACTACTCCCTTCATTCCA 57.257 36.000 16.33 0.00 0.00 3.53
252 257 7.792032 TGTAATTACTACTCCCTTCATTCCAG 58.208 38.462 16.33 0.00 0.00 3.86
253 258 4.755266 TTACTACTCCCTTCATTCCAGC 57.245 45.455 0.00 0.00 0.00 4.85
254 259 2.839228 ACTACTCCCTTCATTCCAGCT 58.161 47.619 0.00 0.00 0.00 4.24
255 260 3.995636 ACTACTCCCTTCATTCCAGCTA 58.004 45.455 0.00 0.00 0.00 3.32
256 261 4.362677 ACTACTCCCTTCATTCCAGCTAA 58.637 43.478 0.00 0.00 0.00 3.09
257 262 3.636153 ACTCCCTTCATTCCAGCTAAC 57.364 47.619 0.00 0.00 0.00 2.34
258 263 3.185455 ACTCCCTTCATTCCAGCTAACT 58.815 45.455 0.00 0.00 0.00 2.24
259 264 3.589288 ACTCCCTTCATTCCAGCTAACTT 59.411 43.478 0.00 0.00 0.00 2.66
260 265 4.043435 ACTCCCTTCATTCCAGCTAACTTT 59.957 41.667 0.00 0.00 0.00 2.66
261 266 5.250774 ACTCCCTTCATTCCAGCTAACTTTA 59.749 40.000 0.00 0.00 0.00 1.85
262 267 6.134535 TCCCTTCATTCCAGCTAACTTTAA 57.865 37.500 0.00 0.00 0.00 1.52
263 268 6.731467 TCCCTTCATTCCAGCTAACTTTAAT 58.269 36.000 0.00 0.00 0.00 1.40
264 269 7.867921 TCCCTTCATTCCAGCTAACTTTAATA 58.132 34.615 0.00 0.00 0.00 0.98
265 270 7.773690 TCCCTTCATTCCAGCTAACTTTAATAC 59.226 37.037 0.00 0.00 0.00 1.89
266 271 7.556275 CCCTTCATTCCAGCTAACTTTAATACA 59.444 37.037 0.00 0.00 0.00 2.29
267 272 8.956426 CCTTCATTCCAGCTAACTTTAATACAA 58.044 33.333 0.00 0.00 0.00 2.41
270 275 9.515226 TCATTCCAGCTAACTTTAATACAAAGT 57.485 29.630 0.00 0.00 41.82 2.66
273 278 8.106247 TCCAGCTAACTTTAATACAAAGTTGG 57.894 34.615 20.03 18.41 46.41 3.77
274 279 7.175990 TCCAGCTAACTTTAATACAAAGTTGGG 59.824 37.037 20.03 15.97 46.41 4.12
290 295 9.758651 ACAAAGTTGGGTTATCTATTTTGAAAC 57.241 29.630 0.00 0.00 0.00 2.78
291 296 8.911662 CAAAGTTGGGTTATCTATTTTGAAACG 58.088 33.333 0.00 0.00 0.00 3.60
292 297 7.153217 AGTTGGGTTATCTATTTTGAAACGG 57.847 36.000 0.00 0.00 0.00 4.44
293 298 6.943718 AGTTGGGTTATCTATTTTGAAACGGA 59.056 34.615 0.00 0.00 0.00 4.69
294 299 6.995511 TGGGTTATCTATTTTGAAACGGAG 57.004 37.500 0.00 0.00 0.00 4.63
295 300 5.883673 TGGGTTATCTATTTTGAAACGGAGG 59.116 40.000 0.00 0.00 0.00 4.30
296 301 5.298527 GGGTTATCTATTTTGAAACGGAGGG 59.701 44.000 0.00 0.00 0.00 4.30
297 302 6.117488 GGTTATCTATTTTGAAACGGAGGGA 58.883 40.000 0.00 0.00 0.00 4.20
298 303 6.260271 GGTTATCTATTTTGAAACGGAGGGAG 59.740 42.308 0.00 0.00 0.00 4.30
299 304 4.216411 TCTATTTTGAAACGGAGGGAGG 57.784 45.455 0.00 0.00 0.00 4.30
305 310 6.509523 TTTTGAAACGGAGGGAGGATATAT 57.490 37.500 0.00 0.00 0.00 0.86
339 344 6.630444 TGGTTAGTCTGGTATCGTATCTTC 57.370 41.667 0.00 0.00 0.00 2.87
342 347 7.660617 TGGTTAGTCTGGTATCGTATCTTCTAG 59.339 40.741 0.00 0.00 0.00 2.43
380 385 0.974383 AAAGCTAGCCGTGTGGTACT 59.026 50.000 12.13 0.00 37.67 2.73
381 386 1.843368 AAGCTAGCCGTGTGGTACTA 58.157 50.000 12.13 0.00 37.67 1.82
382 387 1.101331 AGCTAGCCGTGTGGTACTAC 58.899 55.000 12.13 1.77 37.67 2.73
386 391 0.890542 AGCCGTGTGGTACTACGTCA 60.891 55.000 4.80 0.00 37.77 4.35
447 472 4.441079 CCAATTCCATCATGACTTTGAGGC 60.441 45.833 0.00 0.00 0.00 4.70
510 535 1.916273 TGGCCGGTCCTACATGTGT 60.916 57.895 9.11 0.00 35.26 3.72
534 562 4.929808 ACAGCTGTACCTACGAATTTCTTG 59.070 41.667 20.16 0.00 0.00 3.02
543 571 6.472887 ACCTACGAATTTCTTGAAGGATTGA 58.527 36.000 0.00 0.00 0.00 2.57
702 802 5.713861 CCCATGAAGAACTTTCTTTGAGGAT 59.286 40.000 5.71 0.00 46.84 3.24
764 864 5.192927 CCTGTTGGTTCTATTCATTAGGCA 58.807 41.667 0.00 0.00 0.00 4.75
765 865 5.297776 CCTGTTGGTTCTATTCATTAGGCAG 59.702 44.000 0.00 0.00 0.00 4.85
770 884 6.349300 TGGTTCTATTCATTAGGCAGTTCTC 58.651 40.000 0.00 0.00 0.00 2.87
778 892 5.003804 TCATTAGGCAGTTCTCAAAGTTCC 58.996 41.667 0.00 0.00 0.00 3.62
779 893 2.278332 AGGCAGTTCTCAAAGTTCCC 57.722 50.000 0.00 0.00 0.00 3.97
783 899 1.792949 CAGTTCTCAAAGTTCCCGACG 59.207 52.381 0.00 0.00 0.00 5.12
824 940 2.180674 GGAGAAAATCCGTGTGGGC 58.819 57.895 0.00 0.00 38.67 5.36
829 945 1.887344 AAAATCCGTGTGGGCCATGC 61.887 55.000 10.70 4.68 35.24 4.06
870 986 2.038367 GCGCGTGAATACAAACGTTTT 58.962 42.857 11.66 5.92 41.76 2.43
871 987 2.086399 GCGCGTGAATACAAACGTTTTC 59.914 45.455 11.66 7.15 41.76 2.29
874 990 4.276460 GCGTGAATACAAACGTTTTCACT 58.724 39.130 27.81 10.69 45.49 3.41
875 991 5.433855 GCGTGAATACAAACGTTTTCACTA 58.566 37.500 27.81 12.05 45.49 2.74
876 992 5.902981 GCGTGAATACAAACGTTTTCACTAA 59.097 36.000 27.81 8.42 45.49 2.24
877 993 6.575942 GCGTGAATACAAACGTTTTCACTAAT 59.424 34.615 27.81 9.88 45.49 1.73
878 994 7.407871 GCGTGAATACAAACGTTTTCACTAATG 60.408 37.037 27.81 18.84 45.49 1.90
879 995 7.584847 CGTGAATACAAACGTTTTCACTAATGT 59.415 33.333 27.81 17.83 45.49 2.71
934 1050 1.468520 GCAGCTTACGGATCAGCAAAA 59.531 47.619 5.65 0.00 38.61 2.44
1010 1127 3.655276 CCATAAATTCATGGCCAGCTC 57.345 47.619 13.05 0.00 39.18 4.09
1011 1128 2.298163 CCATAAATTCATGGCCAGCTCC 59.702 50.000 13.05 0.00 39.18 4.70
1012 1129 2.071778 TAAATTCATGGCCAGCTCCC 57.928 50.000 13.05 0.00 0.00 4.30
1013 1130 0.041535 AAATTCATGGCCAGCTCCCA 59.958 50.000 13.05 5.16 36.66 4.37
1096 1225 1.001974 CATTCCCTCCACTGTTCGTCA 59.998 52.381 0.00 0.00 0.00 4.35
1119 1248 2.103042 GGTCCTGCTGCTGCTAACG 61.103 63.158 17.00 2.93 40.48 3.18
1423 1552 0.585838 GGAGCGGTCGTACTACTAGC 59.414 60.000 8.77 9.33 0.00 3.42
1426 1555 1.414181 AGCGGTCGTACTACTAGCCTA 59.586 52.381 12.28 0.00 0.00 3.93
1427 1556 2.158900 AGCGGTCGTACTACTAGCCTAA 60.159 50.000 12.28 0.00 0.00 2.69
1429 1558 3.120373 GCGGTCGTACTACTAGCCTAATC 60.120 52.174 0.00 0.00 0.00 1.75
1430 1559 4.314121 CGGTCGTACTACTAGCCTAATCT 58.686 47.826 0.00 0.00 0.00 2.40
1433 1562 4.388469 GTCGTACTACTAGCCTAATCTCCG 59.612 50.000 0.00 0.00 0.00 4.63
1462 1592 3.741344 ACCGAAGTTGAGAAAACGAGATG 59.259 43.478 0.00 0.00 0.00 2.90
1464 1594 4.921515 CCGAAGTTGAGAAAACGAGATGTA 59.078 41.667 0.00 0.00 0.00 2.29
1509 1725 1.068333 TCGGCTACGTGGTACAAAGTC 60.068 52.381 0.00 0.00 44.16 3.01
1516 1732 2.803956 ACGTGGTACAAAGTCCAATTCG 59.196 45.455 0.00 0.00 44.16 3.34
1524 1740 3.958147 ACAAAGTCCAATTCGGTTCCTTT 59.042 39.130 0.00 0.00 35.57 3.11
1542 1758 6.009115 TCCTTTAAAAAGTTCAATCGGAGC 57.991 37.500 2.03 0.00 34.20 4.70
1622 1850 0.949105 CACTGCGGGCGTACTTTTCT 60.949 55.000 0.00 0.00 0.00 2.52
1640 1868 6.202954 ACTTTTCTCTACGTGAAAATGACAGG 59.797 38.462 11.35 3.81 40.94 4.00
1714 1942 2.229792 GGCAAAGACACATCCACTTCA 58.770 47.619 0.00 0.00 0.00 3.02
1725 1953 1.811266 CCACTTCAGATCGGCCACG 60.811 63.158 2.24 0.00 42.74 4.94
1749 2006 1.377366 GCTCTTAAAGGGAAGGGCGC 61.377 60.000 0.00 0.00 42.81 6.53
1755 2012 0.111639 AAAGGGAAGGGCGCAGTTTA 59.888 50.000 10.83 0.00 0.00 2.01
1768 2025 3.117346 GCGCAGTTTACATCGACAAAAAC 59.883 43.478 0.30 9.25 33.11 2.43
1785 2049 8.491950 CGACAAAAACAAAGGAAAAGAAAAGAA 58.508 29.630 0.00 0.00 0.00 2.52
1819 2083 6.904626 AGCTGAGGTTGAAGGTGAAATATAT 58.095 36.000 0.00 0.00 0.00 0.86
1822 2086 7.446625 GCTGAGGTTGAAGGTGAAATATATGAT 59.553 37.037 0.00 0.00 0.00 2.45
1823 2087 8.908786 TGAGGTTGAAGGTGAAATATATGATC 57.091 34.615 0.00 0.00 0.00 2.92
1824 2088 8.717717 TGAGGTTGAAGGTGAAATATATGATCT 58.282 33.333 0.00 0.00 0.00 2.75
1891 2164 7.830099 AATGGATCCAGGAATATGAAGAAAC 57.170 36.000 21.33 0.00 0.00 2.78
1907 2180 0.744281 AAACGGGGTGAAAAGCAGTG 59.256 50.000 0.00 0.00 0.00 3.66
1964 2237 7.464710 CGAATTCAGTATTTCTCTTTTCCCGAG 60.465 40.741 6.22 0.00 0.00 4.63
2002 2276 2.225727 GACTTTGCCGGAACTTTACCTG 59.774 50.000 5.05 0.00 0.00 4.00
2054 2328 2.047061 TGGAGCAAGTGGTAACTCAGT 58.953 47.619 0.00 0.00 34.77 3.41
2055 2329 2.224281 TGGAGCAAGTGGTAACTCAGTG 60.224 50.000 0.00 0.00 34.77 3.66
2056 2330 2.417719 GAGCAAGTGGTAACTCAGTGG 58.582 52.381 0.00 0.00 34.77 4.00
2057 2331 2.037251 GAGCAAGTGGTAACTCAGTGGA 59.963 50.000 0.00 0.00 34.77 4.02
2058 2332 2.037772 AGCAAGTGGTAACTCAGTGGAG 59.962 50.000 0.00 0.00 46.96 3.86
2059 2333 2.417719 CAAGTGGTAACTCAGTGGAGC 58.582 52.381 0.00 0.00 45.42 4.70
2060 2334 0.977395 AGTGGTAACTCAGTGGAGCC 59.023 55.000 0.00 0.00 45.42 4.70
2061 2335 0.389948 GTGGTAACTCAGTGGAGCCG 60.390 60.000 0.00 0.00 45.42 5.52
2062 2336 0.541063 TGGTAACTCAGTGGAGCCGA 60.541 55.000 0.00 0.00 45.42 5.54
2063 2337 0.173708 GGTAACTCAGTGGAGCCGAG 59.826 60.000 0.00 0.00 45.42 4.63
2064 2338 0.173708 GTAACTCAGTGGAGCCGAGG 59.826 60.000 0.00 0.00 45.42 4.63
2065 2339 0.251653 TAACTCAGTGGAGCCGAGGT 60.252 55.000 0.00 0.00 45.42 3.85
2066 2340 1.122019 AACTCAGTGGAGCCGAGGTT 61.122 55.000 0.00 0.00 45.42 3.50
2067 2341 1.122019 ACTCAGTGGAGCCGAGGTTT 61.122 55.000 0.00 0.00 45.42 3.27
2068 2342 0.035458 CTCAGTGGAGCCGAGGTTTT 59.965 55.000 0.00 0.00 33.67 2.43
2069 2343 0.034896 TCAGTGGAGCCGAGGTTTTC 59.965 55.000 0.00 0.00 0.00 2.29
2070 2344 0.035458 CAGTGGAGCCGAGGTTTTCT 59.965 55.000 0.00 0.00 0.00 2.52
2071 2345 0.765510 AGTGGAGCCGAGGTTTTCTT 59.234 50.000 0.00 0.00 0.00 2.52
2072 2346 1.143073 AGTGGAGCCGAGGTTTTCTTT 59.857 47.619 0.00 0.00 0.00 2.52
2073 2347 1.954382 GTGGAGCCGAGGTTTTCTTTT 59.046 47.619 0.00 0.00 0.00 2.27
2074 2348 2.361119 GTGGAGCCGAGGTTTTCTTTTT 59.639 45.455 0.00 0.00 0.00 1.94
2075 2349 3.566742 GTGGAGCCGAGGTTTTCTTTTTA 59.433 43.478 0.00 0.00 0.00 1.52
2076 2350 4.037089 GTGGAGCCGAGGTTTTCTTTTTAA 59.963 41.667 0.00 0.00 0.00 1.52
2077 2351 4.830600 TGGAGCCGAGGTTTTCTTTTTAAT 59.169 37.500 0.00 0.00 0.00 1.40
2078 2352 5.048294 TGGAGCCGAGGTTTTCTTTTTAATC 60.048 40.000 0.00 0.00 0.00 1.75
2079 2353 5.183331 GGAGCCGAGGTTTTCTTTTTAATCT 59.817 40.000 0.00 0.00 0.00 2.40
2080 2354 6.255596 AGCCGAGGTTTTCTTTTTAATCTC 57.744 37.500 0.00 0.00 0.00 2.75
2081 2355 5.768164 AGCCGAGGTTTTCTTTTTAATCTCA 59.232 36.000 0.00 0.00 0.00 3.27
2082 2356 5.856986 GCCGAGGTTTTCTTTTTAATCTCAC 59.143 40.000 0.00 0.00 0.00 3.51
2083 2357 6.379386 CCGAGGTTTTCTTTTTAATCTCACC 58.621 40.000 0.00 0.00 0.00 4.02
2084 2358 6.016610 CCGAGGTTTTCTTTTTAATCTCACCA 60.017 38.462 0.00 0.00 0.00 4.17
2085 2359 7.422399 CGAGGTTTTCTTTTTAATCTCACCAA 58.578 34.615 0.00 0.00 0.00 3.67
2086 2360 7.918562 CGAGGTTTTCTTTTTAATCTCACCAAA 59.081 33.333 0.00 0.00 0.00 3.28
2087 2361 9.594478 GAGGTTTTCTTTTTAATCTCACCAAAA 57.406 29.630 0.00 0.00 0.00 2.44
2088 2362 9.952030 AGGTTTTCTTTTTAATCTCACCAAAAA 57.048 25.926 0.00 0.00 32.06 1.94
2123 2397 1.320344 CGGGGAACATCGAGTCTCCA 61.320 60.000 11.76 0.00 32.42 3.86
2130 2404 4.158025 GGAACATCGAGTCTCCACTTAGAA 59.842 45.833 4.93 0.00 30.63 2.10
2131 2405 4.705337 ACATCGAGTCTCCACTTAGAAC 57.295 45.455 0.00 0.00 30.63 3.01
2132 2406 4.079970 ACATCGAGTCTCCACTTAGAACA 58.920 43.478 0.00 0.00 30.63 3.18
2133 2407 4.082679 ACATCGAGTCTCCACTTAGAACAC 60.083 45.833 0.00 0.00 30.63 3.32
2134 2408 3.483421 TCGAGTCTCCACTTAGAACACA 58.517 45.455 0.00 0.00 30.63 3.72
2135 2409 3.252701 TCGAGTCTCCACTTAGAACACAC 59.747 47.826 0.00 0.00 30.63 3.82
2136 2410 3.566523 GAGTCTCCACTTAGAACACACG 58.433 50.000 0.00 0.00 30.63 4.49
2137 2411 2.957006 AGTCTCCACTTAGAACACACGT 59.043 45.455 0.00 0.00 0.00 4.49
2138 2412 4.139786 AGTCTCCACTTAGAACACACGTA 58.860 43.478 0.00 0.00 0.00 3.57
2139 2413 4.215827 AGTCTCCACTTAGAACACACGTAG 59.784 45.833 0.00 0.00 0.00 3.51
2140 2414 3.504906 TCTCCACTTAGAACACACGTAGG 59.495 47.826 0.00 0.00 0.00 3.18
2145 2419 4.680110 CACTTAGAACACACGTAGGTTCAG 59.320 45.833 24.65 18.61 44.46 3.02
2152 2426 3.191581 ACACACGTAGGTTCAGAGATCTG 59.808 47.826 0.00 3.33 45.08 2.90
2176 2450 6.871492 TGCTCGTGACTGTCTATTTTTCAATA 59.129 34.615 9.51 0.00 0.00 1.90
2177 2451 7.148639 TGCTCGTGACTGTCTATTTTTCAATAC 60.149 37.037 9.51 0.00 0.00 1.89
2179 2453 9.569167 CTCGTGACTGTCTATTTTTCAATACTA 57.431 33.333 9.51 0.00 0.00 1.82
2192 2466 9.910267 ATTTTTCAATACTATAACCGTACCCTT 57.090 29.630 0.00 0.00 0.00 3.95
2193 2467 9.737844 TTTTTCAATACTATAACCGTACCCTTT 57.262 29.630 0.00 0.00 0.00 3.11
2194 2468 9.737844 TTTTCAATACTATAACCGTACCCTTTT 57.262 29.630 0.00 0.00 0.00 2.27
2195 2469 8.947055 TTCAATACTATAACCGTACCCTTTTC 57.053 34.615 0.00 0.00 0.00 2.29
2214 2488 3.895232 TCCTCTCTTTTCTGATTCCGG 57.105 47.619 0.00 0.00 0.00 5.14
2216 2490 2.355108 CCTCTCTTTTCTGATTCCGGCA 60.355 50.000 0.00 0.00 0.00 5.69
2231 2505 5.828299 TTCCGGCAGTGGAAATTAATAAG 57.172 39.130 0.00 0.00 44.86 1.73
2234 2508 4.260620 CCGGCAGTGGAAATTAATAAGTCG 60.261 45.833 0.00 0.00 0.00 4.18
2255 2529 2.343484 TCTAAATCTCTCGGCTCCGA 57.657 50.000 10.84 10.84 46.87 4.55
2265 2539 2.046285 CGGCTCCGATTTGCCCTTT 61.046 57.895 1.35 0.00 45.90 3.11
2270 2544 2.672195 GCTCCGATTTGCCCTTTCTTTG 60.672 50.000 0.00 0.00 0.00 2.77
2273 2547 2.331194 CGATTTGCCCTTTCTTTGCAG 58.669 47.619 0.00 0.00 36.21 4.41
2295 2579 3.834938 TCATGGCCATGAGCATTAATCA 58.165 40.909 38.91 17.23 46.50 2.57
2298 2582 4.859304 TGGCCATGAGCATTAATCAATC 57.141 40.909 0.00 0.00 46.50 2.67
2299 2583 4.216708 TGGCCATGAGCATTAATCAATCA 58.783 39.130 0.00 0.00 46.50 2.57
2300 2584 4.650131 TGGCCATGAGCATTAATCAATCAA 59.350 37.500 0.00 0.00 46.50 2.57
2301 2585 5.305902 TGGCCATGAGCATTAATCAATCAAT 59.694 36.000 0.00 0.00 46.50 2.57
2302 2586 6.183361 TGGCCATGAGCATTAATCAATCAATT 60.183 34.615 0.00 0.00 46.50 2.32
2303 2587 7.015389 TGGCCATGAGCATTAATCAATCAATTA 59.985 33.333 0.00 0.00 46.50 1.40
2304 2588 7.874016 GGCCATGAGCATTAATCAATCAATTAA 59.126 33.333 0.00 0.00 46.50 1.40
2305 2589 8.706035 GCCATGAGCATTAATCAATCAATTAAC 58.294 33.333 0.00 0.00 42.97 2.01
2306 2590 8.908678 CCATGAGCATTAATCAATCAATTAACG 58.091 33.333 0.00 0.00 34.75 3.18
2307 2591 7.912949 TGAGCATTAATCAATCAATTAACGC 57.087 32.000 0.59 0.59 39.40 4.84
2308 2592 6.917477 TGAGCATTAATCAATCAATTAACGCC 59.083 34.615 4.41 0.00 39.75 5.68
2309 2593 6.804677 AGCATTAATCAATCAATTAACGCCA 58.195 32.000 4.41 0.00 39.75 5.69
2310 2594 7.436118 AGCATTAATCAATCAATTAACGCCAT 58.564 30.769 4.41 0.00 39.75 4.40
2311 2595 7.383029 AGCATTAATCAATCAATTAACGCCATG 59.617 33.333 4.41 0.00 39.75 3.66
2312 2596 7.381948 GCATTAATCAATCAATTAACGCCATGA 59.618 33.333 0.00 0.00 35.39 3.07
2313 2597 8.908678 CATTAATCAATCAATTAACGCCATGAG 58.091 33.333 0.00 0.00 34.75 2.90
2314 2598 4.291540 TCAATCAATTAACGCCATGAGC 57.708 40.909 0.00 0.00 38.52 4.26
2315 2599 3.693578 TCAATCAATTAACGCCATGAGCA 59.306 39.130 0.00 0.00 44.04 4.26
2316 2600 3.698029 ATCAATTAACGCCATGAGCAC 57.302 42.857 0.00 0.00 44.04 4.40
2317 2601 2.710377 TCAATTAACGCCATGAGCACT 58.290 42.857 0.00 0.00 44.04 4.40
2318 2602 2.419673 TCAATTAACGCCATGAGCACTG 59.580 45.455 0.00 0.00 44.04 3.66
2356 2640 7.042335 TCCATTACCAAAACATTTTCAAACGT 58.958 30.769 0.00 0.00 0.00 3.99
2357 2641 7.549488 TCCATTACCAAAACATTTTCAAACGTT 59.451 29.630 0.00 0.00 0.00 3.99
2391 2675 3.822594 TTGTTATGGTTTAGCACGCTG 57.177 42.857 0.72 0.00 0.00 5.18
2400 2684 1.795768 TTAGCACGCTGGACAGAAAG 58.204 50.000 3.00 0.00 0.00 2.62
2403 2687 0.790814 GCACGCTGGACAGAAAGTAC 59.209 55.000 3.00 0.00 0.00 2.73
2404 2688 1.060713 CACGCTGGACAGAAAGTACG 58.939 55.000 3.00 0.00 31.81 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 0.511221 GAACCATTCACCACGACACG 59.489 55.000 0.00 0.00 0.00 4.49
20 21 0.511221 CGAACCATTCACCACGACAC 59.489 55.000 0.00 0.00 0.00 3.67
21 22 1.225376 GCGAACCATTCACCACGACA 61.225 55.000 0.00 0.00 0.00 4.35
22 23 1.495951 GCGAACCATTCACCACGAC 59.504 57.895 0.00 0.00 0.00 4.34
23 24 1.669760 GGCGAACCATTCACCACGA 60.670 57.895 0.00 0.00 32.14 4.35
24 25 2.867472 GGCGAACCATTCACCACG 59.133 61.111 0.00 0.00 32.14 4.94
127 128 0.951558 CGCCCTACAAAAACAGCAGT 59.048 50.000 0.00 0.00 0.00 4.40
139 140 1.227438 ACACACACACACGCCCTAC 60.227 57.895 0.00 0.00 0.00 3.18
173 174 2.095567 CGTGCAATCATAAGGCTATGGC 60.096 50.000 0.00 0.00 36.35 4.40
182 183 1.093972 CCTGTGCCGTGCAATCATAA 58.906 50.000 0.00 0.00 41.47 1.90
233 238 3.995636 AGCTGGAATGAAGGGAGTAGTA 58.004 45.455 0.00 0.00 0.00 1.82
234 239 2.839228 AGCTGGAATGAAGGGAGTAGT 58.161 47.619 0.00 0.00 0.00 2.73
235 240 4.407296 AGTTAGCTGGAATGAAGGGAGTAG 59.593 45.833 0.00 0.00 0.00 2.57
236 241 4.362677 AGTTAGCTGGAATGAAGGGAGTA 58.637 43.478 0.00 0.00 0.00 2.59
237 242 3.185455 AGTTAGCTGGAATGAAGGGAGT 58.815 45.455 0.00 0.00 0.00 3.85
238 243 3.922171 AGTTAGCTGGAATGAAGGGAG 57.078 47.619 0.00 0.00 0.00 4.30
239 244 4.657814 AAAGTTAGCTGGAATGAAGGGA 57.342 40.909 0.00 0.00 0.00 4.20
240 245 7.556275 TGTATTAAAGTTAGCTGGAATGAAGGG 59.444 37.037 0.00 0.00 0.00 3.95
241 246 8.506168 TGTATTAAAGTTAGCTGGAATGAAGG 57.494 34.615 0.00 0.00 0.00 3.46
244 249 9.515226 ACTTTGTATTAAAGTTAGCTGGAATGA 57.485 29.630 0.00 0.00 37.18 2.57
247 252 8.573035 CCAACTTTGTATTAAAGTTAGCTGGAA 58.427 33.333 15.03 0.00 45.57 3.53
248 253 7.175990 CCCAACTTTGTATTAAAGTTAGCTGGA 59.824 37.037 15.03 0.00 45.57 3.86
249 254 7.039993 ACCCAACTTTGTATTAAAGTTAGCTGG 60.040 37.037 15.03 13.02 45.57 4.85
250 255 7.882179 ACCCAACTTTGTATTAAAGTTAGCTG 58.118 34.615 15.03 6.31 45.57 4.24
251 256 8.473358 AACCCAACTTTGTATTAAAGTTAGCT 57.527 30.769 15.03 0.00 45.57 3.32
264 269 9.758651 GTTTCAAAATAGATAACCCAACTTTGT 57.241 29.630 0.00 0.00 0.00 2.83
265 270 8.911662 CGTTTCAAAATAGATAACCCAACTTTG 58.088 33.333 0.00 0.00 0.00 2.77
266 271 8.085909 CCGTTTCAAAATAGATAACCCAACTTT 58.914 33.333 0.00 0.00 0.00 2.66
267 272 7.449086 TCCGTTTCAAAATAGATAACCCAACTT 59.551 33.333 0.00 0.00 0.00 2.66
268 273 6.943718 TCCGTTTCAAAATAGATAACCCAACT 59.056 34.615 0.00 0.00 0.00 3.16
269 274 7.148355 TCCGTTTCAAAATAGATAACCCAAC 57.852 36.000 0.00 0.00 0.00 3.77
270 275 6.376018 CCTCCGTTTCAAAATAGATAACCCAA 59.624 38.462 0.00 0.00 0.00 4.12
271 276 5.883673 CCTCCGTTTCAAAATAGATAACCCA 59.116 40.000 0.00 0.00 0.00 4.51
272 277 5.298527 CCCTCCGTTTCAAAATAGATAACCC 59.701 44.000 0.00 0.00 0.00 4.11
273 278 6.117488 TCCCTCCGTTTCAAAATAGATAACC 58.883 40.000 0.00 0.00 0.00 2.85
274 279 6.260271 CCTCCCTCCGTTTCAAAATAGATAAC 59.740 42.308 0.00 0.00 0.00 1.89
275 280 6.157297 TCCTCCCTCCGTTTCAAAATAGATAA 59.843 38.462 0.00 0.00 0.00 1.75
276 281 5.664006 TCCTCCCTCCGTTTCAAAATAGATA 59.336 40.000 0.00 0.00 0.00 1.98
277 282 4.473559 TCCTCCCTCCGTTTCAAAATAGAT 59.526 41.667 0.00 0.00 0.00 1.98
278 283 3.841845 TCCTCCCTCCGTTTCAAAATAGA 59.158 43.478 0.00 0.00 0.00 1.98
279 284 4.216411 TCCTCCCTCCGTTTCAAAATAG 57.784 45.455 0.00 0.00 0.00 1.73
280 285 4.855298 ATCCTCCCTCCGTTTCAAAATA 57.145 40.909 0.00 0.00 0.00 1.40
281 286 3.739401 ATCCTCCCTCCGTTTCAAAAT 57.261 42.857 0.00 0.00 0.00 1.82
282 287 4.855298 ATATCCTCCCTCCGTTTCAAAA 57.145 40.909 0.00 0.00 0.00 2.44
283 288 5.605069 TCATATATCCTCCCTCCGTTTCAAA 59.395 40.000 0.00 0.00 0.00 2.69
284 289 5.152193 TCATATATCCTCCCTCCGTTTCAA 58.848 41.667 0.00 0.00 0.00 2.69
285 290 4.747583 TCATATATCCTCCCTCCGTTTCA 58.252 43.478 0.00 0.00 0.00 2.69
286 291 5.395768 CCATCATATATCCTCCCTCCGTTTC 60.396 48.000 0.00 0.00 0.00 2.78
287 292 4.471386 CCATCATATATCCTCCCTCCGTTT 59.529 45.833 0.00 0.00 0.00 3.60
288 293 4.033709 CCATCATATATCCTCCCTCCGTT 58.966 47.826 0.00 0.00 0.00 4.44
289 294 3.012959 ACCATCATATATCCTCCCTCCGT 59.987 47.826 0.00 0.00 0.00 4.69
290 295 3.639094 GACCATCATATATCCTCCCTCCG 59.361 52.174 0.00 0.00 0.00 4.63
291 296 4.889780 AGACCATCATATATCCTCCCTCC 58.110 47.826 0.00 0.00 0.00 4.30
292 297 6.882768 AAAGACCATCATATATCCTCCCTC 57.117 41.667 0.00 0.00 0.00 4.30
293 298 6.012157 CCAAAAGACCATCATATATCCTCCCT 60.012 42.308 0.00 0.00 0.00 4.20
294 299 6.183347 CCAAAAGACCATCATATATCCTCCC 58.817 44.000 0.00 0.00 0.00 4.30
295 300 6.784031 ACCAAAAGACCATCATATATCCTCC 58.216 40.000 0.00 0.00 0.00 4.30
296 301 9.442047 CTAACCAAAAGACCATCATATATCCTC 57.558 37.037 0.00 0.00 0.00 3.71
297 302 8.949421 ACTAACCAAAAGACCATCATATATCCT 58.051 33.333 0.00 0.00 0.00 3.24
298 303 9.220767 GACTAACCAAAAGACCATCATATATCC 57.779 37.037 0.00 0.00 0.00 2.59
305 310 4.104102 ACCAGACTAACCAAAAGACCATCA 59.896 41.667 0.00 0.00 0.00 3.07
380 385 6.540914 AGGTGATCTGTTTTCTTTTTGACGTA 59.459 34.615 0.00 0.00 0.00 3.57
381 386 5.357032 AGGTGATCTGTTTTCTTTTTGACGT 59.643 36.000 0.00 0.00 0.00 4.34
382 387 5.821204 AGGTGATCTGTTTTCTTTTTGACG 58.179 37.500 0.00 0.00 0.00 4.35
386 391 7.588497 AGCTTAGGTGATCTGTTTTCTTTTT 57.412 32.000 0.00 0.00 0.00 1.94
510 535 5.909621 AGAAATTCGTAGGTACAGCTGTA 57.090 39.130 22.67 22.67 0.00 2.74
528 556 4.019174 GAGGGCATCAATCCTTCAAGAAA 58.981 43.478 0.00 0.00 32.74 2.52
534 562 9.520515 TTATTATAAAGAGGGCATCAATCCTTC 57.479 33.333 0.58 0.00 32.74 3.46
614 652 1.686587 CTTTGCGGGGGAAAAACTCTT 59.313 47.619 0.00 0.00 0.00 2.85
702 802 6.423001 GGTTTAGCGTCTAGAAAGTTTTCAGA 59.577 38.462 7.30 5.39 39.61 3.27
764 864 1.411612 ACGTCGGGAACTTTGAGAACT 59.588 47.619 0.00 0.00 0.00 3.01
765 865 1.861971 ACGTCGGGAACTTTGAGAAC 58.138 50.000 0.00 0.00 0.00 3.01
783 899 0.601558 TGCTCCAGACTACACGGAAC 59.398 55.000 0.00 0.00 0.00 3.62
824 940 2.159338 GGTGACAGTTATGCTTGCATGG 60.159 50.000 17.26 7.39 0.00 3.66
829 945 0.447801 GGCGGTGACAGTTATGCTTG 59.552 55.000 0.00 0.00 0.00 4.01
1009 1126 3.282021 GCTGCAAATAGAATGACTGGGA 58.718 45.455 0.00 0.00 0.00 4.37
1010 1127 3.018856 TGCTGCAAATAGAATGACTGGG 58.981 45.455 0.00 0.00 0.00 4.45
1011 1128 3.441222 TGTGCTGCAAATAGAATGACTGG 59.559 43.478 2.77 0.00 0.00 4.00
1012 1129 4.690184 TGTGCTGCAAATAGAATGACTG 57.310 40.909 2.77 0.00 0.00 3.51
1013 1130 4.945543 TGATGTGCTGCAAATAGAATGACT 59.054 37.500 5.05 0.00 0.00 3.41
1096 1225 2.429058 CAGCAGCAGGACCAGTGT 59.571 61.111 0.00 0.00 0.00 3.55
1407 1536 1.871080 TAGGCTAGTAGTACGACCGC 58.129 55.000 2.14 6.05 0.00 5.68
1433 1562 5.268544 GTTTTCTCAACTTCGGTTACAACC 58.731 41.667 0.73 0.73 45.76 3.77
1509 1725 6.981559 TGAACTTTTTAAAGGAACCGAATTGG 59.018 34.615 7.12 0.00 41.30 3.16
1516 1732 6.741109 TCCGATTGAACTTTTTAAAGGAACC 58.259 36.000 7.12 0.00 40.31 3.62
1524 1740 3.810941 ACGTGCTCCGATTGAACTTTTTA 59.189 39.130 3.38 0.00 40.70 1.52
1550 1766 6.986817 AGGAGATGTCCATTTTATACGTCTTG 59.013 38.462 12.14 0.00 46.80 3.02
1565 1793 0.249657 GTGCGATGGAGGAGATGTCC 60.250 60.000 0.00 0.00 44.33 4.02
1609 1837 2.095059 TCACGTAGAGAAAAGTACGCCC 60.095 50.000 1.98 0.00 44.70 6.13
1610 1838 3.207474 TCACGTAGAGAAAAGTACGCC 57.793 47.619 1.98 0.00 44.70 5.68
1622 1850 4.345859 AACCCTGTCATTTTCACGTAGA 57.654 40.909 0.00 0.00 0.00 2.59
1640 1868 4.240096 TCTTTTTCTCCGTGACGATAACC 58.760 43.478 6.54 0.00 0.00 2.85
1684 1912 0.527385 TGTCTTTGCCACGCTTTTGC 60.527 50.000 0.00 0.00 43.23 3.68
1725 1953 1.683319 CCTTCCCTTTAAGAGCAGGCC 60.683 57.143 0.00 0.00 0.00 5.19
1749 2006 6.970043 TCCTTTGTTTTTGTCGATGTAAACTG 59.030 34.615 15.49 8.93 32.99 3.16
1755 2012 6.626302 TCTTTTCCTTTGTTTTTGTCGATGT 58.374 32.000 0.00 0.00 0.00 3.06
1768 2025 8.206867 AGGAGGATTTTCTTTTCTTTTCCTTTG 58.793 33.333 0.00 0.00 32.42 2.77
1825 2089 9.422681 TCATAGCAGTAACTAAGGATTTACTCT 57.577 33.333 0.00 0.00 36.58 3.24
1875 2148 3.627577 CACCCCGTTTCTTCATATTCCTG 59.372 47.826 0.00 0.00 0.00 3.86
1884 2157 1.679153 TGCTTTTCACCCCGTTTCTTC 59.321 47.619 0.00 0.00 0.00 2.87
1889 2162 0.395173 ACACTGCTTTTCACCCCGTT 60.395 50.000 0.00 0.00 0.00 4.44
1891 2164 1.515521 GGACACTGCTTTTCACCCCG 61.516 60.000 0.00 0.00 0.00 5.73
1907 2180 2.482142 CGACAGCTTAGGATTCAGGGAC 60.482 54.545 0.00 0.00 0.00 4.46
1974 2247 0.597568 TTCCGGCAAAGTCAGCATTG 59.402 50.000 0.00 0.00 0.00 2.82
2002 2276 1.209128 ACATCAATCGCGTTCGGATC 58.791 50.000 5.77 0.00 36.13 3.36
2054 2328 2.358322 AAAAGAAAACCTCGGCTCCA 57.642 45.000 0.00 0.00 0.00 3.86
2055 2329 4.841443 TTAAAAAGAAAACCTCGGCTCC 57.159 40.909 0.00 0.00 0.00 4.70
2056 2330 6.072673 TGAGATTAAAAAGAAAACCTCGGCTC 60.073 38.462 0.00 0.00 0.00 4.70
2057 2331 5.768164 TGAGATTAAAAAGAAAACCTCGGCT 59.232 36.000 0.00 0.00 0.00 5.52
2058 2332 5.856986 GTGAGATTAAAAAGAAAACCTCGGC 59.143 40.000 0.00 0.00 0.00 5.54
2059 2333 6.016610 TGGTGAGATTAAAAAGAAAACCTCGG 60.017 38.462 0.00 0.00 0.00 4.63
2060 2334 6.966021 TGGTGAGATTAAAAAGAAAACCTCG 58.034 36.000 0.00 0.00 0.00 4.63
2061 2335 9.594478 TTTTGGTGAGATTAAAAAGAAAACCTC 57.406 29.630 0.00 0.00 0.00 3.85
2062 2336 9.952030 TTTTTGGTGAGATTAAAAAGAAAACCT 57.048 25.926 0.00 0.00 31.75 3.50
2094 2368 1.886542 GATGTTCCCCGCTGAGTTTTT 59.113 47.619 0.00 0.00 0.00 1.94
2095 2369 1.534729 GATGTTCCCCGCTGAGTTTT 58.465 50.000 0.00 0.00 0.00 2.43
2096 2370 0.673644 CGATGTTCCCCGCTGAGTTT 60.674 55.000 0.00 0.00 0.00 2.66
2097 2371 1.079127 CGATGTTCCCCGCTGAGTT 60.079 57.895 0.00 0.00 0.00 3.01
2098 2372 1.949847 CTCGATGTTCCCCGCTGAGT 61.950 60.000 0.00 0.00 0.00 3.41
2099 2373 1.227089 CTCGATGTTCCCCGCTGAG 60.227 63.158 0.00 0.00 0.00 3.35
2100 2374 1.945354 GACTCGATGTTCCCCGCTGA 61.945 60.000 0.00 0.00 0.00 4.26
2101 2375 1.519455 GACTCGATGTTCCCCGCTG 60.519 63.158 0.00 0.00 0.00 5.18
2102 2376 1.668101 GAGACTCGATGTTCCCCGCT 61.668 60.000 0.00 0.00 0.00 5.52
2103 2377 1.227002 GAGACTCGATGTTCCCCGC 60.227 63.158 0.00 0.00 0.00 6.13
2111 2385 4.082733 TGTGTTCTAAGTGGAGACTCGATG 60.083 45.833 0.00 0.00 0.00 3.84
2123 2397 4.581824 TCTGAACCTACGTGTGTTCTAAGT 59.418 41.667 23.70 0.00 41.10 2.24
2130 2404 3.191581 CAGATCTCTGAACCTACGTGTGT 59.808 47.826 0.00 0.00 46.59 3.72
2131 2405 3.763902 CAGATCTCTGAACCTACGTGTG 58.236 50.000 0.00 0.00 46.59 3.82
2132 2406 2.164624 GCAGATCTCTGAACCTACGTGT 59.835 50.000 11.34 0.00 46.59 4.49
2133 2407 2.425312 AGCAGATCTCTGAACCTACGTG 59.575 50.000 11.34 0.00 46.59 4.49
2134 2408 2.685897 GAGCAGATCTCTGAACCTACGT 59.314 50.000 11.34 0.00 46.59 3.57
2135 2409 2.286713 CGAGCAGATCTCTGAACCTACG 60.287 54.545 11.34 3.44 46.59 3.51
2136 2410 2.685897 ACGAGCAGATCTCTGAACCTAC 59.314 50.000 11.34 0.00 46.59 3.18
2137 2411 2.685388 CACGAGCAGATCTCTGAACCTA 59.315 50.000 11.34 0.00 46.59 3.08
2138 2412 1.476085 CACGAGCAGATCTCTGAACCT 59.524 52.381 11.34 0.00 46.59 3.50
2139 2413 1.474478 TCACGAGCAGATCTCTGAACC 59.526 52.381 11.34 0.00 46.59 3.62
2140 2414 2.163412 AGTCACGAGCAGATCTCTGAAC 59.837 50.000 11.34 3.28 46.59 3.18
2145 2419 1.742831 AGACAGTCACGAGCAGATCTC 59.257 52.381 2.66 0.00 38.47 2.75
2152 2426 5.591643 TTGAAAAATAGACAGTCACGAGC 57.408 39.130 2.66 0.00 0.00 5.03
2176 2450 5.275630 AGAGGAAAAGGGTACGGTTATAGT 58.724 41.667 0.00 0.00 0.00 2.12
2177 2451 5.597594 AGAGAGGAAAAGGGTACGGTTATAG 59.402 44.000 0.00 0.00 0.00 1.31
2179 2453 4.359996 AGAGAGGAAAAGGGTACGGTTAT 58.640 43.478 0.00 0.00 0.00 1.89
2181 2455 2.617658 AGAGAGGAAAAGGGTACGGTT 58.382 47.619 0.00 0.00 0.00 4.44
2182 2456 2.322339 AGAGAGGAAAAGGGTACGGT 57.678 50.000 0.00 0.00 0.00 4.83
2183 2457 3.697619 AAAGAGAGGAAAAGGGTACGG 57.302 47.619 0.00 0.00 0.00 4.02
2184 2458 4.691216 CAGAAAAGAGAGGAAAAGGGTACG 59.309 45.833 0.00 0.00 0.00 3.67
2185 2459 5.866207 TCAGAAAAGAGAGGAAAAGGGTAC 58.134 41.667 0.00 0.00 0.00 3.34
2186 2460 6.704056 ATCAGAAAAGAGAGGAAAAGGGTA 57.296 37.500 0.00 0.00 0.00 3.69
2187 2461 5.590976 ATCAGAAAAGAGAGGAAAAGGGT 57.409 39.130 0.00 0.00 0.00 4.34
2188 2462 5.417266 GGAATCAGAAAAGAGAGGAAAAGGG 59.583 44.000 0.00 0.00 0.00 3.95
2189 2463 5.123027 CGGAATCAGAAAAGAGAGGAAAAGG 59.877 44.000 0.00 0.00 0.00 3.11
2190 2464 5.123027 CCGGAATCAGAAAAGAGAGGAAAAG 59.877 44.000 0.00 0.00 0.00 2.27
2191 2465 5.003804 CCGGAATCAGAAAAGAGAGGAAAA 58.996 41.667 0.00 0.00 0.00 2.29
2192 2466 4.579869 CCGGAATCAGAAAAGAGAGGAAA 58.420 43.478 0.00 0.00 0.00 3.13
2193 2467 3.619979 GCCGGAATCAGAAAAGAGAGGAA 60.620 47.826 5.05 0.00 0.00 3.36
2194 2468 2.093447 GCCGGAATCAGAAAAGAGAGGA 60.093 50.000 5.05 0.00 0.00 3.71
2195 2469 2.284190 GCCGGAATCAGAAAAGAGAGG 58.716 52.381 5.05 0.00 0.00 3.69
2214 2488 7.484035 AGATCGACTTATTAATTTCCACTGC 57.516 36.000 0.00 0.00 0.00 4.40
2225 2499 7.390996 AGCCGAGAGATTTAGATCGACTTATTA 59.609 37.037 0.00 0.00 37.35 0.98
2229 2503 3.886505 AGCCGAGAGATTTAGATCGACTT 59.113 43.478 0.00 0.00 37.35 3.01
2230 2504 3.482436 AGCCGAGAGATTTAGATCGACT 58.518 45.455 0.00 0.00 37.35 4.18
2231 2505 3.365565 GGAGCCGAGAGATTTAGATCGAC 60.366 52.174 0.00 0.00 37.35 4.20
2234 2508 2.814919 TCGGAGCCGAGAGATTTAGATC 59.185 50.000 7.66 0.00 44.01 2.75
2255 2529 2.699846 TGACTGCAAAGAAAGGGCAAAT 59.300 40.909 0.00 0.00 37.06 2.32
2265 2539 1.179152 CATGGCCATGACTGCAAAGA 58.821 50.000 37.84 0.00 41.20 2.52
2270 2544 1.107538 ATGCTCATGGCCATGACTGC 61.108 55.000 38.91 37.21 42.42 4.40
2273 2547 3.570975 TGATTAATGCTCATGGCCATGAC 59.429 43.478 38.91 32.35 42.42 3.06
2289 2573 6.917477 GCTCATGGCGTTAATTGATTGATTAA 59.083 34.615 0.00 0.00 0.00 1.40
2291 2575 5.163530 TGCTCATGGCGTTAATTGATTGATT 60.164 36.000 0.00 0.00 45.43 2.57
2292 2576 4.338964 TGCTCATGGCGTTAATTGATTGAT 59.661 37.500 0.00 0.00 45.43 2.57
2293 2577 3.693578 TGCTCATGGCGTTAATTGATTGA 59.306 39.130 0.00 0.00 45.43 2.57
2294 2578 3.792956 GTGCTCATGGCGTTAATTGATTG 59.207 43.478 0.00 0.00 45.43 2.67
2295 2579 3.696051 AGTGCTCATGGCGTTAATTGATT 59.304 39.130 0.00 0.00 45.43 2.57
2298 2582 2.419673 TCAGTGCTCATGGCGTTAATTG 59.580 45.455 0.00 0.00 45.43 2.32
2299 2583 2.710377 TCAGTGCTCATGGCGTTAATT 58.290 42.857 0.00 0.00 45.43 1.40
2300 2584 2.401583 TCAGTGCTCATGGCGTTAAT 57.598 45.000 0.00 0.00 45.43 1.40
2301 2585 2.279741 GATCAGTGCTCATGGCGTTAA 58.720 47.619 0.00 0.00 45.43 2.01
2302 2586 1.802508 CGATCAGTGCTCATGGCGTTA 60.803 52.381 0.00 0.00 45.43 3.18
2303 2587 1.086067 CGATCAGTGCTCATGGCGTT 61.086 55.000 0.00 0.00 45.43 4.84
2304 2588 1.520120 CGATCAGTGCTCATGGCGT 60.520 57.895 0.00 0.00 45.43 5.68
2305 2589 2.242572 CCGATCAGTGCTCATGGCG 61.243 63.158 0.00 0.00 45.43 5.69
2306 2590 0.879400 CTCCGATCAGTGCTCATGGC 60.879 60.000 0.00 0.00 42.22 4.40
2307 2591 0.463204 ACTCCGATCAGTGCTCATGG 59.537 55.000 0.00 0.00 0.00 3.66
2308 2592 2.288091 CCTACTCCGATCAGTGCTCATG 60.288 54.545 0.00 0.00 0.00 3.07
2309 2593 1.959985 CCTACTCCGATCAGTGCTCAT 59.040 52.381 0.00 0.00 0.00 2.90
2310 2594 1.341089 ACCTACTCCGATCAGTGCTCA 60.341 52.381 0.00 0.00 0.00 4.26
2311 2595 1.394618 ACCTACTCCGATCAGTGCTC 58.605 55.000 0.00 0.00 0.00 4.26
2312 2596 1.751924 GAACCTACTCCGATCAGTGCT 59.248 52.381 0.00 0.00 0.00 4.40
2313 2597 1.202428 GGAACCTACTCCGATCAGTGC 60.202 57.143 0.00 0.00 0.00 4.40
2314 2598 2.100197 TGGAACCTACTCCGATCAGTG 58.900 52.381 0.00 0.00 38.44 3.66
2315 2599 2.526888 TGGAACCTACTCCGATCAGT 57.473 50.000 0.00 0.00 38.44 3.41
2316 2600 4.262079 GGTAATGGAACCTACTCCGATCAG 60.262 50.000 0.00 0.00 38.44 2.90
2317 2601 3.640029 GGTAATGGAACCTACTCCGATCA 59.360 47.826 0.00 0.00 38.44 2.92
2318 2602 3.640029 TGGTAATGGAACCTACTCCGATC 59.360 47.826 0.00 0.00 40.44 3.69
2364 2648 6.435428 CGTGCTAAACCATAACAAAAGAAGT 58.565 36.000 0.00 0.00 0.00 3.01
2376 2660 0.036164 TGTCCAGCGTGCTAAACCAT 59.964 50.000 0.00 0.00 0.00 3.55
2383 2667 0.679505 TACTTTCTGTCCAGCGTGCT 59.320 50.000 0.00 0.00 0.00 4.40
2391 2675 3.731264 CGATGGTCTCGTACTTTCTGTCC 60.731 52.174 0.00 0.00 42.56 4.02


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

AutoCloner maintained by Alex Coulton.