Multiple sequence alignment - TraesCS4A01G215200

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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 TraesCS4A01G215200 chr4A 100.000 2282 0 0 1 2282 513348444 513350725 0.000000e+00 4215.0
1 TraesCS4A01G215200 chr4D 91.182 1168 61 18 629 1791 74348887 74347757 0.000000e+00 1548.0
2 TraesCS4A01G215200 chr4D 85.714 203 24 4 2082 2282 74347277 74347078 2.300000e-50 209.0
3 TraesCS4A01G215200 chr4D 90.769 65 5 1 1775 1838 74347743 74347679 4.040000e-13 86.1
4 TraesCS4A01G215200 chr4B 90.818 1100 52 21 616 1702 106785943 106784880 0.000000e+00 1426.0
5 TraesCS4A01G215200 chr4B 80.171 469 66 10 142 609 44191614 44192056 2.190000e-85 326.0
6 TraesCS4A01G215200 chr4B 91.367 139 11 1 2145 2282 106784875 106784737 2.990000e-44 189.0
7 TraesCS4A01G215200 chr5D 84.185 607 75 13 2 598 362562086 362562681 9.150000e-159 569.0
8 TraesCS4A01G215200 chr2A 86.842 456 50 9 164 612 35633223 35633675 3.380000e-138 501.0
9 TraesCS4A01G215200 chr5B 88.710 62 5 2 539 598 404092562 404092501 8.740000e-10 75.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G215200 chr4A 513348444 513350725 2281 False 4215.000000 4215 100.000000 1 2282 1 chr4A.!!$F1 2281
1 TraesCS4A01G215200 chr4D 74347078 74348887 1809 True 614.366667 1548 89.221667 629 2282 3 chr4D.!!$R1 1653
2 TraesCS4A01G215200 chr4B 106784737 106785943 1206 True 807.500000 1426 91.092500 616 2282 2 chr4B.!!$R1 1666
3 TraesCS4A01G215200 chr5D 362562086 362562681 595 False 569.000000 569 84.185000 2 598 1 chr5D.!!$F1 596

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
333 342 0.106149 AAACTCCTCGAAGGCGTTGT 59.894 50.0 9.15 0.0 42.05 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2033 2273 0.251341 ACACCCTCCACAATTGAGGC 60.251 55.0 16.35 0.0 46.69 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
24 25 6.535963 AGGAAATTCTTAAAGGCAAGATGG 57.464 37.500 0.00 0.00 34.59 3.51
25 26 5.105187 AGGAAATTCTTAAAGGCAAGATGGC 60.105 40.000 0.00 0.00 44.10 4.40
28 29 3.439857 TCTTAAAGGCAAGATGGCAGT 57.560 42.857 6.68 0.00 46.46 4.40
58 59 2.032860 GCCTCGGCTATGGAGAGCAA 62.033 60.000 0.00 0.00 44.76 3.91
59 60 0.683973 CCTCGGCTATGGAGAGCAAT 59.316 55.000 0.00 0.00 44.76 3.56
60 61 1.607509 CCTCGGCTATGGAGAGCAATG 60.608 57.143 0.00 0.00 44.76 2.82
61 62 1.069823 CTCGGCTATGGAGAGCAATGT 59.930 52.381 0.00 0.00 44.76 2.71
62 63 1.202568 TCGGCTATGGAGAGCAATGTG 60.203 52.381 0.00 0.00 44.76 3.21
63 64 1.202568 CGGCTATGGAGAGCAATGTGA 60.203 52.381 0.00 0.00 44.76 3.58
75 76 2.494870 AGCAATGTGATGAAAGCTTCCC 59.505 45.455 0.00 0.00 0.00 3.97
77 78 3.696051 GCAATGTGATGAAAGCTTCCCTA 59.304 43.478 0.00 0.00 0.00 3.53
87 95 1.152881 GCTTCCCTACCATGGCCTG 60.153 63.158 13.04 1.59 0.00 4.85
122 130 1.723542 CATGTTGCACTCTCTGTCGAC 59.276 52.381 9.11 9.11 0.00 4.20
138 146 0.370273 CGACGGATCTTTCTTTGCGG 59.630 55.000 0.00 0.00 0.00 5.69
139 147 1.439679 GACGGATCTTTCTTTGCGGT 58.560 50.000 0.00 0.00 0.00 5.68
167 175 4.221422 GCGACAGCCGGCCTGATA 62.221 66.667 26.15 0.00 44.64 2.15
175 183 1.490490 AGCCGGCCTGATAATGAGAAA 59.510 47.619 26.15 0.00 0.00 2.52
180 188 4.444306 CCGGCCTGATAATGAGAAAACCTA 60.444 45.833 0.00 0.00 0.00 3.08
183 191 6.293626 CGGCCTGATAATGAGAAAACCTAATG 60.294 42.308 0.00 0.00 0.00 1.90
199 207 1.423794 AATGGTGGGGTGGTCTTCGT 61.424 55.000 0.00 0.00 0.00 3.85
207 215 1.408266 GGGTGGTCTTCGTGGCATATT 60.408 52.381 0.00 0.00 0.00 1.28
213 221 3.187227 GGTCTTCGTGGCATATTGCTATG 59.813 47.826 0.00 0.00 44.28 2.23
221 229 5.681105 CGTGGCATATTGCTATGTGTTTAAC 59.319 40.000 6.73 0.00 44.28 2.01
222 230 5.977129 GTGGCATATTGCTATGTGTTTAACC 59.023 40.000 6.73 0.44 44.28 2.85
224 232 5.220970 GGCATATTGCTATGTGTTTAACCGT 60.221 40.000 6.73 0.00 44.28 4.83
226 234 7.411274 GCATATTGCTATGTGTTTAACCGTAA 58.589 34.615 6.73 0.00 40.96 3.18
227 235 8.073768 GCATATTGCTATGTGTTTAACCGTAAT 58.926 33.333 6.73 0.00 40.96 1.89
228 236 9.381027 CATATTGCTATGTGTTTAACCGTAATG 57.619 33.333 0.00 0.00 31.76 1.90
229 237 7.618502 ATTGCTATGTGTTTAACCGTAATGA 57.381 32.000 0.00 0.00 0.00 2.57
230 238 7.618502 TTGCTATGTGTTTAACCGTAATGAT 57.381 32.000 0.00 0.00 0.00 2.45
231 239 7.010697 TGCTATGTGTTTAACCGTAATGATG 57.989 36.000 0.00 0.00 0.00 3.07
232 240 5.907391 GCTATGTGTTTAACCGTAATGATGC 59.093 40.000 0.00 0.00 0.00 3.91
233 241 5.888691 ATGTGTTTAACCGTAATGATGCA 57.111 34.783 0.00 0.00 0.00 3.96
234 242 5.888691 TGTGTTTAACCGTAATGATGCAT 57.111 34.783 0.00 0.00 0.00 3.96
235 243 6.260870 TGTGTTTAACCGTAATGATGCATT 57.739 33.333 0.00 0.00 37.80 3.56
236 244 7.379098 TGTGTTTAACCGTAATGATGCATTA 57.621 32.000 0.00 0.00 35.54 1.90
249 257 5.986135 AATGATGCATTAGAGACGGAGTTAC 59.014 40.000 0.00 0.00 34.13 2.50
263 271 3.119884 CGGAGTTACATGCTTTGATGCAA 60.120 43.478 0.00 0.00 46.61 4.08
270 278 1.187974 TGCTTTGATGCAAGGGATGG 58.812 50.000 0.00 0.00 40.29 3.51
271 279 1.188863 GCTTTGATGCAAGGGATGGT 58.811 50.000 0.00 0.00 0.00 3.55
284 292 0.814457 GGATGGTATTGGCGTTGCAA 59.186 50.000 0.00 0.00 0.00 4.08
289 297 2.421775 TGGTATTGGCGTTGCAACATAG 59.578 45.455 28.01 13.80 0.00 2.23
295 303 1.737236 GGCGTTGCAACATAGTGATGA 59.263 47.619 28.01 0.00 36.48 2.92
305 313 5.470098 GCAACATAGTGATGACCCGATTATT 59.530 40.000 0.00 0.00 36.48 1.40
306 314 6.566564 GCAACATAGTGATGACCCGATTATTG 60.567 42.308 0.00 0.00 36.48 1.90
307 315 6.419484 ACATAGTGATGACCCGATTATTGA 57.581 37.500 0.00 0.00 36.48 2.57
323 332 6.454318 CGATTATTGAACAGTCAAACTCCTCG 60.454 42.308 0.00 0.00 46.66 4.63
324 333 3.812156 TTGAACAGTCAAACTCCTCGA 57.188 42.857 0.00 0.00 40.87 4.04
325 334 3.812156 TGAACAGTCAAACTCCTCGAA 57.188 42.857 0.00 0.00 0.00 3.71
326 335 3.717707 TGAACAGTCAAACTCCTCGAAG 58.282 45.455 0.00 0.00 0.00 3.79
330 339 0.319641 GTCAAACTCCTCGAAGGCGT 60.320 55.000 0.00 0.00 34.16 5.68
333 342 0.106149 AAACTCCTCGAAGGCGTTGT 59.894 50.000 9.15 0.00 42.05 3.32
347 356 2.281208 TTGTCGGCTTTGACGGGG 60.281 61.111 0.00 0.00 41.87 5.73
356 365 1.304052 TTTGACGGGGGATGGCTTG 60.304 57.895 0.00 0.00 0.00 4.01
391 400 2.700773 GGCATTTGGTGGCGGAGAC 61.701 63.158 0.00 0.00 44.01 3.36
396 405 3.190738 TTGGTGGCGGAGACCAAGG 62.191 63.158 3.24 0.00 46.40 3.61
399 408 1.228154 GTGGCGGAGACCAAGGTTT 60.228 57.895 0.00 0.00 42.70 3.27
411 420 7.116736 GGAGACCAAGGTTTTTATGGAAGATA 58.883 38.462 0.00 0.00 37.66 1.98
413 422 7.119387 AGACCAAGGTTTTTATGGAAGATAGG 58.881 38.462 0.00 0.00 37.66 2.57
461 470 6.640518 ACGTGTACAAAATAGGATGACAGAT 58.359 36.000 0.00 0.00 0.00 2.90
464 473 6.201044 GTGTACAAAATAGGATGACAGATCGG 59.799 42.308 0.00 0.00 0.00 4.18
472 481 0.460284 ATGACAGATCGGTTGGCGTC 60.460 55.000 0.00 0.00 0.00 5.19
481 490 0.927083 CGGTTGGCGTCGTATAGTCG 60.927 60.000 0.00 0.00 34.61 4.18
484 493 2.366859 GTTGGCGTCGTATAGTCGTAC 58.633 52.381 0.00 0.00 34.03 3.67
486 495 0.111089 GGCGTCGTATAGTCGTACGG 60.111 60.000 16.52 0.00 45.52 4.02
488 497 1.457303 GCGTCGTATAGTCGTACGGAT 59.543 52.381 16.52 9.22 45.52 4.18
490 499 3.241489 GCGTCGTATAGTCGTACGGATAG 60.241 52.174 16.52 3.04 45.52 2.08
514 523 5.429681 ACCACTGTTGTATGGCTACATAA 57.570 39.130 0.00 0.00 41.02 1.90
516 525 5.646360 ACCACTGTTGTATGGCTACATAAAC 59.354 40.000 0.00 0.00 41.02 2.01
518 527 4.873827 ACTGTTGTATGGCTACATAAACGG 59.126 41.667 13.64 13.64 41.02 4.44
522 531 0.179468 ATGGCTACATAAACGGCCGT 59.821 50.000 28.70 28.70 46.72 5.68
534 543 0.179084 ACGGCCGTCATGTATTGAGG 60.179 55.000 28.70 0.00 39.44 3.86
537 546 2.806745 CGGCCGTCATGTATTGAGGAAT 60.807 50.000 19.50 0.00 41.72 3.01
544 553 5.505286 GTCATGTATTGAGGAATTTCTGCG 58.495 41.667 0.00 0.00 34.17 5.18
549 558 1.428448 TGAGGAATTTCTGCGTGTCG 58.572 50.000 0.00 0.00 0.00 4.35
557 566 2.717580 TTCTGCGTGTCGACTGTAAT 57.282 45.000 17.92 0.00 0.00 1.89
558 567 2.257974 TCTGCGTGTCGACTGTAATC 57.742 50.000 17.92 0.92 0.00 1.75
731 740 0.486879 TCCATTTTGGCCACCTTCCT 59.513 50.000 3.88 0.00 37.47 3.36
798 807 1.369091 CCTCGATCCACAAAAGGGCG 61.369 60.000 0.00 0.00 0.00 6.13
872 881 1.600413 CGAACAAGAAGGCAACAAGGC 60.600 52.381 0.00 0.00 44.61 4.35
914 925 2.815647 CACGCCGCCCTCTTCTTC 60.816 66.667 0.00 0.00 0.00 2.87
915 926 2.997897 ACGCCGCCCTCTTCTTCT 60.998 61.111 0.00 0.00 0.00 2.85
916 927 2.266055 CGCCGCCCTCTTCTTCTT 59.734 61.111 0.00 0.00 0.00 2.52
978 989 1.878975 GCGTCTTCCTAAGCTCCGC 60.879 63.158 0.00 0.00 34.55 5.54
1033 1044 4.414956 AGGGGGATCAGTGCGGGA 62.415 66.667 0.00 0.00 0.00 5.14
1092 1103 4.749310 CTGCTCCTCGCCGTGCTT 62.749 66.667 0.00 0.00 38.05 3.91
1285 1296 2.824041 CCGCCGGCAGCTAATTGT 60.824 61.111 28.98 0.00 40.39 2.71
1286 1297 1.522806 CCGCCGGCAGCTAATTGTA 60.523 57.895 28.98 0.00 40.39 2.41
1287 1298 1.092921 CCGCCGGCAGCTAATTGTAA 61.093 55.000 28.98 0.00 40.39 2.41
1288 1299 0.944386 CGCCGGCAGCTAATTGTAAT 59.056 50.000 28.98 0.00 40.39 1.89
1289 1300 1.333619 CGCCGGCAGCTAATTGTAATT 59.666 47.619 28.98 0.00 40.39 1.40
1290 1301 2.731217 GCCGGCAGCTAATTGTAATTG 58.269 47.619 24.80 0.00 38.99 2.32
1291 1302 2.543653 GCCGGCAGCTAATTGTAATTGG 60.544 50.000 24.80 0.00 38.99 3.16
1292 1303 2.034558 CCGGCAGCTAATTGTAATTGGG 59.965 50.000 0.00 0.00 0.00 4.12
1293 1304 2.543653 CGGCAGCTAATTGTAATTGGGC 60.544 50.000 0.00 5.01 0.00 5.36
1294 1305 2.695147 GGCAGCTAATTGTAATTGGGCT 59.305 45.455 11.20 11.20 38.41 5.19
1295 1306 3.243535 GGCAGCTAATTGTAATTGGGCTC 60.244 47.826 12.97 9.79 36.99 4.70
1327 1338 5.160607 TGAAGAGTAGGTAACCATTGTGG 57.839 43.478 0.00 0.00 45.02 4.17
1339 1350 6.202188 GGTAACCATTGTGGATGTTAGTATCG 59.798 42.308 2.45 0.00 40.96 2.92
1359 1371 9.436957 AGTATCGAATCTGTTGTCAGTAAAAAT 57.563 29.630 0.00 0.00 41.91 1.82
1393 1405 3.137176 GGAGAATCAATCTGTGGGGATCA 59.863 47.826 0.00 0.00 38.96 2.92
1409 1421 5.543020 TGGGGATCAATTATGCATTGCAATA 59.457 36.000 16.46 6.97 43.62 1.90
1455 1467 6.391227 AAGTTGGTTATCTGAAAGTTGTGG 57.609 37.500 0.00 0.00 33.76 4.17
1516 1528 2.740981 CAGTGTGAAGCTGATTGGAGAC 59.259 50.000 0.00 0.00 36.12 3.36
1517 1529 2.369860 AGTGTGAAGCTGATTGGAGACA 59.630 45.455 0.00 0.00 39.83 3.41
1522 1534 3.071457 TGAAGCTGATTGGAGACAGACAA 59.929 43.478 0.00 0.00 44.54 3.18
1600 1621 4.138290 TCAACCGAGTTTGGCTTAAATCA 58.862 39.130 0.00 0.00 0.00 2.57
1630 1651 3.438297 AAATCCGACGTGATGGTAGAG 57.562 47.619 0.00 0.00 0.00 2.43
1636 1657 2.738643 CGACGTGATGGTAGAGGCAAAT 60.739 50.000 0.00 0.00 0.00 2.32
1637 1658 3.490249 CGACGTGATGGTAGAGGCAAATA 60.490 47.826 0.00 0.00 0.00 1.40
1644 1665 6.375455 GTGATGGTAGAGGCAAATATAATGGG 59.625 42.308 0.00 0.00 0.00 4.00
1646 1667 4.105537 TGGTAGAGGCAAATATAATGGGCA 59.894 41.667 0.00 0.00 0.00 5.36
1696 1717 1.154654 GCGACTAAACTGCACGTGC 60.155 57.895 33.11 33.11 42.50 5.34
1704 1725 4.290326 CTGCACGTGCTGTTTGTG 57.710 55.556 37.59 16.49 42.66 3.33
1705 1726 1.429021 CTGCACGTGCTGTTTGTGT 59.571 52.632 37.59 0.00 42.66 3.72
1730 1751 9.361315 GTAACACACAAAAATACAAGTTTTCCT 57.639 29.630 0.00 0.00 31.29 3.36
1741 1762 3.832490 ACAAGTTTTCCTAAGCAATCCCC 59.168 43.478 0.00 0.00 0.00 4.81
1744 1765 4.687976 AGTTTTCCTAAGCAATCCCCATT 58.312 39.130 0.00 0.00 0.00 3.16
1777 1798 4.848357 ACCCAAAGATGTATGGAGAACAG 58.152 43.478 0.00 0.00 39.12 3.16
1791 1812 8.993121 GTATGGAGAACAGATTATATGGTTGTG 58.007 37.037 0.00 0.00 0.00 3.33
1792 1813 6.356556 TGGAGAACAGATTATATGGTTGTGG 58.643 40.000 0.00 0.00 0.00 4.17
1798 1850 6.841601 ACAGATTATATGGTTGTGGTATGCT 58.158 36.000 0.00 0.00 0.00 3.79
1801 1853 7.609146 CAGATTATATGGTTGTGGTATGCTGAT 59.391 37.037 0.00 0.00 0.00 2.90
1837 2076 4.161333 CGCTGTGATCAAAAGGTGAAATC 58.839 43.478 0.00 0.00 40.50 2.17
1841 2080 6.647895 GCTGTGATCAAAAGGTGAAATCATTT 59.352 34.615 0.00 0.00 40.50 2.32
1883 2122 4.514441 GTGAAAGAGCTATGGTCATCATGG 59.486 45.833 0.00 0.00 37.30 3.66
1897 2136 8.765488 TGGTCATCATGGTGTTGAAATTATAT 57.235 30.769 5.73 0.00 29.01 0.86
1908 2147 9.758651 GGTGTTGAAATTATATAACATTTCCCC 57.241 33.333 14.63 8.58 38.23 4.81
1955 2195 5.750067 CCTTTAGCCCATTTCATCATTTTCG 59.250 40.000 0.00 0.00 0.00 3.46
1976 2216 7.896383 TTCGATAATTCCTCAAAAATCCCAT 57.104 32.000 0.00 0.00 0.00 4.00
1977 2217 7.896383 TCGATAATTCCTCAAAAATCCCATT 57.104 32.000 0.00 0.00 0.00 3.16
1978 2218 7.715657 TCGATAATTCCTCAAAAATCCCATTG 58.284 34.615 0.00 0.00 0.00 2.82
1979 2219 7.341769 TCGATAATTCCTCAAAAATCCCATTGT 59.658 33.333 0.00 0.00 0.00 2.71
1984 2224 5.147032 TCCTCAAAAATCCCATTGTGTTCT 58.853 37.500 0.00 0.00 0.00 3.01
1985 2225 5.243730 TCCTCAAAAATCCCATTGTGTTCTC 59.756 40.000 0.00 0.00 0.00 2.87
1986 2226 5.467035 TCAAAAATCCCATTGTGTTCTCC 57.533 39.130 0.00 0.00 0.00 3.71
1987 2227 5.147032 TCAAAAATCCCATTGTGTTCTCCT 58.853 37.500 0.00 0.00 0.00 3.69
1988 2228 6.310941 TCAAAAATCCCATTGTGTTCTCCTA 58.689 36.000 0.00 0.00 0.00 2.94
1989 2229 6.434028 TCAAAAATCCCATTGTGTTCTCCTAG 59.566 38.462 0.00 0.00 0.00 3.02
2002 2242 5.030147 TGTTCTCCTAGTGGTCCATAATGT 58.970 41.667 0.00 0.00 34.23 2.71
2004 2244 6.323996 TGTTCTCCTAGTGGTCCATAATGTAG 59.676 42.308 0.00 0.00 34.23 2.74
2011 2251 8.314751 CCTAGTGGTCCATAATGTAGGAATAAG 58.685 40.741 0.00 0.00 35.29 1.73
2016 2256 8.210946 TGGTCCATAATGTAGGAATAAGAAGTG 58.789 37.037 0.00 0.00 35.29 3.16
2018 2258 9.046296 GTCCATAATGTAGGAATAAGAAGTGTG 57.954 37.037 0.00 0.00 35.29 3.82
2033 2273 3.121738 AGTGTGGAAAGTTTAGTCCCG 57.878 47.619 0.00 0.00 32.48 5.14
2038 2278 1.002773 GGAAAGTTTAGTCCCGCCTCA 59.997 52.381 0.00 0.00 0.00 3.86
2055 2295 2.586425 CTCAATTGTGGAGGGTGTGTT 58.414 47.619 5.13 0.00 0.00 3.32
2056 2296 2.294233 CTCAATTGTGGAGGGTGTGTTG 59.706 50.000 5.13 0.00 0.00 3.33
2057 2297 1.039856 AATTGTGGAGGGTGTGTTGC 58.960 50.000 0.00 0.00 0.00 4.17
2058 2298 0.827507 ATTGTGGAGGGTGTGTTGCC 60.828 55.000 0.00 0.00 0.00 4.52
2059 2299 1.932156 TTGTGGAGGGTGTGTTGCCT 61.932 55.000 0.00 0.00 0.00 4.75
2060 2300 1.600916 GTGGAGGGTGTGTTGCCTC 60.601 63.158 0.00 0.00 0.00 4.70
2061 2301 2.075566 TGGAGGGTGTGTTGCCTCA 61.076 57.895 0.00 0.00 0.00 3.86
2062 2302 1.600916 GGAGGGTGTGTTGCCTCAC 60.601 63.158 0.00 2.08 38.63 3.51
2063 2303 1.148273 GAGGGTGTGTTGCCTCACA 59.852 57.895 6.91 6.91 44.54 3.58
2070 2310 2.240493 GTGTTGCCTCACACACTACT 57.760 50.000 6.14 0.00 45.57 2.57
2071 2311 3.380479 GTGTTGCCTCACACACTACTA 57.620 47.619 6.14 0.00 45.57 1.82
2072 2312 3.724374 GTGTTGCCTCACACACTACTAA 58.276 45.455 6.14 0.00 45.57 2.24
2073 2313 3.741344 GTGTTGCCTCACACACTACTAAG 59.259 47.826 6.14 0.00 45.57 2.18
2074 2314 3.639561 TGTTGCCTCACACACTACTAAGA 59.360 43.478 0.00 0.00 0.00 2.10
2075 2315 4.238514 GTTGCCTCACACACTACTAAGAG 58.761 47.826 0.00 0.00 0.00 2.85
2076 2316 2.231478 TGCCTCACACACTACTAAGAGC 59.769 50.000 0.00 0.00 0.00 4.09
2077 2317 2.494073 GCCTCACACACTACTAAGAGCT 59.506 50.000 0.00 0.00 0.00 4.09
2078 2318 3.056465 GCCTCACACACTACTAAGAGCTT 60.056 47.826 0.00 0.00 0.00 3.74
2079 2319 4.489810 CCTCACACACTACTAAGAGCTTG 58.510 47.826 0.00 0.00 0.00 4.01
2080 2320 4.218635 CCTCACACACTACTAAGAGCTTGA 59.781 45.833 0.00 0.00 0.00 3.02
2089 2329 7.148086 ACACTACTAAGAGCTTGAGAAGATGAG 60.148 40.741 0.00 0.00 0.00 2.90
2103 2343 6.604795 TGAGAAGATGAGTCATACATGAGTGA 59.395 38.462 5.38 0.00 40.38 3.41
2104 2344 7.287235 TGAGAAGATGAGTCATACATGAGTGAT 59.713 37.037 5.38 1.73 40.38 3.06
2114 2354 1.342474 ACATGAGTGATCCTCCTCCGT 60.342 52.381 0.00 1.52 39.65 4.69
2152 2392 1.003972 CTCGCACACGTGTCATGTTTT 60.004 47.619 20.49 0.00 41.18 2.43
2184 2424 3.546271 CCAATATGTCACGTCTACACACG 59.454 47.826 2.50 0.00 45.65 4.49
2255 2497 6.207691 TGGAAAAGGAAAACAGAACTGAAG 57.792 37.500 8.87 0.00 0.00 3.02
2266 2508 7.497925 AAACAGAACTGAAGAACTATTGGAC 57.502 36.000 8.87 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.567959 CCATCTTGCCTTTAAGAATTTCCTC 58.432 40.000 0.00 0.00 39.87 3.71
18 19 3.385755 GCCAAATCCATTACTGCCATCTT 59.614 43.478 0.00 0.00 0.00 2.40
24 25 1.334869 CGAGGCCAAATCCATTACTGC 59.665 52.381 5.01 0.00 0.00 4.40
25 26 1.949525 CCGAGGCCAAATCCATTACTG 59.050 52.381 5.01 0.00 0.00 2.74
28 29 0.550914 AGCCGAGGCCAAATCCATTA 59.449 50.000 10.95 0.00 43.17 1.90
58 59 3.266772 TGGTAGGGAAGCTTTCATCACAT 59.733 43.478 7.16 0.00 0.00 3.21
59 60 2.642311 TGGTAGGGAAGCTTTCATCACA 59.358 45.455 7.16 0.00 0.00 3.58
60 61 3.350219 TGGTAGGGAAGCTTTCATCAC 57.650 47.619 7.16 0.63 0.00 3.06
61 62 3.371917 CCATGGTAGGGAAGCTTTCATCA 60.372 47.826 7.16 0.00 0.00 3.07
62 63 3.217626 CCATGGTAGGGAAGCTTTCATC 58.782 50.000 7.16 0.00 0.00 2.92
63 64 2.687914 GCCATGGTAGGGAAGCTTTCAT 60.688 50.000 14.67 1.10 0.00 2.57
75 76 2.514592 CGGTGCAGGCCATGGTAG 60.515 66.667 14.67 4.71 0.00 3.18
95 103 1.181098 AGAGTGCAACATGGTTGGCC 61.181 55.000 10.73 0.00 41.43 5.36
107 115 0.960861 ATCCGTCGACAGAGAGTGCA 60.961 55.000 17.16 0.00 0.00 4.57
122 130 0.370273 CGACCGCAAAGAAAGATCCG 59.630 55.000 0.00 0.00 0.00 4.18
139 147 4.103103 CTGTCGCTGAGCCGTCGA 62.103 66.667 0.00 0.00 0.00 4.20
152 160 0.106708 TCATTATCAGGCCGGCTGTC 59.893 55.000 28.56 10.16 0.00 3.51
153 161 0.107456 CTCATTATCAGGCCGGCTGT 59.893 55.000 28.56 11.71 0.00 4.40
154 162 0.394192 TCTCATTATCAGGCCGGCTG 59.606 55.000 28.56 21.71 0.00 4.85
155 163 1.131638 TTCTCATTATCAGGCCGGCT 58.868 50.000 28.56 9.11 0.00 5.52
159 167 6.015940 CCATTAGGTTTTCTCATTATCAGGCC 60.016 42.308 0.00 0.00 0.00 5.19
180 188 1.378762 CGAAGACCACCCCACCATT 59.621 57.895 0.00 0.00 0.00 3.16
183 191 2.032071 CACGAAGACCACCCCACC 59.968 66.667 0.00 0.00 0.00 4.61
185 193 3.948719 GCCACGAAGACCACCCCA 61.949 66.667 0.00 0.00 0.00 4.96
186 194 1.906105 TATGCCACGAAGACCACCCC 61.906 60.000 0.00 0.00 0.00 4.95
199 207 5.220951 CGGTTAAACACATAGCAATATGCCA 60.221 40.000 0.00 0.00 46.52 4.92
207 215 6.457663 GCATCATTACGGTTAAACACATAGCA 60.458 38.462 0.00 0.00 0.00 3.49
213 221 7.690228 TCTAATGCATCATTACGGTTAAACAC 58.310 34.615 0.00 0.00 35.54 3.32
221 229 3.675225 CCGTCTCTAATGCATCATTACGG 59.325 47.826 19.44 19.44 42.03 4.02
222 230 4.546570 TCCGTCTCTAATGCATCATTACG 58.453 43.478 0.00 7.09 35.54 3.18
224 232 5.791336 ACTCCGTCTCTAATGCATCATTA 57.209 39.130 0.00 0.14 35.54 1.90
226 234 4.679373 AACTCCGTCTCTAATGCATCAT 57.321 40.909 0.00 0.00 0.00 2.45
227 235 4.401202 TGTAACTCCGTCTCTAATGCATCA 59.599 41.667 0.00 0.00 0.00 3.07
228 236 4.933330 TGTAACTCCGTCTCTAATGCATC 58.067 43.478 0.00 0.00 0.00 3.91
229 237 5.292765 CATGTAACTCCGTCTCTAATGCAT 58.707 41.667 0.00 0.00 0.00 3.96
230 238 4.682787 CATGTAACTCCGTCTCTAATGCA 58.317 43.478 0.00 0.00 0.00 3.96
231 239 3.491267 GCATGTAACTCCGTCTCTAATGC 59.509 47.826 0.00 0.00 0.00 3.56
232 240 4.938080 AGCATGTAACTCCGTCTCTAATG 58.062 43.478 0.00 0.00 0.00 1.90
233 241 5.599999 AAGCATGTAACTCCGTCTCTAAT 57.400 39.130 0.00 0.00 0.00 1.73
234 242 5.047590 TCAAAGCATGTAACTCCGTCTCTAA 60.048 40.000 0.00 0.00 0.00 2.10
235 243 4.461431 TCAAAGCATGTAACTCCGTCTCTA 59.539 41.667 0.00 0.00 0.00 2.43
236 244 3.258372 TCAAAGCATGTAACTCCGTCTCT 59.742 43.478 0.00 0.00 0.00 3.10
249 257 2.483013 CCATCCCTTGCATCAAAGCATG 60.483 50.000 0.00 0.00 45.19 4.06
263 271 0.751643 GCAACGCCAATACCATCCCT 60.752 55.000 0.00 0.00 0.00 4.20
270 278 3.126171 TCACTATGTTGCAACGCCAATAC 59.874 43.478 23.79 0.00 0.00 1.89
271 279 3.339141 TCACTATGTTGCAACGCCAATA 58.661 40.909 23.79 14.55 0.00 1.90
284 292 6.419484 TCAATAATCGGGTCATCACTATGT 57.581 37.500 0.00 0.00 34.50 2.29
289 297 4.876107 ACTGTTCAATAATCGGGTCATCAC 59.124 41.667 0.00 0.00 0.00 3.06
295 303 5.313712 AGTTTGACTGTTCAATAATCGGGT 58.686 37.500 0.00 0.00 41.50 5.28
305 313 3.492656 CCTTCGAGGAGTTTGACTGTTCA 60.493 47.826 0.00 0.00 37.67 3.18
306 314 3.060602 CCTTCGAGGAGTTTGACTGTTC 58.939 50.000 0.00 0.00 37.67 3.18
307 315 2.807108 GCCTTCGAGGAGTTTGACTGTT 60.807 50.000 0.00 0.00 37.67 3.16
323 332 1.082104 CAAAGCCGACAACGCCTTC 60.082 57.895 0.00 0.00 36.21 3.46
324 333 1.525077 TCAAAGCCGACAACGCCTT 60.525 52.632 0.00 0.00 38.81 4.35
325 334 2.110213 TCAAAGCCGACAACGCCT 59.890 55.556 0.00 0.00 38.29 5.52
326 335 2.251371 GTCAAAGCCGACAACGCC 59.749 61.111 0.00 0.00 38.29 5.68
330 339 2.281208 CCCCGTCAAAGCCGACAA 60.281 61.111 0.00 0.00 35.54 3.18
333 342 3.006728 ATCCCCCGTCAAAGCCGA 61.007 61.111 0.00 0.00 0.00 5.54
347 356 1.303309 CCGATCTCAACAAGCCATCC 58.697 55.000 0.00 0.00 0.00 3.51
356 365 1.222115 GCCCGTATGCCGATCTCAAC 61.222 60.000 0.00 0.00 39.56 3.18
388 397 7.119387 CCTATCTTCCATAAAAACCTTGGTCT 58.881 38.462 0.00 0.00 0.00 3.85
391 400 6.431722 TCCCTATCTTCCATAAAAACCTTGG 58.568 40.000 0.00 0.00 0.00 3.61
442 451 6.479972 ACCGATCTGTCATCCTATTTTGTA 57.520 37.500 0.00 0.00 0.00 2.41
443 452 5.359194 ACCGATCTGTCATCCTATTTTGT 57.641 39.130 0.00 0.00 0.00 2.83
453 462 0.460284 GACGCCAACCGATCTGTCAT 60.460 55.000 0.00 0.00 41.02 3.06
456 465 1.588824 TACGACGCCAACCGATCTGT 61.589 55.000 0.00 0.00 41.02 3.41
461 470 0.378257 GACTATACGACGCCAACCGA 59.622 55.000 0.00 0.00 41.02 4.69
464 473 2.366859 GTACGACTATACGACGCCAAC 58.633 52.381 0.00 0.00 34.15 3.77
481 490 4.708726 ACAACAGTGGTACTATCCGTAC 57.291 45.455 0.00 0.00 46.22 3.67
484 493 4.617959 CCATACAACAGTGGTACTATCCG 58.382 47.826 0.00 0.00 0.00 4.18
486 495 5.277857 AGCCATACAACAGTGGTACTATC 57.722 43.478 0.00 0.00 37.81 2.08
488 497 5.018149 TGTAGCCATACAACAGTGGTACTA 58.982 41.667 0.00 0.00 38.97 1.82
490 499 4.196626 TGTAGCCATACAACAGTGGTAC 57.803 45.455 0.00 0.00 38.97 3.34
501 510 1.796459 CGGCCGTTTATGTAGCCATAC 59.204 52.381 19.50 0.00 46.08 2.39
514 523 1.651987 CTCAATACATGACGGCCGTT 58.348 50.000 34.65 19.55 33.47 4.44
516 525 0.104120 TCCTCAATACATGACGGCCG 59.896 55.000 26.86 26.86 33.47 6.13
518 527 4.576463 AGAAATTCCTCAATACATGACGGC 59.424 41.667 0.00 0.00 33.47 5.68
522 531 5.065090 CACGCAGAAATTCCTCAATACATGA 59.935 40.000 0.00 0.00 36.38 3.07
534 543 1.792949 ACAGTCGACACGCAGAAATTC 59.207 47.619 19.50 0.00 0.00 2.17
537 546 2.495409 TTACAGTCGACACGCAGAAA 57.505 45.000 19.50 0.00 0.00 2.52
603 612 9.108284 CCAGTGATGTTGTTTCCTTTTATTTTT 57.892 29.630 0.00 0.00 0.00 1.94
604 613 8.264347 ACCAGTGATGTTGTTTCCTTTTATTTT 58.736 29.630 0.00 0.00 0.00 1.82
605 614 7.791029 ACCAGTGATGTTGTTTCCTTTTATTT 58.209 30.769 0.00 0.00 0.00 1.40
606 615 7.360113 ACCAGTGATGTTGTTTCCTTTTATT 57.640 32.000 0.00 0.00 0.00 1.40
607 616 6.976934 ACCAGTGATGTTGTTTCCTTTTAT 57.023 33.333 0.00 0.00 0.00 1.40
608 617 6.783708 AACCAGTGATGTTGTTTCCTTTTA 57.216 33.333 0.00 0.00 0.00 1.52
609 618 5.675684 AACCAGTGATGTTGTTTCCTTTT 57.324 34.783 0.00 0.00 0.00 2.27
610 619 5.675684 AAACCAGTGATGTTGTTTCCTTT 57.324 34.783 0.00 0.00 0.00 3.11
611 620 5.418676 CAAAACCAGTGATGTTGTTTCCTT 58.581 37.500 0.00 0.00 31.01 3.36
612 621 4.680440 GCAAAACCAGTGATGTTGTTTCCT 60.680 41.667 0.00 0.00 31.01 3.36
613 622 3.555547 GCAAAACCAGTGATGTTGTTTCC 59.444 43.478 0.00 0.00 31.01 3.13
614 623 4.180057 TGCAAAACCAGTGATGTTGTTTC 58.820 39.130 0.00 0.00 31.01 2.78
678 687 3.452627 AGAGAGAATGGTGGCGAGTTAAT 59.547 43.478 0.00 0.00 0.00 1.40
731 740 3.339731 CGGAGCGCTCAAACCAAA 58.660 55.556 36.27 0.00 0.00 3.28
798 807 6.734104 AAGTTCTGATCTGTTATGCTGTTC 57.266 37.500 0.00 0.00 0.00 3.18
872 881 2.835431 AGTGGCCTCCGATCCTCG 60.835 66.667 3.32 0.00 40.07 4.63
959 970 1.586564 CGGAGCTTAGGAAGACGCG 60.587 63.158 3.53 3.53 0.00 6.01
978 989 2.885644 CAATCGTCGCCGGTGGAG 60.886 66.667 16.49 9.72 33.95 3.86
1042 1053 2.401766 CCCAGATCAACACGCTGCC 61.402 63.158 0.00 0.00 0.00 4.85
1271 1282 2.034558 CCCAATTACAATTAGCTGCCGG 59.965 50.000 0.00 0.00 0.00 6.13
1272 1283 2.543653 GCCCAATTACAATTAGCTGCCG 60.544 50.000 0.00 0.00 0.00 5.69
1273 1284 2.695147 AGCCCAATTACAATTAGCTGCC 59.305 45.455 0.00 0.00 36.44 4.85
1282 1293 6.945435 TCAGTAATGAAAGAGCCCAATTACAA 59.055 34.615 0.00 0.00 0.00 2.41
1283 1294 6.480763 TCAGTAATGAAAGAGCCCAATTACA 58.519 36.000 0.00 0.00 0.00 2.41
1284 1295 7.336931 TCTTCAGTAATGAAAGAGCCCAATTAC 59.663 37.037 7.08 0.00 0.00 1.89
1285 1296 7.402054 TCTTCAGTAATGAAAGAGCCCAATTA 58.598 34.615 7.08 0.00 0.00 1.40
1286 1297 6.248433 TCTTCAGTAATGAAAGAGCCCAATT 58.752 36.000 7.08 0.00 0.00 2.32
1287 1298 5.819991 TCTTCAGTAATGAAAGAGCCCAAT 58.180 37.500 7.08 0.00 0.00 3.16
1288 1299 5.221925 ACTCTTCAGTAATGAAAGAGCCCAA 60.222 40.000 21.57 0.00 31.99 4.12
1289 1300 4.287067 ACTCTTCAGTAATGAAAGAGCCCA 59.713 41.667 21.57 0.00 31.99 5.36
1290 1301 4.837972 ACTCTTCAGTAATGAAAGAGCCC 58.162 43.478 21.57 0.00 31.99 5.19
1291 1302 6.045955 CCTACTCTTCAGTAATGAAAGAGCC 58.954 44.000 21.57 0.00 34.53 4.70
1292 1303 6.635755 ACCTACTCTTCAGTAATGAAAGAGC 58.364 40.000 21.57 0.00 34.53 4.09
1293 1304 9.575783 GTTACCTACTCTTCAGTAATGAAAGAG 57.424 37.037 20.73 20.73 34.53 2.85
1294 1305 8.529476 GGTTACCTACTCTTCAGTAATGAAAGA 58.471 37.037 16.51 11.20 34.53 2.52
1295 1306 8.311836 TGGTTACCTACTCTTCAGTAATGAAAG 58.688 37.037 7.08 9.58 34.53 2.62
1327 1338 7.702772 ACTGACAACAGATTCGATACTAACATC 59.297 37.037 0.00 0.00 46.03 3.06
1339 1350 8.524870 AATGCATTTTTACTGACAACAGATTC 57.475 30.769 5.99 0.00 46.03 2.52
1359 1371 6.183360 CAGATTGATTCTCCTTGCTAAATGCA 60.183 38.462 0.00 0.00 40.79 3.96
1375 1387 6.014840 GCATAATTGATCCCCACAGATTGATT 60.015 38.462 0.00 0.00 0.00 2.57
1376 1388 5.479375 GCATAATTGATCCCCACAGATTGAT 59.521 40.000 0.00 0.00 0.00 2.57
1377 1389 4.828939 GCATAATTGATCCCCACAGATTGA 59.171 41.667 0.00 0.00 0.00 2.57
1378 1390 4.585581 TGCATAATTGATCCCCACAGATTG 59.414 41.667 0.00 0.00 0.00 2.67
1449 1461 6.630071 AGACAAAATATAACCATGCCACAAC 58.370 36.000 0.00 0.00 0.00 3.32
1450 1462 6.849085 AGACAAAATATAACCATGCCACAA 57.151 33.333 0.00 0.00 0.00 3.33
1482 1494 5.359009 AGCTTCACACTGCAAAGCATATAAT 59.641 36.000 19.34 0.00 46.11 1.28
1484 1496 4.095334 CAGCTTCACACTGCAAAGCATATA 59.905 41.667 19.34 0.00 46.11 0.86
1485 1497 3.087031 AGCTTCACACTGCAAAGCATAT 58.913 40.909 19.34 0.00 46.11 1.78
1516 1528 8.680001 TGATAATCCTCACATCAATTTTGTCTG 58.320 33.333 0.00 0.00 0.00 3.51
1517 1529 8.812513 TGATAATCCTCACATCAATTTTGTCT 57.187 30.769 0.00 0.00 0.00 3.41
1580 1601 5.722021 AATGATTTAAGCCAAACTCGGTT 57.278 34.783 0.00 0.00 0.00 4.44
1592 1613 8.947940 GTCGGATTTTGATCGAAATGATTTAAG 58.052 33.333 23.00 8.21 37.47 1.85
1600 1621 3.930229 TCACGTCGGATTTTGATCGAAAT 59.070 39.130 19.00 19.00 34.62 2.17
1630 1651 3.133721 TGTTGGTGCCCATTATATTTGCC 59.866 43.478 0.00 0.00 31.53 4.52
1636 1657 3.831323 CCAGATGTTGGTGCCCATTATA 58.169 45.455 0.00 0.00 42.41 0.98
1637 1658 2.669781 CCAGATGTTGGTGCCCATTAT 58.330 47.619 0.00 0.00 42.41 1.28
1663 1684 9.507280 CAGTTTAGTCGCATGATTATGAATTTT 57.493 29.630 0.85 0.00 36.36 1.82
1664 1685 7.645340 GCAGTTTAGTCGCATGATTATGAATTT 59.355 33.333 0.85 0.00 36.36 1.82
1665 1686 7.134815 GCAGTTTAGTCGCATGATTATGAATT 58.865 34.615 0.85 0.00 36.36 2.17
1666 1687 6.260714 TGCAGTTTAGTCGCATGATTATGAAT 59.739 34.615 0.85 0.00 36.36 2.57
1704 1725 9.361315 AGGAAAACTTGTATTTTTGTGTGTTAC 57.639 29.630 0.00 0.00 31.90 2.50
1756 1777 5.102953 TCTGTTCTCCATACATCTTTGGG 57.897 43.478 0.00 0.00 33.62 4.12
1777 1798 7.607607 TGATCAGCATACCACAACCATATAATC 59.392 37.037 0.00 0.00 0.00 1.75
1791 1812 6.912591 CGGTTTAAGAAATTGATCAGCATACC 59.087 38.462 0.00 0.00 0.00 2.73
1792 1813 6.414987 GCGGTTTAAGAAATTGATCAGCATAC 59.585 38.462 0.00 0.00 0.00 2.39
1798 1850 5.471797 TCACAGCGGTTTAAGAAATTGATCA 59.528 36.000 0.00 0.00 0.00 2.92
1801 1853 5.471797 TGATCACAGCGGTTTAAGAAATTGA 59.528 36.000 0.00 0.00 0.00 2.57
1852 2091 0.889994 TAGCTCTTTCACCGCCGTAA 59.110 50.000 0.00 0.00 0.00 3.18
1853 2092 1.108776 ATAGCTCTTTCACCGCCGTA 58.891 50.000 0.00 0.00 0.00 4.02
1855 2094 1.154205 CCATAGCTCTTTCACCGCCG 61.154 60.000 0.00 0.00 0.00 6.46
1857 2096 1.291132 GACCATAGCTCTTTCACCGC 58.709 55.000 0.00 0.00 0.00 5.68
1883 2122 9.458374 CGGGGAAATGTTATATAATTTCAACAC 57.542 33.333 17.34 6.82 42.18 3.32
1897 2136 4.939052 TTTCTTTTGCGGGGAAATGTTA 57.061 36.364 0.00 0.00 0.00 2.41
1923 2163 7.619302 TGATGAAATGGGCTAAAGGTTCTATTT 59.381 33.333 0.00 0.00 0.00 1.40
1924 2164 7.125391 TGATGAAATGGGCTAAAGGTTCTATT 58.875 34.615 0.00 0.00 0.00 1.73
1934 2174 6.713762 ATCGAAAATGATGAAATGGGCTAA 57.286 33.333 0.00 0.00 0.00 3.09
1955 2195 8.260114 ACACAATGGGATTTTTGAGGAATTATC 58.740 33.333 0.00 0.00 0.00 1.75
1972 2212 2.305927 ACCACTAGGAGAACACAATGGG 59.694 50.000 0.00 0.00 38.69 4.00
1976 2216 2.684943 TGGACCACTAGGAGAACACAA 58.315 47.619 0.00 0.00 38.69 3.33
1977 2217 2.391926 TGGACCACTAGGAGAACACA 57.608 50.000 0.00 0.00 38.69 3.72
1978 2218 5.104900 ACATTATGGACCACTAGGAGAACAC 60.105 44.000 0.00 0.00 38.69 3.32
1979 2219 5.030147 ACATTATGGACCACTAGGAGAACA 58.970 41.667 0.00 0.00 38.69 3.18
1984 2224 5.412617 TCCTACATTATGGACCACTAGGA 57.587 43.478 0.00 3.18 38.69 2.94
1985 2225 6.688073 ATTCCTACATTATGGACCACTAGG 57.312 41.667 0.00 0.73 42.21 3.02
1986 2226 9.090103 TCTTATTCCTACATTATGGACCACTAG 57.910 37.037 0.00 0.00 31.24 2.57
1987 2227 9.442062 TTCTTATTCCTACATTATGGACCACTA 57.558 33.333 0.00 0.00 31.24 2.74
1988 2228 7.931015 TCTTATTCCTACATTATGGACCACT 57.069 36.000 0.00 0.00 31.24 4.00
1989 2229 8.211629 ACTTCTTATTCCTACATTATGGACCAC 58.788 37.037 0.00 0.00 31.24 4.16
2002 2242 9.720769 CTAAACTTTCCACACTTCTTATTCCTA 57.279 33.333 0.00 0.00 0.00 2.94
2004 2244 8.392372 ACTAAACTTTCCACACTTCTTATTCC 57.608 34.615 0.00 0.00 0.00 3.01
2011 2251 3.497262 CGGGACTAAACTTTCCACACTTC 59.503 47.826 0.00 0.00 33.01 3.01
2016 2256 1.162698 GGCGGGACTAAACTTTCCAC 58.837 55.000 0.00 0.00 33.01 4.02
2018 2258 1.002773 TGAGGCGGGACTAAACTTTCC 59.997 52.381 0.00 0.00 0.00 3.13
2033 2273 0.251341 ACACCCTCCACAATTGAGGC 60.251 55.000 16.35 0.00 46.69 4.70
2038 2278 1.039856 GCAACACACCCTCCACAATT 58.960 50.000 0.00 0.00 0.00 2.32
2055 2295 2.231478 GCTCTTAGTAGTGTGTGAGGCA 59.769 50.000 0.00 0.00 0.00 4.75
2056 2296 2.494073 AGCTCTTAGTAGTGTGTGAGGC 59.506 50.000 0.00 0.00 0.00 4.70
2057 2297 4.218635 TCAAGCTCTTAGTAGTGTGTGAGG 59.781 45.833 0.00 0.00 0.00 3.86
2058 2298 5.182190 TCTCAAGCTCTTAGTAGTGTGTGAG 59.818 44.000 0.00 0.00 33.71 3.51
2059 2299 5.070685 TCTCAAGCTCTTAGTAGTGTGTGA 58.929 41.667 0.00 0.00 0.00 3.58
2060 2300 5.378292 TCTCAAGCTCTTAGTAGTGTGTG 57.622 43.478 0.00 0.00 0.00 3.82
2061 2301 5.770663 TCTTCTCAAGCTCTTAGTAGTGTGT 59.229 40.000 0.00 0.00 0.00 3.72
2062 2302 6.260870 TCTTCTCAAGCTCTTAGTAGTGTG 57.739 41.667 0.00 0.00 0.00 3.82
2063 2303 6.661377 TCATCTTCTCAAGCTCTTAGTAGTGT 59.339 38.462 0.00 0.00 0.00 3.55
2064 2304 7.094508 TCATCTTCTCAAGCTCTTAGTAGTG 57.905 40.000 0.00 0.00 0.00 2.74
2065 2305 6.889722 ACTCATCTTCTCAAGCTCTTAGTAGT 59.110 38.462 0.00 0.00 0.00 2.73
2066 2306 7.066887 TGACTCATCTTCTCAAGCTCTTAGTAG 59.933 40.741 0.00 0.00 0.00 2.57
2067 2307 6.887002 TGACTCATCTTCTCAAGCTCTTAGTA 59.113 38.462 0.00 0.00 0.00 1.82
2068 2308 5.714333 TGACTCATCTTCTCAAGCTCTTAGT 59.286 40.000 0.00 0.00 0.00 2.24
2069 2309 6.206395 TGACTCATCTTCTCAAGCTCTTAG 57.794 41.667 0.00 0.00 0.00 2.18
2070 2310 6.788598 ATGACTCATCTTCTCAAGCTCTTA 57.211 37.500 0.00 0.00 0.00 2.10
2071 2311 5.680594 ATGACTCATCTTCTCAAGCTCTT 57.319 39.130 0.00 0.00 0.00 2.85
2072 2312 5.655974 TGTATGACTCATCTTCTCAAGCTCT 59.344 40.000 0.00 0.00 0.00 4.09
2073 2313 5.900425 TGTATGACTCATCTTCTCAAGCTC 58.100 41.667 0.00 0.00 0.00 4.09
2074 2314 5.929058 TGTATGACTCATCTTCTCAAGCT 57.071 39.130 0.00 0.00 0.00 3.74
2075 2315 6.279123 TCATGTATGACTCATCTTCTCAAGC 58.721 40.000 0.00 0.00 0.00 4.01
2076 2316 7.435784 CACTCATGTATGACTCATCTTCTCAAG 59.564 40.741 0.00 0.00 32.50 3.02
2077 2317 7.123247 TCACTCATGTATGACTCATCTTCTCAA 59.877 37.037 0.00 0.00 32.50 3.02
2078 2318 6.604795 TCACTCATGTATGACTCATCTTCTCA 59.395 38.462 0.00 0.00 32.50 3.27
2079 2319 7.036996 TCACTCATGTATGACTCATCTTCTC 57.963 40.000 0.00 0.00 32.50 2.87
2080 2320 7.255906 GGATCACTCATGTATGACTCATCTTCT 60.256 40.741 0.00 0.00 32.50 2.85
2129 2369 0.737367 CATGACACGTGTGCGAGGAT 60.737 55.000 28.82 5.08 42.00 3.24
2130 2370 1.372872 CATGACACGTGTGCGAGGA 60.373 57.895 28.82 2.71 42.00 3.71
2131 2371 1.221466 AACATGACACGTGTGCGAGG 61.221 55.000 28.82 13.61 42.00 4.63
2140 2380 4.853196 GGATCAATCACAAAACATGACACG 59.147 41.667 0.00 0.00 0.00 4.49
2141 2381 5.771469 TGGATCAATCACAAAACATGACAC 58.229 37.500 0.00 0.00 0.00 3.67
2152 2392 5.427378 ACGTGACATATTGGATCAATCACA 58.573 37.500 0.00 0.00 35.54 3.58
2216 2457 0.320858 TCCATTAGTGCGCCGTTTCA 60.321 50.000 4.18 0.00 0.00 2.69
2222 2463 1.459450 TCCTTTTCCATTAGTGCGCC 58.541 50.000 4.18 0.00 0.00 6.53
2223 2464 3.569250 TTTCCTTTTCCATTAGTGCGC 57.431 42.857 0.00 0.00 0.00 6.09
2225 2466 6.084326 TCTGTTTTCCTTTTCCATTAGTGC 57.916 37.500 0.00 0.00 0.00 4.40
2255 2497 6.161381 TCGGTTTAGAACAGTCCAATAGTTC 58.839 40.000 0.00 0.00 41.37 3.01


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

AutoCloner maintained by Alex Coulton.