Multiple sequence alignment - TraesCS1D01G066200

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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 TraesCS1D01G066200 chr1D 100.000 2398 0 0 1 2398 47880799 47878402 0.000000e+00 4429.0
1 TraesCS1D01G066200 chr1D 81.818 319 26 17 90 380 47933217 47932903 3.080000e-59 239.0
2 TraesCS1D01G066200 chr1A 95.415 916 32 5 1483 2398 47805689 47804784 0.000000e+00 1450.0
3 TraesCS1D01G066200 chr1A 88.419 544 31 10 834 1353 47806412 47805877 5.630000e-176 627.0
4 TraesCS1D01G066200 chr1A 81.788 593 49 28 251 820 47807018 47806462 2.190000e-120 442.0
5 TraesCS1D01G066200 chr1A 84.407 295 19 16 58 328 47812821 47812530 5.080000e-67 265.0
6 TraesCS1D01G066200 chr1A 81.818 286 20 18 31 288 47812368 47812087 6.720000e-51 211.0
7 TraesCS1D01G066200 chr1B 92.467 916 27 5 1480 2380 67540301 67539413 0.000000e+00 1271.0
8 TraesCS1D01G066200 chr1B 91.370 533 23 10 834 1357 67541084 67540566 0.000000e+00 708.0
9 TraesCS1D01G066200 chr1B 87.791 516 36 10 328 820 67541649 67541138 1.600000e-161 579.0
10 TraesCS1D01G066200 chr1B 92.391 92 4 1 31 119 67541822 67541731 6.960000e-26 128.0
11 TraesCS1D01G066200 chr1B 82.270 141 9 8 1356 1494 67540520 67540394 9.060000e-20 108.0
12 TraesCS1D01G066200 chr1B 95.238 42 1 1 151 191 67541728 67541687 5.530000e-07 65.8
13 TraesCS1D01G066200 chr5D 90.824 643 31 9 1758 2398 371468823 371468207 0.000000e+00 835.0
14 TraesCS1D01G066200 chr5D 95.455 44 2 0 1535 1578 371468891 371468848 1.190000e-08 71.3
15 TraesCS1D01G066200 chr5A 92.982 285 17 3 1758 2041 427869994 427869712 1.720000e-111 412.0
16 TraesCS1D01G066200 chr5A 94.898 98 4 1 2093 2189 474540690 474540593 4.130000e-33 152.0
17 TraesCS1D01G066200 chr5A 83.750 160 8 7 1301 1459 427870271 427870129 4.160000e-28 135.0
18 TraesCS1D01G066200 chr5A 85.333 75 4 1 1504 1578 427870117 427870050 1.190000e-08 71.3
19 TraesCS1D01G066200 chr3B 97.778 90 2 0 327 416 617415056 617414967 3.190000e-34 156.0
20 TraesCS1D01G066200 chr3B 94.624 93 3 2 327 417 513804428 513804520 2.480000e-30 143.0
21 TraesCS1D01G066200 chr3B 94.624 93 3 2 327 417 685059075 685059167 2.480000e-30 143.0
22 TraesCS1D01G066200 chr5B 97.727 88 1 1 326 412 350371219 350371132 1.480000e-32 150.0
23 TraesCS1D01G066200 chr3D 97.727 88 1 1 329 415 520219002 520219089 1.480000e-32 150.0
24 TraesCS1D01G066200 chr3A 94.792 96 0 4 327 417 655640146 655640241 6.910000e-31 145.0
25 TraesCS1D01G066200 chr3A 94.595 37 1 1 3 38 16808790 16808826 3.330000e-04 56.5
26 TraesCS1D01G066200 chr3A 94.595 37 1 1 3 38 16857449 16857485 3.330000e-04 56.5
27 TraesCS1D01G066200 chr6B 97.222 36 1 0 1 36 223414390 223414425 7.160000e-06 62.1


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 TraesCS1D01G066200 chr1D 47878402 47880799 2397 True 4429.000000 4429 100.000000 1 2398 1 chr1D.!!$R1 2397
1 TraesCS1D01G066200 chr1A 47804784 47807018 2234 True 839.666667 1450 88.540667 251 2398 3 chr1A.!!$R1 2147
2 TraesCS1D01G066200 chr1A 47812087 47812821 734 True 238.000000 265 83.112500 31 328 2 chr1A.!!$R2 297
3 TraesCS1D01G066200 chr1B 67539413 67541822 2409 True 476.633333 1271 90.254500 31 2380 6 chr1B.!!$R1 2349
4 TraesCS1D01G066200 chr5D 371468207 371468891 684 True 453.150000 835 93.139500 1535 2398 2 chr5D.!!$R1 863
5 TraesCS1D01G066200 chr5A 427869712 427870271 559 True 206.100000 412 87.355000 1301 2041 3 chr5A.!!$R2 740

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
963 1090 0.754957 CCCCAATAATTGCAGCCCGA 60.755 55.0 0.0 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2519 0.24912 TATCAACGGTGCTGTCCTGG 59.751 55.0 0.0 0.0 0.0 4.45 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
26 27 9.696917 GACAAAATAATGTCTCATGAAAAACCT 57.303 29.630 0.00 0.00 44.98 3.50
85 89 8.718102 ATACACAAGAACATTGAGGTGTATAC 57.282 34.615 12.09 0.00 45.43 1.47
142 146 6.503589 TTTGGTGTGATCCGTATAAAAAGG 57.496 37.500 0.00 0.00 0.00 3.11
152 156 9.126151 TGATCCGTATAAAAAGGCAAAATCATA 57.874 29.630 0.00 0.00 0.00 2.15
194 216 9.469807 GACATTATTTTATTTTGTGTGTGACCA 57.530 29.630 0.00 0.00 0.00 4.02
195 217 9.823647 ACATTATTTTATTTTGTGTGTGACCAA 57.176 25.926 0.00 0.00 0.00 3.67
201 223 9.743057 TTTTATTTTGTGTGTGACCAAGAATAG 57.257 29.630 0.00 0.00 0.00 1.73
205 227 7.397892 TTTGTGTGTGACCAAGAATAGAAAA 57.602 32.000 0.00 0.00 0.00 2.29
259 285 9.654663 GTATACATCCCTAGGTTCATTTGTATC 57.345 37.037 8.29 3.60 32.82 2.24
288 314 8.854614 TTTCAGGAAATTTGGAACTTCAAAAA 57.145 26.923 0.00 0.00 39.64 1.94
289 315 9.460019 TTTCAGGAAATTTGGAACTTCAAAAAT 57.540 25.926 0.00 0.00 39.64 1.82
419 450 1.714794 CTAGACGGGCTTTGTGTCAG 58.285 55.000 0.00 0.00 35.09 3.51
421 452 1.045407 AGACGGGCTTTGTGTCAGTA 58.955 50.000 0.00 0.00 35.09 2.74
433 464 2.288763 TGTGTCAGTAGCTTCATTCGCA 60.289 45.455 0.00 0.00 0.00 5.10
444 475 8.470002 AGTAGCTTCATTCGCATGTATATATCA 58.530 33.333 0.00 0.00 0.00 2.15
446 477 6.760298 AGCTTCATTCGCATGTATATATCAGG 59.240 38.462 0.00 0.00 0.00 3.86
466 497 7.615582 TCAGGTATATCAAGCAAAAAGTCTG 57.384 36.000 0.00 0.00 0.00 3.51
467 498 7.394016 TCAGGTATATCAAGCAAAAAGTCTGA 58.606 34.615 0.00 0.00 0.00 3.27
468 499 7.550551 TCAGGTATATCAAGCAAAAAGTCTGAG 59.449 37.037 0.00 0.00 0.00 3.35
501 548 2.083002 TCAATTATCAGCGTGCAAGCA 58.917 42.857 26.30 7.28 40.15 3.91
505 552 2.378445 TATCAGCGTGCAAGCAAGTA 57.622 45.000 26.30 12.22 40.15 2.24
560 611 5.070446 TCCATTACTTAACCTCGCTCATCAT 59.930 40.000 0.00 0.00 0.00 2.45
619 674 4.712051 TCCTTTCCACCAGGATATCATG 57.288 45.455 10.43 10.43 45.26 3.07
662 717 8.820933 CCATTCATGCATTATTATACTACTCCG 58.179 37.037 0.00 0.00 0.00 4.63
688 750 3.704566 ACAAATATAGACGCCTCAGTGGA 59.295 43.478 0.00 0.00 38.35 4.02
720 782 1.333702 GCAACATCGAAACTTGTCGCA 60.334 47.619 0.00 0.00 40.88 5.10
722 784 2.880822 ACATCGAAACTTGTCGCATG 57.119 45.000 0.00 0.00 40.88 4.06
744 806 1.508808 GGCACAAACGGCGAAAGGTA 61.509 55.000 16.62 0.00 0.00 3.08
895 1008 2.367202 CCGCCTACCACCACCAGAT 61.367 63.158 0.00 0.00 0.00 2.90
899 1025 0.833287 CCTACCACCACCAGATGAGG 59.167 60.000 0.00 0.00 0.00 3.86
900 1026 1.622449 CCTACCACCACCAGATGAGGA 60.622 57.143 0.00 0.00 0.00 3.71
901 1027 1.759445 CTACCACCACCAGATGAGGAG 59.241 57.143 0.00 0.00 0.00 3.69
963 1090 0.754957 CCCCAATAATTGCAGCCCGA 60.755 55.000 0.00 0.00 0.00 5.14
980 1111 3.259064 CCCGAGCATATAAATACACCCG 58.741 50.000 0.00 0.00 0.00 5.28
981 1112 3.259064 CCGAGCATATAAATACACCCGG 58.741 50.000 0.00 0.00 0.00 5.73
982 1113 2.671396 CGAGCATATAAATACACCCGGC 59.329 50.000 0.00 0.00 0.00 6.13
983 1114 3.616560 CGAGCATATAAATACACCCGGCT 60.617 47.826 0.00 0.00 0.00 5.52
1024 1156 3.056536 ACACAAGCATCTACACACGATCT 60.057 43.478 0.00 0.00 0.00 2.75
1031 1163 6.753180 AGCATCTACACACGATCTGATTATT 58.247 36.000 0.00 0.00 0.00 1.40
1042 1174 9.416794 ACACGATCTGATTATTATCTTGCTTAG 57.583 33.333 0.00 0.00 0.00 2.18
1143 1284 2.922503 TGCGGCAGGAGAAGGTCA 60.923 61.111 0.00 0.00 0.00 4.02
1192 1345 0.179067 AACAAGACGGCCGTGAAGAA 60.179 50.000 39.65 0.00 0.00 2.52
1193 1346 0.878961 ACAAGACGGCCGTGAAGAAC 60.879 55.000 39.65 20.67 0.00 3.01
1194 1347 0.878523 CAAGACGGCCGTGAAGAACA 60.879 55.000 39.65 0.00 0.00 3.18
1195 1348 0.179067 AAGACGGCCGTGAAGAACAA 60.179 50.000 39.65 0.00 0.00 2.83
1196 1349 0.600255 AGACGGCCGTGAAGAACAAG 60.600 55.000 39.65 0.00 0.00 3.16
1197 1350 0.599204 GACGGCCGTGAAGAACAAGA 60.599 55.000 39.65 0.00 0.00 3.02
1198 1351 0.179067 ACGGCCGTGAAGAACAAGAA 60.179 50.000 33.75 0.00 0.00 2.52
1199 1352 0.234884 CGGCCGTGAAGAACAAGAAC 59.765 55.000 19.50 0.00 0.00 3.01
1235 1388 7.396540 AGACAAGATCAACAAGAAAAACTGT 57.603 32.000 0.00 0.00 0.00 3.55
1238 1391 7.775120 ACAAGATCAACAAGAAAAACTGTGAT 58.225 30.769 0.00 0.00 0.00 3.06
1241 1394 7.134815 AGATCAACAAGAAAAACTGTGATTCG 58.865 34.615 0.00 0.00 0.00 3.34
1248 1401 2.631160 AAACTGTGATTCGTGGACCA 57.369 45.000 0.00 0.00 0.00 4.02
1286 1439 4.695993 TGCGCATCTTCCACGGCA 62.696 61.111 5.66 0.00 0.00 5.69
1413 1613 9.851686 AAGGAAATAAAGATGTGTGCTCATATA 57.148 29.630 0.00 0.00 0.00 0.86
1418 1618 9.565090 AATAAAGATGTGTGCTCATATATGTGT 57.435 29.630 12.42 0.00 0.00 3.72
1451 1651 3.214328 ACTTGGGGATATCAATCAACGC 58.786 45.455 4.83 0.00 33.41 4.84
1453 1653 1.492599 TGGGGATATCAATCAACGCCA 59.507 47.619 4.83 0.00 40.29 5.69
1467 1667 6.890663 ATCAACGCCAAACAATCAAATATG 57.109 33.333 0.00 0.00 0.00 1.78
1586 1938 3.009033 GCCATAGAGCCATGGTATTGGTA 59.991 47.826 14.67 0.00 46.21 3.25
1588 1940 4.287067 CCATAGAGCCATGGTATTGGTACT 59.713 45.833 14.67 0.00 40.62 2.73
1589 1941 5.482908 CATAGAGCCATGGTATTGGTACTC 58.517 45.833 14.67 8.54 39.11 2.59
1590 1942 3.658725 AGAGCCATGGTATTGGTACTCT 58.341 45.455 14.67 10.77 39.11 3.24
1591 1943 3.643792 AGAGCCATGGTATTGGTACTCTC 59.356 47.826 14.67 7.07 39.11 3.20
1592 1944 2.706190 AGCCATGGTATTGGTACTCTCC 59.294 50.000 14.67 0.00 39.11 3.71
1593 1945 2.706190 GCCATGGTATTGGTACTCTCCT 59.294 50.000 14.67 0.00 39.11 3.69
1594 1946 3.901844 GCCATGGTATTGGTACTCTCCTA 59.098 47.826 14.67 0.00 39.11 2.94
1595 1947 4.532521 GCCATGGTATTGGTACTCTCCTAT 59.467 45.833 14.67 0.00 39.11 2.57
1596 1948 5.337652 GCCATGGTATTGGTACTCTCCTATC 60.338 48.000 14.67 0.00 39.11 2.08
1597 1949 6.019748 CCATGGTATTGGTACTCTCCTATCT 58.980 44.000 2.57 0.00 31.74 1.98
1598 1950 6.498651 CCATGGTATTGGTACTCTCCTATCTT 59.501 42.308 2.57 0.00 31.74 2.40
1599 1951 6.978674 TGGTATTGGTACTCTCCTATCTTG 57.021 41.667 0.00 0.00 0.00 3.02
1600 1952 6.679542 TGGTATTGGTACTCTCCTATCTTGA 58.320 40.000 0.00 0.00 0.00 3.02
1903 2255 1.371558 GCGGTCCTTGAACTCCACT 59.628 57.895 0.00 0.00 0.00 4.00
2144 2512 8.682936 AGTTATCACAGGATCAAATGGATTAC 57.317 34.615 0.00 1.22 36.00 1.89
2145 2513 8.497745 AGTTATCACAGGATCAAATGGATTACT 58.502 33.333 0.00 3.14 36.00 2.24
2146 2514 8.778358 GTTATCACAGGATCAAATGGATTACTC 58.222 37.037 0.00 0.00 36.00 2.59
2147 2515 5.684704 TCACAGGATCAAATGGATTACTCC 58.315 41.667 0.00 0.00 42.45 3.85
2148 2516 5.429762 TCACAGGATCAAATGGATTACTCCT 59.570 40.000 0.29 0.00 42.59 3.69
2149 2517 6.615316 TCACAGGATCAAATGGATTACTCCTA 59.385 38.462 0.29 0.00 42.59 2.94
2150 2518 6.933521 CACAGGATCAAATGGATTACTCCTAG 59.066 42.308 0.29 0.00 42.59 3.02
2151 2519 5.936956 CAGGATCAAATGGATTACTCCTAGC 59.063 44.000 0.29 0.00 42.59 3.42
2152 2520 5.013599 AGGATCAAATGGATTACTCCTAGCC 59.986 44.000 0.29 0.00 42.59 3.93
2153 2521 5.221925 GGATCAAATGGATTACTCCTAGCCA 60.222 44.000 0.29 0.00 42.59 4.75
2154 2522 5.296151 TCAAATGGATTACTCCTAGCCAG 57.704 43.478 0.29 0.00 42.59 4.85
2155 2523 4.103153 TCAAATGGATTACTCCTAGCCAGG 59.897 45.833 0.29 0.00 42.59 4.45
2156 2524 7.385491 ATCAAATGGATTACTCCTAGCCAGGA 61.385 42.308 0.00 0.00 40.15 3.86
2157 2525 2.679082 TGGATTACTCCTAGCCAGGAC 58.321 52.381 0.00 0.00 46.58 3.85
2158 2526 2.023404 TGGATTACTCCTAGCCAGGACA 60.023 50.000 0.00 0.00 46.58 4.02
2189 2557 4.165372 TGATATACCCTTTCTGTTCCCCAC 59.835 45.833 0.00 0.00 0.00 4.61
2338 2708 3.806949 ATGGAGAACTTGGGTTTGCTA 57.193 42.857 0.00 0.00 35.58 3.49
2355 2733 6.458888 GGTTTGCTACTAGGATTCTTCATTGC 60.459 42.308 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.696917 AGGTTTTTCATGAGACATTATTTTGTC 57.303 29.630 0.00 0.00 45.15 3.18
27 28 8.693625 TGATCTTAAAACCCCGAAAGTTAAAAA 58.306 29.630 0.00 0.00 0.00 1.94
28 29 8.235359 TGATCTTAAAACCCCGAAAGTTAAAA 57.765 30.769 0.00 0.00 0.00 1.52
29 30 7.820578 TGATCTTAAAACCCCGAAAGTTAAA 57.179 32.000 0.00 0.00 0.00 1.52
39 40 9.366216 GTGTATTTGATTTGATCTTAAAACCCC 57.634 33.333 0.00 0.00 0.00 4.95
142 146 7.959651 CACTCTAACACAAGTCTATGATTTTGC 59.040 37.037 0.00 0.00 0.00 3.68
152 156 9.561069 AAAATAATGTCACTCTAACACAAGTCT 57.439 29.630 0.00 0.00 0.00 3.24
233 259 9.654663 GATACAAATGAACCTAGGGATGTATAC 57.345 37.037 14.81 0.00 34.04 1.47
259 285 7.491682 TGAAGTTCCAAATTTCCTGAAAGAAG 58.508 34.615 0.00 0.00 34.07 2.85
419 450 8.634475 TGATATATACATGCGAATGAAGCTAC 57.366 34.615 11.32 0.00 35.28 3.58
421 452 6.760298 CCTGATATATACATGCGAATGAAGCT 59.240 38.462 11.32 0.00 35.28 3.74
444 475 6.317391 GCTCAGACTTTTTGCTTGATATACCT 59.683 38.462 0.00 0.00 0.00 3.08
446 477 7.313951 AGCTCAGACTTTTTGCTTGATATAC 57.686 36.000 0.00 0.00 0.00 1.47
451 482 5.009010 CCTTTAGCTCAGACTTTTTGCTTGA 59.991 40.000 0.00 0.00 35.47 3.02
455 486 4.837896 ACCTTTAGCTCAGACTTTTTGC 57.162 40.909 0.00 0.00 0.00 3.68
461 492 3.778954 AGCAAACCTTTAGCTCAGACT 57.221 42.857 0.00 0.00 32.05 3.24
467 498 6.405176 GCTGATAATTGAGCAAACCTTTAGCT 60.405 38.462 0.00 0.00 42.17 3.32
468 499 5.745769 GCTGATAATTGAGCAAACCTTTAGC 59.254 40.000 0.00 0.00 35.15 3.09
530 577 4.110482 CGAGGTTAAGTAATGGAAGGACG 58.890 47.826 0.00 0.00 0.00 4.79
531 578 3.869832 GCGAGGTTAAGTAATGGAAGGAC 59.130 47.826 0.00 0.00 0.00 3.85
560 611 4.641541 CCATGTATGCTTTGGTGATTCTGA 59.358 41.667 0.00 0.00 0.00 3.27
662 717 5.915758 CACTGAGGCGTCTATATTTGTCTAC 59.084 44.000 8.06 0.00 0.00 2.59
720 782 3.055719 CGCCGTTTGTGCCTCCAT 61.056 61.111 0.00 0.00 0.00 3.41
722 784 2.458006 CTTTCGCCGTTTGTGCCTCC 62.458 60.000 0.00 0.00 0.00 4.30
832 921 2.095853 CGGAAGCAATCATAAACAGCGT 59.904 45.455 0.00 0.00 0.00 5.07
841 951 3.495806 GGAGAGGATTCGGAAGCAATCAT 60.496 47.826 8.39 0.00 32.75 2.45
895 1008 2.100197 CGGTGTGGACTTATCTCCTCA 58.900 52.381 0.00 0.00 32.53 3.86
963 1090 3.072476 ACAGCCGGGTGTATTTATATGCT 59.928 43.478 36.56 8.39 0.00 3.79
980 1111 4.393062 GTGTGCATACATATGGATACAGCC 59.607 45.833 8.93 0.00 45.52 4.85
981 1112 4.996758 TGTGTGCATACATATGGATACAGC 59.003 41.667 12.76 4.76 45.71 4.40
1031 1163 5.536916 GCTACCTTCCTCTCTAAGCAAGATA 59.463 44.000 0.00 0.00 32.41 1.98
1042 1174 1.960689 CAGGCTAGCTACCTTCCTCTC 59.039 57.143 15.72 0.00 34.42 3.20
1143 1284 1.067295 TGTTGGTTGATCCTCTGCCT 58.933 50.000 0.00 0.00 37.07 4.75
1182 1323 2.411547 CGATGTTCTTGTTCTTCACGGC 60.412 50.000 0.00 0.00 0.00 5.68
1192 1345 4.058817 GTCTTCTTCACCGATGTTCTTGT 58.941 43.478 0.00 0.00 0.00 3.16
1193 1346 4.058124 TGTCTTCTTCACCGATGTTCTTG 58.942 43.478 0.00 0.00 0.00 3.02
1194 1347 4.336889 TGTCTTCTTCACCGATGTTCTT 57.663 40.909 0.00 0.00 0.00 2.52
1195 1348 4.039245 TCTTGTCTTCTTCACCGATGTTCT 59.961 41.667 0.00 0.00 0.00 3.01
1196 1349 4.307432 TCTTGTCTTCTTCACCGATGTTC 58.693 43.478 0.00 0.00 0.00 3.18
1197 1350 4.336889 TCTTGTCTTCTTCACCGATGTT 57.663 40.909 0.00 0.00 0.00 2.71
1198 1351 4.021104 TGATCTTGTCTTCTTCACCGATGT 60.021 41.667 0.00 0.00 0.00 3.06
1199 1352 4.498241 TGATCTTGTCTTCTTCACCGATG 58.502 43.478 0.00 0.00 0.00 3.84
1235 1388 2.047655 GCGGTGGTCCACGAATCA 60.048 61.111 15.93 0.00 34.83 2.57
1435 1635 3.380004 TGTTTGGCGTTGATTGATATCCC 59.620 43.478 0.00 0.00 0.00 3.85
1444 1644 5.291614 GCATATTTGATTGTTTGGCGTTGAT 59.708 36.000 0.00 0.00 0.00 2.57
1451 1651 4.807304 GCTGGAGCATATTTGATTGTTTGG 59.193 41.667 0.00 0.00 41.59 3.28
1453 1653 4.467082 TGGCTGGAGCATATTTGATTGTTT 59.533 37.500 0.20 0.00 44.36 2.83
1467 1667 2.698855 TTTAGATCTGTGGCTGGAGC 57.301 50.000 5.18 0.00 41.14 4.70
1586 1938 4.871871 TCCAGTCTCAAGATAGGAGAGT 57.128 45.455 0.00 0.00 43.95 3.24
1588 1940 6.024563 AGATTCCAGTCTCAAGATAGGAGA 57.975 41.667 0.00 0.00 39.01 3.71
1589 1941 6.729690 AAGATTCCAGTCTCAAGATAGGAG 57.270 41.667 4.33 0.00 33.48 3.69
1590 1942 8.789767 ATTAAGATTCCAGTCTCAAGATAGGA 57.210 34.615 0.76 0.76 0.00 2.94
1594 1946 9.282569 GCAATATTAAGATTCCAGTCTCAAGAT 57.717 33.333 0.00 0.00 0.00 2.40
1595 1947 7.716998 GGCAATATTAAGATTCCAGTCTCAAGA 59.283 37.037 0.00 0.00 0.00 3.02
1596 1948 7.500227 TGGCAATATTAAGATTCCAGTCTCAAG 59.500 37.037 8.84 0.00 0.00 3.02
1597 1949 7.345691 TGGCAATATTAAGATTCCAGTCTCAA 58.654 34.615 8.84 0.00 0.00 3.02
1598 1950 6.899089 TGGCAATATTAAGATTCCAGTCTCA 58.101 36.000 8.84 0.00 0.00 3.27
1599 1951 7.716998 TCTTGGCAATATTAAGATTCCAGTCTC 59.283 37.037 0.00 0.00 0.00 3.36
1600 1952 7.577303 TCTTGGCAATATTAAGATTCCAGTCT 58.423 34.615 0.00 0.00 0.00 3.24
1903 2255 2.988010 AGCTTGACATCGCTTCCATA 57.012 45.000 0.00 0.00 31.17 2.74
2014 2367 2.632643 TGCTGCACGAGAAAGCAAT 58.367 47.368 0.00 0.00 43.65 3.56
2146 2514 2.586792 GGTGCTGTCCTGGCTAGG 59.413 66.667 10.47 10.47 46.06 3.02
2147 2515 2.172483 AACGGTGCTGTCCTGGCTAG 62.172 60.000 0.00 0.00 0.00 3.42
2148 2516 2.214216 AACGGTGCTGTCCTGGCTA 61.214 57.895 0.00 0.00 0.00 3.93
2149 2517 3.560251 AACGGTGCTGTCCTGGCT 61.560 61.111 0.00 0.00 0.00 4.75
2150 2518 3.357079 CAACGGTGCTGTCCTGGC 61.357 66.667 0.00 0.00 0.00 4.85
2151 2519 0.249120 TATCAACGGTGCTGTCCTGG 59.751 55.000 0.00 0.00 0.00 4.45
2152 2520 2.315925 ATATCAACGGTGCTGTCCTG 57.684 50.000 0.00 0.00 0.00 3.86
2153 2521 2.102588 GGTATATCAACGGTGCTGTCCT 59.897 50.000 0.00 0.00 0.00 3.85
2154 2522 2.480845 GGTATATCAACGGTGCTGTCC 58.519 52.381 0.00 0.00 0.00 4.02
2155 2523 2.102588 AGGGTATATCAACGGTGCTGTC 59.897 50.000 0.00 0.00 0.00 3.51
2156 2524 2.116238 AGGGTATATCAACGGTGCTGT 58.884 47.619 0.00 0.00 0.00 4.40
2157 2525 2.910688 AGGGTATATCAACGGTGCTG 57.089 50.000 0.00 0.00 0.00 4.41
2158 2526 3.454812 AGAAAGGGTATATCAACGGTGCT 59.545 43.478 0.00 0.00 0.00 4.40
2189 2557 1.051008 TCACCATCATCAGGATCCGG 58.949 55.000 5.98 5.68 32.57 5.14
2304 2674 4.072131 GTTCTCCATTAGCACTTGTGGAA 58.928 43.478 2.81 0.00 40.03 3.53
2338 2708 4.393062 CACGTTGCAATGAAGAATCCTAGT 59.607 41.667 25.13 0.00 0.00 2.57
2355 2733 2.653890 CAATTCTTCACTGGCACGTTG 58.346 47.619 0.00 0.00 0.00 4.10


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

AutoCloner maintained by Alex Coulton.