Multiple sequence alignment - TraesCS1D01G202500

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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 TraesCS1D01G202500 chr1D 100.000 3732 0 0 1 3732 285557329 285553598 0.000000e+00 6892.0
1 TraesCS1D01G202500 chr1B 97.706 1526 31 2 2208 3732 388145263 388143741 0.000000e+00 2621.0
2 TraesCS1D01G202500 chr1B 91.197 1295 93 9 1 1278 388147789 388146499 0.000000e+00 1740.0
3 TraesCS1D01G202500 chr1B 96.009 426 12 2 1594 2019 388146263 388145843 0.000000e+00 688.0
4 TraesCS1D01G202500 chr1B 94.323 229 11 1 1327 1555 388146491 388146265 2.130000e-92 350.0
5 TraesCS1D01G202500 chr1B 81.752 411 67 6 169 575 95012242 95011836 1.660000e-88 337.0
6 TraesCS1D01G202500 chr1B 96.000 200 6 2 2014 2211 388145573 388145374 1.290000e-84 324.0
7 TraesCS1D01G202500 chr1B 82.258 372 57 9 169 535 550843345 550842978 2.800000e-81 313.0
8 TraesCS1D01G202500 chr1A 89.736 1744 127 23 2003 3732 357122041 357120336 0.000000e+00 2182.0
9 TraesCS1D01G202500 chr1A 88.774 1256 65 35 772 1991 357124117 357122902 0.000000e+00 1469.0
10 TraesCS1D01G202500 chr3B 83.916 429 60 4 170 596 531792446 531792025 5.810000e-108 401.0
11 TraesCS1D01G202500 chr3B 90.909 110 10 0 1371 1480 775129794 775129685 8.350000e-32 148.0
12 TraesCS1D01G202500 chr3B 75.362 276 59 7 177 447 227104532 227104261 1.410000e-24 124.0
13 TraesCS1D01G202500 chr3B 74.672 229 48 8 224 447 729201188 729200965 3.970000e-15 93.5
14 TraesCS1D01G202500 chr3A 82.751 429 67 4 170 596 223531591 223531168 3.520000e-100 375.0
15 TraesCS1D01G202500 chr3A 82.270 423 63 9 180 596 225446748 225446332 4.580000e-94 355.0
16 TraesCS1D01G202500 chr2D 80.856 444 76 6 160 596 7129692 7129251 1.280000e-89 340.0
17 TraesCS1D01G202500 chr7B 83.761 351 53 4 171 519 113210770 113210422 2.780000e-86 329.0
18 TraesCS1D01G202500 chr7B 92.174 115 9 0 1371 1485 27647771 27647885 2.980000e-36 163.0
19 TraesCS1D01G202500 chr7B 91.304 115 10 0 1371 1485 603522777 603522663 1.390000e-34 158.0
20 TraesCS1D01G202500 chr6A 79.452 438 79 9 170 602 222124303 222123872 2.180000e-77 300.0
21 TraesCS1D01G202500 chr6A 85.938 128 16 2 1 127 498861624 498861750 6.500000e-28 135.0
22 TraesCS1D01G202500 chr5D 91.463 82 7 0 1404 1485 393442202 393442121 3.050000e-21 113.0
23 TraesCS1D01G202500 chr5D 85.938 64 7 2 24 86 432184193 432184255 2.410000e-07 67.6
24 TraesCS1D01G202500 chr7D 80.180 111 18 4 23 130 66083856 66083965 3.090000e-11 80.5


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 TraesCS1D01G202500 chr1D 285553598 285557329 3731 True 6892.0 6892 100.000 1 3732 1 chr1D.!!$R1 3731
1 TraesCS1D01G202500 chr1B 388143741 388147789 4048 True 1144.6 2621 95.047 1 3732 5 chr1B.!!$R3 3731
2 TraesCS1D01G202500 chr1A 357120336 357124117 3781 True 1825.5 2182 89.255 772 3732 2 chr1A.!!$R1 2960

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
539 547 0.166814 GATGCACCGACTTTGTCAGC 59.833 55.0 0.00 0.35 32.09 4.26 F
1402 1427 0.525668 GGCTCGTCAGGTACATCGTG 60.526 60.0 0.00 0.00 0.00 4.35 F
2310 3608 2.145397 TTTGCCATGGCCCGTTATTA 57.855 45.0 33.44 9.85 41.09 0.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1556 1581 1.034292 GGCAGAATTCAGGGGCAGAC 61.034 60.000 8.44 0.0 0.0 3.51 R
2541 3839 0.999406 CATCAGAAGGTACGCCGTTG 59.001 55.000 0.00 0.0 40.5 4.10 R
3314 4622 4.080975 CCATTGCCAAACCCTAATGAACAT 60.081 41.667 0.00 0.0 33.5 2.71 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
40 42 5.144359 CCACTTTGTTAGGTTTTCGATTCG 58.856 41.667 0.00 0.00 0.00 3.34
55 57 3.747529 TCGATTCGGTTTCCCTTACAAAC 59.252 43.478 6.18 0.00 33.65 2.93
58 60 2.853705 TCGGTTTCCCTTACAAACTGG 58.146 47.619 4.68 0.00 39.60 4.00
66 68 5.319043 TCCCTTACAAACTGGATCAACTT 57.681 39.130 0.00 0.00 0.00 2.66
165 172 8.856103 TCGATCTATTATTGACTCAATGGTGTA 58.144 33.333 13.66 2.23 35.54 2.90
195 202 1.141053 CTAAAAGGAGGATGACCCCCG 59.859 57.143 0.00 0.00 36.73 5.73
211 219 3.473647 CGGCCTCTGCATCAGGGA 61.474 66.667 12.66 0.00 40.13 4.20
222 230 1.687563 CATCAGGGAGATGCATGCAA 58.312 50.000 26.68 8.49 46.90 4.08
289 297 2.777832 AAGTCTTGAGCCACCATCTC 57.222 50.000 0.00 0.00 0.00 2.75
291 299 0.247736 GTCTTGAGCCACCATCTCGT 59.752 55.000 0.00 0.00 33.41 4.18
294 302 0.904649 TTGAGCCACCATCTCGTCAT 59.095 50.000 0.00 0.00 33.41 3.06
299 307 1.069823 GCCACCATCTCGTCATCATCT 59.930 52.381 0.00 0.00 0.00 2.90
308 316 3.696548 TCTCGTCATCATCTGTGCTACTT 59.303 43.478 0.00 0.00 0.00 2.24
316 324 6.314648 TCATCATCTGTGCTACTTCAATCAAC 59.685 38.462 0.00 0.00 0.00 3.18
327 335 7.882791 TGCTACTTCAATCAACTTGATTAAGGA 59.117 33.333 15.25 13.83 44.60 3.36
338 346 5.564550 ACTTGATTAAGGAGTGCAGATTGT 58.435 37.500 1.95 0.00 38.26 2.71
341 349 5.181009 TGATTAAGGAGTGCAGATTGTCTG 58.819 41.667 2.65 2.65 46.90 3.51
357 365 1.227380 CTGAGCCGCATACCCAGAC 60.227 63.158 0.00 0.00 0.00 3.51
362 370 2.044806 GCCGCATACCCAGACCTCAT 62.045 60.000 0.00 0.00 0.00 2.90
367 375 2.639839 GCATACCCAGACCTCATACCAT 59.360 50.000 0.00 0.00 0.00 3.55
378 386 3.006967 ACCTCATACCATAGCCGAACATC 59.993 47.826 0.00 0.00 0.00 3.06
386 394 3.466836 CATAGCCGAACATCTAAAGCCA 58.533 45.455 0.00 0.00 0.00 4.75
390 398 2.418746 GCCGAACATCTAAAGCCAGAGA 60.419 50.000 0.00 0.00 0.00 3.10
397 405 1.628846 TCTAAAGCCAGAGACCCCAAC 59.371 52.381 0.00 0.00 0.00 3.77
419 427 0.472471 AACCACATTGTCGGGTCTGT 59.528 50.000 0.00 0.00 32.67 3.41
420 428 0.250295 ACCACATTGTCGGGTCTGTG 60.250 55.000 9.22 0.00 38.92 3.66
436 444 4.386951 TGGCACACACCGATCCCG 62.387 66.667 0.00 0.00 0.00 5.14
447 455 2.279120 GATCCCGCGCACTCTCAG 60.279 66.667 8.75 0.00 0.00 3.35
448 456 3.069980 GATCCCGCGCACTCTCAGT 62.070 63.158 8.75 0.00 0.00 3.41
461 469 0.460811 TCTCAGTGATCACCGCATGC 60.461 55.000 22.21 7.91 0.00 4.06
465 473 3.498834 TGATCACCGCATGCGCAC 61.499 61.111 34.00 20.53 38.40 5.34
485 493 4.129737 TACAGAGCTCGCCGCCAC 62.130 66.667 8.37 0.00 40.39 5.01
500 508 1.305930 GCCACCGTCTTCCACCAATC 61.306 60.000 0.00 0.00 0.00 2.67
504 512 1.065418 ACCGTCTTCCACCAATCCATC 60.065 52.381 0.00 0.00 0.00 3.51
505 513 1.210478 CCGTCTTCCACCAATCCATCT 59.790 52.381 0.00 0.00 0.00 2.90
519 527 2.111384 TCCATCTTCAGAGCAGGTACC 58.889 52.381 2.73 2.73 0.00 3.34
522 530 2.145397 TCTTCAGAGCAGGTACCGAT 57.855 50.000 6.18 0.00 0.00 4.18
526 534 0.807667 CAGAGCAGGTACCGATGCAC 60.808 60.000 23.74 18.65 45.01 4.57
535 543 0.319083 TACCGATGCACCGACTTTGT 59.681 50.000 0.00 0.00 0.00 2.83
539 547 0.166814 GATGCACCGACTTTGTCAGC 59.833 55.000 0.00 0.35 32.09 4.26
549 557 1.159285 CTTTGTCAGCCTGCAATCGA 58.841 50.000 3.09 0.00 0.00 3.59
559 567 3.047280 GCAATCGACGCCACCACA 61.047 61.111 0.00 0.00 0.00 4.17
571 579 0.796312 CCACCACAGCGTCATACAAC 59.204 55.000 0.00 0.00 0.00 3.32
580 588 1.082117 CGTCATACAACGCCACCTCC 61.082 60.000 0.00 0.00 35.64 4.30
581 589 0.743345 GTCATACAACGCCACCTCCC 60.743 60.000 0.00 0.00 0.00 4.30
586 594 4.078516 AACGCCACCTCCCTACGC 62.079 66.667 0.00 0.00 0.00 4.42
589 597 4.814294 GCCACCTCCCTACGCGTG 62.814 72.222 24.59 11.90 0.00 5.34
596 604 2.278596 CCCTACGCGTGTCCATCG 60.279 66.667 24.59 0.49 0.00 3.84
605 613 0.719465 CGTGTCCATCGTAAAGTGCC 59.281 55.000 0.00 0.00 0.00 5.01
613 621 2.442212 TCGTAAAGTGCCGATGTTCA 57.558 45.000 0.00 0.00 0.00 3.18
662 670 2.350772 GCATGTGTGTGAAGTTGTAGGC 60.351 50.000 0.00 0.00 0.00 3.93
687 695 7.642669 CAACACATTATGACTTGTTTGTCTCT 58.357 34.615 0.00 0.00 37.79 3.10
721 729 8.511321 CGGCAACATTTTATACATGTATATGGT 58.489 33.333 23.01 16.53 38.66 3.55
1266 1289 4.115199 GCCTCCTCCGGCCATTGT 62.115 66.667 2.24 0.00 44.41 2.71
1268 1291 2.190578 CTCCTCCGGCCATTGTCC 59.809 66.667 2.24 0.00 0.00 4.02
1278 1301 4.101790 CATTGTCCGTGCCGTGCC 62.102 66.667 0.00 0.00 0.00 5.01
1305 1330 0.893270 CACTTCATTGACCCCCGCAA 60.893 55.000 0.00 0.00 0.00 4.85
1319 1344 3.605664 GCAAGCTGGCGGTGGTTT 61.606 61.111 0.00 0.00 0.00 3.27
1338 1363 4.424430 CGTACTTGCGTGGCGTGC 62.424 66.667 0.00 0.00 0.00 5.34
1355 1380 2.534349 CGTGCGAGCGTAATCAACTAAT 59.466 45.455 0.00 0.00 0.00 1.73
1362 1387 5.163893 CGAGCGTAATCAACTAATGTTTGGT 60.164 40.000 0.00 0.00 33.52 3.67
1363 1388 6.035220 CGAGCGTAATCAACTAATGTTTGGTA 59.965 38.462 0.00 0.00 33.52 3.25
1402 1427 0.525668 GGCTCGTCAGGTACATCGTG 60.526 60.000 0.00 0.00 0.00 4.35
1731 1783 4.499865 GCAGAGTATATTGCTCGTTGAGGA 60.500 45.833 0.00 0.00 37.99 3.71
1770 1822 5.885912 GGTTAATTTGGTGGATGAGAAGCTA 59.114 40.000 0.00 0.00 0.00 3.32
1887 1939 4.202090 GCTGGAATTCTAGCCCATTTCTTG 60.202 45.833 28.21 0.00 43.58 3.02
1895 1947 6.747414 TCTAGCCCATTTCTTGAGCTAATA 57.253 37.500 0.00 0.00 35.74 0.98
1898 1950 8.314751 TCTAGCCCATTTCTTGAGCTAATATAC 58.685 37.037 0.00 0.00 35.74 1.47
1901 1953 8.001292 AGCCCATTTCTTGAGCTAATATACTTT 58.999 33.333 0.00 0.00 30.46 2.66
1982 2068 3.688185 CCTCACATGTGGATCAGAACAAG 59.312 47.826 25.16 10.89 0.00 3.16
1983 2069 4.321718 CTCACATGTGGATCAGAACAAGT 58.678 43.478 25.16 0.00 0.00 3.16
1984 2070 5.482006 CTCACATGTGGATCAGAACAAGTA 58.518 41.667 25.16 0.06 27.98 2.24
1985 2071 5.863965 TCACATGTGGATCAGAACAAGTAA 58.136 37.500 25.16 0.00 27.98 2.24
2118 3302 3.809279 TGTGAAGCACAGTGTGAATACAG 59.191 43.478 27.37 0.00 39.62 2.74
2166 3350 8.389603 ACATATTCAAAATTTTAAATGGCTGCG 58.610 29.630 9.22 0.00 0.00 5.18
2286 3584 2.795231 TAGCTTGCTTTGAGGATGCT 57.205 45.000 12.86 12.86 45.98 3.79
2310 3608 2.145397 TTTGCCATGGCCCGTTATTA 57.855 45.000 33.44 9.85 41.09 0.98
2352 3650 7.919313 ATGAATATTCACAATTGCGATGTTC 57.081 32.000 20.19 10.99 40.49 3.18
2541 3839 2.287849 GGTTTCTCTTGTTCTTGCAGGC 60.288 50.000 0.00 0.00 0.00 4.85
2814 4112 5.304686 TGTACAGTCCATTTGGTTCTTCT 57.695 39.130 0.00 0.00 36.34 2.85
2852 4159 2.151502 TGGGTTTCTTTTGTGCTCCA 57.848 45.000 0.00 0.00 0.00 3.86
3138 4445 0.171455 GTAGTCTCAGGCGGTCACTG 59.829 60.000 0.00 0.00 37.30 3.66
3250 4558 4.711846 ACCTAGGAGGCCAAAATGAAATTC 59.288 41.667 17.98 0.00 39.63 2.17
3314 4622 3.696051 GCATATTTTCCTTCAGTGCTCCA 59.304 43.478 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.054361 ACAAAGTGGCCTGGTCTATAAGG 60.054 47.826 3.32 0.00 36.58 2.69
6 7 4.163458 CCTAACAAAGTGGCCTGGTCTATA 59.837 45.833 3.32 0.00 0.00 1.31
18 19 5.144359 CCGAATCGAAAACCTAACAAAGTG 58.856 41.667 3.36 0.00 0.00 3.16
66 68 7.828508 ATGGCATTGCATTATAGAAGAAGAA 57.171 32.000 11.39 0.00 0.00 2.52
191 198 4.559063 CTGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
195 202 1.417288 ATCTCCCTGATGCAGAGGCC 61.417 60.000 8.78 0.00 40.13 5.19
211 219 7.558604 AGTTAATAAAATGGTTGCATGCATCT 58.441 30.769 23.37 6.94 0.00 2.90
266 274 5.451937 CGAGATGGTGGCTCAAGACTTATTA 60.452 44.000 0.00 0.00 32.67 0.98
276 284 0.461548 GATGACGAGATGGTGGCTCA 59.538 55.000 0.00 0.00 32.67 4.26
277 285 0.461548 TGATGACGAGATGGTGGCTC 59.538 55.000 0.00 0.00 0.00 4.70
289 297 3.774066 TGAAGTAGCACAGATGATGACG 58.226 45.455 0.00 0.00 0.00 4.35
291 299 5.981174 TGATTGAAGTAGCACAGATGATGA 58.019 37.500 0.00 0.00 0.00 2.92
294 302 5.798132 AGTTGATTGAAGTAGCACAGATGA 58.202 37.500 0.00 0.00 0.00 2.92
316 324 5.879223 AGACAATCTGCACTCCTTAATCAAG 59.121 40.000 0.00 0.00 0.00 3.02
327 335 0.390866 CGGCTCAGACAATCTGCACT 60.391 55.000 0.74 0.00 43.95 4.40
338 346 1.381191 TCTGGGTATGCGGCTCAGA 60.381 57.895 0.00 4.28 32.79 3.27
341 349 2.109181 GGTCTGGGTATGCGGCTC 59.891 66.667 0.00 0.00 0.00 4.70
344 352 1.000955 GTATGAGGTCTGGGTATGCGG 59.999 57.143 0.00 0.00 0.00 5.69
357 365 3.259374 AGATGTTCGGCTATGGTATGAGG 59.741 47.826 0.00 0.00 0.00 3.86
362 370 4.502604 GGCTTTAGATGTTCGGCTATGGTA 60.503 45.833 0.00 0.00 0.00 3.25
367 375 2.764010 TCTGGCTTTAGATGTTCGGCTA 59.236 45.455 0.00 0.00 0.00 3.93
378 386 1.340114 GGTTGGGGTCTCTGGCTTTAG 60.340 57.143 0.00 0.00 0.00 1.85
386 394 0.185175 GTGGTTTGGTTGGGGTCTCT 59.815 55.000 0.00 0.00 0.00 3.10
390 398 1.127343 CAATGTGGTTTGGTTGGGGT 58.873 50.000 0.00 0.00 0.00 4.95
397 405 0.596082 GACCCGACAATGTGGTTTGG 59.404 55.000 0.00 0.00 30.97 3.28
419 427 4.386951 CGGGATCGGTGTGTGCCA 62.387 66.667 0.00 0.00 0.00 4.92
431 439 3.071206 ACTGAGAGTGCGCGGGAT 61.071 61.111 8.83 0.00 0.00 3.85
436 444 1.080995 GGTGATCACTGAGAGTGCGC 61.081 60.000 24.50 0.00 45.54 6.09
437 445 0.799917 CGGTGATCACTGAGAGTGCG 60.800 60.000 27.59 14.61 45.54 5.34
441 449 1.568606 CATGCGGTGATCACTGAGAG 58.431 55.000 33.99 19.30 40.06 3.20
485 493 1.210478 AGATGGATTGGTGGAAGACGG 59.790 52.381 0.00 0.00 0.00 4.79
495 503 2.092538 ACCTGCTCTGAAGATGGATTGG 60.093 50.000 0.00 0.00 0.00 3.16
500 508 1.202463 CGGTACCTGCTCTGAAGATGG 60.202 57.143 10.90 0.00 0.00 3.51
504 512 1.804372 GCATCGGTACCTGCTCTGAAG 60.804 57.143 16.80 1.69 35.49 3.02
505 513 0.175760 GCATCGGTACCTGCTCTGAA 59.824 55.000 16.80 0.00 35.49 3.02
519 527 0.439985 CTGACAAAGTCGGTGCATCG 59.560 55.000 14.66 14.66 34.54 3.84
522 530 1.891919 GGCTGACAAAGTCGGTGCA 60.892 57.895 7.71 0.00 40.69 4.57
526 534 1.165907 TTGCAGGCTGACAAAGTCGG 61.166 55.000 20.86 1.67 41.44 4.79
535 543 2.815211 GCGTCGATTGCAGGCTGA 60.815 61.111 20.86 0.00 0.00 4.26
539 547 3.499737 GGTGGCGTCGATTGCAGG 61.500 66.667 13.60 0.00 0.00 4.85
563 571 0.907704 AGGGAGGTGGCGTTGTATGA 60.908 55.000 0.00 0.00 0.00 2.15
580 588 0.099259 TTACGATGGACACGCGTAGG 59.901 55.000 13.44 2.37 40.92 3.18
581 589 1.844357 CTTTACGATGGACACGCGTAG 59.156 52.381 13.44 9.47 40.92 3.51
586 594 0.719465 GGCACTTTACGATGGACACG 59.281 55.000 0.00 0.00 0.00 4.49
588 596 0.604073 TCGGCACTTTACGATGGACA 59.396 50.000 0.00 0.00 33.69 4.02
589 597 1.935933 ATCGGCACTTTACGATGGAC 58.064 50.000 0.00 0.00 46.83 4.02
620 628 2.167900 CCCCCGAAGTACGAAGATCTTT 59.832 50.000 9.87 0.00 45.77 2.52
621 629 1.755380 CCCCCGAAGTACGAAGATCTT 59.245 52.381 7.95 7.95 45.77 2.40
629 637 1.813753 CACATGCCCCCGAAGTACG 60.814 63.158 0.00 0.00 42.18 3.67
630 638 1.024579 CACACATGCCCCCGAAGTAC 61.025 60.000 0.00 0.00 0.00 2.73
662 670 7.642669 AGAGACAAACAAGTCATAATGTGTTG 58.357 34.615 0.00 0.00 40.98 3.33
666 674 6.929049 TCGAAGAGACAAACAAGTCATAATGT 59.071 34.615 0.00 0.00 40.98 2.71
687 695 1.025812 AAAATGTTGCCGTGGTCGAA 58.974 45.000 0.00 0.00 39.71 3.71
721 729 0.174617 TATGCGCCATCAGTCGTGAA 59.825 50.000 4.18 0.00 35.88 3.18
722 730 0.389025 ATATGCGCCATCAGTCGTGA 59.611 50.000 4.18 0.00 37.02 4.35
1278 1301 2.276244 CAATGAAGTGCGCGCTCG 60.276 61.111 33.29 10.82 39.07 5.03
1279 1302 1.225854 GTCAATGAAGTGCGCGCTC 60.226 57.895 33.29 28.81 0.00 5.03
1280 1303 2.680913 GGTCAATGAAGTGCGCGCT 61.681 57.895 33.29 19.72 0.00 5.92
1282 1305 2.480555 GGGTCAATGAAGTGCGCG 59.519 61.111 0.00 0.00 0.00 6.86
1338 1363 5.163893 ACCAAACATTAGTTGATTACGCTCG 60.164 40.000 0.00 0.00 38.17 5.03
1355 1380 2.060284 GACACGTACGCATACCAAACA 58.940 47.619 16.72 0.00 0.00 2.83
1362 1387 2.277437 CGCCGACACGTACGCATA 60.277 61.111 16.72 0.00 0.00 3.14
1556 1581 1.034292 GGCAGAATTCAGGGGCAGAC 61.034 60.000 8.44 0.00 0.00 3.51
1689 1741 1.203994 GCCAAGCATGCAGAACATTCT 59.796 47.619 21.98 0.00 36.64 2.40
1770 1822 1.211743 CGACGTGCTATGCATCACAT 58.788 50.000 16.25 3.40 41.91 3.21
1842 1894 1.070577 CACAACAGCTTGCGTGACTAC 60.071 52.381 0.78 0.00 0.00 2.73
1848 1900 2.114670 AGCACACAACAGCTTGCGT 61.115 52.632 0.38 0.00 38.01 5.24
1887 1939 8.680261 CGTGTTCGAGTAAAAGTATATTAGCTC 58.320 37.037 0.00 0.00 39.71 4.09
1895 1947 5.382618 AGGTCGTGTTCGAGTAAAAGTAT 57.617 39.130 0.00 0.00 46.96 2.12
1898 1950 5.444218 GCATTAGGTCGTGTTCGAGTAAAAG 60.444 44.000 0.00 0.00 46.96 2.27
1901 1953 3.504863 GCATTAGGTCGTGTTCGAGTAA 58.495 45.455 0.00 0.00 46.96 2.24
1982 2068 3.485216 GCACCATATGCGTGTTGACTTAC 60.485 47.826 19.22 3.78 46.55 2.34
1983 2069 2.675844 GCACCATATGCGTGTTGACTTA 59.324 45.455 19.22 0.00 46.55 2.24
1984 2070 1.468520 GCACCATATGCGTGTTGACTT 59.531 47.619 19.22 0.00 46.55 3.01
1985 2071 1.086696 GCACCATATGCGTGTTGACT 58.913 50.000 19.22 0.00 46.55 3.41
2118 3302 7.672983 TGTATCTTCAAAAGGATGACAGTTC 57.327 36.000 0.00 0.00 33.05 3.01
2166 3350 1.669265 GACCCACCAAACGCTATTAGC 59.331 52.381 5.56 5.56 38.02 3.09
2352 3650 4.318618 GCAGCGAATGTTGATCACTATCAG 60.319 45.833 0.00 0.00 42.97 2.90
2541 3839 0.999406 CATCAGAAGGTACGCCGTTG 59.001 55.000 0.00 0.00 40.50 4.10
2852 4159 4.631813 CGTAAAAGAAGCAGCCATTAGTCT 59.368 41.667 0.00 0.00 0.00 3.24
3100 4407 9.654663 GAGACTACAATGTCCACTTATACTTTT 57.345 33.333 0.00 0.00 37.66 2.27
3269 4577 6.540914 TGCCTACAACCTACTTATGCAATAAC 59.459 38.462 0.00 0.00 32.95 1.89
3314 4622 4.080975 CCATTGCCAAACCCTAATGAACAT 60.081 41.667 0.00 0.00 33.50 2.71
3551 4859 6.425721 CCTTATAACTCAGTTTCACAAACCGA 59.574 38.462 0.00 0.00 42.34 4.69


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

AutoCloner maintained by Alex Coulton.