Multiple sequence alignment - TraesCS7D01G170900

Loading Multiple Alignment...

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 TraesCS7D01G170900 chr7D 100.000 2558 0 0 1 2558 123218306 123220863 0.000000e+00 4724.0
1 TraesCS7D01G170900 chr7B 92.910 1763 82 15 815 2558 84388655 84390393 0.000000e+00 2523.0
2 TraesCS7D01G170900 chr7B 89.356 714 54 14 1825 2530 84486048 84486747 0.000000e+00 878.0
3 TraesCS7D01G170900 chr7B 89.094 541 45 8 902 1431 84463036 84463573 0.000000e+00 660.0
4 TraesCS7D01G170900 chr7B 86.512 430 39 16 7 431 84460334 84460749 3.000000e-124 455.0
5 TraesCS7D01G170900 chr7B 90.179 336 27 3 1427 1756 84485679 84486014 1.410000e-117 433.0
6 TraesCS7D01G170900 chr7B 98.165 109 2 0 800 908 84461650 84461758 9.340000e-45 191.0
7 TraesCS7D01G170900 chr7A 88.711 1497 108 39 517 1986 126121722 126123184 0.000000e+00 1772.0
8 TraesCS7D01G170900 chr7A 97.338 526 11 3 2035 2558 126123389 126123913 0.000000e+00 891.0
9 TraesCS7D01G170900 chr5A 82.843 204 35 0 1282 1485 453519566 453519769 1.560000e-42 183.0
10 TraesCS7D01G170900 chr5A 75.301 166 17 16 646 801 470923571 470923722 9.890000e-05 58.4
11 TraesCS7D01G170900 chr6A 82.353 204 36 0 1288 1491 116813142 116812939 7.270000e-41 178.0
12 TraesCS7D01G170900 chr5D 82.353 204 36 0 1288 1491 352454334 352454131 7.270000e-41 178.0
13 TraesCS7D01G170900 chr5B 82.353 204 36 0 1288 1491 415127643 415127440 7.270000e-41 178.0
14 TraesCS7D01G170900 chr3A 82.353 204 36 0 1288 1491 398879727 398879524 7.270000e-41 178.0
15 TraesCS7D01G170900 chr4D 76.587 252 41 12 563 798 364810859 364810610 3.460000e-24 122.0
16 TraesCS7D01G170900 chr4B 80.488 164 23 7 638 797 536914233 536914075 1.610000e-22 117.0
17 TraesCS7D01G170900 chr2D 74.803 254 46 15 554 800 636943826 636944068 5.820000e-17 99.0
18 TraesCS7D01G170900 chrUn 100.000 29 0 0 55 83 75355197 75355225 1.000000e-03 54.7


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 TraesCS7D01G170900 chr7D 123218306 123220863 2557 False 4724.000000 4724 100.0000 1 2558 1 chr7D.!!$F1 2557
1 TraesCS7D01G170900 chr7B 84388655 84390393 1738 False 2523.000000 2523 92.9100 815 2558 1 chr7B.!!$F1 1743
2 TraesCS7D01G170900 chr7B 84485679 84486747 1068 False 655.500000 878 89.7675 1427 2530 2 chr7B.!!$F3 1103
3 TraesCS7D01G170900 chr7B 84460334 84463573 3239 False 435.333333 660 91.2570 7 1431 3 chr7B.!!$F2 1424
4 TraesCS7D01G170900 chr7A 126121722 126123913 2191 False 1331.500000 1772 93.0245 517 2558 2 chr7A.!!$F1 2041

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
605 611 0.032130 TGTCACGAAGCACTCCAGAC 59.968 55.0 0.00 0.0 0.0 3.51 F
1087 2992 0.392998 CAGCGCCCTCACATACCTTT 60.393 55.0 2.29 0.0 0.0 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1527 3439 0.392461 GCGGGCAGTGATGGTAGAAA 60.392 55.000 0.0 0.0 0.0 2.52 R
1993 3961 1.336440 TGTGCAAAAGAACATGGTCGG 59.664 47.619 4.8 0.0 0.0 4.79 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
32 33 5.894298 TCTTCACCCTGCATACTAATCAT 57.106 39.130 0.00 0.00 0.00 2.45
33 34 5.614308 TCTTCACCCTGCATACTAATCATG 58.386 41.667 0.00 0.00 0.00 3.07
36 37 4.598807 TCACCCTGCATACTAATCATGGAT 59.401 41.667 0.00 0.00 0.00 3.41
37 38 4.940046 CACCCTGCATACTAATCATGGATC 59.060 45.833 0.00 0.00 0.00 3.36
39 40 4.323028 CCCTGCATACTAATCATGGATCGT 60.323 45.833 0.00 0.00 0.00 3.73
108 109 7.087007 TCTGATGCTAATATGTTCAGACGATC 58.913 38.462 0.00 0.00 38.25 3.69
109 110 6.159293 TGATGCTAATATGTTCAGACGATCC 58.841 40.000 0.00 0.00 0.00 3.36
110 111 5.791336 TGCTAATATGTTCAGACGATCCT 57.209 39.130 0.00 0.00 0.00 3.24
111 112 6.161855 TGCTAATATGTTCAGACGATCCTT 57.838 37.500 0.00 0.00 0.00 3.36
112 113 6.582636 TGCTAATATGTTCAGACGATCCTTT 58.417 36.000 0.00 0.00 0.00 3.11
113 114 7.047891 TGCTAATATGTTCAGACGATCCTTTT 58.952 34.615 0.00 0.00 0.00 2.27
203 204 8.334632 ACATTTTGTGCTCTTTTAATTTTTCCG 58.665 29.630 0.00 0.00 0.00 4.30
236 237 0.249489 GCTTCACCGTGAGACACACT 60.249 55.000 0.64 0.00 46.24 3.55
242 243 2.661675 CACCGTGAGACACACTTATTCG 59.338 50.000 1.50 0.00 46.24 3.34
251 252 6.200286 TGAGACACACTTATTCGTTTCACTTC 59.800 38.462 0.00 0.00 0.00 3.01
278 279 1.520564 ACAATATGCTTCGCGCGGA 60.521 52.632 31.69 22.80 43.27 5.54
318 319 5.266733 ACATGAGCACAAAACTGTGATTT 57.733 34.783 9.38 0.00 42.02 2.17
330 332 3.981211 ACTGTGATTTCAAATGGTGTGC 58.019 40.909 0.00 0.00 0.00 4.57
334 336 4.099113 TGTGATTTCAAATGGTGTGCTTCA 59.901 37.500 0.00 0.00 0.00 3.02
340 342 3.253921 TCAAATGGTGTGCTTCACATGAG 59.746 43.478 0.00 0.00 46.32 2.90
343 345 1.352017 TGGTGTGCTTCACATGAGGAT 59.648 47.619 0.00 0.00 46.32 3.24
393 397 5.397142 AGGAAAATGAGAAGAAACCATGC 57.603 39.130 0.00 0.00 0.00 4.06
394 398 4.834496 AGGAAAATGAGAAGAAACCATGCA 59.166 37.500 0.00 0.00 0.00 3.96
396 400 5.509501 GGAAAATGAGAAGAAACCATGCACA 60.510 40.000 0.00 0.00 0.00 4.57
431 435 1.680338 AAGCGTGCAGAAAGAAAGGT 58.320 45.000 0.00 0.00 0.00 3.50
432 436 1.680338 AGCGTGCAGAAAGAAAGGTT 58.320 45.000 0.00 0.00 0.00 3.50
433 437 1.334869 AGCGTGCAGAAAGAAAGGTTG 59.665 47.619 0.00 0.00 0.00 3.77
434 438 1.065551 GCGTGCAGAAAGAAAGGTTGT 59.934 47.619 0.00 0.00 0.00 3.32
435 439 2.719798 CGTGCAGAAAGAAAGGTTGTG 58.280 47.619 0.00 0.00 0.00 3.33
436 440 2.463876 GTGCAGAAAGAAAGGTTGTGC 58.536 47.619 0.00 0.00 43.55 4.57
437 441 2.099756 GTGCAGAAAGAAAGGTTGTGCT 59.900 45.455 7.64 0.00 43.61 4.40
438 442 2.358898 TGCAGAAAGAAAGGTTGTGCTC 59.641 45.455 7.64 0.00 43.61 4.26
439 443 2.287849 GCAGAAAGAAAGGTTGTGCTCC 60.288 50.000 0.00 0.00 40.92 4.70
440 444 2.294512 CAGAAAGAAAGGTTGTGCTCCC 59.705 50.000 0.00 0.00 0.00 4.30
441 445 1.266989 GAAAGAAAGGTTGTGCTCCCG 59.733 52.381 0.00 0.00 0.00 5.14
442 446 1.172812 AAGAAAGGTTGTGCTCCCGC 61.173 55.000 0.00 0.00 0.00 6.13
443 447 2.966309 GAAAGGTTGTGCTCCCGCG 61.966 63.158 0.00 0.00 39.65 6.46
474 478 3.049674 CGACTGGGCGCACAACAT 61.050 61.111 16.01 1.03 0.00 2.71
475 479 2.616330 CGACTGGGCGCACAACATT 61.616 57.895 16.01 0.00 0.00 2.71
476 480 1.081242 GACTGGGCGCACAACATTG 60.081 57.895 16.01 3.51 0.00 2.82
477 481 2.431260 CTGGGCGCACAACATTGC 60.431 61.111 16.01 0.00 39.28 3.56
478 482 3.210223 CTGGGCGCACAACATTGCA 62.210 57.895 16.01 0.00 43.15 4.08
479 483 2.262292 GGGCGCACAACATTGCAT 59.738 55.556 10.83 0.00 43.15 3.96
480 484 1.806758 GGGCGCACAACATTGCATC 60.807 57.895 10.83 0.00 43.15 3.91
481 485 1.080637 GGCGCACAACATTGCATCA 60.081 52.632 10.83 0.00 43.15 3.07
482 486 1.074319 GGCGCACAACATTGCATCAG 61.074 55.000 10.83 0.00 43.15 2.90
483 487 1.680105 GCGCACAACATTGCATCAGC 61.680 55.000 0.30 0.00 43.15 4.26
484 488 1.074319 CGCACAACATTGCATCAGCC 61.074 55.000 0.00 0.00 43.15 4.85
485 489 0.245539 GCACAACATTGCATCAGCCT 59.754 50.000 0.00 0.00 42.49 4.58
486 490 1.990799 CACAACATTGCATCAGCCTG 58.009 50.000 0.00 0.00 41.13 4.85
487 491 1.271379 CACAACATTGCATCAGCCTGT 59.729 47.619 0.00 0.00 41.13 4.00
488 492 1.271379 ACAACATTGCATCAGCCTGTG 59.729 47.619 0.00 0.00 41.13 3.66
489 493 0.245539 AACATTGCATCAGCCTGTGC 59.754 50.000 10.94 10.94 41.13 4.57
490 494 1.226575 CATTGCATCAGCCTGTGCG 60.227 57.895 12.42 0.00 44.11 5.34
491 495 2.412323 ATTGCATCAGCCTGTGCGG 61.412 57.895 12.42 0.00 44.11 5.69
502 506 4.992740 TGTGCGGCCCCAGCAAAT 62.993 61.111 5.29 0.00 46.97 2.32
542 546 5.357878 CAGCCACCAAGATTTAGCATTTCTA 59.642 40.000 0.00 0.00 0.00 2.10
559 565 6.473455 GCATTTCTATGTGCTGACCAAATAAC 59.527 38.462 0.00 0.00 38.30 1.89
560 566 7.537715 CATTTCTATGTGCTGACCAAATAACA 58.462 34.615 0.00 0.00 0.00 2.41
561 567 7.701539 TTTCTATGTGCTGACCAAATAACAT 57.298 32.000 0.00 0.00 33.18 2.71
562 568 6.925610 TCTATGTGCTGACCAAATAACATC 57.074 37.500 0.00 0.00 31.19 3.06
577 583 7.439056 CCAAATAACATCCCAAATGATAAGTGC 59.561 37.037 0.00 0.00 0.00 4.40
584 590 2.518949 CAAATGATAAGTGCCACACGC 58.481 47.619 0.00 0.00 39.64 5.34
602 608 1.299850 CGTGTCACGAAGCACTCCA 60.300 57.895 20.75 0.00 46.05 3.86
605 611 0.032130 TGTCACGAAGCACTCCAGAC 59.968 55.000 0.00 0.00 0.00 3.51
611 617 0.681733 GAAGCACTCCAGACCTGACA 59.318 55.000 0.00 0.00 0.00 3.58
614 620 2.540383 AGCACTCCAGACCTGACATTA 58.460 47.619 0.00 0.00 0.00 1.90
619 625 5.294552 GCACTCCAGACCTGACATTATTTAC 59.705 44.000 0.00 0.00 0.00 2.01
620 626 5.520288 CACTCCAGACCTGACATTATTTACG 59.480 44.000 0.00 0.00 0.00 3.18
631 637 6.548171 TGACATTATTTACGGCTAAAGTTGC 58.452 36.000 0.00 0.00 0.00 4.17
685 1110 7.873739 AAACTGAAACTTGTCTTTTGAACAG 57.126 32.000 0.00 0.00 0.00 3.16
693 1118 5.863935 ACTTGTCTTTTGAACAGAAAGTTGC 59.136 36.000 0.00 0.00 41.51 4.17
766 1266 4.481930 TGTTCGGAATTGTCATGTGTTC 57.518 40.909 0.00 0.00 0.00 3.18
803 1402 4.827284 ACACTTATCAGGGTCCAAAAACAG 59.173 41.667 0.00 0.00 25.34 3.16
1016 2921 2.040544 GCATGGACTTGGACACGGG 61.041 63.158 0.00 0.00 0.00 5.28
1049 2954 0.877071 AACCAAGAACAGCTCATGCG 59.123 50.000 0.00 0.00 45.42 4.73
1087 2992 0.392998 CAGCGCCCTCACATACCTTT 60.393 55.000 2.29 0.00 0.00 3.11
1133 3038 1.078710 AGCCACCGGTTCTAGTCCT 59.921 57.895 2.97 0.00 0.00 3.85
1174 3079 0.736325 CGGTGCTGTTACTCCTTCGG 60.736 60.000 0.00 0.00 0.00 4.30
1260 3168 1.523154 GGCTTGTTGTCGGCATCCAA 61.523 55.000 0.00 0.00 0.00 3.53
1422 3331 3.188786 GACACGGCGTCCATGCTC 61.189 66.667 10.85 0.00 38.85 4.26
1610 3527 6.765989 ACGATGTATATGGTGCAAGTAATTGT 59.234 34.615 4.65 0.00 0.00 2.71
1644 3564 6.985117 ACGTGATTCTTGTGGTAGTACTTAA 58.015 36.000 0.00 0.00 0.00 1.85
1699 3620 5.122869 GCATGTGTTCTCTTCTTGATTAGCA 59.877 40.000 0.00 0.00 0.00 3.49
1828 3761 0.041839 GCATTCGCCTGTTCGCATAG 60.042 55.000 0.00 0.00 0.00 2.23
1838 3771 5.405571 CGCCTGTTCGCATAGTATATCTTTT 59.594 40.000 0.00 0.00 0.00 2.27
2056 4152 3.733727 GCATGAACTTGGTTAAACAACGG 59.266 43.478 0.61 0.00 0.00 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 7.961326 AGTATGCAGGGTGAAGAAATAATTT 57.039 32.000 0.00 0.00 0.00 1.82
3 4 9.646522 ATTAGTATGCAGGGTGAAGAAATAATT 57.353 29.630 0.00 0.00 0.00 1.40
4 5 9.289782 GATTAGTATGCAGGGTGAAGAAATAAT 57.710 33.333 0.00 0.00 0.00 1.28
5 6 8.271458 TGATTAGTATGCAGGGTGAAGAAATAA 58.729 33.333 0.00 0.00 0.00 1.40
7 8 6.662755 TGATTAGTATGCAGGGTGAAGAAAT 58.337 36.000 0.00 0.00 0.00 2.17
8 9 6.061022 TGATTAGTATGCAGGGTGAAGAAA 57.939 37.500 0.00 0.00 0.00 2.52
9 10 5.692115 TGATTAGTATGCAGGGTGAAGAA 57.308 39.130 0.00 0.00 0.00 2.52
10 11 5.455183 CCATGATTAGTATGCAGGGTGAAGA 60.455 44.000 0.00 0.00 0.00 2.87
11 12 4.758674 CCATGATTAGTATGCAGGGTGAAG 59.241 45.833 0.00 0.00 0.00 3.02
12 13 4.411869 TCCATGATTAGTATGCAGGGTGAA 59.588 41.667 0.00 0.00 35.19 3.18
13 14 3.973305 TCCATGATTAGTATGCAGGGTGA 59.027 43.478 0.00 0.00 35.19 4.02
14 15 4.356405 TCCATGATTAGTATGCAGGGTG 57.644 45.455 0.00 0.00 35.19 4.61
18 19 6.791887 AAACGATCCATGATTAGTATGCAG 57.208 37.500 0.00 0.00 0.00 4.41
24 25 8.279970 TGATTGAAAAACGATCCATGATTAGT 57.720 30.769 0.00 0.00 38.33 2.24
32 33 6.573664 AACTCATGATTGAAAAACGATCCA 57.426 33.333 0.00 0.00 38.33 3.41
33 34 7.873739 AAAACTCATGATTGAAAAACGATCC 57.126 32.000 0.00 0.00 38.33 3.36
36 37 6.075099 GCGAAAAACTCATGATTGAAAAACGA 60.075 34.615 0.00 0.00 0.00 3.85
37 38 6.058284 GCGAAAAACTCATGATTGAAAAACG 58.942 36.000 0.00 0.00 0.00 3.60
39 40 5.746245 ACGCGAAAAACTCATGATTGAAAAA 59.254 32.000 15.93 0.00 0.00 1.94
47 48 3.127589 TCTCAACGCGAAAAACTCATGA 58.872 40.909 15.93 0.00 0.00 3.07
86 87 6.393990 AGGATCGTCTGAACATATTAGCATC 58.606 40.000 0.00 0.00 0.00 3.91
139 140 5.822519 GGATTTTCTTGGTTTCTGCCTTTTT 59.177 36.000 0.00 0.00 0.00 1.94
142 143 3.966665 TGGATTTTCTTGGTTTCTGCCTT 59.033 39.130 0.00 0.00 0.00 4.35
143 144 3.575805 TGGATTTTCTTGGTTTCTGCCT 58.424 40.909 0.00 0.00 0.00 4.75
178 179 7.798052 CCGGAAAAATTAAAAGAGCACAAAATG 59.202 33.333 0.00 0.00 0.00 2.32
187 188 4.323602 GCGCTTCCGGAAAAATTAAAAGAG 59.676 41.667 19.39 5.87 34.32 2.85
189 190 3.984633 TGCGCTTCCGGAAAAATTAAAAG 59.015 39.130 19.39 3.83 34.32 2.27
191 192 3.644884 TGCGCTTCCGGAAAAATTAAA 57.355 38.095 19.39 0.00 34.32 1.52
192 193 3.644884 TTGCGCTTCCGGAAAAATTAA 57.355 38.095 19.39 7.34 41.87 1.40
201 202 4.614673 GCATAATTGCGCTTCCGG 57.385 55.556 9.73 0.00 39.49 5.14
230 231 5.120399 TGGAAGTGAAACGAATAAGTGTGT 58.880 37.500 0.00 0.00 45.86 3.72
236 237 5.529430 TGCTTTCTGGAAGTGAAACGAATAA 59.471 36.000 0.00 0.00 45.86 1.40
242 243 4.370364 TTGTGCTTTCTGGAAGTGAAAC 57.630 40.909 0.00 0.00 37.69 2.78
272 273 0.793104 GTACATTTGTGCTTCCGCGC 60.793 55.000 0.00 0.00 46.63 6.86
285 286 6.389830 TTTGTGCTCATGTTGAAGTACATT 57.610 33.333 4.34 0.00 36.64 2.71
330 332 7.395190 TTTTGTTGGATATCCTCATGTGAAG 57.605 36.000 22.35 0.00 36.82 3.02
367 371 7.872483 GCATGGTTTCTTCTCATTTTCCTTTTA 59.128 33.333 0.00 0.00 0.00 1.52
368 372 6.707608 GCATGGTTTCTTCTCATTTTCCTTTT 59.292 34.615 0.00 0.00 0.00 2.27
369 373 6.183360 TGCATGGTTTCTTCTCATTTTCCTTT 60.183 34.615 0.00 0.00 0.00 3.11
373 377 5.531634 TGTGCATGGTTTCTTCTCATTTTC 58.468 37.500 0.00 0.00 0.00 2.29
377 381 5.534207 TTTTGTGCATGGTTTCTTCTCAT 57.466 34.783 0.00 0.00 0.00 2.90
378 382 4.998671 TTTTGTGCATGGTTTCTTCTCA 57.001 36.364 0.00 0.00 0.00 3.27
403 407 5.108517 TCTTTCTGCACGCTTTTTGATTTT 58.891 33.333 0.00 0.00 0.00 1.82
407 411 3.773860 TTCTTTCTGCACGCTTTTTGA 57.226 38.095 0.00 0.00 0.00 2.69
408 412 3.243643 CCTTTCTTTCTGCACGCTTTTTG 59.756 43.478 0.00 0.00 0.00 2.44
414 418 1.065551 ACAACCTTTCTTTCTGCACGC 59.934 47.619 0.00 0.00 0.00 5.34
457 461 2.616330 AATGTTGTGCGCCCAGTCG 61.616 57.895 4.18 0.00 0.00 4.18
458 462 1.081242 CAATGTTGTGCGCCCAGTC 60.081 57.895 4.18 0.00 0.00 3.51
459 463 3.041701 CAATGTTGTGCGCCCAGT 58.958 55.556 4.18 0.00 0.00 4.00
460 464 2.431260 GCAATGTTGTGCGCCCAG 60.431 61.111 4.18 0.00 34.21 4.45
466 470 0.245539 AGGCTGATGCAATGTTGTGC 59.754 50.000 0.00 0.00 45.15 4.57
467 471 1.271379 ACAGGCTGATGCAATGTTGTG 59.729 47.619 23.66 0.00 41.91 3.33
468 472 1.271379 CACAGGCTGATGCAATGTTGT 59.729 47.619 23.66 0.00 38.17 3.32
469 473 1.990799 CACAGGCTGATGCAATGTTG 58.009 50.000 23.66 1.06 38.17 3.33
470 474 0.245539 GCACAGGCTGATGCAATGTT 59.754 50.000 26.33 0.65 41.65 2.71
471 475 1.888018 GCACAGGCTGATGCAATGT 59.112 52.632 26.33 2.13 41.65 2.71
472 476 1.226575 CGCACAGGCTGATGCAATG 60.227 57.895 28.57 16.15 42.17 2.82
473 477 2.412323 CCGCACAGGCTGATGCAAT 61.412 57.895 28.57 5.27 42.17 3.56
474 478 3.057548 CCGCACAGGCTGATGCAA 61.058 61.111 28.57 0.00 42.17 4.08
485 489 4.992740 ATTTGCTGGGGCCGCACA 62.993 61.111 20.22 18.31 37.07 4.57
486 490 4.440127 CATTTGCTGGGGCCGCAC 62.440 66.667 20.22 15.93 37.07 5.34
498 502 2.496871 TGGTTTGGGCTATGAGCATTTG 59.503 45.455 0.21 0.00 44.75 2.32
499 503 2.762327 CTGGTTTGGGCTATGAGCATTT 59.238 45.455 0.21 0.00 44.75 2.32
502 506 0.680921 GCTGGTTTGGGCTATGAGCA 60.681 55.000 0.21 0.00 44.75 4.26
507 511 1.000359 GGTGGCTGGTTTGGGCTAT 60.000 57.895 0.00 0.00 0.00 2.97
513 517 3.614870 GCTAAATCTTGGTGGCTGGTTTG 60.615 47.826 0.00 0.00 0.00 2.93
514 518 2.562738 GCTAAATCTTGGTGGCTGGTTT 59.437 45.455 0.00 0.00 0.00 3.27
542 546 3.701040 GGGATGTTATTTGGTCAGCACAT 59.299 43.478 0.00 0.00 0.00 3.21
559 565 3.700539 TGTGGCACTTATCATTTGGGATG 59.299 43.478 19.83 0.00 0.00 3.51
560 566 3.701040 GTGTGGCACTTATCATTTGGGAT 59.299 43.478 19.83 0.00 0.00 3.85
561 567 3.088532 GTGTGGCACTTATCATTTGGGA 58.911 45.455 19.83 0.00 0.00 4.37
562 568 2.159393 CGTGTGGCACTTATCATTTGGG 60.159 50.000 19.83 0.00 31.34 4.12
584 590 1.278172 CTGGAGTGCTTCGTGACACG 61.278 60.000 21.88 21.88 44.19 4.49
602 608 4.755266 AGCCGTAAATAATGTCAGGTCT 57.245 40.909 0.00 0.00 0.00 3.85
605 611 6.920569 ACTTTAGCCGTAAATAATGTCAGG 57.079 37.500 0.00 0.00 0.00 3.86
666 1091 8.427774 CAACTTTCTGTTCAAAAGACAAGTTTC 58.572 33.333 11.97 0.00 35.37 2.78
674 1099 5.591099 GATGGCAACTTTCTGTTCAAAAGA 58.409 37.500 0.00 0.00 36.63 2.52
708 1136 2.094762 AGTAACACGAGGATGGCAAC 57.905 50.000 0.00 0.00 0.00 4.17
751 1251 4.548494 TGTGCATGAACACATGACAATTC 58.452 39.130 1.03 0.00 45.36 2.17
774 1275 3.055167 TGGACCCTGATAAGTGTCACATG 60.055 47.826 5.62 0.00 0.00 3.21
777 1278 3.695830 TTGGACCCTGATAAGTGTCAC 57.304 47.619 0.00 0.00 0.00 3.67
780 1281 4.798882 TGTTTTTGGACCCTGATAAGTGT 58.201 39.130 0.00 0.00 0.00 3.55
787 1288 3.201266 ACACTACTGTTTTTGGACCCTGA 59.799 43.478 0.00 0.00 0.00 3.86
788 1289 3.551846 ACACTACTGTTTTTGGACCCTG 58.448 45.455 0.00 0.00 0.00 4.45
789 1290 3.945640 ACACTACTGTTTTTGGACCCT 57.054 42.857 0.00 0.00 0.00 4.34
790 1291 3.817084 GGTACACTACTGTTTTTGGACCC 59.183 47.826 6.23 0.00 37.02 4.46
791 1292 3.817084 GGGTACACTACTGTTTTTGGACC 59.183 47.826 8.25 8.25 41.67 4.46
794 1295 5.067273 TGATGGGTACACTACTGTTTTTGG 58.933 41.667 0.00 0.00 0.00 3.28
795 1296 5.334879 GCTGATGGGTACACTACTGTTTTTG 60.335 44.000 0.00 0.00 0.00 2.44
796 1297 4.760204 GCTGATGGGTACACTACTGTTTTT 59.240 41.667 0.00 0.00 0.00 1.94
797 1298 4.324267 GCTGATGGGTACACTACTGTTTT 58.676 43.478 0.00 0.00 0.00 2.43
803 1402 4.439968 GTTTAGGCTGATGGGTACACTAC 58.560 47.826 0.00 0.00 0.00 2.73
1016 2921 5.584649 TGTTCTTGGTTCGTCATATCCATTC 59.415 40.000 0.00 0.00 0.00 2.67
1049 2954 0.741221 GTCGAGTTGGGAGATGGTGC 60.741 60.000 0.00 0.00 0.00 5.01
1087 2992 0.465705 GGCGATGTGGATGGAGAAGA 59.534 55.000 0.00 0.00 0.00 2.87
1133 3038 1.520564 GCACACGATGGATACGGCA 60.521 57.895 0.00 0.00 42.51 5.69
1174 3079 3.118454 CACCGGCATCGTCACCAC 61.118 66.667 0.00 0.00 33.95 4.16
1212 3117 3.702048 GTGTGCTCCGGGTAGCCA 61.702 66.667 12.31 7.32 42.05 4.75
1214 3119 4.814294 CCGTGTGCTCCGGGTAGC 62.814 72.222 8.18 8.18 41.78 3.58
1244 3149 0.801872 CGATTGGATGCCGACAACAA 59.198 50.000 0.00 0.00 33.18 2.83
1245 3150 1.024046 CCGATTGGATGCCGACAACA 61.024 55.000 0.00 0.00 37.49 3.33
1246 3151 1.721487 CCGATTGGATGCCGACAAC 59.279 57.895 0.00 0.00 37.49 3.32
1527 3439 0.392461 GCGGGCAGTGATGGTAGAAA 60.392 55.000 0.00 0.00 0.00 2.52
1644 3564 6.237901 TGTGAGTTGTGGCAGAATTATAACT 58.762 36.000 0.00 0.00 0.00 2.24
1882 3818 1.482182 CGGGAGATGAGTGAATGGACA 59.518 52.381 0.00 0.00 0.00 4.02
1993 3961 1.336440 TGTGCAAAAGAACATGGTCGG 59.664 47.619 4.80 0.00 0.00 4.79
1994 3962 2.033299 AGTGTGCAAAAGAACATGGTCG 59.967 45.455 4.80 0.00 0.00 4.79
2056 4152 2.040412 AGGTCACCCAGAGATCCAAAAC 59.960 50.000 0.00 0.00 0.00 2.43
2084 4180 3.355626 TCGCAGCACTGTACTATGATC 57.644 47.619 0.00 0.00 0.00 2.92
2245 4341 2.413837 CGGTCAGAGGTCGACAAAAAT 58.586 47.619 18.91 0.00 34.97 1.82


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

AutoCloner maintained by Alex Coulton.