Multiple sequence alignment - TraesCS3A01G233000

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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 TraesCS3A01G233000 chr3A 100.000 3506 0 0 1 3506 434952422 434948917 0.000000e+00 6475.0
1 TraesCS3A01G233000 chr3D 95.516 2275 86 7 558 2827 300499965 300502228 0.000000e+00 3622.0
2 TraesCS3A01G233000 chr3D 89.724 652 18 14 2885 3506 300502419 300503051 0.000000e+00 787.0
3 TraesCS3A01G233000 chr3D 94.444 54 3 0 2827 2880 300502324 300502377 2.240000e-12 84.2
4 TraesCS3A01G233000 chr3B 95.286 2291 81 12 559 2827 420924251 420921966 0.000000e+00 3607.0
5 TraesCS3A01G233000 chr3B 86.903 733 29 20 2827 3504 420921868 420921148 0.000000e+00 760.0
6 TraesCS3A01G233000 chr3B 81.092 513 76 12 1 497 420928689 420928182 1.180000e-104 390.0
7 TraesCS3A01G233000 chr1D 94.783 345 18 0 1689 2033 246507436 246507780 3.980000e-149 538.0
8 TraesCS3A01G233000 chr1D 94.444 144 8 0 1264 1407 246507293 246507436 4.550000e-54 222.0
9 TraesCS3A01G233000 chr1D 89.394 66 7 0 1166 1231 246507165 246507230 2.240000e-12 84.2
10 TraesCS3A01G233000 chr1B 90.789 304 28 0 1680 1983 4178260 4178563 1.170000e-109 407.0
11 TraesCS3A01G233000 chr1B 80.242 496 74 16 1 478 344845820 344845331 5.570000e-93 351.0
12 TraesCS3A01G233000 chr1B 90.968 155 14 0 1829 1983 26361020 26361174 3.550000e-50 209.0
13 TraesCS3A01G233000 chr1B 93.548 93 6 0 1682 1774 26360929 26361021 4.720000e-29 139.0
14 TraesCS3A01G233000 chr4A 80.435 506 82 10 1 491 503609664 503609161 1.540000e-98 370.0
15 TraesCS3A01G233000 chr2D 80.435 506 81 8 1 491 388514289 388514791 1.540000e-98 370.0
16 TraesCS3A01G233000 chr2D 78.846 520 93 11 1 506 14245738 14245222 5.610000e-88 335.0
17 TraesCS3A01G233000 chr2D 78.389 509 85 14 1 491 614652262 614651761 1.220000e-79 307.0
18 TraesCS3A01G233000 chr7B 80.315 508 81 14 1 493 424497089 424497592 1.990000e-97 366.0
19 TraesCS3A01G233000 chr7B 79.104 402 66 8 1 387 508798272 508797874 9.650000e-66 261.0
20 TraesCS3A01G233000 chr2B 81.507 438 63 7 1 423 631856021 631856455 9.320000e-91 344.0
21 TraesCS3A01G233000 chr4D 72.088 910 192 46 1472 2344 496696105 496696989 2.120000e-52 217.0
22 TraesCS3A01G233000 chr4D 81.863 204 36 1 1481 1684 18781986 18782188 1.670000e-38 171.0
23 TraesCS3A01G233000 chr5A 71.789 911 193 47 1472 2344 675781353 675782237 2.130000e-47 200.0
24 TraesCS3A01G233000 chr4B 72.060 927 176 61 1290 2161 636737377 636738275 2.130000e-47 200.0


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 TraesCS3A01G233000 chr3A 434948917 434952422 3505 True 6475.000000 6475 100.000000 1 3506 1 chr3A.!!$R1 3505
1 TraesCS3A01G233000 chr3D 300499965 300503051 3086 False 1497.733333 3622 93.228000 558 3506 3 chr3D.!!$F1 2948
2 TraesCS3A01G233000 chr3B 420921148 420928689 7541 True 1585.666667 3607 87.760333 1 3504 3 chr3B.!!$R1 3503
3 TraesCS3A01G233000 chr1D 246507165 246507780 615 False 281.400000 538 92.873667 1166 2033 3 chr1D.!!$F1 867
4 TraesCS3A01G233000 chr4A 503609161 503609664 503 True 370.000000 370 80.435000 1 491 1 chr4A.!!$R1 490
5 TraesCS3A01G233000 chr2D 388514289 388514791 502 False 370.000000 370 80.435000 1 491 1 chr2D.!!$F1 490
6 TraesCS3A01G233000 chr2D 14245222 14245738 516 True 335.000000 335 78.846000 1 506 1 chr2D.!!$R1 505
7 TraesCS3A01G233000 chr2D 614651761 614652262 501 True 307.000000 307 78.389000 1 491 1 chr2D.!!$R2 490
8 TraesCS3A01G233000 chr7B 424497089 424497592 503 False 366.000000 366 80.315000 1 493 1 chr7B.!!$F1 492
9 TraesCS3A01G233000 chr4D 496696105 496696989 884 False 217.000000 217 72.088000 1472 2344 1 chr4D.!!$F2 872

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
526 548 0.393944 ACCTGATCGAGCACCTACGA 60.394 55.0 0.00 0.0 42.49 3.43 F
1554 5481 0.676736 CTATCCTCGAGGCCTTCCAC 59.323 60.0 27.39 0.0 34.44 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2369 6323 0.179156 GTGGTTATCTTCGCCGTCGA 60.179 55.0 0.0 0.0 43.89 4.20 R
2580 6534 0.320050 TGGCAGTGTCAGCAATACGA 59.680 50.0 0.0 0.0 0.00 3.43 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
79 81 3.181445 TGCTAGGCTGACTGAAGGAAAAA 60.181 43.478 0.00 0.00 0.00 1.94
80 82 4.013050 GCTAGGCTGACTGAAGGAAAAAT 58.987 43.478 0.00 0.00 0.00 1.82
131 133 7.120579 TGAAAATTAGTACAACATGGGCTACTG 59.879 37.037 0.00 0.00 0.00 2.74
135 137 5.492855 AGTACAACATGGGCTACTGTTTA 57.507 39.130 0.00 0.00 33.45 2.01
170 172 0.755686 CCTCCATGGACTACCTCTGC 59.244 60.000 11.44 0.00 38.35 4.26
193 195 4.398319 CAACACCATCTCTAACCCAGTTT 58.602 43.478 0.00 0.00 0.00 2.66
196 198 2.644798 ACCATCTCTAACCCAGTTTGCT 59.355 45.455 0.00 0.00 0.00 3.91
202 206 7.093771 CCATCTCTAACCCAGTTTGCTAAAAAT 60.094 37.037 0.00 0.00 0.00 1.82
203 207 8.956426 CATCTCTAACCCAGTTTGCTAAAAATA 58.044 33.333 0.00 0.00 0.00 1.40
239 243 4.899352 AAGAGAGGAAGCAGCTAGAAAA 57.101 40.909 0.00 0.00 0.00 2.29
265 269 3.862264 GCTGAAAGGGCATTTGGAGTTTC 60.862 47.826 0.12 0.00 0.00 2.78
294 312 8.768019 AGTTGTTCGTAAACCTACTAAACAATC 58.232 33.333 12.16 8.59 40.10 2.67
299 317 9.715121 TTCGTAAACCTACTAAACAATCAGATT 57.285 29.630 0.00 0.00 0.00 2.40
346 364 8.857694 TGATCTATTGTATGATCATGCACAAT 57.142 30.769 27.70 27.70 42.58 2.71
368 386 9.116080 ACAATATAATCATGAAGGATGAGGGTA 57.884 33.333 0.00 0.00 44.54 3.69
403 421 8.982685 GTCGCATCTCTTGAATTTGAGAATATA 58.017 33.333 9.65 0.00 41.82 0.86
429 447 4.569162 TGATCCTATTAAACTTCGTTGCCG 59.431 41.667 0.00 0.00 0.00 5.69
451 469 4.084433 CGAAATCCGGACACGTTTAAAGAA 60.084 41.667 6.12 0.00 38.78 2.52
452 470 5.390145 CGAAATCCGGACACGTTTAAAGAAT 60.390 40.000 6.12 0.00 38.78 2.40
459 477 6.253942 CCGGACACGTTTAAAGAATTTTGTTT 59.746 34.615 0.00 0.00 37.76 2.83
491 509 4.701956 ACAAATTCATCATCGACCAACC 57.298 40.909 0.00 0.00 0.00 3.77
492 510 4.335416 ACAAATTCATCATCGACCAACCT 58.665 39.130 0.00 0.00 0.00 3.50
493 511 4.396166 ACAAATTCATCATCGACCAACCTC 59.604 41.667 0.00 0.00 0.00 3.85
497 515 1.069204 CATCATCGACCAACCTCCGAT 59.931 52.381 0.00 0.00 42.88 4.18
498 516 0.744874 TCATCGACCAACCTCCGATC 59.255 55.000 0.00 0.00 40.54 3.69
501 519 1.191535 TCGACCAACCTCCGATCAAT 58.808 50.000 0.00 0.00 0.00 2.57
506 528 3.756434 GACCAACCTCCGATCAATTGAAA 59.244 43.478 13.09 0.00 0.00 2.69
508 530 4.022329 ACCAACCTCCGATCAATTGAAAAC 60.022 41.667 13.09 6.43 0.00 2.43
514 536 5.220931 CCTCCGATCAATTGAAAACCTGATC 60.221 44.000 13.09 1.81 41.57 2.92
520 542 4.083324 TCAATTGAAAACCTGATCGAGCAC 60.083 41.667 5.45 0.00 0.00 4.40
524 546 2.674796 AAACCTGATCGAGCACCTAC 57.325 50.000 0.00 0.00 0.00 3.18
526 548 0.393944 ACCTGATCGAGCACCTACGA 60.394 55.000 0.00 0.00 42.49 3.43
528 550 1.300481 CTGATCGAGCACCTACGAGA 58.700 55.000 0.00 0.00 41.63 4.04
546 642 6.732896 ACGAGAGGACAATATATTTGAGGT 57.267 37.500 0.00 0.00 0.00 3.85
549 645 6.865726 CGAGAGGACAATATATTTGAGGTCAG 59.134 42.308 12.94 0.00 0.00 3.51
556 652 8.107399 ACAATATATTTGAGGTCAGATGCATG 57.893 34.615 2.46 0.00 0.00 4.06
597 4483 4.237724 CTCGTGCTCACTGAATACAAGAA 58.762 43.478 0.00 0.00 0.00 2.52
674 4565 3.462021 GATTCCAAACTCCGAGATCCTG 58.538 50.000 1.33 0.00 0.00 3.86
790 4687 1.733061 GCCTCTCCTTCGTTCTCGTTC 60.733 57.143 0.00 0.00 38.33 3.95
908 4805 0.833287 CCCCCTCACTCCACTACATG 59.167 60.000 0.00 0.00 0.00 3.21
1365 5292 3.753434 CTCGCTGCCGTCTCCACT 61.753 66.667 0.00 0.00 35.54 4.00
1371 5298 3.386237 GCCGTCTCCACTGCCTCT 61.386 66.667 0.00 0.00 0.00 3.69
1554 5481 0.676736 CTATCCTCGAGGCCTTCCAC 59.323 60.000 27.39 0.00 34.44 4.02
2268 6222 4.148825 CTGTTCTCCGGCGAGGGG 62.149 72.222 9.30 0.00 43.85 4.79
2473 6427 1.076332 CAGCAACGGTAAGTGTAGCC 58.924 55.000 0.00 0.00 0.00 3.93
2535 6489 0.042448 GTTCCATCGTAAATCGCGGC 60.042 55.000 6.13 0.00 39.67 6.53
2556 6510 2.620115 CCCGGAAATCTCAATGACATGG 59.380 50.000 0.73 0.00 0.00 3.66
2577 6531 0.665835 ACTCTCGAGCTTAGCATCGG 59.334 55.000 19.70 13.27 39.38 4.18
2578 6532 0.665835 CTCTCGAGCTTAGCATCGGT 59.334 55.000 19.70 0.00 39.38 4.69
2579 6533 1.874231 CTCTCGAGCTTAGCATCGGTA 59.126 52.381 19.70 11.08 39.38 4.02
2580 6534 2.486203 CTCTCGAGCTTAGCATCGGTAT 59.514 50.000 19.70 0.00 39.38 2.73
2581 6535 2.484651 TCTCGAGCTTAGCATCGGTATC 59.515 50.000 19.70 2.62 39.38 2.24
2582 6536 1.197036 TCGAGCTTAGCATCGGTATCG 59.803 52.381 19.70 12.80 39.38 2.92
2583 6537 1.069159 CGAGCTTAGCATCGGTATCGT 60.069 52.381 7.07 0.00 35.33 3.73
2584 6538 2.159037 CGAGCTTAGCATCGGTATCGTA 59.841 50.000 7.07 0.00 35.33 3.43
2608 6565 0.753867 TGACACTGCCAAACCGAGTA 59.246 50.000 0.00 0.00 0.00 2.59
2650 6607 3.316308 ACACTTGGCATCTCAACTGTTTC 59.684 43.478 0.00 0.00 0.00 2.78
2702 6662 5.210715 GCATGAGCACAGTATAGAAAATGC 58.789 41.667 0.00 0.00 41.58 3.56
2808 6771 3.579586 ACAAATCCACACCTTGATGCAAT 59.420 39.130 0.00 0.00 0.00 3.56
2841 6902 5.120830 ACGAATCTAGAAACACTGCACAATC 59.879 40.000 0.00 0.00 0.00 2.67
2879 6983 1.927487 TCTGCAAGCCAAACCATCAT 58.073 45.000 0.00 0.00 0.00 2.45
2881 6985 3.429492 TCTGCAAGCCAAACCATCATTA 58.571 40.909 0.00 0.00 0.00 1.90
2901 7005 7.080099 TCATTACTACTGTACTGTTCGTGTTC 58.920 38.462 10.89 0.00 33.02 3.18
2909 7013 2.164673 GTTCGTGTTCGTGCGACG 59.835 61.111 0.00 2.79 44.19 5.12
2919 7023 1.518352 CGTGCGACGATGGGAATGA 60.518 57.895 0.00 0.00 46.05 2.57
2952 7056 1.066605 CGTGGATGTAGTACGGGGAAG 59.933 57.143 0.00 0.00 34.43 3.46
3095 7199 3.726517 CAGTTTCCAGTGGGCGCG 61.727 66.667 9.92 0.00 0.00 6.86
3156 7260 1.272769 GCGGAGGATACCATACACTCC 59.727 57.143 0.00 0.00 43.29 3.85
3176 7280 0.810031 ACCAGTCTGTCACGTGTTGC 60.810 55.000 16.51 7.92 0.00 4.17
3253 7357 2.830651 AGGCACCAGTAGCTACTACT 57.169 50.000 25.63 15.16 46.75 2.57
3334 7457 5.629097 GGTATCGTAGATCCATTCGTACTG 58.371 45.833 0.00 0.00 45.12 2.74
3335 7458 3.620929 TCGTAGATCCATTCGTACTGC 57.379 47.619 0.00 0.00 0.00 4.40
3336 7459 3.211865 TCGTAGATCCATTCGTACTGCT 58.788 45.455 0.00 0.00 0.00 4.24
3337 7460 3.250280 TCGTAGATCCATTCGTACTGCTC 59.750 47.826 0.00 0.00 0.00 4.26
3360 7483 0.250513 GCTGGTAAGGCTACTGCTGT 59.749 55.000 0.66 0.66 39.59 4.40
3361 7484 2.009042 GCTGGTAAGGCTACTGCTGTG 61.009 57.143 6.48 0.00 39.59 3.66
3363 7486 1.974957 TGGTAAGGCTACTGCTGTGAA 59.025 47.619 6.48 0.00 39.59 3.18
3364 7487 2.289444 TGGTAAGGCTACTGCTGTGAAC 60.289 50.000 6.48 0.00 39.59 3.18
3365 7488 1.993370 GTAAGGCTACTGCTGTGAACG 59.007 52.381 6.48 0.00 39.59 3.95
3366 7489 0.320771 AAGGCTACTGCTGTGAACGG 60.321 55.000 6.48 0.00 39.59 4.44
3393 7531 1.937546 GAGGGAAAATGTGCTGGCGG 61.938 60.000 0.00 0.00 0.00 6.13
3416 7572 4.869440 CGCGAGCAGGAGGAGCAG 62.869 72.222 0.00 0.00 0.00 4.24
3417 7573 3.768922 GCGAGCAGGAGGAGCAGT 61.769 66.667 0.00 0.00 0.00 4.40
3418 7574 2.183811 CGAGCAGGAGGAGCAGTG 59.816 66.667 0.00 0.00 0.00 3.66
3419 7575 2.125188 GAGCAGGAGGAGCAGTGC 60.125 66.667 7.13 7.13 36.10 4.40
3420 7576 4.079850 AGCAGGAGGAGCAGTGCG 62.080 66.667 10.00 0.00 40.97 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 9 1.303236 CATTGTGAGACCCGGGCAA 60.303 57.895 24.08 17.05 0.00 4.52
79 81 6.472686 GACAGTATAGTGTCAAGGAGGAAT 57.527 41.667 28.31 0.00 45.34 3.01
80 82 5.916661 GACAGTATAGTGTCAAGGAGGAA 57.083 43.478 28.31 0.00 45.34 3.36
107 109 6.946009 ACAGTAGCCCATGTTGTACTAATTTT 59.054 34.615 0.00 0.00 0.00 1.82
109 111 6.062258 ACAGTAGCCCATGTTGTACTAATT 57.938 37.500 0.00 0.00 0.00 1.40
131 133 5.981915 GGAGGATACATACCGTCAACTAAAC 59.018 44.000 0.00 0.00 41.41 2.01
135 137 3.638860 TGGAGGATACATACCGTCAACT 58.361 45.455 0.00 0.00 41.41 3.16
160 162 1.279271 GATGGTGTTGGCAGAGGTAGT 59.721 52.381 0.00 0.00 0.00 2.73
170 172 2.305927 ACTGGGTTAGAGATGGTGTTGG 59.694 50.000 0.00 0.00 0.00 3.77
193 195 9.896645 TTTGGGCAAAATGATATATTTTTAGCA 57.103 25.926 13.22 0.00 0.00 3.49
202 206 6.910191 TCCTCTCTTTGGGCAAAATGATATA 58.090 36.000 0.00 0.00 0.00 0.86
203 207 5.769835 TCCTCTCTTTGGGCAAAATGATAT 58.230 37.500 0.00 0.00 0.00 1.63
209 213 1.963515 GCTTCCTCTCTTTGGGCAAAA 59.036 47.619 0.00 0.00 0.00 2.44
244 248 3.612479 CGAAACTCCAAATGCCCTTTCAG 60.612 47.826 0.00 0.00 0.00 3.02
248 252 0.603065 GCGAAACTCCAAATGCCCTT 59.397 50.000 0.00 0.00 0.00 3.95
265 269 3.054878 AGTAGGTTTACGAACAACTGCG 58.945 45.455 0.00 0.00 37.51 5.18
294 312 6.107901 CCTCCCATAAGGTCTCTTAATCTG 57.892 45.833 0.00 0.00 38.77 2.90
310 328 6.732390 TCATACAATAGATCATCACCTCCCAT 59.268 38.462 0.00 0.00 0.00 4.00
346 364 7.961431 TCCTTACCCTCATCCTTCATGATTATA 59.039 37.037 0.00 0.00 40.95 0.98
356 374 2.441001 CAGCATCCTTACCCTCATCCTT 59.559 50.000 0.00 0.00 0.00 3.36
429 447 4.996062 TCTTTAAACGTGTCCGGATTTC 57.004 40.909 7.81 0.00 38.78 2.17
464 482 5.415389 TGGTCGATGATGAATTTGTTGACAT 59.585 36.000 0.00 0.00 0.00 3.06
465 483 4.759183 TGGTCGATGATGAATTTGTTGACA 59.241 37.500 0.00 0.00 0.00 3.58
466 484 5.295431 TGGTCGATGATGAATTTGTTGAC 57.705 39.130 0.00 0.00 0.00 3.18
479 497 0.744874 GATCGGAGGTTGGTCGATGA 59.255 55.000 2.12 0.00 42.65 2.92
491 509 5.814783 GATCAGGTTTTCAATTGATCGGAG 58.185 41.667 9.40 0.00 37.34 4.63
492 510 5.818136 GATCAGGTTTTCAATTGATCGGA 57.182 39.130 9.40 6.47 37.34 4.55
497 515 4.071423 TGCTCGATCAGGTTTTCAATTGA 58.929 39.130 3.38 3.38 0.00 2.57
498 516 4.161333 GTGCTCGATCAGGTTTTCAATTG 58.839 43.478 0.00 0.00 0.00 2.32
501 519 2.151202 GGTGCTCGATCAGGTTTTCAA 58.849 47.619 0.00 0.00 0.00 2.69
506 528 0.456221 CGTAGGTGCTCGATCAGGTT 59.544 55.000 0.00 0.00 0.00 3.50
508 530 0.309302 CTCGTAGGTGCTCGATCAGG 59.691 60.000 0.00 0.00 35.57 3.86
514 536 1.025113 TGTCCTCTCGTAGGTGCTCG 61.025 60.000 6.49 0.00 46.62 5.03
524 546 6.749139 TGACCTCAAATATATTGTCCTCTCG 58.251 40.000 0.00 0.00 0.00 4.04
526 548 7.921041 TCTGACCTCAAATATATTGTCCTCT 57.079 36.000 0.00 0.00 0.00 3.69
528 550 6.939163 GCATCTGACCTCAAATATATTGTCCT 59.061 38.462 0.00 0.00 0.00 3.85
531 553 7.309012 GCATGCATCTGACCTCAAATATATTGT 60.309 37.037 14.21 0.00 0.00 2.71
532 554 7.027760 GCATGCATCTGACCTCAAATATATTG 58.972 38.462 14.21 0.00 0.00 1.90
534 630 5.353400 CGCATGCATCTGACCTCAAATATAT 59.647 40.000 19.57 0.00 0.00 0.86
538 634 1.674441 CGCATGCATCTGACCTCAAAT 59.326 47.619 19.57 0.00 0.00 2.32
541 637 1.153309 CCGCATGCATCTGACCTCA 60.153 57.895 19.57 0.00 0.00 3.86
556 652 2.668550 AAGTTTCCCTCGTGCCGC 60.669 61.111 0.00 0.00 0.00 6.53
597 4483 7.102993 AGCACAAATCAGGTTTTAAACACTTT 58.897 30.769 10.14 1.29 0.00 2.66
674 4565 3.437049 CCTGTTTCCCGATTTTGTCTCTC 59.563 47.826 0.00 0.00 0.00 3.20
908 4805 2.098233 CGGGGTGTCATGCGTGTAC 61.098 63.158 5.68 6.66 0.00 2.90
1353 5280 3.695606 GAGGCAGTGGAGACGGCA 61.696 66.667 0.00 0.00 44.34 5.69
1758 5685 3.660732 GACCCCGCGGAAGGAGAAC 62.661 68.421 30.73 10.70 0.00 3.01
1971 5913 0.528924 GGAACCCCGGTTTATTGTGC 59.471 55.000 0.00 0.00 38.60 4.57
1977 5919 0.831288 TGTCGAGGAACCCCGGTTTA 60.831 55.000 0.00 0.00 38.60 2.01
2369 6323 0.179156 GTGGTTATCTTCGCCGTCGA 60.179 55.000 0.00 0.00 43.89 4.20
2473 6427 4.025401 GCTCGCACCAACAACCCG 62.025 66.667 0.00 0.00 0.00 5.28
2494 6448 1.267533 ACCCCGCGATTACAAAAACAC 59.732 47.619 8.23 0.00 0.00 3.32
2535 6489 2.620115 CCATGTCATTGAGATTTCCGGG 59.380 50.000 0.00 0.00 0.00 5.73
2556 6510 2.380660 CGATGCTAAGCTCGAGAGTTC 58.619 52.381 18.75 5.75 37.05 3.01
2577 6531 2.540101 GGCAGTGTCAGCAATACGATAC 59.460 50.000 0.00 0.00 0.00 2.24
2578 6532 2.167487 TGGCAGTGTCAGCAATACGATA 59.833 45.455 0.00 0.00 0.00 2.92
2579 6533 1.066215 TGGCAGTGTCAGCAATACGAT 60.066 47.619 0.00 0.00 0.00 3.73
2580 6534 0.320050 TGGCAGTGTCAGCAATACGA 59.680 50.000 0.00 0.00 0.00 3.43
2581 6535 1.155889 TTGGCAGTGTCAGCAATACG 58.844 50.000 0.00 0.00 0.00 3.06
2582 6536 2.351738 GGTTTGGCAGTGTCAGCAATAC 60.352 50.000 0.00 0.00 0.00 1.89
2583 6537 1.885887 GGTTTGGCAGTGTCAGCAATA 59.114 47.619 0.00 0.00 0.00 1.90
2584 6538 0.675633 GGTTTGGCAGTGTCAGCAAT 59.324 50.000 0.00 0.00 0.00 3.56
2608 6565 6.064717 AGTGTTGCAGAAGAAAAATACTCCT 58.935 36.000 0.00 0.00 0.00 3.69
2650 6607 3.983988 CGGATTGACTCCTCGTGATATTG 59.016 47.826 0.00 0.00 42.47 1.90
2702 6662 1.623542 CCCCTCCCACCTAACCTTCG 61.624 65.000 0.00 0.00 0.00 3.79
2808 6771 6.016192 AGTGTTTCTAGATTCGTTGAGTCTCA 60.016 38.462 0.00 0.00 31.33 3.27
2870 6931 7.544566 CGAACAGTACAGTAGTAATGATGGTTT 59.455 37.037 4.30 0.00 46.31 3.27
2879 6983 5.007626 ACGAACACGAACAGTACAGTAGTAA 59.992 40.000 0.00 0.00 30.67 2.24
2881 6985 3.313526 ACGAACACGAACAGTACAGTAGT 59.686 43.478 0.00 0.00 0.00 2.73
2901 7005 1.482621 CTCATTCCCATCGTCGCACG 61.483 60.000 2.79 2.79 44.19 5.34
2909 7013 5.486526 GTCAGTATCCATCTCATTCCCATC 58.513 45.833 0.00 0.00 0.00 3.51
2919 7023 3.300388 ACATCCACGTCAGTATCCATCT 58.700 45.455 0.00 0.00 0.00 2.90
2952 7056 0.749454 AGACCCTGATGCGATTTGCC 60.749 55.000 0.00 0.00 45.60 4.52
3095 7199 1.298859 AAGAATCCGCTCAACCGCAC 61.299 55.000 0.00 0.00 0.00 5.34
3156 7260 0.930310 CAACACGTGACAGACTGGTG 59.070 55.000 25.01 7.64 34.87 4.17
3176 7280 2.444421 AGGAGTACCAGAACAGTACCG 58.556 52.381 0.00 0.00 40.83 4.02
3289 7412 2.031465 GACCTTCCGTTTCCGCCA 59.969 61.111 0.00 0.00 0.00 5.69
3293 7416 0.804933 CCGATCGACCTTCCGTTTCC 60.805 60.000 18.66 0.00 0.00 3.13
3334 7457 1.030457 TAGCCTTACCAGCTACGAGC 58.970 55.000 0.00 0.00 41.83 5.03
3365 7488 3.662117 ATTTTCCCTCTGCCCCGCC 62.662 63.158 0.00 0.00 0.00 6.13
3366 7489 2.043953 ATTTTCCCTCTGCCCCGC 60.044 61.111 0.00 0.00 0.00 6.13
3367 7490 1.000896 ACATTTTCCCTCTGCCCCG 60.001 57.895 0.00 0.00 0.00 5.73
3399 7555 4.869440 CTGCTCCTCCTGCTCGCG 62.869 72.222 0.00 0.00 0.00 5.87
3403 7559 4.079850 CGCACTGCTCCTCCTGCT 62.080 66.667 0.00 0.00 0.00 4.24
3405 7561 3.385384 TCCGCACTGCTCCTCCTG 61.385 66.667 0.00 0.00 0.00 3.86
3406 7562 3.386237 GTCCGCACTGCTCCTCCT 61.386 66.667 0.00 0.00 0.00 3.69
3407 7563 4.459089 GGTCCGCACTGCTCCTCC 62.459 72.222 0.00 0.00 0.00 4.30
3408 7564 3.695606 TGGTCCGCACTGCTCCTC 61.696 66.667 0.00 0.00 0.00 3.71
3409 7565 4.008933 GTGGTCCGCACTGCTCCT 62.009 66.667 0.00 0.00 0.00 3.69
3411 7567 4.314440 TGGTGGTCCGCACTGCTC 62.314 66.667 4.48 0.00 36.30 4.26
3412 7568 4.626081 GTGGTGGTCCGCACTGCT 62.626 66.667 4.48 0.00 43.16 4.24
3414 7570 4.602259 ACGTGGTGGTCCGCACTG 62.602 66.667 4.48 0.00 43.79 3.66
3415 7571 3.802418 GAACGTGGTGGTCCGCACT 62.802 63.158 4.48 0.00 43.79 4.40
3416 7572 3.343421 GAACGTGGTGGTCCGCAC 61.343 66.667 4.48 0.19 43.79 5.34
3417 7573 3.851128 TGAACGTGGTGGTCCGCA 61.851 61.111 4.48 0.00 43.79 5.69
3418 7574 3.343421 GTGAACGTGGTGGTCCGC 61.343 66.667 0.00 0.00 40.52 5.54
3419 7575 2.663852 GGTGAACGTGGTGGTCCG 60.664 66.667 0.00 0.00 36.30 4.79
3420 7576 1.597027 CAGGTGAACGTGGTGGTCC 60.597 63.158 0.00 0.00 0.00 4.46
3464 7620 1.306654 AGCCACCCGTCCTTCCATA 60.307 57.895 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.