Multiple sequence alignment - TraesCS2A01G281600

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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 TraesCS2A01G281600 chr2A 100.000 4037 0 0 1 4037 470638096 470642132 0.000000e+00 7456.0
1 TraesCS2A01G281600 chr2B 93.944 3550 132 38 535 4037 418947605 418951118 0.000000e+00 5288.0
2 TraesCS2A01G281600 chr2B 86.857 525 26 14 21 524 418947042 418947544 7.630000e-152 547.0
3 TraesCS2A01G281600 chr2D 95.677 3169 81 20 615 3747 352703764 352706912 0.000000e+00 5042.0
4 TraesCS2A01G281600 chr2D 93.617 235 11 3 303 537 352703452 352703682 8.300000e-92 348.0
5 TraesCS2A01G281600 chr2D 88.652 282 20 2 3766 4037 352706965 352707244 2.330000e-87 333.0
6 TraesCS2A01G281600 chr2D 90.830 229 5 5 24 252 352702986 352703198 3.950000e-75 292.0
7 TraesCS2A01G281600 chr2D 81.481 108 7 9 3930 4026 363977833 363977938 4.330000e-10 76.8
8 TraesCS2A01G281600 chr7A 77.512 2130 387 61 991 3080 86048189 86050266 0.000000e+00 1195.0
9 TraesCS2A01G281600 chr7A 84.848 66 10 0 3928 3993 202995087 202995022 2.600000e-07 67.6
10 TraesCS2A01G281600 chr7D 77.460 2134 380 67 991 3080 84986118 84988194 0.000000e+00 1182.0
11 TraesCS2A01G281600 chr7B 77.172 2129 386 63 991 3080 34610041 34612108 0.000000e+00 1147.0
12 TraesCS2A01G281600 chr1A 89.655 87 8 1 3938 4024 568391287 568391202 4.270000e-20 110.0
13 TraesCS2A01G281600 chr3D 87.368 95 9 2 3934 4027 133538649 133538557 5.520000e-19 106.0
14 TraesCS2A01G281600 chr5D 84.615 91 11 2 3935 4024 482103361 482103273 2.000000e-13 87.9
15 TraesCS2A01G281600 chr5A 97.872 47 1 0 3937 3983 436352521 436352475 9.300000e-12 82.4
16 TraesCS2A01G281600 chr1B 94.000 50 3 0 3938 3987 110618687 110618638 4.330000e-10 76.8


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 TraesCS2A01G281600 chr2A 470638096 470642132 4036 False 7456.00 7456 100.0000 1 4037 1 chr2A.!!$F1 4036
1 TraesCS2A01G281600 chr2B 418947042 418951118 4076 False 2917.50 5288 90.4005 21 4037 2 chr2B.!!$F1 4016
2 TraesCS2A01G281600 chr2D 352702986 352707244 4258 False 1503.75 5042 92.1940 24 4037 4 chr2D.!!$F2 4013
3 TraesCS2A01G281600 chr7A 86048189 86050266 2077 False 1195.00 1195 77.5120 991 3080 1 chr7A.!!$F1 2089
4 TraesCS2A01G281600 chr7D 84986118 84988194 2076 False 1182.00 1182 77.4600 991 3080 1 chr7D.!!$F1 2089
5 TraesCS2A01G281600 chr7B 34610041 34612108 2067 False 1147.00 1147 77.1720 991 3080 1 chr7B.!!$F1 2089

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
531 755 0.037734 ATTCCAGTTCCAACGGGGTC 59.962 55.000 8.54 0.0 43.34 4.46 F
948 1256 0.744414 CGTAACTCCCGTCCCGACTA 60.744 60.000 0.00 0.0 0.00 2.59 F
951 1259 0.964358 AACTCCCGTCCCGACTAGTG 60.964 60.000 0.00 0.0 0.00 2.74 F
1836 2183 1.009108 CGAGCGTCTCAGCATCGAT 60.009 57.895 0.00 0.0 38.82 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1836 2183 1.367471 CTCCACACGCTGAACCTCA 59.633 57.895 0.00 0.00 0.00 3.86 R
2511 2858 3.633094 CTGGAGTGCACCGTCCTCG 62.633 68.421 21.87 11.78 33.57 4.63 R
2590 2937 5.433051 TCCAATGATCACCTAAAATCCTCCT 59.567 40.000 0.00 0.00 0.00 3.69 R
3099 3469 4.261155 CCAATCCAATACATGTAACCAGCG 60.261 45.833 10.14 0.00 0.00 5.18 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
17 18 3.475774 CCGGCGAACGTGTAGCAC 61.476 66.667 9.30 0.00 42.24 4.40
18 19 2.731721 CGGCGAACGTGTAGCACA 60.732 61.111 0.00 0.00 37.93 4.57
19 20 2.851104 GGCGAACGTGTAGCACAC 59.149 61.111 11.36 8.75 45.26 3.82
20 21 2.664436 GGCGAACGTGTAGCACACC 61.664 63.158 11.36 0.96 45.93 4.16
21 22 2.664436 GCGAACGTGTAGCACACCC 61.664 63.158 11.99 3.74 45.93 4.61
22 23 2.025418 CGAACGTGTAGCACACCCC 61.025 63.158 11.99 3.48 45.93 4.95
64 65 1.367471 GGAGCCTTTGGGTTTGCAC 59.633 57.895 0.00 0.00 31.55 4.57
65 66 1.115326 GGAGCCTTTGGGTTTGCACT 61.115 55.000 0.00 0.00 31.55 4.40
66 67 0.752658 GAGCCTTTGGGTTTGCACTT 59.247 50.000 0.00 0.00 31.55 3.16
67 68 0.465287 AGCCTTTGGGTTTGCACTTG 59.535 50.000 0.00 0.00 34.45 3.16
68 69 1.159713 GCCTTTGGGTTTGCACTTGC 61.160 55.000 0.00 0.00 36.88 4.01
166 167 5.307926 TCGTTACATACACACACGGATAA 57.692 39.130 0.00 0.00 0.00 1.75
167 168 5.707931 TCGTTACATACACACACGGATAAA 58.292 37.500 0.00 0.00 0.00 1.40
168 169 5.572511 TCGTTACATACACACACGGATAAAC 59.427 40.000 0.00 0.00 0.00 2.01
169 170 5.220265 CGTTACATACACACACGGATAAACC 60.220 44.000 0.00 0.00 0.00 3.27
201 202 5.316167 TGCTTCAAACATTCCTAGTGACAT 58.684 37.500 0.00 0.00 0.00 3.06
202 203 5.181811 TGCTTCAAACATTCCTAGTGACATG 59.818 40.000 0.00 0.00 0.00 3.21
204 205 6.621596 GCTTCAAACATTCCTAGTGACATGAC 60.622 42.308 0.00 0.00 0.00 3.06
205 206 5.863965 TCAAACATTCCTAGTGACATGACA 58.136 37.500 0.00 0.00 0.00 3.58
206 207 5.934043 TCAAACATTCCTAGTGACATGACAG 59.066 40.000 0.00 0.00 0.00 3.51
207 208 5.489792 AACATTCCTAGTGACATGACAGT 57.510 39.130 10.33 10.33 0.00 3.55
208 209 6.605471 AACATTCCTAGTGACATGACAGTA 57.395 37.500 11.41 11.41 0.00 2.74
209 210 6.605471 ACATTCCTAGTGACATGACAGTAA 57.395 37.500 12.68 2.53 0.00 2.24
212 213 8.198109 ACATTCCTAGTGACATGACAGTAATAC 58.802 37.037 12.68 0.00 0.00 1.89
219 220 7.027760 AGTGACATGACAGTAATACTAACACG 58.972 38.462 0.00 0.00 0.00 4.49
317 535 5.128827 AGTGATGCGAAGATTTACCCTAAGA 59.871 40.000 0.00 0.00 0.00 2.10
321 539 6.920569 TGCGAAGATTTACCCTAAGATTTC 57.079 37.500 0.00 0.00 0.00 2.17
326 544 9.989869 CGAAGATTTACCCTAAGATTTCTTTTC 57.010 33.333 0.00 0.00 37.40 2.29
374 592 2.996621 CTCTGATCAAGTTTGGACGGAC 59.003 50.000 0.00 0.00 0.00 4.79
414 632 2.715046 TGAGAGCATGGAAATGGTGAC 58.285 47.619 0.00 0.00 31.72 3.67
439 657 3.354467 GACGGGGATCTAATACGAGGAT 58.646 50.000 0.00 0.00 0.00 3.24
462 680 1.366679 AGACGTCGAGATCTACGCAA 58.633 50.000 16.14 0.00 42.74 4.85
491 709 2.357517 AGCGACCGCCAAGAACAG 60.358 61.111 11.03 0.00 43.17 3.16
531 755 0.037734 ATTCCAGTTCCAACGGGGTC 59.962 55.000 8.54 0.00 43.34 4.46
554 823 6.021153 GTCAGATTGCGCAATTTATTCTTCAC 60.021 38.462 34.24 20.68 0.00 3.18
570 839 7.971183 ATTCTTCACTAGGAGAGAAAAACAC 57.029 36.000 7.67 0.00 0.00 3.32
600 869 3.573538 TCGAGCTCGATACTACTCCTAGT 59.426 47.826 33.84 0.00 44.22 2.57
601 870 4.039004 TCGAGCTCGATACTACTCCTAGTT 59.961 45.833 33.84 0.00 44.22 2.24
602 871 4.150980 CGAGCTCGATACTACTCCTAGTTG 59.849 50.000 32.06 0.00 43.02 3.16
603 872 5.038651 AGCTCGATACTACTCCTAGTTGT 57.961 43.478 0.00 0.22 37.84 3.32
604 873 4.817464 AGCTCGATACTACTCCTAGTTGTG 59.183 45.833 4.72 0.00 35.14 3.33
605 874 4.023878 GCTCGATACTACTCCTAGTTGTGG 60.024 50.000 4.72 0.00 35.14 4.17
606 875 5.108187 TCGATACTACTCCTAGTTGTGGT 57.892 43.478 4.72 6.60 35.14 4.16
607 876 6.239217 TCGATACTACTCCTAGTTGTGGTA 57.761 41.667 9.69 9.69 35.14 3.25
608 877 6.653020 TCGATACTACTCCTAGTTGTGGTAA 58.347 40.000 10.79 0.00 35.14 2.85
609 878 6.765036 TCGATACTACTCCTAGTTGTGGTAAG 59.235 42.308 10.79 9.00 35.14 2.34
610 879 6.765036 CGATACTACTCCTAGTTGTGGTAAGA 59.235 42.308 10.79 0.00 35.14 2.10
611 880 7.041916 CGATACTACTCCTAGTTGTGGTAAGAG 60.042 44.444 10.79 0.61 35.14 2.85
612 881 6.137104 ACTACTCCTAGTTGTGGTAAGAGA 57.863 41.667 0.00 0.00 33.15 3.10
613 882 6.181908 ACTACTCCTAGTTGTGGTAAGAGAG 58.818 44.000 0.00 0.00 33.15 3.20
740 1018 1.973281 ACCGTGAATTGCCAGCCAG 60.973 57.895 0.00 0.00 0.00 4.85
742 1020 2.575461 GTGAATTGCCAGCCAGCC 59.425 61.111 0.00 0.00 0.00 4.85
743 1021 1.980772 GTGAATTGCCAGCCAGCCT 60.981 57.895 0.00 0.00 0.00 4.58
744 1022 1.679977 TGAATTGCCAGCCAGCCTC 60.680 57.895 0.00 0.00 0.00 4.70
745 1023 2.753043 AATTGCCAGCCAGCCTCG 60.753 61.111 0.00 0.00 0.00 4.63
777 1055 0.936297 GCACCAAACAGCAAGCGAAG 60.936 55.000 0.00 0.00 0.00 3.79
891 1199 2.286872 TCTACCACTACTGCTACGAGC 58.713 52.381 0.00 0.00 42.82 5.03
946 1254 2.486966 CGTAACTCCCGTCCCGAC 59.513 66.667 0.00 0.00 0.00 4.79
947 1255 2.042831 CGTAACTCCCGTCCCGACT 61.043 63.158 0.00 0.00 0.00 4.18
948 1256 0.744414 CGTAACTCCCGTCCCGACTA 60.744 60.000 0.00 0.00 0.00 2.59
951 1259 0.964358 AACTCCCGTCCCGACTAGTG 60.964 60.000 0.00 0.00 0.00 2.74
1200 1535 1.324005 CCTCCGACCTCTTCCACTCC 61.324 65.000 0.00 0.00 0.00 3.85
1212 1547 2.681778 CACTCCACCTCGCCCTCT 60.682 66.667 0.00 0.00 0.00 3.69
1490 1837 4.100084 CCGCCACCTCATGCTCCA 62.100 66.667 0.00 0.00 0.00 3.86
1815 2162 1.302832 GTGCCTCACAGTTCTGGGG 60.303 63.158 2.12 3.89 34.45 4.96
1824 2171 3.692406 GTTCTGGGGGTCGAGCGT 61.692 66.667 8.77 0.00 0.00 5.07
1836 2183 1.009108 CGAGCGTCTCAGCATCGAT 60.009 57.895 0.00 0.00 38.82 3.59
2454 2801 1.078426 GACCCCACTTGGACATCGG 60.078 63.158 0.00 0.00 37.39 4.18
2589 2936 0.827368 AGGTGAAGGATTCCGAGCTC 59.173 55.000 2.73 2.73 46.93 4.09
2590 2937 0.537188 GGTGAAGGATTCCGAGCTCA 59.463 55.000 15.40 0.00 46.93 4.26
2930 3298 7.287927 TGGTAGTCTAGTGGATAATGGAAGAAG 59.712 40.741 0.00 0.00 0.00 2.85
3099 3469 4.439253 AGGGGAAGTATATTGCTGAACC 57.561 45.455 0.00 0.00 0.00 3.62
3297 3667 0.676466 TTTGGCACCATGTAGAGGCG 60.676 55.000 0.00 0.00 0.00 5.52
3429 3802 4.328169 GCCATTTGCATGCTTAGAGAAAAC 59.672 41.667 20.33 1.00 40.77 2.43
3459 3832 8.629986 GTGAAACAAACATGTCTTATGAAATCG 58.370 33.333 0.00 0.00 36.32 3.34
3475 3848 4.202111 TGAAATCGATGAAGCTACGGATCA 60.202 41.667 0.00 0.00 0.00 2.92
3504 3877 3.006940 GACCATAGTGCAAAATCCGACA 58.993 45.455 0.00 0.00 0.00 4.35
3705 4078 4.473477 ACTTAATCAGACTGTAGGGCAC 57.527 45.455 1.59 0.00 0.00 5.01
3748 4122 4.220163 AGACTGTAGGTTAGTGGTACAAGC 59.780 45.833 0.00 0.00 44.16 4.01
3789 4199 5.458126 GCAGTACGTACTAATTTAGAGGTGC 59.542 44.000 26.95 17.91 34.13 5.01
3802 4212 5.894298 TTAGAGGTGCCATTCATACATCT 57.106 39.130 0.00 0.00 38.74 2.90
3998 4418 4.510340 ACAACTTTTGTACTAAGTCAGCGG 59.490 41.667 12.35 5.56 43.27 5.52
4008 4428 7.042950 TGTACTAAGTCAGCGGCAATTAATAA 58.957 34.615 1.45 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.347000 GGATAAGAATAGGGGTGTGCTACA 59.653 45.833 0.00 0.00 0.00 2.74
11 12 4.347000 TGGATAAGAATAGGGGTGTGCTAC 59.653 45.833 0.00 0.00 0.00 3.58
12 13 4.562767 TGGATAAGAATAGGGGTGTGCTA 58.437 43.478 0.00 0.00 0.00 3.49
13 14 3.392616 CTGGATAAGAATAGGGGTGTGCT 59.607 47.826 0.00 0.00 0.00 4.40
14 15 3.136626 ACTGGATAAGAATAGGGGTGTGC 59.863 47.826 0.00 0.00 0.00 4.57
15 16 4.408921 TCACTGGATAAGAATAGGGGTGTG 59.591 45.833 0.00 0.00 0.00 3.82
16 17 4.409247 GTCACTGGATAAGAATAGGGGTGT 59.591 45.833 0.00 0.00 0.00 4.16
17 18 4.408921 TGTCACTGGATAAGAATAGGGGTG 59.591 45.833 0.00 0.00 0.00 4.61
18 19 4.409247 GTGTCACTGGATAAGAATAGGGGT 59.591 45.833 0.00 0.00 0.00 4.95
19 20 4.501571 CGTGTCACTGGATAAGAATAGGGG 60.502 50.000 0.65 0.00 0.00 4.79
20 21 4.341235 TCGTGTCACTGGATAAGAATAGGG 59.659 45.833 0.65 0.00 0.00 3.53
21 22 5.515797 TCGTGTCACTGGATAAGAATAGG 57.484 43.478 0.65 0.00 0.00 2.57
22 23 4.979197 GCTCGTGTCACTGGATAAGAATAG 59.021 45.833 0.65 0.00 0.00 1.73
124 125 0.966875 TCATGTCATGGGTTGCCTGC 60.967 55.000 12.90 0.00 0.00 4.85
201 202 6.311935 GCATTTCCGTGTTAGTATTACTGTCA 59.688 38.462 6.60 3.20 0.00 3.58
202 203 6.311935 TGCATTTCCGTGTTAGTATTACTGTC 59.688 38.462 6.60 0.76 0.00 3.51
204 205 6.656314 TGCATTTCCGTGTTAGTATTACTG 57.344 37.500 6.60 0.00 0.00 2.74
205 206 7.168637 CGTATGCATTTCCGTGTTAGTATTACT 59.831 37.037 3.54 1.30 0.00 2.24
206 207 7.167968 TCGTATGCATTTCCGTGTTAGTATTAC 59.832 37.037 3.54 0.00 0.00 1.89
207 208 7.201835 TCGTATGCATTTCCGTGTTAGTATTA 58.798 34.615 3.54 0.00 0.00 0.98
208 209 6.044046 TCGTATGCATTTCCGTGTTAGTATT 58.956 36.000 3.54 0.00 0.00 1.89
209 210 5.593968 TCGTATGCATTTCCGTGTTAGTAT 58.406 37.500 3.54 0.00 0.00 2.12
212 213 5.690409 ACTATCGTATGCATTTCCGTGTTAG 59.310 40.000 3.54 10.39 0.00 2.34
219 220 4.814234 TGTGGAACTATCGTATGCATTTCC 59.186 41.667 3.54 10.79 38.04 3.13
284 481 2.238646 TCTTCGCATCACTTGGGGTAAT 59.761 45.455 0.00 0.00 38.74 1.89
285 482 1.626321 TCTTCGCATCACTTGGGGTAA 59.374 47.619 0.00 0.00 38.74 2.85
327 545 5.600696 GACTTGCCCAAATCTTCTTGAAAA 58.399 37.500 0.00 0.00 0.00 2.29
328 546 4.261572 CGACTTGCCCAAATCTTCTTGAAA 60.262 41.667 0.00 0.00 0.00 2.69
329 547 3.253188 CGACTTGCCCAAATCTTCTTGAA 59.747 43.478 0.00 0.00 0.00 2.69
342 560 0.532573 TGATCAGAGACGACTTGCCC 59.467 55.000 0.00 0.00 0.00 5.36
343 561 2.266554 CTTGATCAGAGACGACTTGCC 58.733 52.381 0.00 0.00 0.00 4.52
414 632 1.136141 CGTATTAGATCCCCGTCGTCG 60.136 57.143 0.00 0.00 0.00 5.12
439 657 2.222976 GCGTAGATCTCGACGTCTTTCA 60.223 50.000 17.05 0.00 44.76 2.69
462 680 1.148310 CGGTCGCTGTCATCTTTTGT 58.852 50.000 0.00 0.00 0.00 2.83
491 709 4.418013 TGCACTGCACAATTATGTACAC 57.582 40.909 0.00 0.00 37.82 2.90
531 755 6.032094 AGTGAAGAATAAATTGCGCAATCTG 58.968 36.000 33.93 0.00 0.00 2.90
554 823 3.898529 ACGACGTGTTTTTCTCTCCTAG 58.101 45.455 0.00 0.00 0.00 3.02
570 839 3.835476 TCGAGCTCGACGACGACG 61.835 66.667 33.84 13.39 44.22 5.12
580 849 5.049954 CACAACTAGGAGTAGTATCGAGCTC 60.050 48.000 2.73 2.73 38.66 4.09
592 861 5.014333 TCTCTCTCTTACCACAACTAGGAGT 59.986 44.000 0.00 0.00 0.00 3.85
595 864 5.502079 TCTCTCTCTCTTACCACAACTAGG 58.498 45.833 0.00 0.00 0.00 3.02
596 865 6.411376 TCTCTCTCTCTCTTACCACAACTAG 58.589 44.000 0.00 0.00 0.00 2.57
598 867 5.222048 ACTCTCTCTCTCTCTTACCACAACT 60.222 44.000 0.00 0.00 0.00 3.16
600 869 5.249780 ACTCTCTCTCTCTCTTACCACAA 57.750 43.478 0.00 0.00 0.00 3.33
601 870 4.919774 ACTCTCTCTCTCTCTTACCACA 57.080 45.455 0.00 0.00 0.00 4.17
602 871 7.627726 GCTTTTACTCTCTCTCTCTCTTACCAC 60.628 44.444 0.00 0.00 0.00 4.16
603 872 6.376018 GCTTTTACTCTCTCTCTCTCTTACCA 59.624 42.308 0.00 0.00 0.00 3.25
604 873 6.457799 CGCTTTTACTCTCTCTCTCTCTTACC 60.458 46.154 0.00 0.00 0.00 2.85
605 874 6.457799 CCGCTTTTACTCTCTCTCTCTCTTAC 60.458 46.154 0.00 0.00 0.00 2.34
606 875 5.587043 CCGCTTTTACTCTCTCTCTCTCTTA 59.413 44.000 0.00 0.00 0.00 2.10
607 876 4.398044 CCGCTTTTACTCTCTCTCTCTCTT 59.602 45.833 0.00 0.00 0.00 2.85
608 877 3.945285 CCGCTTTTACTCTCTCTCTCTCT 59.055 47.826 0.00 0.00 0.00 3.10
609 878 3.066203 CCCGCTTTTACTCTCTCTCTCTC 59.934 52.174 0.00 0.00 0.00 3.20
610 879 3.020984 CCCGCTTTTACTCTCTCTCTCT 58.979 50.000 0.00 0.00 0.00 3.10
611 880 3.018149 TCCCGCTTTTACTCTCTCTCTC 58.982 50.000 0.00 0.00 0.00 3.20
612 881 3.020984 CTCCCGCTTTTACTCTCTCTCT 58.979 50.000 0.00 0.00 0.00 3.10
613 882 3.018149 TCTCCCGCTTTTACTCTCTCTC 58.982 50.000 0.00 0.00 0.00 3.20
748 1026 4.555709 TTTGGTGCGGTGGCGACT 62.556 61.111 0.00 0.00 44.10 4.18
749 1027 4.322385 GTTTGGTGCGGTGGCGAC 62.322 66.667 0.00 0.00 44.10 5.19
750 1028 4.858680 TGTTTGGTGCGGTGGCGA 62.859 61.111 0.00 0.00 44.10 5.54
751 1029 4.326766 CTGTTTGGTGCGGTGGCG 62.327 66.667 0.00 0.00 44.10 5.69
752 1030 4.645921 GCTGTTTGGTGCGGTGGC 62.646 66.667 0.00 0.00 40.52 5.01
753 1031 2.682256 CTTGCTGTTTGGTGCGGTGG 62.682 60.000 0.00 0.00 0.00 4.61
754 1032 1.299316 CTTGCTGTTTGGTGCGGTG 60.299 57.895 0.00 0.00 0.00 4.94
755 1033 3.119193 CTTGCTGTTTGGTGCGGT 58.881 55.556 0.00 0.00 0.00 5.68
856 1139 1.540363 GGTAGATATGTGTGGCGGTGG 60.540 57.143 0.00 0.00 0.00 4.61
862 1145 4.342378 AGCAGTAGTGGTAGATATGTGTGG 59.658 45.833 0.00 0.00 30.68 4.17
946 1254 2.248487 GGTTTACTGACGCGACACTAG 58.752 52.381 15.93 3.58 0.00 2.57
947 1255 1.608109 TGGTTTACTGACGCGACACTA 59.392 47.619 15.93 3.12 0.00 2.74
948 1256 0.386476 TGGTTTACTGACGCGACACT 59.614 50.000 15.93 4.28 0.00 3.55
951 1259 1.611592 CGGTGGTTTACTGACGCGAC 61.612 60.000 15.93 7.62 37.93 5.19
1200 1535 4.200283 GAGCGAGAGGGCGAGGTG 62.200 72.222 0.00 0.00 38.18 4.00
1815 2162 1.587613 GATGCTGAGACGCTCGACC 60.588 63.158 0.00 0.00 32.35 4.79
1824 2171 2.100418 CTGAACCTCATCGATGCTGAGA 59.900 50.000 20.81 1.89 42.22 3.27
1836 2183 1.367471 CTCCACACGCTGAACCTCA 59.633 57.895 0.00 0.00 0.00 3.86
2454 2801 4.319177 AGTAAGACATGAGCTTCACCAAC 58.681 43.478 0.00 0.00 0.00 3.77
2511 2858 3.633094 CTGGAGTGCACCGTCCTCG 62.633 68.421 21.87 11.78 33.57 4.63
2589 2936 5.533903 CCAATGATCACCTAAAATCCTCCTG 59.466 44.000 0.00 0.00 0.00 3.86
2590 2937 5.433051 TCCAATGATCACCTAAAATCCTCCT 59.567 40.000 0.00 0.00 0.00 3.69
2838 3206 9.972106 TCAGATATAGATATCTTGAGCTCTTCA 57.028 33.333 16.19 0.00 45.32 3.02
2930 3298 8.886719 GGGTGTACTTTATGTATTTACCAGAAC 58.113 37.037 0.00 0.00 35.79 3.01
3099 3469 4.261155 CCAATCCAATACATGTAACCAGCG 60.261 45.833 10.14 0.00 0.00 5.18
3297 3667 8.408601 ACATGTTCAATATATTCCAAGAAGCAC 58.591 33.333 0.00 0.00 0.00 4.40
3429 3802 7.351981 TCATAAGACATGTTTGTTTCACTTCG 58.648 34.615 0.00 0.00 35.79 3.79
3459 3832 6.701841 TCAGTTTTATGATCCGTAGCTTCATC 59.298 38.462 1.12 0.00 31.70 2.92
3475 3848 7.547227 GGATTTTGCACTATGGTCAGTTTTAT 58.453 34.615 0.00 0.00 0.00 1.40
3504 3877 7.659186 ACTTACTTTCTTCAACAGTACGATCT 58.341 34.615 0.00 0.00 0.00 2.75
3736 4110 9.982651 GAAGATCATTATTAGCTTGTACCACTA 57.017 33.333 0.00 0.00 0.00 2.74
3748 4122 7.148641 ACGTACTGCCTGAAGATCATTATTAG 58.851 38.462 0.00 0.00 0.00 1.73
3789 4199 9.770097 AGAGTATTAACACAGATGTATGAATGG 57.230 33.333 0.00 0.00 38.45 3.16
3902 4312 6.183347 CCAATACCAAGAAAAGAGTCCTCAT 58.817 40.000 0.00 0.00 0.00 2.90
3904 4314 4.396478 GCCAATACCAAGAAAAGAGTCCTC 59.604 45.833 0.00 0.00 0.00 3.71
3998 4418 7.021998 ACTCCCTCCTATCCTTATTAATTGC 57.978 40.000 0.00 0.00 0.00 3.56
4008 4428 7.606581 AGAATTAAGTTACTCCCTCCTATCCT 58.393 38.462 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.