Multiple sequence alignment - TraesCS2D01G513800

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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 TraesCS2D01G513800 chr2D 100.000 2951 0 0 1 2951 605911440 605908490 0.000000e+00 5450.0
1 TraesCS2D01G513800 chr2B 93.401 2576 98 28 419 2951 736757884 736755338 0.000000e+00 3749.0
2 TraesCS2D01G513800 chr2B 88.053 226 18 5 77 302 736758204 736757988 2.920000e-65 259.0
3 TraesCS2D01G513800 chr2B 98.077 52 0 1 13 64 736758679 736758629 4.050000e-14 89.8
4 TraesCS2D01G513800 chr2A 93.629 1915 77 21 995 2892 737341794 737339908 0.000000e+00 2819.0
5 TraesCS2D01G513800 chr2A 92.325 443 22 8 498 928 737342269 737341827 1.160000e-173 619.0
6 TraesCS2D01G513800 chr2A 94.595 74 4 0 2878 2951 737339894 737339821 6.680000e-22 115.0
7 TraesCS2D01G513800 chr2A 88.060 67 4 2 439 501 737342772 737342706 3.150000e-10 76.8
8 TraesCS2D01G513800 chr7D 98.148 54 1 0 1349 1402 579339586 579339533 8.710000e-16 95.3
9 TraesCS2D01G513800 chr7D 74.089 247 52 10 1187 1427 634411948 634411708 1.130000e-14 91.6
10 TraesCS2D01G513800 chr7A 74.468 235 50 9 1190 1421 731962621 731962848 3.130000e-15 93.5
11 TraesCS2D01G513800 chr7B 73.361 244 47 17 1191 1427 741719071 741718839 1.130000e-09 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 TraesCS2D01G513800 chr2D 605908490 605911440 2950 True 5450.000000 5450 100.00000 1 2951 1 chr2D.!!$R1 2950
1 TraesCS2D01G513800 chr2B 736755338 736758679 3341 True 1365.933333 3749 93.17700 13 2951 3 chr2B.!!$R1 2938
2 TraesCS2D01G513800 chr2A 737339821 737342772 2951 True 907.450000 2819 92.15225 439 2951 4 chr2A.!!$R1 2512

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
567 1478 0.03563 AGCACGTACGTCCTCCTACT 60.036 55.0 19.94 4.58 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2459 3398 0.18135 ATCTTCCACGGATCCAAGGC 59.819 55.0 13.41 0.0 0.0 4.35 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
74 75 4.704833 CACGGCCACACCCTCCTG 62.705 72.222 2.24 0.00 33.26 3.86
97 510 1.901591 AAGAGCACATCAACAGGGTG 58.098 50.000 0.00 0.00 35.68 4.61
128 541 6.015519 CACTCCAATCCTAACAAATCAACCAA 60.016 38.462 0.00 0.00 0.00 3.67
173 586 4.158209 TGCCATCATGTGTTAACTCCAATG 59.842 41.667 7.22 4.67 0.00 2.82
201 614 3.263503 GAAACTTTGTCGGCCCGCC 62.264 63.158 0.00 0.00 0.00 6.13
215 628 4.003788 CGCCACGGGTCAAGTCCT 62.004 66.667 0.00 0.00 0.00 3.85
216 629 2.642254 CGCCACGGGTCAAGTCCTA 61.642 63.158 0.00 0.00 0.00 2.94
217 630 1.218316 GCCACGGGTCAAGTCCTAG 59.782 63.158 0.00 0.00 0.00 3.02
218 631 1.255667 GCCACGGGTCAAGTCCTAGA 61.256 60.000 0.00 0.00 0.00 2.43
219 632 0.531200 CCACGGGTCAAGTCCTAGAC 59.469 60.000 0.00 0.00 0.00 2.59
220 633 1.546961 CACGGGTCAAGTCCTAGACT 58.453 55.000 0.00 0.00 45.64 3.24
234 647 2.365617 CCTAGACTTGGCATCGGTGTAT 59.634 50.000 0.00 0.00 0.00 2.29
246 659 2.422597 TCGGTGTATGCACTTTTCTGG 58.577 47.619 13.86 0.00 44.65 3.86
247 660 1.468520 CGGTGTATGCACTTTTCTGGG 59.531 52.381 13.86 0.00 44.65 4.45
253 666 4.832266 TGTATGCACTTTTCTGGGTTGATT 59.168 37.500 0.00 0.00 0.00 2.57
255 668 4.320608 TGCACTTTTCTGGGTTGATTTC 57.679 40.909 0.00 0.00 0.00 2.17
258 671 2.890945 ACTTTTCTGGGTTGATTTCGGG 59.109 45.455 0.00 0.00 0.00 5.14
263 676 3.301274 TCTGGGTTGATTTCGGGTTTTT 58.699 40.909 0.00 0.00 0.00 1.94
266 679 2.365941 GGGTTGATTTCGGGTTTTTGGA 59.634 45.455 0.00 0.00 0.00 3.53
273 686 4.577834 TTTCGGGTTTTTGGAGATGTTC 57.422 40.909 0.00 0.00 0.00 3.18
275 688 1.877443 CGGGTTTTTGGAGATGTTCGT 59.123 47.619 0.00 0.00 0.00 3.85
288 701 5.814705 GGAGATGTTCGTTCAATGAGAGAAT 59.185 40.000 5.93 0.00 0.00 2.40
294 707 6.089016 TGTTCGTTCAATGAGAGAATACGTTC 59.911 38.462 0.00 0.00 30.78 3.95
299 712 7.449027 GTTCAATGAGAGAATACGTTCTTGTC 58.551 38.462 0.00 0.00 44.57 3.18
302 715 6.952935 ATGAGAGAATACGTTCTTGTCAAC 57.047 37.500 0.00 0.00 44.57 3.18
304 717 7.210718 TGAGAGAATACGTTCTTGTCAACTA 57.789 36.000 0.00 0.00 44.57 2.24
305 718 7.082602 TGAGAGAATACGTTCTTGTCAACTAC 58.917 38.462 0.00 0.00 44.57 2.73
306 719 6.084925 AGAGAATACGTTCTTGTCAACTACG 58.915 40.000 0.00 11.28 44.57 3.51
307 720 5.159209 AGAATACGTTCTTGTCAACTACGG 58.841 41.667 15.32 2.97 41.92 4.02
308 721 4.771590 ATACGTTCTTGTCAACTACGGA 57.228 40.909 15.32 9.73 36.60 4.69
309 722 3.009301 ACGTTCTTGTCAACTACGGAG 57.991 47.619 15.32 0.00 36.60 4.63
310 723 2.620115 ACGTTCTTGTCAACTACGGAGA 59.380 45.455 0.00 0.00 36.60 3.71
315 728 1.991121 TGTCAACTACGGAGACACCT 58.009 50.000 0.00 0.00 37.36 4.00
318 731 1.611977 TCAACTACGGAGACACCTGTG 59.388 52.381 0.00 0.00 36.31 3.66
321 734 1.340248 ACTACGGAGACACCTGTGTTG 59.660 52.381 0.00 0.00 45.05 3.33
331 744 2.872245 ACACCTGTGTTGATTTCGTCAG 59.128 45.455 0.00 0.00 41.83 3.51
357 818 0.108567 TGCGTGCGCTTGTAGGAATA 60.109 50.000 17.49 0.00 42.51 1.75
358 819 1.003851 GCGTGCGCTTGTAGGAATAA 58.996 50.000 9.73 0.00 38.26 1.40
360 821 2.268298 CGTGCGCTTGTAGGAATAAGT 58.732 47.619 9.73 0.00 0.00 2.24
363 824 4.178540 GTGCGCTTGTAGGAATAAGTGTA 58.821 43.478 9.73 0.00 36.87 2.90
364 825 4.809426 GTGCGCTTGTAGGAATAAGTGTAT 59.191 41.667 9.73 0.00 36.87 2.29
365 826 4.808895 TGCGCTTGTAGGAATAAGTGTATG 59.191 41.667 9.73 0.00 36.87 2.39
366 827 4.809426 GCGCTTGTAGGAATAAGTGTATGT 59.191 41.667 0.00 0.00 36.87 2.29
367 828 5.276868 GCGCTTGTAGGAATAAGTGTATGTG 60.277 44.000 0.00 0.00 36.87 3.21
368 829 5.276868 CGCTTGTAGGAATAAGTGTATGTGC 60.277 44.000 0.00 0.00 31.71 4.57
369 830 5.584649 GCTTGTAGGAATAAGTGTATGTGCA 59.415 40.000 0.00 0.00 0.00 4.57
370 831 6.260936 GCTTGTAGGAATAAGTGTATGTGCAT 59.739 38.462 0.00 0.00 0.00 3.96
371 832 7.552458 TTGTAGGAATAAGTGTATGTGCATG 57.448 36.000 0.00 0.00 0.00 4.06
372 833 6.649155 TGTAGGAATAAGTGTATGTGCATGT 58.351 36.000 0.00 0.00 0.00 3.21
373 834 7.787028 TGTAGGAATAAGTGTATGTGCATGTA 58.213 34.615 0.00 0.00 0.00 2.29
374 835 8.428852 TGTAGGAATAAGTGTATGTGCATGTAT 58.571 33.333 0.00 0.00 0.00 2.29
375 836 9.923143 GTAGGAATAAGTGTATGTGCATGTATA 57.077 33.333 0.00 0.00 0.00 1.47
377 838 9.440773 AGGAATAAGTGTATGTGCATGTATATG 57.559 33.333 3.29 0.00 37.36 1.78
378 839 8.668353 GGAATAAGTGTATGTGCATGTATATGG 58.332 37.037 3.29 0.00 34.79 2.74
379 840 9.435688 GAATAAGTGTATGTGCATGTATATGGA 57.564 33.333 3.29 0.00 34.79 3.41
400 861 8.806429 ATGGACATCTGTTTATATTGTGTTCA 57.194 30.769 0.00 0.00 0.00 3.18
401 862 8.267620 TGGACATCTGTTTATATTGTGTTCAG 57.732 34.615 0.00 0.00 0.00 3.02
402 863 8.100164 TGGACATCTGTTTATATTGTGTTCAGA 58.900 33.333 0.00 0.00 35.47 3.27
403 864 8.946085 GGACATCTGTTTATATTGTGTTCAGAA 58.054 33.333 0.00 0.00 34.84 3.02
404 865 9.979270 GACATCTGTTTATATTGTGTTCAGAAG 57.021 33.333 0.00 0.00 34.84 2.85
405 866 9.725019 ACATCTGTTTATATTGTGTTCAGAAGA 57.275 29.630 0.00 0.00 34.84 2.87
417 878 9.710900 ATTGTGTTCAGAAGAAAAGAAAAACTT 57.289 25.926 0.00 0.00 40.98 2.66
424 885 7.119262 TCAGAAGAAAAGAAAAACTTCGTCACT 59.881 33.333 0.00 0.00 42.09 3.41
436 897 4.523813 ACTTCGTCACTTAAAATGCAACG 58.476 39.130 0.00 0.00 0.00 4.10
543 1454 2.421811 CCATACCATGATGACACCAGCA 60.422 50.000 0.00 0.00 43.43 4.41
567 1478 0.035630 AGCACGTACGTCCTCCTACT 60.036 55.000 19.94 4.58 0.00 2.57
715 1627 4.746309 TGACCGACCCGACCCGAT 62.746 66.667 0.00 0.00 0.00 4.18
855 1775 2.620459 CGAGCACACACACACACG 59.380 61.111 0.00 0.00 0.00 4.49
856 1776 1.876263 CGAGCACACACACACACGA 60.876 57.895 0.00 0.00 0.00 4.35
871 1794 0.886490 CACGAGCCAGCTGACCTTTT 60.886 55.000 17.39 0.00 0.00 2.27
875 1798 1.979155 GCCAGCTGACCTTTTCCCC 60.979 63.158 17.39 0.00 0.00 4.81
968 1891 4.465446 CCTCCTCCTCCGGCCAGA 62.465 72.222 2.24 0.00 0.00 3.86
969 1892 3.151022 CTCCTCCTCCGGCCAGAC 61.151 72.222 2.24 0.00 0.00 3.51
1792 2715 3.240134 TTCGAGGTGGAGCAGGTGC 62.240 63.158 0.00 0.00 42.49 5.01
1870 2793 3.554692 CGCACTTCGTGATCCGCC 61.555 66.667 0.00 0.00 35.23 6.13
1954 2877 2.510691 CCCGCCGCAAGTAATCGT 60.511 61.111 0.00 0.00 0.00 3.73
2089 3024 8.581578 GGGAACAATAATTGTAACAAGAAAGGA 58.418 33.333 0.00 0.00 44.59 3.36
2101 3036 4.853007 ACAAGAAAGGATCCTTGGATCAG 58.147 43.478 27.71 18.16 42.86 2.90
2231 3166 2.543797 GGTGGGTGGGTGGATCCAA 61.544 63.158 18.20 0.00 38.72 3.53
2232 3167 1.697297 GTGGGTGGGTGGATCCAAT 59.303 57.895 18.20 0.00 38.72 3.16
2233 3168 0.395724 GTGGGTGGGTGGATCCAATC 60.396 60.000 18.20 12.22 38.72 2.67
2273 3208 6.866248 TCCGATTGCTTTTACATTTTCCTTTC 59.134 34.615 0.00 0.00 0.00 2.62
2274 3209 6.644592 CCGATTGCTTTTACATTTTCCTTTCA 59.355 34.615 0.00 0.00 0.00 2.69
2275 3210 7.331687 CCGATTGCTTTTACATTTTCCTTTCAT 59.668 33.333 0.00 0.00 0.00 2.57
2276 3211 8.711457 CGATTGCTTTTACATTTTCCTTTCATT 58.289 29.630 0.00 0.00 0.00 2.57
2280 3215 8.210265 TGCTTTTACATTTTCCTTTCATTTCCT 58.790 29.630 0.00 0.00 0.00 3.36
2285 3220 5.541484 ACATTTTCCTTTCATTTCCTCTGCT 59.459 36.000 0.00 0.00 0.00 4.24
2301 3236 4.368808 CTCGGTTGCGTGCGTTGG 62.369 66.667 0.00 0.00 0.00 3.77
2305 3240 4.897856 GTTGCGTGCGTTGGCGTT 62.898 61.111 0.00 0.00 44.10 4.84
2306 3241 4.896028 TTGCGTGCGTTGGCGTTG 62.896 61.111 0.00 0.00 44.10 4.10
2354 3293 1.227556 ATCTGCCCGTCGTATTGGC 60.228 57.895 3.55 3.55 45.56 4.52
2365 3304 3.186409 CGTCGTATTGGCCATTAATGAGG 59.814 47.826 17.23 10.73 0.00 3.86
2443 3382 0.109272 TCATTGGAGTCGCTGTCGTC 60.109 55.000 0.00 0.00 36.96 4.20
2444 3383 1.154016 ATTGGAGTCGCTGTCGTCG 60.154 57.895 0.00 0.00 36.96 5.12
2459 3398 4.284860 TCGATCGGGCTGATGCGG 62.285 66.667 14.83 2.95 37.47 5.69
2558 3502 1.473434 GCTCGACCCTTTCTGGTATGG 60.473 57.143 0.00 0.00 39.24 2.74
2588 3532 2.135139 CAACATGTGCAGTCTACGTGT 58.865 47.619 0.00 0.00 46.97 4.49
2608 3553 0.957395 CAGTGATCAGGCACCACCAC 60.957 60.000 0.00 0.00 43.14 4.16
2648 3603 3.455327 CACATGTGTCATCTCTGCTAGG 58.545 50.000 18.03 0.00 0.00 3.02
2672 3627 7.340487 AGGCTAAAAGAAACTTGATATTGGGAG 59.660 37.037 0.00 0.00 0.00 4.30
2681 3636 4.965532 ACTTGATATTGGGAGAGTGCTACT 59.034 41.667 0.00 0.00 0.00 2.57
2682 3637 4.944619 TGATATTGGGAGAGTGCTACTG 57.055 45.455 0.00 0.00 0.00 2.74
2683 3638 3.070159 TGATATTGGGAGAGTGCTACTGC 59.930 47.826 0.00 0.00 40.20 4.40
2903 3897 2.639065 GATTTGGTTCGCAGGGTATGA 58.361 47.619 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 0.538287 GCTCTTTTGCAGGAGGGTGT 60.538 55.000 12.89 0.00 0.00 4.16
65 66 0.538057 TGCTCTTTTGCAGGAGGGTG 60.538 55.000 12.89 1.36 38.12 4.61
68 69 1.471684 GATGTGCTCTTTTGCAGGAGG 59.528 52.381 12.89 0.00 44.20 4.30
69 70 2.156917 TGATGTGCTCTTTTGCAGGAG 58.843 47.619 8.45 8.45 44.20 3.69
70 71 2.275134 TGATGTGCTCTTTTGCAGGA 57.725 45.000 0.00 0.00 44.20 3.86
72 73 3.305964 CTGTTGATGTGCTCTTTTGCAG 58.694 45.455 0.00 0.00 44.20 4.41
73 74 2.034939 CCTGTTGATGTGCTCTTTTGCA 59.965 45.455 0.00 0.00 41.05 4.08
74 75 2.608752 CCCTGTTGATGTGCTCTTTTGC 60.609 50.000 0.00 0.00 0.00 3.68
75 76 2.624838 ACCCTGTTGATGTGCTCTTTTG 59.375 45.455 0.00 0.00 0.00 2.44
128 541 6.820152 GGCAAAATTGGAATGCTTATTTCTCT 59.180 34.615 0.00 0.00 39.94 3.10
173 586 4.451557 CCGACAAAGTTTCGATGTTGTAC 58.548 43.478 0.00 0.00 38.85 2.90
201 614 1.546961 AGTCTAGGACTTGACCCGTG 58.453 55.000 9.68 0.00 40.28 4.94
214 627 3.384668 CATACACCGATGCCAAGTCTAG 58.615 50.000 0.00 0.00 0.00 2.43
215 628 2.483013 GCATACACCGATGCCAAGTCTA 60.483 50.000 0.00 0.00 45.41 2.59
216 629 1.743772 GCATACACCGATGCCAAGTCT 60.744 52.381 0.00 0.00 45.41 3.24
217 630 0.657840 GCATACACCGATGCCAAGTC 59.342 55.000 0.00 0.00 45.41 3.01
218 631 2.780595 GCATACACCGATGCCAAGT 58.219 52.632 0.00 0.00 45.41 3.16
234 647 3.243367 CGAAATCAACCCAGAAAAGTGCA 60.243 43.478 0.00 0.00 0.00 4.57
246 659 3.319689 TCTCCAAAAACCCGAAATCAACC 59.680 43.478 0.00 0.00 0.00 3.77
247 660 4.577834 TCTCCAAAAACCCGAAATCAAC 57.422 40.909 0.00 0.00 0.00 3.18
253 666 2.550606 CGAACATCTCCAAAAACCCGAA 59.449 45.455 0.00 0.00 0.00 4.30
255 668 1.877443 ACGAACATCTCCAAAAACCCG 59.123 47.619 0.00 0.00 0.00 5.28
258 671 6.205784 TCATTGAACGAACATCTCCAAAAAC 58.794 36.000 0.00 0.00 0.00 2.43
263 676 4.220602 TCTCTCATTGAACGAACATCTCCA 59.779 41.667 0.00 0.00 0.00 3.86
266 679 6.473778 CGTATTCTCTCATTGAACGAACATCT 59.526 38.462 1.09 0.00 29.55 2.90
273 686 6.089551 ACAAGAACGTATTCTCTCATTGAACG 59.910 38.462 5.10 5.10 44.82 3.95
275 688 7.151976 TGACAAGAACGTATTCTCTCATTGAA 58.848 34.615 0.00 0.00 44.82 2.69
288 701 3.814842 TCTCCGTAGTTGACAAGAACGTA 59.185 43.478 16.67 4.97 31.87 3.57
294 707 2.296471 AGGTGTCTCCGTAGTTGACAAG 59.704 50.000 0.00 0.00 41.52 3.16
299 712 1.340248 ACACAGGTGTCTCCGTAGTTG 59.660 52.381 0.00 0.00 40.24 3.16
302 715 1.611977 TCAACACAGGTGTCTCCGTAG 59.388 52.381 5.41 0.00 44.13 3.51
304 717 1.048601 ATCAACACAGGTGTCTCCGT 58.951 50.000 5.41 0.00 44.13 4.69
305 718 2.169832 AATCAACACAGGTGTCTCCG 57.830 50.000 5.41 0.00 44.13 4.63
306 719 2.480419 CGAAATCAACACAGGTGTCTCC 59.520 50.000 5.41 0.00 44.13 3.71
307 720 3.131396 ACGAAATCAACACAGGTGTCTC 58.869 45.455 5.41 0.00 44.13 3.36
308 721 3.131396 GACGAAATCAACACAGGTGTCT 58.869 45.455 5.41 0.00 44.13 3.41
309 722 2.869801 TGACGAAATCAACACAGGTGTC 59.130 45.455 5.41 0.00 44.13 3.67
315 728 5.050159 CACATTCTCTGACGAAATCAACACA 60.050 40.000 0.00 0.00 36.69 3.72
318 731 4.398247 GCACATTCTCTGACGAAATCAAC 58.602 43.478 0.00 0.00 36.69 3.18
321 734 2.668457 ACGCACATTCTCTGACGAAATC 59.332 45.455 0.00 0.00 33.93 2.17
331 744 1.510623 CAAGCGCACGCACATTCTC 60.511 57.895 18.24 0.00 44.88 2.87
357 818 6.591001 TGTCCATATACATGCACATACACTT 58.409 36.000 0.00 0.00 27.47 3.16
358 819 6.173427 TGTCCATATACATGCACATACACT 57.827 37.500 0.00 0.00 27.47 3.55
360 821 6.875195 CAGATGTCCATATACATGCACATACA 59.125 38.462 0.00 0.00 42.46 2.29
363 824 5.872963 ACAGATGTCCATATACATGCACAT 58.127 37.500 0.00 0.00 44.59 3.21
364 825 5.294734 ACAGATGTCCATATACATGCACA 57.705 39.130 0.00 0.00 40.17 4.57
365 826 6.624352 AAACAGATGTCCATATACATGCAC 57.376 37.500 0.00 0.00 40.17 4.57
374 835 9.898152 TGAACACAATATAAACAGATGTCCATA 57.102 29.630 0.00 0.00 0.00 2.74
375 836 8.806429 TGAACACAATATAAACAGATGTCCAT 57.194 30.769 0.00 0.00 0.00 3.41
376 837 8.100164 TCTGAACACAATATAAACAGATGTCCA 58.900 33.333 0.00 0.00 0.00 4.02
377 838 8.492673 TCTGAACACAATATAAACAGATGTCC 57.507 34.615 0.00 0.00 0.00 4.02
378 839 9.979270 CTTCTGAACACAATATAAACAGATGTC 57.021 33.333 0.00 0.00 33.90 3.06
379 840 9.725019 TCTTCTGAACACAATATAAACAGATGT 57.275 29.630 0.00 0.00 33.90 3.06
391 852 9.710900 AAGTTTTTCTTTTCTTCTGAACACAAT 57.289 25.926 0.00 0.00 31.57 2.71
392 853 9.191995 GAAGTTTTTCTTTTCTTCTGAACACAA 57.808 29.630 0.00 0.00 36.40 3.33
393 854 7.537306 CGAAGTTTTTCTTTTCTTCTGAACACA 59.463 33.333 0.00 0.00 36.40 3.72
394 855 7.537649 ACGAAGTTTTTCTTTTCTTCTGAACAC 59.462 33.333 0.00 0.00 37.78 3.32
395 856 7.590279 ACGAAGTTTTTCTTTTCTTCTGAACA 58.410 30.769 0.00 0.00 37.78 3.18
415 876 3.357823 GCGTTGCATTTTAAGTGACGAAG 59.642 43.478 6.01 0.00 0.00 3.79
416 877 3.293262 GCGTTGCATTTTAAGTGACGAA 58.707 40.909 6.01 0.00 0.00 3.85
417 878 2.350007 GGCGTTGCATTTTAAGTGACGA 60.350 45.455 6.01 0.00 0.00 4.20
424 885 5.537188 AGAAATTGAGGCGTTGCATTTTAA 58.463 33.333 0.00 0.00 0.00 1.52
436 897 5.356190 TCTGACATTGATGAGAAATTGAGGC 59.644 40.000 0.00 0.00 0.00 4.70
543 1454 1.670406 AGGACGTACGTGCTCTCGT 60.670 57.895 33.12 14.25 43.22 4.18
567 1478 1.218854 GCCCGTAAAGTTCGGCCTA 59.781 57.895 0.00 0.00 45.71 3.93
715 1627 3.120979 CTCGACGCCATCTACCGCA 62.121 63.158 0.00 0.00 0.00 5.69
855 1775 0.962855 GGGAAAAGGTCAGCTGGCTC 60.963 60.000 19.48 7.55 0.00 4.70
856 1776 1.075659 GGGAAAAGGTCAGCTGGCT 59.924 57.895 19.48 0.00 0.00 4.75
875 1798 2.760385 GAGACCGTGGGGAGGAGG 60.760 72.222 0.00 0.00 36.97 4.30
1107 2030 1.478916 GAGGTGTAGAGGAAGGTGAGC 59.521 57.143 0.00 0.00 0.00 4.26
1338 2261 4.148825 CCCAGGCCGAAGACGAGG 62.149 72.222 0.00 0.00 42.66 4.63
1497 2420 3.003763 AGCAGGTCCCGGAAGTCC 61.004 66.667 0.73 0.00 0.00 3.85
1845 2768 4.719369 ACGAAGTGCGCGAGGGAC 62.719 66.667 12.10 0.00 46.04 4.46
1954 2877 4.095782 GCTAATTAATCAAAGTGCGGGTCA 59.904 41.667 0.00 0.00 0.00 4.02
2089 3024 5.762179 TGTTACACTTCTGATCCAAGGAT 57.238 39.130 0.16 0.16 37.59 3.24
2095 3030 6.313905 ACGATTGATTGTTACACTTCTGATCC 59.686 38.462 0.00 0.00 0.00 3.36
2101 3036 5.118050 TCGTCACGATTGATTGTTACACTTC 59.882 40.000 0.00 0.00 33.11 3.01
2231 3166 0.987294 GGATCGATGGATGGGTGGAT 59.013 55.000 0.54 0.00 31.51 3.41
2232 3167 1.471829 CGGATCGATGGATGGGTGGA 61.472 60.000 0.54 0.00 31.51 4.02
2233 3168 1.004560 CGGATCGATGGATGGGTGG 60.005 63.158 0.54 0.00 31.51 4.61
2234 3169 0.610174 ATCGGATCGATGGATGGGTG 59.390 55.000 0.54 0.00 45.24 4.61
2235 3170 1.002430 CAATCGGATCGATGGATGGGT 59.998 52.381 0.54 0.00 46.30 4.51
2236 3171 1.730501 CAATCGGATCGATGGATGGG 58.269 55.000 0.54 0.00 46.30 4.00
2273 3208 0.449388 GCAACCGAGCAGAGGAAATG 59.551 55.000 0.00 0.00 0.00 2.32
2274 3209 1.021390 CGCAACCGAGCAGAGGAAAT 61.021 55.000 0.00 0.00 36.29 2.17
2275 3210 1.667830 CGCAACCGAGCAGAGGAAA 60.668 57.895 0.00 0.00 36.29 3.13
2276 3211 2.048222 CGCAACCGAGCAGAGGAA 60.048 61.111 0.00 0.00 36.29 3.36
2277 3212 3.303135 ACGCAACCGAGCAGAGGA 61.303 61.111 0.00 0.00 38.29 3.71
2301 3236 2.285834 CCACTTTATCATCGAGCAACGC 60.286 50.000 0.00 0.00 42.26 4.84
2302 3237 2.930040 ACCACTTTATCATCGAGCAACG 59.070 45.455 0.00 0.00 44.09 4.10
2303 3238 3.063997 CCACCACTTTATCATCGAGCAAC 59.936 47.826 0.00 0.00 0.00 4.17
2304 3239 3.270027 CCACCACTTTATCATCGAGCAA 58.730 45.455 0.00 0.00 0.00 3.91
2305 3240 2.419990 CCCACCACTTTATCATCGAGCA 60.420 50.000 0.00 0.00 0.00 4.26
2306 3241 2.158957 TCCCACCACTTTATCATCGAGC 60.159 50.000 0.00 0.00 0.00 5.03
2354 3293 1.152649 AGGCCCTCCCTCATTAATGG 58.847 55.000 15.36 6.32 41.21 3.16
2365 3304 2.034221 AAAGCAACGAGGCCCTCC 59.966 61.111 4.85 0.00 0.00 4.30
2459 3398 0.181350 ATCTTCCACGGATCCAAGGC 59.819 55.000 13.41 0.00 0.00 4.35
2510 3449 2.359975 CCCCCAGTTCGTTGAGCC 60.360 66.667 0.00 0.00 0.00 4.70
2511 3450 3.056328 GCCCCCAGTTCGTTGAGC 61.056 66.667 0.00 0.00 0.00 4.26
2512 3451 2.162338 TACGCCCCCAGTTCGTTGAG 62.162 60.000 0.00 0.00 37.61 3.02
2513 3452 1.546589 ATACGCCCCCAGTTCGTTGA 61.547 55.000 0.00 0.00 37.61 3.18
2514 3453 1.078708 ATACGCCCCCAGTTCGTTG 60.079 57.895 0.00 0.00 37.61 4.10
2588 3532 1.126948 TGGTGGTGCCTGATCACTGA 61.127 55.000 0.00 0.00 35.79 3.41
2608 3553 2.093890 TGCTCATTTGTACTGGCATGG 58.906 47.619 0.00 0.00 0.00 3.66
2636 3581 6.112058 AGTTTCTTTTAGCCTAGCAGAGATG 58.888 40.000 0.00 0.00 0.00 2.90
2648 3603 8.281212 TCTCCCAATATCAAGTTTCTTTTAGC 57.719 34.615 0.00 0.00 0.00 3.09
2843 3809 0.810031 AGCTGTTGGACACACACGAC 60.810 55.000 0.00 0.00 0.00 4.34
2903 3897 4.201980 GCTGTACCAACGTTCCTTCTTTTT 60.202 41.667 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.