Multiple sequence alignment - TraesCS2D01G305600

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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 TraesCS2D01G305600 chr2D 100.000 5482 0 0 1 5482 391393148 391387667 0.000000e+00 10124
1 TraesCS2D01G305600 chr2A 95.608 2459 82 15 3039 5482 528118138 528115691 0.000000e+00 3919
2 TraesCS2D01G305600 chr2A 89.907 1397 87 28 898 2253 528119519 528118136 0.000000e+00 1749
3 TraesCS2D01G305600 chr2A 96.268 911 27 5 1 906 528122935 528122027 0.000000e+00 1487
4 TraesCS2D01G305600 chr2A 97.580 785 12 2 2253 3033 578390480 578391261 0.000000e+00 1338
5 TraesCS2D01G305600 chr2B 91.314 2291 150 22 1 2253 462950715 462948436 0.000000e+00 3083
6 TraesCS2D01G305600 chr2B 96.631 1662 53 3 3039 4698 462948438 462946778 0.000000e+00 2756
7 TraesCS2D01G305600 chr2B 87.719 171 13 4 5248 5411 462946436 462946267 5.600000e-45 193
8 TraesCS2D01G305600 chr2B 92.437 119 7 2 4829 4947 462946667 462946551 9.440000e-38 169
9 TraesCS2D01G305600 chr2B 97.500 80 2 0 4744 4823 462946779 462946700 2.660000e-28 137
10 TraesCS2D01G305600 chr6D 97.707 785 14 1 2253 3033 160204397 160205181 0.000000e+00 1347
11 TraesCS2D01G305600 chr6D 97.452 785 16 1 2253 3033 306494819 306495603 0.000000e+00 1336
12 TraesCS2D01G305600 chr6A 97.707 785 14 3 2253 3033 410901510 410902294 0.000000e+00 1347
13 TraesCS2D01G305600 chr4D 97.710 786 13 2 2253 3033 242938969 242938184 0.000000e+00 1347
14 TraesCS2D01G305600 chr1D 97.580 785 15 3 2253 3033 223524576 223523792 0.000000e+00 1341
15 TraesCS2D01G305600 chr1A 97.583 786 12 3 2252 3033 292063132 292062350 0.000000e+00 1339
16 TraesCS2D01G305600 chr7A 97.452 785 16 3 2253 3033 109351960 109351176 0.000000e+00 1336
17 TraesCS2D01G305600 chr5A 97.452 785 16 3 2253 3033 483276585 483275801 0.000000e+00 1336


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 TraesCS2D01G305600 chr2D 391387667 391393148 5481 True 10124.0 10124 100.000000 1 5482 1 chr2D.!!$R1 5481
1 TraesCS2D01G305600 chr2A 528115691 528122935 7244 True 2385.0 3919 93.927667 1 5482 3 chr2A.!!$R1 5481
2 TraesCS2D01G305600 chr2A 578390480 578391261 781 False 1338.0 1338 97.580000 2253 3033 1 chr2A.!!$F1 780
3 TraesCS2D01G305600 chr2B 462946267 462950715 4448 True 1267.6 3083 93.120200 1 5411 5 chr2B.!!$R1 5410
4 TraesCS2D01G305600 chr6D 160204397 160205181 784 False 1347.0 1347 97.707000 2253 3033 1 chr6D.!!$F1 780
5 TraesCS2D01G305600 chr6D 306494819 306495603 784 False 1336.0 1336 97.452000 2253 3033 1 chr6D.!!$F2 780
6 TraesCS2D01G305600 chr6A 410901510 410902294 784 False 1347.0 1347 97.707000 2253 3033 1 chr6A.!!$F1 780
7 TraesCS2D01G305600 chr4D 242938184 242938969 785 True 1347.0 1347 97.710000 2253 3033 1 chr4D.!!$R1 780
8 TraesCS2D01G305600 chr1D 223523792 223524576 784 True 1341.0 1341 97.580000 2253 3033 1 chr1D.!!$R1 780
9 TraesCS2D01G305600 chr1A 292062350 292063132 782 True 1339.0 1339 97.583000 2252 3033 1 chr1A.!!$R1 781
10 TraesCS2D01G305600 chr7A 109351176 109351960 784 True 1336.0 1336 97.452000 2253 3033 1 chr7A.!!$R1 780
11 TraesCS2D01G305600 chr5A 483275801 483276585 784 True 1336.0 1336 97.452000 2253 3033 1 chr5A.!!$R1 780

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
868 869 0.887933 GAGAGAGAGATCCCGATGCC 59.112 60.000 0.00 0.0 0.00 4.40 F
1751 4325 0.101759 ATGGCATTCATCACTTGCGC 59.898 50.000 0.00 0.0 37.25 6.09 F
1851 4425 0.615331 GATGTGAGGTCAGCTCCCAA 59.385 55.000 0.25 0.0 0.00 4.12 F
2678 5255 1.068083 ATACGCATCTCCGCCACAG 59.932 57.895 0.00 0.0 0.00 3.66 F
2951 5535 1.621733 AGGCTAACCTCCTCCTCCTA 58.378 55.000 0.00 0.0 46.34 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2066 4641 0.031010 AGGCGAGATAAGGGAAGGGT 60.031 55.000 0.0 0.0 0.00 4.34 R
2678 5255 2.412847 GGCGACATGTTCAACAGTTAGC 60.413 50.000 0.0 0.0 0.00 3.09 R
2951 5535 4.321527 GCGGTTTCAGTACTACTAGGTGTT 60.322 45.833 0.0 0.0 0.00 3.32 R
4306 6895 0.662374 CACACAGGTCCACGTCGTAC 60.662 60.000 0.0 0.0 0.00 3.67 R
4562 7155 2.029728 GCAACAATCTAGCTACTGCACG 59.970 50.000 0.0 0.0 42.74 5.34 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
91 92 5.220989 CCCAGCAGTATTCTCAAATGTGATG 60.221 44.000 0.00 0.00 31.85 3.07
349 350 1.664965 GTTGGAGAAGTCGCACGCT 60.665 57.895 0.00 0.00 0.00 5.07
868 869 0.887933 GAGAGAGAGATCCCGATGCC 59.112 60.000 0.00 0.00 0.00 4.40
907 3433 6.751157 TCGTCTTTGTTTTCAGTATACTCCA 58.249 36.000 1.26 0.00 0.00 3.86
913 3439 8.528044 TTTGTTTTCAGTATACTCCAAGGTTT 57.472 30.769 1.26 0.00 0.00 3.27
975 3502 0.921347 CGTTCGAAGGCGTATTCCTG 59.079 55.000 4.73 0.00 36.38 3.86
984 3511 1.820581 CGTATTCCTGGGAAGGCGA 59.179 57.895 17.15 0.00 37.37 5.54
1002 3529 0.392060 GATTTTGGGACGGCGTACCT 60.392 55.000 38.50 21.52 37.45 3.08
1045 3572 1.166531 AAGCAACCACCACTTCGCTC 61.167 55.000 0.00 0.00 0.00 5.03
1047 3574 2.030562 AACCACCACTTCGCTCCG 59.969 61.111 0.00 0.00 0.00 4.63
1068 3595 4.427661 GTGCTCTGCCGCTCTCGT 62.428 66.667 0.00 0.00 0.00 4.18
1080 3607 2.246789 CGCTCTCGTTCTCTCTGTTTC 58.753 52.381 0.00 0.00 0.00 2.78
1120 3647 4.183865 GCTGGGTTAAAAGATGGATTTGC 58.816 43.478 0.00 0.00 0.00 3.68
1140 3670 1.633774 TCTCTGGGAGAGTGGTTCAC 58.366 55.000 0.00 0.00 42.83 3.18
1171 3701 0.250513 GTCCTGGAGAGGCGTCAAAT 59.749 55.000 9.41 0.00 39.57 2.32
1308 3841 1.574263 AGAAGAGGAAGGGGTACAGC 58.426 55.000 0.00 0.00 0.00 4.40
1332 3865 3.136750 CCGCCTGATGGAGAGGAG 58.863 66.667 0.00 0.00 34.95 3.69
1333 3866 1.456518 CCGCCTGATGGAGAGGAGA 60.457 63.158 0.00 0.00 34.95 3.71
1334 3867 1.739049 CGCCTGATGGAGAGGAGAC 59.261 63.158 0.00 0.00 34.95 3.36
1343 3876 2.103373 TGGAGAGGAGACGAAAGATGG 58.897 52.381 0.00 0.00 0.00 3.51
1346 3879 1.205893 AGAGGAGACGAAAGATGGTGC 59.794 52.381 0.00 0.00 0.00 5.01
1348 3881 1.625818 AGGAGACGAAAGATGGTGCTT 59.374 47.619 0.00 0.00 0.00 3.91
1366 3899 4.830046 GTGCTTCTGATGAGATAGAGGGTA 59.170 45.833 0.00 0.00 0.00 3.69
1367 3900 5.480073 GTGCTTCTGATGAGATAGAGGGTAT 59.520 44.000 0.00 0.00 0.00 2.73
1397 3930 2.066393 TTGATGGCGAGGAGGAGGG 61.066 63.158 0.00 0.00 0.00 4.30
1416 3949 3.532155 GGCGACGAGGAGGATGCT 61.532 66.667 0.00 0.00 42.52 3.79
1474 4007 6.925165 TGATGTTTCATTGCTTTCTTTTCCTC 59.075 34.615 0.00 0.00 0.00 3.71
1475 4008 5.600696 TGTTTCATTGCTTTCTTTTCCTCC 58.399 37.500 0.00 0.00 0.00 4.30
1476 4009 5.128499 TGTTTCATTGCTTTCTTTTCCTCCA 59.872 36.000 0.00 0.00 0.00 3.86
1482 4043 1.398390 CTTTCTTTTCCTCCATCGCCG 59.602 52.381 0.00 0.00 0.00 6.46
1505 4066 3.054065 GTGGAAGGATGGAGGAATTCTGT 60.054 47.826 5.23 0.00 0.00 3.41
1533 4098 2.098770 GCTCCATTTCTTCCATCACTGC 59.901 50.000 0.00 0.00 0.00 4.40
1536 4101 2.821378 CCATTTCTTCCATCACTGCACA 59.179 45.455 0.00 0.00 0.00 4.57
1630 4204 5.880332 ACTATAACATGCACCGTCAGAAAAT 59.120 36.000 0.00 0.00 0.00 1.82
1709 4283 3.616956 TGTCACTCTAATTCAGGCCAG 57.383 47.619 5.01 0.00 0.00 4.85
1710 4284 2.906389 TGTCACTCTAATTCAGGCCAGT 59.094 45.455 5.01 0.00 0.00 4.00
1751 4325 0.101759 ATGGCATTCATCACTTGCGC 59.898 50.000 0.00 0.00 37.25 6.09
1840 4414 2.815503 TGCAGTGATGTTTGATGTGAGG 59.184 45.455 0.00 0.00 0.00 3.86
1851 4425 0.615331 GATGTGAGGTCAGCTCCCAA 59.385 55.000 0.25 0.00 0.00 4.12
1887 4461 1.202770 CCCAATCCCTCGGTTGGATAC 60.203 57.143 3.67 0.00 46.15 2.24
1972 4547 9.466497 AGATATGTGATTTGTTACTTGATTGGT 57.534 29.630 0.00 0.00 0.00 3.67
2066 4641 3.407083 TGGCGCATGGGGCTAGAA 61.407 61.111 31.60 13.16 41.33 2.10
2133 4710 2.286833 TCTAAAAACACGAGTGCAGTGC 59.713 45.455 8.58 8.58 42.94 4.40
2187 4764 9.851686 TTTATGTAAGTTGAATCTATGCAGGAT 57.148 29.630 0.00 0.00 0.00 3.24
2220 4797 7.645058 TCTTTGAACAAAAAGATTCACTCCT 57.355 32.000 1.76 0.00 40.41 3.69
2274 4851 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
2297 4874 3.634910 GCCTTTAGTCCCAAACAAGTTGA 59.365 43.478 10.54 0.00 39.87 3.18
2397 4974 3.501349 CCCTGTCCATAGCTAGCTCTTA 58.499 50.000 23.26 3.87 0.00 2.10
2418 4995 6.846505 TCTTAGGTGATACTCCAATCCTTCAT 59.153 38.462 0.00 0.00 0.00 2.57
2678 5255 1.068083 ATACGCATCTCCGCCACAG 59.932 57.895 0.00 0.00 0.00 3.66
2950 5534 2.427016 AGGCTAACCTCCTCCTCCT 58.573 57.895 0.00 0.00 46.34 3.69
2951 5535 1.621733 AGGCTAACCTCCTCCTCCTA 58.378 55.000 0.00 0.00 46.34 2.94
3033 5617 3.181455 ACCCTTTTGATTCCAAGGTTTGC 60.181 43.478 9.71 0.00 38.37 3.68
3034 5618 3.181456 CCCTTTTGATTCCAAGGTTTGCA 60.181 43.478 9.71 0.00 38.37 4.08
3035 5619 4.060205 CCTTTTGATTCCAAGGTTTGCAG 58.940 43.478 4.29 0.00 35.67 4.41
3036 5620 4.443315 CCTTTTGATTCCAAGGTTTGCAGT 60.443 41.667 4.29 0.00 35.67 4.40
3037 5621 4.751767 TTTGATTCCAAGGTTTGCAGTT 57.248 36.364 0.00 0.00 33.23 3.16
3038 5622 3.731652 TGATTCCAAGGTTTGCAGTTG 57.268 42.857 0.00 0.00 0.00 3.16
3039 5623 3.030291 TGATTCCAAGGTTTGCAGTTGT 58.970 40.909 0.00 0.00 0.00 3.32
3075 5659 7.795482 TTATCCACCGAGTAACCAAATAATG 57.205 36.000 0.00 0.00 0.00 1.90
3080 5664 6.372103 CCACCGAGTAACCAAATAATGTGTTA 59.628 38.462 0.00 0.00 0.00 2.41
3447 6031 7.274250 GCAAATTTAGAAATCAGAGTTCGCATT 59.726 33.333 4.98 2.86 0.00 3.56
3498 6082 8.037166 TCAATATTAGTACAGGCATATGCTGAG 58.963 37.037 26.12 17.80 41.70 3.35
3620 6206 9.629878 TGTTTCAAGGGTGAGTAACTTTAAATA 57.370 29.630 0.00 0.00 34.49 1.40
3665 6251 1.734465 GCAGGCACACAACTGATACTC 59.266 52.381 0.00 0.00 36.86 2.59
3670 6256 2.599082 GCACACAACTGATACTCGTAGC 59.401 50.000 0.00 0.00 0.00 3.58
3688 6274 7.334421 ACTCGTAGCTGACATAATTTTCATGTT 59.666 33.333 0.00 0.00 36.76 2.71
3839 6425 9.208022 TGTATTAGTTGCTGATATCATTAGTGC 57.792 33.333 5.72 6.41 0.00 4.40
3947 6535 5.065090 TCCAACTATTGATGACATTGAAGCG 59.935 40.000 0.00 0.00 0.00 4.68
4171 6760 2.065799 ACTTTGAAGGTGTCATCCCCT 58.934 47.619 0.00 0.00 35.70 4.79
4306 6895 1.197721 GGTGTGTTCAGGCTCATTTCG 59.802 52.381 0.00 0.00 0.00 3.46
4661 7254 0.035458 CACCTGAACTGTCCCTGTCC 59.965 60.000 0.00 0.00 0.00 4.02
4693 7290 3.690460 CCCTCTTGTTTGCCTCTTACAT 58.310 45.455 0.00 0.00 0.00 2.29
4835 7458 1.005037 TTCGACCGAATGTGCTGCT 60.005 52.632 0.00 0.00 0.00 4.24
4890 7513 7.604657 AGACCAGCTAGTATAAATAAGCAGT 57.395 36.000 0.00 0.00 37.44 4.40
5137 7763 5.189928 TGGTGTTTCGCATATTGAACCTAT 58.810 37.500 0.00 0.00 0.00 2.57
5139 7765 5.295787 GGTGTTTCGCATATTGAACCTATGA 59.704 40.000 0.00 0.00 0.00 2.15
5190 7816 5.128499 TCTTTTGAGGGAAAAAGATTGTGCA 59.872 36.000 7.78 0.00 46.26 4.57
5317 7969 6.873076 TCAGATTGTGCAACTTGTTTCTTTTT 59.127 30.769 0.00 0.00 38.04 1.94
5402 8061 7.518211 GCACACCTTAAAAACCTAAAATTGCAG 60.518 37.037 0.00 0.00 0.00 4.41
5420 8079 9.520204 AAATTGCAGATAATGTAGCAAATACAC 57.480 29.630 2.66 0.00 47.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
349 350 0.321564 CCGTCTGCAAGTCCAATCCA 60.322 55.000 0.00 0.00 33.76 3.41
405 406 0.173708 CGCCTCCTTCTACTCCACAC 59.826 60.000 0.00 0.00 0.00 3.82
508 509 2.997315 TGCTCCCACCTCCTGTCG 60.997 66.667 0.00 0.00 0.00 4.35
868 869 1.135083 AGACGAACGCAATCTAGTGGG 60.135 52.381 0.00 0.00 37.47 4.61
907 3433 5.451381 CCGCTTCCTTAGAAAACAAAACCTT 60.451 40.000 0.00 0.00 0.00 3.50
913 3439 2.158579 ACCCCGCTTCCTTAGAAAACAA 60.159 45.455 0.00 0.00 0.00 2.83
975 3502 1.654023 CGTCCCAAAATCGCCTTCCC 61.654 60.000 0.00 0.00 0.00 3.97
984 3511 0.037160 AAGGTACGCCGTCCCAAAAT 59.963 50.000 0.54 0.00 40.50 1.82
1002 3529 9.158233 CTTATCAGAGTTATCGGTTGGTTAAAA 57.842 33.333 0.00 0.00 0.00 1.52
1152 3682 0.250513 ATTTGACGCCTCTCCAGGAC 59.749 55.000 0.00 0.00 43.65 3.85
1165 3695 2.869192 GAGGGAATCTCAGCGATTTGAC 59.131 50.000 0.00 0.00 42.31 3.18
1171 3701 1.762460 GGGGAGGGAATCTCAGCGA 60.762 63.158 0.00 0.00 44.19 4.93
1175 3705 0.253347 AAGCAGGGGAGGGAATCTCA 60.253 55.000 0.00 0.00 44.19 3.27
1182 3712 1.793820 AAGAACCAAGCAGGGGAGGG 61.794 60.000 0.04 0.00 43.89 4.30
1187 3717 2.278330 GCCCAAGAACCAAGCAGGG 61.278 63.158 0.00 0.00 43.89 4.45
1332 3865 2.688507 TCAGAAGCACCATCTTTCGTC 58.311 47.619 0.00 0.00 0.00 4.20
1333 3866 2.839486 TCAGAAGCACCATCTTTCGT 57.161 45.000 0.00 0.00 0.00 3.85
1334 3867 3.264947 TCATCAGAAGCACCATCTTTCG 58.735 45.455 0.00 0.00 0.00 3.46
1343 3876 3.640967 ACCCTCTATCTCATCAGAAGCAC 59.359 47.826 0.00 0.00 30.24 4.40
1346 3879 6.015918 ACCATACCCTCTATCTCATCAGAAG 58.984 44.000 0.00 0.00 30.24 2.85
1348 3881 5.575157 GACCATACCCTCTATCTCATCAGA 58.425 45.833 0.00 0.00 0.00 3.27
1366 3899 1.475751 GCCATCAACATCCTCGACCAT 60.476 52.381 0.00 0.00 0.00 3.55
1367 3900 0.107703 GCCATCAACATCCTCGACCA 60.108 55.000 0.00 0.00 0.00 4.02
1397 3930 3.917760 CATCCTCCTCGTCGCCCC 61.918 72.222 0.00 0.00 0.00 5.80
1403 3936 3.842923 CGCCAGCATCCTCCTCGT 61.843 66.667 0.00 0.00 0.00 4.18
1416 3949 2.507547 GCGTTACCGTCATCGCCA 60.508 61.111 0.00 0.00 42.33 5.69
1433 3966 7.874940 TGAAACATCACCAGAATACAGAAAAG 58.125 34.615 0.00 0.00 0.00 2.27
1474 4007 3.106986 ATCCTTCCACCGGCGATGG 62.107 63.158 16.07 16.07 38.71 3.51
1475 4008 1.889105 CATCCTTCCACCGGCGATG 60.889 63.158 9.30 0.00 0.00 3.84
1476 4009 2.505982 CATCCTTCCACCGGCGAT 59.494 61.111 9.30 0.00 0.00 4.58
1482 4043 2.511637 AGAATTCCTCCATCCTTCCACC 59.488 50.000 0.65 0.00 0.00 4.61
1505 4066 5.885352 TGATGGAAGAAATGGAGCGAAAATA 59.115 36.000 0.00 0.00 0.00 1.40
1533 4098 5.132502 TCCCCAAATGCTTCATAGTATGTG 58.867 41.667 9.94 5.92 33.00 3.21
1536 4101 5.074929 TGGATCCCCAAATGCTTCATAGTAT 59.925 40.000 9.90 0.00 40.09 2.12
1594 4162 8.373220 GGTGCATGTTATAGTACCTTATAACCT 58.627 37.037 16.51 8.67 42.11 3.50
1595 4163 7.330208 CGGTGCATGTTATAGTACCTTATAACC 59.670 40.741 16.51 7.28 42.11 2.85
1630 4204 3.370672 CACGCACATACAATCTACTGCAA 59.629 43.478 0.00 0.00 0.00 4.08
1709 4283 7.329226 CCATCTGTTCACAAATATTGTTCCAAC 59.671 37.037 0.00 0.00 43.23 3.77
1710 4284 7.377398 CCATCTGTTCACAAATATTGTTCCAA 58.623 34.615 0.00 0.00 43.23 3.53
1776 4350 5.811796 TGAAGCACCCAACTAAACTAGTA 57.188 39.130 0.00 0.00 38.26 1.82
1777 4351 4.699925 TGAAGCACCCAACTAAACTAGT 57.300 40.909 0.00 0.00 41.73 2.57
1778 4352 6.575162 ATTTGAAGCACCCAACTAAACTAG 57.425 37.500 0.00 0.00 0.00 2.57
1786 4360 4.037446 TGAAGTGTATTTGAAGCACCCAAC 59.963 41.667 0.00 0.00 33.96 3.77
1840 4414 6.299141 TCTTATTCCATAATTGGGAGCTGAC 58.701 40.000 0.00 0.00 43.81 3.51
1851 4425 6.513989 AGGGATTGGGGATCTTATTCCATAAT 59.486 38.462 0.00 0.00 37.53 1.28
1996 4571 6.685368 GCTTGATTAACTTTTTGTGGAGGGTT 60.685 38.462 0.00 0.00 0.00 4.11
2040 4615 0.604780 CCCATGCGCCAGATAGAAGG 60.605 60.000 4.18 0.00 0.00 3.46
2066 4641 0.031010 AGGCGAGATAAGGGAAGGGT 60.031 55.000 0.00 0.00 0.00 4.34
2133 4710 0.887933 ATTGCGCAACCCAGGTTTAG 59.112 50.000 27.64 0.00 36.00 1.85
2274 4851 2.227194 ACTTGTTTGGGACTAAAGGCG 58.773 47.619 0.00 0.00 0.00 5.52
2297 4874 2.468915 GGTTTCACCTCTAGCCTACCT 58.531 52.381 0.00 0.00 34.73 3.08
2397 4974 4.723789 ACATGAAGGATTGGAGTATCACCT 59.276 41.667 0.00 0.00 36.25 4.00
2418 4995 3.345414 GAGGAGTCCGTTAAGAGAGACA 58.655 50.000 2.76 0.00 0.00 3.41
2678 5255 2.412847 GGCGACATGTTCAACAGTTAGC 60.413 50.000 0.00 0.00 0.00 3.09
2949 5533 6.549952 CGGTTTCAGTACTACTAGGTGTTAG 58.450 44.000 0.00 0.00 35.39 2.34
2950 5534 5.106157 GCGGTTTCAGTACTACTAGGTGTTA 60.106 44.000 0.00 0.00 0.00 2.41
2951 5535 4.321527 GCGGTTTCAGTACTACTAGGTGTT 60.322 45.833 0.00 0.00 0.00 3.32
3239 5823 5.336134 GGTCAATGGTTAATGGCGTAAGTTT 60.336 40.000 0.00 0.00 41.68 2.66
3447 6031 9.688091 GATATATACCTAGTGGACATCTTCTCA 57.312 37.037 0.00 0.00 37.04 3.27
3498 6082 7.115378 CACATAAACAAGACAAATTCTGGAAGC 59.885 37.037 0.00 0.00 33.46 3.86
3665 6251 9.935682 ATTAACATGAAAATTATGTCAGCTACG 57.064 29.630 0.00 0.00 37.77 3.51
3839 6425 5.262588 AGGCTACAAAAAGACAACTTTGG 57.737 39.130 0.00 0.00 44.32 3.28
4171 6760 1.561643 GGATGACTCTCTCCACACCA 58.438 55.000 0.00 0.00 0.00 4.17
4306 6895 0.662374 CACACAGGTCCACGTCGTAC 60.662 60.000 0.00 0.00 0.00 3.67
4351 6940 2.419574 GGTCTGCTGCCGGTTTATCTTA 60.420 50.000 1.90 0.00 0.00 2.10
4562 7155 2.029728 GCAACAATCTAGCTACTGCACG 59.970 50.000 0.00 0.00 42.74 5.34
4661 7254 4.114794 CAAACAAGAGGGCAAAACTTCAG 58.885 43.478 0.00 0.00 0.00 3.02
4693 7290 4.910195 CAGGGAATGCTGCCATATAACTA 58.090 43.478 0.00 0.00 34.87 2.24
4742 7339 6.610830 TGTATATCAGGGCCAAATGAAACAAT 59.389 34.615 6.18 2.10 0.00 2.71
4835 7458 5.778241 TGTACTGGATCAACTTTCCTACTCA 59.222 40.000 0.00 0.00 34.17 3.41
4890 7513 7.252612 TCCTCTGGTCATGTTTATAAAGTCA 57.747 36.000 0.00 0.00 0.00 3.41
4897 7520 6.484288 TCAACATTCCTCTGGTCATGTTTAT 58.516 36.000 11.44 0.00 36.38 1.40
5153 7779 5.104982 TCCCTCAAAAGAAGTTGCACAATTT 60.105 36.000 0.00 0.00 0.00 1.82
5155 7781 3.960102 TCCCTCAAAAGAAGTTGCACAAT 59.040 39.130 0.00 0.00 0.00 2.71
5156 7782 3.360867 TCCCTCAAAAGAAGTTGCACAA 58.639 40.909 0.00 0.00 0.00 3.33
5190 7816 9.442047 CTATCTCAAATTAGTTGACCTGAAGTT 57.558 33.333 0.00 0.00 41.47 2.66
5317 7969 4.478206 TGCACAATCTTTTTCCCACAAA 57.522 36.364 0.00 0.00 0.00 2.83
5320 7972 5.526846 TGAAATTGCACAATCTTTTTCCCAC 59.473 36.000 0.00 0.00 0.00 4.61
5420 8079 4.209538 TGGATGTCCAGCTGGATATTTTG 58.790 43.478 36.64 10.81 44.61 2.44
5437 8096 5.224888 CAATGAGGTTGTTTTGTCTGGATG 58.775 41.667 0.00 0.00 33.01 3.51


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

AutoCloner maintained by Alex Coulton.