Multiple sequence alignment - TraesCS1B01G032400

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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 TraesCS1B01G032400 chr1B 100.000 2918 0 0 1 2918 15744701 15741784 0.000000e+00 5389
1 TraesCS1B01G032400 chr1A 89.991 2228 130 46 727 2918 12371143 12373313 0.000000e+00 2793
2 TraesCS1B01G032400 chr1A 81.915 564 32 28 17 527 12369963 12370509 2.090000e-111 412
3 TraesCS1B01G032400 chr1D 91.730 1838 73 29 727 2532 10722465 10724255 0.000000e+00 2479
4 TraesCS1B01G032400 chr1D 81.027 701 41 27 19 655 10721625 10722297 9.460000e-130 473
5 TraesCS1B01G032400 chr1D 83.198 369 41 11 2555 2918 10724369 10724721 4.690000e-83 318
6 TraesCS1B01G032400 chr1D 82.759 145 8 8 583 726 10722306 10722434 2.380000e-21 113


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 TraesCS1B01G032400 chr1B 15741784 15744701 2917 True 5389.00 5389 100.0000 1 2918 1 chr1B.!!$R1 2917
1 TraesCS1B01G032400 chr1A 12369963 12373313 3350 False 1602.50 2793 85.9530 17 2918 2 chr1A.!!$F1 2901
2 TraesCS1B01G032400 chr1D 10721625 10724721 3096 False 845.75 2479 84.6785 19 2918 4 chr1D.!!$F1 2899

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
391 443 0.106419 AAGGCCGAGAAACAAACCCA 60.106 50.0 0.0 0.0 0.0 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2272 2918 1.002134 CACACCACTGGATCCCACC 60.002 63.158 9.9 0.0 0.0 4.61 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
21 22 2.061509 CCAATGATGGGTGATGAGCA 57.938 50.000 0.00 0.00 43.51 4.26
22 23 1.954382 CCAATGATGGGTGATGAGCAG 59.046 52.381 0.00 0.00 43.51 4.24
23 24 1.954382 CAATGATGGGTGATGAGCAGG 59.046 52.381 0.00 0.00 0.00 4.85
24 25 1.514983 ATGATGGGTGATGAGCAGGA 58.485 50.000 0.00 0.00 0.00 3.86
25 26 1.514983 TGATGGGTGATGAGCAGGAT 58.485 50.000 0.00 0.00 0.00 3.24
26 27 1.142262 TGATGGGTGATGAGCAGGATG 59.858 52.381 0.00 0.00 40.87 3.51
62 63 2.484062 GCTTCCATCACATGCCCCG 61.484 63.158 0.00 0.00 0.00 5.73
66 67 1.152694 CCATCACATGCCCCGGATT 60.153 57.895 0.73 0.00 0.00 3.01
145 146 0.969149 TCTGTGTACTGGTGCTGGAG 59.031 55.000 0.00 0.00 0.00 3.86
178 192 3.193691 CCGGTTGATTAGTCAGTCAGTCT 59.806 47.826 0.00 0.00 35.39 3.24
255 269 0.322816 ATGTCACCCTGTCACCATGC 60.323 55.000 0.00 0.00 0.00 4.06
263 277 2.273449 GTCACCATGCTCAGGGGG 59.727 66.667 5.52 0.55 36.92 5.40
272 290 2.036098 CTCAGGGGGTGCATGCAA 59.964 61.111 24.58 3.53 0.00 4.08
334 382 4.202398 ACTTTCAGTCAGAGGAAATGCAGA 60.202 41.667 0.00 0.00 33.00 4.26
343 395 4.096081 CAGAGGAAATGCAGAACTTGATCC 59.904 45.833 0.00 0.00 0.00 3.36
373 425 4.040095 TGTTTTGTGGATCCAATGCATCAA 59.960 37.500 18.20 12.51 31.75 2.57
377 429 0.677842 GGATCCAATGCATCAAGGCC 59.322 55.000 6.95 0.00 0.00 5.19
378 430 0.313043 GATCCAATGCATCAAGGCCG 59.687 55.000 0.00 0.00 0.00 6.13
390 442 0.313987 CAAGGCCGAGAAACAAACCC 59.686 55.000 0.00 0.00 0.00 4.11
391 443 0.106419 AAGGCCGAGAAACAAACCCA 60.106 50.000 0.00 0.00 0.00 4.51
412 464 2.225091 ACCCCAAGATGTCAAATGCTCA 60.225 45.455 0.00 0.00 0.00 4.26
417 469 3.144657 AGATGTCAAATGCTCACCACA 57.855 42.857 0.00 0.00 0.00 4.17
445 497 1.619654 CCCCATTTTCACACAGCAGA 58.380 50.000 0.00 0.00 0.00 4.26
447 499 2.364970 CCCCATTTTCACACAGCAGAAA 59.635 45.455 0.00 0.00 32.34 2.52
467 519 1.152333 AGAAACCCCCAAACCAGCC 60.152 57.895 0.00 0.00 0.00 4.85
468 520 1.458588 GAAACCCCCAAACCAGCCA 60.459 57.895 0.00 0.00 0.00 4.75
469 521 1.459348 AAACCCCCAAACCAGCCAG 60.459 57.895 0.00 0.00 0.00 4.85
470 522 4.621087 ACCCCCAAACCAGCCAGC 62.621 66.667 0.00 0.00 0.00 4.85
489 553 3.126514 CAGCTGCCAGAAGATACAAACAG 59.873 47.826 0.00 0.00 0.00 3.16
518 582 4.279169 ACAACACATCAGATTTGTCCCAAG 59.721 41.667 2.58 0.00 0.00 3.61
532 635 4.020543 TGTCCCAAGGTACATAAAATGGC 58.979 43.478 0.00 0.00 33.60 4.40
537 640 4.202243 CCAAGGTACATAAAATGGCCCATG 60.202 45.833 0.00 0.00 32.27 3.66
544 647 1.513858 AAAATGGCCCATGGATGCAT 58.486 45.000 15.22 0.00 0.00 3.96
545 648 0.762418 AAATGGCCCATGGATGCATG 59.238 50.000 19.49 19.49 0.00 4.06
585 688 5.582950 ATGTATCCTAGCCAAGGCAATTA 57.417 39.130 14.40 0.00 46.10 1.40
593 1160 9.774071 ATCCTAGCCAAGGCAATTAATTATTAT 57.226 29.630 14.40 0.00 46.10 1.28
655 1222 0.251297 CCAGTGTCCAGCCCATGAAA 60.251 55.000 0.00 0.00 0.00 2.69
656 1223 1.617804 CCAGTGTCCAGCCCATGAAAT 60.618 52.381 0.00 0.00 0.00 2.17
657 1224 1.475280 CAGTGTCCAGCCCATGAAATG 59.525 52.381 0.00 0.00 46.21 2.32
734 1332 5.391310 GGATGCCAATTATGTAAGCTGATCG 60.391 44.000 0.00 0.00 0.00 3.69
739 1337 0.319555 TATGTAAGCTGATCGCCCGC 60.320 55.000 6.02 0.00 40.39 6.13
741 1339 2.106938 TAAGCTGATCGCCCGCAG 59.893 61.111 6.02 0.00 40.39 5.18
911 1524 3.220222 CTCCGGCAGCAGTATCCA 58.780 61.111 0.00 0.00 0.00 3.41
912 1525 1.068753 CTCCGGCAGCAGTATCCAG 59.931 63.158 0.00 0.00 0.00 3.86
913 1526 2.590007 CCGGCAGCAGTATCCAGC 60.590 66.667 0.00 0.00 0.00 4.85
914 1527 2.963854 CGGCAGCAGTATCCAGCG 60.964 66.667 0.00 0.00 35.48 5.18
915 1528 2.501128 GGCAGCAGTATCCAGCGA 59.499 61.111 0.00 0.00 35.48 4.93
916 1529 1.593750 GGCAGCAGTATCCAGCGAG 60.594 63.158 0.00 0.00 35.48 5.03
989 1602 6.453092 TGCTGTAGTTTAGTTTACAGAGGTC 58.547 40.000 14.02 0.00 46.10 3.85
992 1605 6.906659 TGTAGTTTAGTTTACAGAGGTCTCG 58.093 40.000 0.00 0.00 34.09 4.04
1215 1828 4.812476 TTCGCGGTGGCCATCTCG 62.812 66.667 22.30 22.30 35.02 4.04
1404 2017 2.405191 GGGTACTACGTCGCCGTC 59.595 66.667 0.00 0.00 46.28 4.79
1812 2425 4.467084 TTCCGCCCCATCGTGCTC 62.467 66.667 0.00 0.00 0.00 4.26
1902 2515 0.255033 TCTGCCTCTACCTCTACGCA 59.745 55.000 0.00 0.00 0.00 5.24
1939 2573 4.458256 TCCATCATAGCCATTGTCCATT 57.542 40.909 0.00 0.00 0.00 3.16
1951 2585 5.010719 GCCATTGTCCATTCTCATCATCATT 59.989 40.000 0.00 0.00 0.00 2.57
1986 2621 0.169009 GTGAAACCAAGATGAGCGCC 59.831 55.000 2.29 0.00 0.00 6.53
1995 2636 3.493350 CCAAGATGAGCGCCTAGTAACAT 60.493 47.826 2.29 0.00 0.00 2.71
2015 2656 7.940178 AACATTTTTCTCCGATTTTGTAACC 57.060 32.000 0.00 0.00 0.00 2.85
2046 2687 0.996462 TCTCGCGAAAACGGCATAAG 59.004 50.000 11.33 0.00 0.00 1.73
2079 2720 6.532365 TTCTTTCAAAAACCACACAAACAC 57.468 33.333 0.00 0.00 0.00 3.32
2089 2730 2.230025 CCACACAAACACAGTGGTTCAA 59.770 45.455 0.00 0.00 45.95 2.69
2125 2767 4.083696 CCTGAAATTTGCATTTGTTCAGCC 60.084 41.667 17.81 0.00 42.42 4.85
2167 2813 1.475280 CAATCTTGGCACTGTCCCATG 59.525 52.381 0.00 0.00 31.26 3.66
2171 2817 0.322456 TTGGCACTGTCCCATGCTAC 60.322 55.000 0.00 0.00 41.74 3.58
2181 2827 1.097232 CCCATGCTACCATGTGTGTG 58.903 55.000 3.34 0.00 45.90 3.82
2221 2867 7.910304 CACTGTAATTAGTGGCTTGATTAGTC 58.090 38.462 1.03 0.00 43.35 2.59
2242 2888 2.840651 CAGGGATTAGGGAGACACTGTT 59.159 50.000 0.00 0.00 0.00 3.16
2272 2918 1.307343 ACATGGGGTGAGAGGGAGG 60.307 63.158 0.00 0.00 0.00 4.30
2295 2941 0.606401 GGATCCAGTGGTGTGGTGTG 60.606 60.000 9.54 0.00 38.88 3.82
2345 2991 3.441922 CAGACTGACCGATCAAGAGAGAA 59.558 47.826 0.00 0.00 33.30 2.87
2433 3080 2.852714 TGGCCCCAGATGAATTTGAT 57.147 45.000 0.00 0.00 0.00 2.57
2439 3086 5.052481 GCCCCAGATGAATTTGATTTAAGC 58.948 41.667 0.00 0.00 0.00 3.09
2466 3113 4.187694 TGTTTTCTTGCCAAATTCACACC 58.812 39.130 0.00 0.00 0.00 4.16
2491 3138 4.225942 TCATTGATCTGGGGTATCCTATGC 59.774 45.833 0.00 0.00 36.20 3.14
2550 3282 7.927048 ACTTGTAAAAGCAAAAGTAGTAGTGG 58.073 34.615 0.00 0.00 31.26 4.00
2553 3285 8.961294 TGTAAAAGCAAAAGTAGTAGTGGTAA 57.039 30.769 0.00 0.00 0.00 2.85
2582 3321 8.572828 TGTTTAATTTGTGCAAATGTGAGTAG 57.427 30.769 10.45 0.00 40.57 2.57
2596 3335 6.976934 ATGTGAGTAGTTTGGGAATGTTTT 57.023 33.333 0.00 0.00 0.00 2.43
2678 3419 6.387041 AGATGATATGTTGCCTGATTTGTG 57.613 37.500 0.00 0.00 0.00 3.33
2679 3420 4.374843 TGATATGTTGCCTGATTTGTGC 57.625 40.909 0.00 0.00 0.00 4.57
2680 3421 4.018490 TGATATGTTGCCTGATTTGTGCT 58.982 39.130 0.00 0.00 0.00 4.40
2735 3478 7.566760 ACTTTTGTGTGACATGATTGACTTA 57.433 32.000 0.00 0.00 0.00 2.24
2736 3479 7.417612 ACTTTTGTGTGACATGATTGACTTAC 58.582 34.615 0.00 0.00 0.00 2.34
2756 3499 6.487668 ACTTACGTTTTATTGGTGCCTAACTT 59.512 34.615 0.00 0.00 0.00 2.66
2760 3503 6.655848 ACGTTTTATTGGTGCCTAACTTATGA 59.344 34.615 0.00 0.00 0.00 2.15
2763 3506 7.490962 TTTATTGGTGCCTAACTTATGATCG 57.509 36.000 0.00 0.00 0.00 3.69
2771 3514 6.701841 GTGCCTAACTTATGATCGAATCTGAA 59.298 38.462 0.00 0.00 0.00 3.02
2790 3533 2.819984 ATCTGGAAATGTGCGGGCGT 62.820 55.000 0.00 0.00 0.00 5.68
2793 3536 2.750888 GGAAATGTGCGGGCGTCTC 61.751 63.158 0.00 0.00 0.00 3.36
2794 3537 2.031919 AAATGTGCGGGCGTCTCA 59.968 55.556 0.00 0.00 0.00 3.27
2800 3543 2.434185 GCGGGCGTCTCACATGAA 60.434 61.111 0.00 0.00 0.00 2.57
2836 3579 7.043192 GGACAAGTGAAATGTGAAAATGTTCAG 60.043 37.037 0.00 0.00 44.44 3.02
2844 3587 9.515020 GAAATGTGAAAATGTTCAGTTTACTCA 57.485 29.630 0.00 0.00 44.44 3.41
2849 3592 8.798153 GTGAAAATGTTCAGTTTACTCAAACAG 58.202 33.333 0.00 0.00 44.44 3.16
2853 3596 5.123227 TGTTCAGTTTACTCAAACAGGAGG 58.877 41.667 3.36 0.00 45.44 4.30
2854 3597 5.123936 GTTCAGTTTACTCAAACAGGAGGT 58.876 41.667 3.36 0.00 45.44 3.85
2863 3606 2.258726 AACAGGAGGTTTTCGCGGC 61.259 57.895 6.13 0.00 35.82 6.53
2864 3607 3.788766 CAGGAGGTTTTCGCGGCG 61.789 66.667 17.70 17.70 0.00 6.46
2883 3626 3.544682 GGCGGCGAAAACAAACAATATAC 59.455 43.478 12.98 0.00 0.00 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.954382 CTGCTCATCACCCATCATTGG 59.046 52.381 0.00 0.00 43.23 3.16
3 4 1.954382 CCTGCTCATCACCCATCATTG 59.046 52.381 0.00 0.00 0.00 2.82
4 5 1.848388 TCCTGCTCATCACCCATCATT 59.152 47.619 0.00 0.00 0.00 2.57
6 7 1.142262 CATCCTGCTCATCACCCATCA 59.858 52.381 0.00 0.00 0.00 3.07
7 8 1.893544 CATCCTGCTCATCACCCATC 58.106 55.000 0.00 0.00 0.00 3.51
9 10 1.225426 GCATCCTGCTCATCACCCA 59.775 57.895 0.00 0.00 40.96 4.51
10 11 1.099879 GTGCATCCTGCTCATCACCC 61.100 60.000 0.00 0.00 45.31 4.61
11 12 0.393402 TGTGCATCCTGCTCATCACC 60.393 55.000 0.00 0.00 45.31 4.02
12 13 0.731417 GTGTGCATCCTGCTCATCAC 59.269 55.000 7.08 4.93 46.53 3.06
13 14 0.325602 TGTGTGCATCCTGCTCATCA 59.674 50.000 7.08 5.23 46.53 3.07
14 15 1.333931 CATGTGTGCATCCTGCTCATC 59.666 52.381 7.08 3.14 46.53 2.92
15 16 1.389555 CATGTGTGCATCCTGCTCAT 58.610 50.000 7.08 3.96 46.53 2.90
16 17 2.862738 CATGTGTGCATCCTGCTCA 58.137 52.632 0.00 0.23 45.31 4.26
27 28 2.105006 AGCTACTGGAAGCATGTGTG 57.895 50.000 6.97 0.00 45.30 3.82
62 63 1.636003 AGGAAGGGGACACAGAAATCC 59.364 52.381 0.00 0.00 0.00 3.01
66 67 0.768221 AGCAGGAAGGGGACACAGAA 60.768 55.000 0.00 0.00 0.00 3.02
145 146 2.198304 ATCAACCGGCCCTCAGGTTC 62.198 60.000 9.61 0.00 46.87 3.62
178 192 0.250252 TCCGAATTCTGTGTGCAGCA 60.250 50.000 3.52 0.00 42.29 4.41
225 239 1.000896 GGTGACATTGGAGGGTGGG 60.001 63.158 0.00 0.00 0.00 4.61
255 269 2.036098 TTGCATGCACCCCCTGAG 59.964 61.111 22.58 0.00 0.00 3.35
263 277 1.202817 TGTGATGATGGTTGCATGCAC 59.797 47.619 22.58 15.35 0.00 4.57
272 290 1.352017 TCTTGCTGGTGTGATGATGGT 59.648 47.619 0.00 0.00 0.00 3.55
334 382 6.239120 CCACAAAACAATCTCAGGATCAAGTT 60.239 38.462 0.00 0.00 0.00 2.66
343 395 5.710513 TTGGATCCACAAAACAATCTCAG 57.289 39.130 15.91 0.00 0.00 3.35
373 425 0.822121 GTGGGTTTGTTTCTCGGCCT 60.822 55.000 0.00 0.00 0.00 5.19
377 429 0.466555 TGGGGTGGGTTTGTTTCTCG 60.467 55.000 0.00 0.00 0.00 4.04
378 430 1.686587 CTTGGGGTGGGTTTGTTTCTC 59.313 52.381 0.00 0.00 0.00 2.87
390 442 2.165030 GAGCATTTGACATCTTGGGGTG 59.835 50.000 0.00 0.00 0.00 4.61
391 443 2.225091 TGAGCATTTGACATCTTGGGGT 60.225 45.455 0.00 0.00 0.00 4.95
412 464 1.792757 ATGGGGCAGTGATGTGTGGT 61.793 55.000 0.00 0.00 0.00 4.16
417 469 1.895131 GTGAAAATGGGGCAGTGATGT 59.105 47.619 0.00 0.00 0.00 3.06
445 497 2.677914 CTGGTTTGGGGGTTTCTCTTT 58.322 47.619 0.00 0.00 0.00 2.52
447 499 0.178961 GCTGGTTTGGGGGTTTCTCT 60.179 55.000 0.00 0.00 0.00 3.10
467 519 3.076621 TGTTTGTATCTTCTGGCAGCTG 58.923 45.455 10.11 10.11 0.00 4.24
468 520 3.341823 CTGTTTGTATCTTCTGGCAGCT 58.658 45.455 10.34 0.00 0.00 4.24
469 521 2.159462 GCTGTTTGTATCTTCTGGCAGC 60.159 50.000 10.34 0.00 40.66 5.25
470 522 3.076621 TGCTGTTTGTATCTTCTGGCAG 58.923 45.455 8.58 8.58 0.00 4.85
489 553 4.214971 ACAAATCTGATGTGTTGTCTCTGC 59.785 41.667 7.66 0.00 28.08 4.26
518 582 3.571590 TCCATGGGCCATTTTATGTACC 58.428 45.455 18.46 0.00 0.00 3.34
619 1186 1.746787 CTGGTGTGTGTATGCATGCAT 59.253 47.619 33.92 33.92 40.19 3.96
620 1187 1.166989 CTGGTGTGTGTATGCATGCA 58.833 50.000 25.04 25.04 0.00 3.96
621 1188 1.135603 CACTGGTGTGTGTATGCATGC 60.136 52.381 11.82 11.82 39.24 4.06
622 1189 2.905959 CACTGGTGTGTGTATGCATG 57.094 50.000 10.16 0.00 39.24 4.06
665 1232 9.927081 AATCCATTCCATTTTAGAGTACTTCAT 57.073 29.630 0.00 0.00 0.00 2.57
666 1233 9.177608 CAATCCATTCCATTTTAGAGTACTTCA 57.822 33.333 0.00 0.00 0.00 3.02
667 1234 8.624776 CCAATCCATTCCATTTTAGAGTACTTC 58.375 37.037 0.00 0.00 0.00 3.01
668 1235 8.116026 ACCAATCCATTCCATTTTAGAGTACTT 58.884 33.333 0.00 0.00 0.00 2.24
669 1236 7.643123 ACCAATCCATTCCATTTTAGAGTACT 58.357 34.615 0.00 0.00 0.00 2.73
670 1237 7.881775 ACCAATCCATTCCATTTTAGAGTAC 57.118 36.000 0.00 0.00 0.00 2.73
671 1238 8.778059 ACTACCAATCCATTCCATTTTAGAGTA 58.222 33.333 0.00 0.00 0.00 2.59
672 1239 7.643123 ACTACCAATCCATTCCATTTTAGAGT 58.357 34.615 0.00 0.00 0.00 3.24
673 1240 7.229506 GGACTACCAATCCATTCCATTTTAGAG 59.770 40.741 0.00 0.00 36.15 2.43
674 1241 7.060421 GGACTACCAATCCATTCCATTTTAGA 58.940 38.462 0.00 0.00 36.15 2.10
675 1242 6.833416 TGGACTACCAATCCATTCCATTTTAG 59.167 38.462 0.00 0.00 43.91 1.85
686 1253 0.911769 CTGGCTGGACTACCAATCCA 59.088 55.000 0.00 0.00 46.32 3.41
739 1337 1.409427 GGGACTAATCTCCGTGTCCTG 59.591 57.143 10.28 0.00 45.85 3.86
741 1339 1.136500 GTGGGACTAATCTCCGTGTCC 59.864 57.143 0.00 0.00 45.86 4.02
748 1346 0.389757 GGCGAGGTGGGACTAATCTC 59.610 60.000 0.00 0.00 0.00 2.75
750 1348 1.335132 TGGGCGAGGTGGGACTAATC 61.335 60.000 0.00 0.00 0.00 1.75
876 1474 2.441410 GAGCTGGGGAAGAAAAGGAAG 58.559 52.381 0.00 0.00 0.00 3.46
906 1519 2.897922 CTCGCTCGCTCGCTGGATA 61.898 63.158 0.00 0.00 0.00 2.59
907 1520 4.263209 CTCGCTCGCTCGCTGGAT 62.263 66.667 0.00 0.00 0.00 3.41
958 1571 1.616865 ACTAAACTACAGCAGACGCCA 59.383 47.619 0.00 0.00 39.83 5.69
962 1575 6.586844 CCTCTGTAAACTAAACTACAGCAGAC 59.413 42.308 4.69 0.00 43.10 3.51
963 1576 6.267014 ACCTCTGTAAACTAAACTACAGCAGA 59.733 38.462 4.69 0.00 43.10 4.26
1245 1858 4.778415 CAGGGACGCAGGTCGACG 62.778 72.222 9.92 0.00 44.39 5.12
1257 1870 4.020617 CGCCAGAACTGCCAGGGA 62.021 66.667 0.00 0.00 0.00 4.20
1782 2395 2.864931 GCGGAAGATGAAGAGCGCG 61.865 63.158 0.00 0.00 0.00 6.86
1902 2515 1.489481 TGGATCAGTCGAGCTTCCAT 58.511 50.000 0.00 0.00 31.10 3.41
1995 2636 6.718522 AAGGGTTACAAAATCGGAGAAAAA 57.281 33.333 0.00 0.00 43.58 1.94
2079 2720 6.152323 AGGAGAATGAATGAATTGAACCACTG 59.848 38.462 0.00 0.00 0.00 3.66
2089 2730 7.617225 TGCAAATTTCAGGAGAATGAATGAAT 58.383 30.769 0.00 0.00 38.90 2.57
2125 2767 4.709840 CTCACCCACTGAGCTTGG 57.290 61.111 0.00 0.00 40.23 3.61
2137 2779 2.030805 GTGCCAAGATTGTGAACTCACC 60.031 50.000 7.37 0.00 45.88 4.02
2167 2813 6.018751 CACATACTAATCACACACATGGTAGC 60.019 42.308 0.00 0.00 0.00 3.58
2171 2817 5.874261 TCACACATACTAATCACACACATGG 59.126 40.000 0.00 0.00 0.00 3.66
2209 2855 4.505742 CCCTAATCCCTGACTAATCAAGCC 60.506 50.000 0.00 0.00 33.30 4.35
2221 2867 2.472029 ACAGTGTCTCCCTAATCCCTG 58.528 52.381 0.00 0.00 0.00 4.45
2242 2888 2.440147 CCATGTGCCTTCCACCCA 59.560 61.111 0.00 0.00 44.01 4.51
2272 2918 1.002134 CACACCACTGGATCCCACC 60.002 63.158 9.90 0.00 0.00 4.61
2295 2941 4.129737 CCATGCACAGCTGCTGCC 62.130 66.667 28.39 19.61 44.57 4.85
2345 2991 4.142381 GCGGTGGCAATATTTTTCTCTCTT 60.142 41.667 0.00 0.00 39.62 2.85
2433 3080 5.911752 TGGCAAGAAAACAATGAGCTTAAA 58.088 33.333 0.00 0.00 0.00 1.52
2439 3086 6.258287 TGTGAATTTGGCAAGAAAACAATGAG 59.742 34.615 0.00 0.00 0.00 2.90
2466 3113 4.923516 AGGATACCCCAGATCAATGATG 57.076 45.455 0.00 0.00 37.41 3.07
2656 3397 4.980434 GCACAAATCAGGCAACATATCATC 59.020 41.667 0.00 0.00 41.41 2.92
2659 3400 4.644103 AGCACAAATCAGGCAACATATC 57.356 40.909 0.00 0.00 41.41 1.63
2735 3478 6.655848 TCATAAGTTAGGCACCAATAAAACGT 59.344 34.615 0.00 0.00 0.00 3.99
2736 3479 7.079182 TCATAAGTTAGGCACCAATAAAACG 57.921 36.000 0.00 0.00 0.00 3.60
2756 3499 8.152898 ACATTTCCAGATTCAGATTCGATCATA 58.847 33.333 0.00 0.00 0.00 2.15
2760 3503 5.008415 GCACATTTCCAGATTCAGATTCGAT 59.992 40.000 0.00 0.00 0.00 3.59
2763 3506 4.497006 CCGCACATTTCCAGATTCAGATTC 60.497 45.833 0.00 0.00 0.00 2.52
2771 3514 2.114670 CGCCCGCACATTTCCAGAT 61.115 57.895 0.00 0.00 0.00 2.90
2800 3543 6.762661 CACATTTCACTTGTCCAATCCTTTTT 59.237 34.615 0.00 0.00 0.00 1.94
2804 3547 4.728772 TCACATTTCACTTGTCCAATCCT 58.271 39.130 0.00 0.00 0.00 3.24
2808 3551 6.638610 ACATTTTCACATTTCACTTGTCCAA 58.361 32.000 0.00 0.00 0.00 3.53
2809 3552 6.219417 ACATTTTCACATTTCACTTGTCCA 57.781 33.333 0.00 0.00 0.00 4.02
2813 3556 7.760131 ACTGAACATTTTCACATTTCACTTG 57.240 32.000 0.00 0.00 36.79 3.16
2816 3559 9.301153 AGTAAACTGAACATTTTCACATTTCAC 57.699 29.630 3.48 2.75 36.79 3.18
2817 3560 9.515020 GAGTAAACTGAACATTTTCACATTTCA 57.485 29.630 3.48 0.00 36.79 2.69
2818 3561 9.515020 TGAGTAAACTGAACATTTTCACATTTC 57.485 29.630 3.48 0.00 36.79 2.17
2819 3562 9.868277 TTGAGTAAACTGAACATTTTCACATTT 57.132 25.926 0.00 0.00 36.79 2.32
2820 3563 9.868277 TTTGAGTAAACTGAACATTTTCACATT 57.132 25.926 0.00 0.00 36.79 2.71
2821 3564 9.301153 GTTTGAGTAAACTGAACATTTTCACAT 57.699 29.630 0.00 0.00 42.26 3.21
2822 3565 8.300286 TGTTTGAGTAAACTGAACATTTTCACA 58.700 29.630 4.76 0.00 45.06 3.58
2836 3579 5.507974 CGAAAACCTCCTGTTTGAGTAAAC 58.492 41.667 0.00 0.00 46.39 2.01
2863 3606 4.639959 TCGTATATTGTTTGTTTTCGCCG 58.360 39.130 0.00 0.00 0.00 6.46
2864 3607 7.404203 AGTATCGTATATTGTTTGTTTTCGCC 58.596 34.615 0.00 0.00 0.00 5.54
2865 3608 8.816204 AAGTATCGTATATTGTTTGTTTTCGC 57.184 30.769 0.00 0.00 0.00 4.70
2883 3626 0.579630 TTGCGGCGCATTAAGTATCG 59.420 50.000 36.69 0.25 38.76 2.92


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

AutoCloner maintained by Alex Coulton.