Multiple sequence alignment - TraesCS3B01G602900

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 TraesCS3B01G602900 chr3B 100.000 2597 0 0 1 2597 822815997 822818593 0.000000e+00 4796.0
1 TraesCS3B01G602900 chr3B 95.590 703 31 0 1 703 59236537 59237239 0.000000e+00 1127.0
2 TraesCS3B01G602900 chr3B 94.714 700 33 2 1 697 640076827 640077525 0.000000e+00 1085.0
3 TraesCS3B01G602900 chr2D 87.705 1464 86 41 869 2274 25222457 25221030 0.000000e+00 1620.0
4 TraesCS3B01G602900 chr2D 89.268 205 14 4 2316 2512 25220718 25220514 1.540000e-62 250.0
5 TraesCS3B01G602900 chr2D 87.821 156 9 4 1964 2109 25218269 25218114 9.550000e-40 174.0
6 TraesCS3B01G602900 chr3D 89.469 1130 81 20 767 1871 613593637 613594753 0.000000e+00 1393.0
7 TraesCS3B01G602900 chr7B 96.159 703 26 1 1 703 113206725 113207426 0.000000e+00 1147.0
8 TraesCS3B01G602900 chr7B 95.021 703 35 0 1 703 164084118 164083416 0.000000e+00 1105.0
9 TraesCS3B01G602900 chr7B 86.207 116 15 1 2412 2527 707611168 707611282 9.760000e-25 124.0
10 TraesCS3B01G602900 chr2B 95.881 704 27 2 1 704 736388714 736388013 0.000000e+00 1138.0
11 TraesCS3B01G602900 chr2B 95.306 703 28 2 1 703 210267680 210266983 0.000000e+00 1110.0
12 TraesCS3B01G602900 chr2B 94.595 703 31 6 1 703 695443407 695442712 0.000000e+00 1081.0
13 TraesCS3B01G602900 chr6B 94.835 697 35 1 1 697 120822126 120822821 0.000000e+00 1086.0
14 TraesCS3B01G602900 chr6B 85.827 127 17 1 2413 2538 176969908 176970034 1.620000e-27 134.0
15 TraesCS3B01G602900 chr4B 94.595 703 36 2 1 703 481633878 481634578 0.000000e+00 1086.0
16 TraesCS3B01G602900 chr4B 81.102 127 23 1 2412 2538 450697315 450697440 1.640000e-17 100.0
17 TraesCS3B01G602900 chr4B 80.645 124 24 0 2412 2535 390671691 390671568 2.130000e-16 97.1
18 TraesCS3B01G602900 chr3A 86.255 1004 99 22 704 1688 749189611 749190594 0.000000e+00 1053.0
19 TraesCS3B01G602900 chr3A 88.442 199 19 3 700 898 749189544 749189738 1.200000e-58 237.0
20 TraesCS3B01G602900 chr3A 77.937 349 35 20 1958 2274 749198905 749199243 2.050000e-41 180.0
21 TraesCS3B01G602900 chr3A 83.333 126 20 1 2414 2538 51447446 51447321 5.870000e-22 115.0
22 TraesCS3B01G602900 chr3A 88.732 71 7 1 1963 2032 749191198 749191268 4.600000e-13 86.1
23 TraesCS3B01G602900 chr3A 93.478 46 3 0 2049 2094 749190973 749191018 4.640000e-08 69.4
24 TraesCS3B01G602900 chr7D 87.402 127 16 0 2412 2538 117544802 117544676 2.080000e-31 147.0
25 TraesCS3B01G602900 chr1D 86.916 107 14 0 2414 2520 97911627 97911521 1.260000e-23 121.0
26 TraesCS3B01G602900 chr7A 86.364 110 12 2 2435 2541 625704902 625705011 1.630000e-22 117.0
27 TraesCS3B01G602900 chr2A 82.812 128 20 2 2412 2538 579442551 579442677 2.110000e-21 113.0


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 TraesCS3B01G602900 chr3B 822815997 822818593 2596 False 4796.000000 4796 100.000000 1 2597 1 chr3B.!!$F3 2596
1 TraesCS3B01G602900 chr3B 59236537 59237239 702 False 1127.000000 1127 95.590000 1 703 1 chr3B.!!$F1 702
2 TraesCS3B01G602900 chr3B 640076827 640077525 698 False 1085.000000 1085 94.714000 1 697 1 chr3B.!!$F2 696
3 TraesCS3B01G602900 chr2D 25218114 25222457 4343 True 681.333333 1620 88.264667 869 2512 3 chr2D.!!$R1 1643
4 TraesCS3B01G602900 chr3D 613593637 613594753 1116 False 1393.000000 1393 89.469000 767 1871 1 chr3D.!!$F1 1104
5 TraesCS3B01G602900 chr7B 113206725 113207426 701 False 1147.000000 1147 96.159000 1 703 1 chr7B.!!$F1 702
6 TraesCS3B01G602900 chr7B 164083416 164084118 702 True 1105.000000 1105 95.021000 1 703 1 chr7B.!!$R1 702
7 TraesCS3B01G602900 chr2B 736388013 736388714 701 True 1138.000000 1138 95.881000 1 704 1 chr2B.!!$R3 703
8 TraesCS3B01G602900 chr2B 210266983 210267680 697 True 1110.000000 1110 95.306000 1 703 1 chr2B.!!$R1 702
9 TraesCS3B01G602900 chr2B 695442712 695443407 695 True 1081.000000 1081 94.595000 1 703 1 chr2B.!!$R2 702
10 TraesCS3B01G602900 chr6B 120822126 120822821 695 False 1086.000000 1086 94.835000 1 697 1 chr6B.!!$F1 696
11 TraesCS3B01G602900 chr4B 481633878 481634578 700 False 1086.000000 1086 94.595000 1 703 1 chr4B.!!$F2 702
12 TraesCS3B01G602900 chr3A 749189544 749191268 1724 False 361.375000 1053 89.226750 700 2094 4 chr3A.!!$F2 1394

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
424 428 0.763652 AATCTGCATCTGCTCCCGAT 59.236 50.0 3.53 0.0 42.66 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2106 2399 0.037232 CTTCCCCTCCACGAACAGAC 60.037 60.0 0.0 0.0 0.0 3.51 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
307 311 4.181010 CCAGATCTGGCACCCCCG 62.181 72.222 28.45 2.83 44.73 5.73
308 312 4.864334 CAGATCTGGCACCCCCGC 62.864 72.222 15.38 0.00 35.87 6.13
319 323 1.618447 ACCCCCGCCCAACTAAGAT 60.618 57.895 0.00 0.00 0.00 2.40
321 325 1.607612 CCCCGCCCAACTAAGATGT 59.392 57.895 0.00 0.00 0.00 3.06
424 428 0.763652 AATCTGCATCTGCTCCCGAT 59.236 50.000 3.53 0.00 42.66 4.18
706 710 7.967890 AACCTAAAGCAAAAATGATCCAAAG 57.032 32.000 0.00 0.00 0.00 2.77
719 723 6.623979 ATGATCCAAAGATATCCTCCTCTG 57.376 41.667 0.00 0.00 30.90 3.35
732 736 3.071602 TCCTCCTCTGCAGCCATAAATAC 59.928 47.826 9.47 0.00 0.00 1.89
734 738 4.506271 CCTCCTCTGCAGCCATAAATACAT 60.506 45.833 9.47 0.00 0.00 2.29
736 740 4.139786 CCTCTGCAGCCATAAATACATGT 58.860 43.478 9.47 2.69 0.00 3.21
740 744 3.559655 TGCAGCCATAAATACATGTCGTC 59.440 43.478 0.00 0.00 0.00 4.20
748 752 9.677567 GCCATAAATACATGTCGTCATTTATTT 57.322 29.630 21.72 21.72 43.37 1.40
814 818 9.834628 ATAAATACACGCCATTATTTATTTCCG 57.165 29.630 0.00 0.00 37.49 4.30
866 946 2.483876 TCTCCAGCTATAAATGCACGC 58.516 47.619 0.00 0.00 0.00 5.34
931 1011 5.233050 CCTCTTCATCAGCTACAAATACACG 59.767 44.000 0.00 0.00 0.00 4.49
932 1012 5.720202 TCTTCATCAGCTACAAATACACGT 58.280 37.500 0.00 0.00 0.00 4.49
939 1019 6.167685 TCAGCTACAAATACACGTACCAAAT 58.832 36.000 0.00 0.00 0.00 2.32
945 1025 7.739498 ACAAATACACGTACCAAATCTTCTT 57.261 32.000 0.00 0.00 0.00 2.52
946 1026 7.803724 ACAAATACACGTACCAAATCTTCTTC 58.196 34.615 0.00 0.00 0.00 2.87
947 1027 7.660208 ACAAATACACGTACCAAATCTTCTTCT 59.340 33.333 0.00 0.00 0.00 2.85
949 1029 5.209818 ACACGTACCAAATCTTCTTCTCA 57.790 39.130 0.00 0.00 0.00 3.27
950 1030 4.989168 ACACGTACCAAATCTTCTTCTCAC 59.011 41.667 0.00 0.00 0.00 3.51
951 1031 4.389077 CACGTACCAAATCTTCTTCTCACC 59.611 45.833 0.00 0.00 0.00 4.02
952 1032 4.039973 ACGTACCAAATCTTCTTCTCACCA 59.960 41.667 0.00 0.00 0.00 4.17
954 1034 5.643777 CGTACCAAATCTTCTTCTCACCAAT 59.356 40.000 0.00 0.00 0.00 3.16
955 1035 6.183360 CGTACCAAATCTTCTTCTCACCAATC 60.183 42.308 0.00 0.00 0.00 2.67
956 1036 5.634118 ACCAAATCTTCTTCTCACCAATCA 58.366 37.500 0.00 0.00 0.00 2.57
957 1037 5.474876 ACCAAATCTTCTTCTCACCAATCAC 59.525 40.000 0.00 0.00 0.00 3.06
958 1038 5.474532 CCAAATCTTCTTCTCACCAATCACA 59.525 40.000 0.00 0.00 0.00 3.58
959 1039 6.152323 CCAAATCTTCTTCTCACCAATCACAT 59.848 38.462 0.00 0.00 0.00 3.21
969 1049 3.127376 TCACCAATCACATTCAATCGCAG 59.873 43.478 0.00 0.00 0.00 5.18
970 1050 2.159338 ACCAATCACATTCAATCGCAGC 60.159 45.455 0.00 0.00 0.00 5.25
979 1059 4.152759 ACATTCAATCGCAGCCAAATTTTG 59.847 37.500 1.99 1.99 0.00 2.44
994 1074 6.488817 CCAAATTTTGAAAAGCCACAAGAAG 58.511 36.000 10.72 0.00 0.00 2.85
995 1075 6.315891 CCAAATTTTGAAAAGCCACAAGAAGA 59.684 34.615 10.72 0.00 0.00 2.87
1006 1086 3.683822 GCCACAAGAAGACAAGATGAGAG 59.316 47.826 0.00 0.00 0.00 3.20
1032 1112 4.387598 CATTCTTGATCCTCACCATCCTC 58.612 47.826 0.00 0.00 0.00 3.71
1040 1120 1.827969 CCTCACCATCCTCGTTCTCTT 59.172 52.381 0.00 0.00 0.00 2.85
1056 1145 2.039480 TCTCTTTCTCCAGTGCAATGCT 59.961 45.455 9.04 0.00 0.00 3.79
1063 1152 1.973281 CAGTGCAATGCTTCCCCGT 60.973 57.895 6.82 0.00 0.00 5.28
1119 1208 0.676466 TCCACAACATCCATGCCGAC 60.676 55.000 0.00 0.00 0.00 4.79
1130 1219 2.026641 CCATGCCGACAAGGATTCATT 58.973 47.619 0.00 0.00 45.00 2.57
1131 1220 3.118075 TCCATGCCGACAAGGATTCATTA 60.118 43.478 0.00 0.00 38.73 1.90
1140 1229 4.962155 ACAAGGATTCATTATCGGTCCTC 58.038 43.478 0.00 0.00 38.31 3.71
1153 1242 1.155424 GGTCCTCGTCGCACAAAACA 61.155 55.000 0.00 0.00 0.00 2.83
1164 1253 1.799994 GCACAAAACACCAATGCCATC 59.200 47.619 0.00 0.00 0.00 3.51
1173 1262 3.228759 AATGCCATCGCCCATGCC 61.229 61.111 0.00 0.00 0.00 4.40
1281 1370 1.980232 ACAGGGCATGTACGTCGGA 60.980 57.895 1.47 0.00 41.60 4.55
1287 1376 1.988409 CATGTACGTCGGAACAGCG 59.012 57.895 0.00 0.00 0.00 5.18
1293 1382 0.938168 ACGTCGGAACAGCGAAAGAC 60.938 55.000 0.00 0.00 0.00 3.01
1320 1409 1.670811 ACGATTTTGATGGCCATCGAC 59.329 47.619 34.70 22.34 40.83 4.20
1323 1412 1.083489 TTTTGATGGCCATCGACGTC 58.917 50.000 34.70 17.07 40.63 4.34
1338 1427 0.243907 ACGTCGAGATCACAACTGGG 59.756 55.000 0.00 0.00 0.00 4.45
1347 1436 1.327303 TCACAACTGGGCCATTCAAC 58.673 50.000 6.72 0.00 0.00 3.18
1350 1439 1.152830 AACTGGGCCATTCAACGGT 59.847 52.632 6.72 0.00 0.00 4.83
1467 1556 4.314440 ATGCTCCGCACGGTGTGT 62.314 61.111 19.29 0.00 43.04 3.72
1480 1569 1.209128 GGTGTGTGTTCACTGTCTCG 58.791 55.000 4.59 0.00 44.14 4.04
1525 1616 5.986135 GGAGATGTGATAGTACAATGTGACC 59.014 44.000 0.00 0.00 33.69 4.02
1554 1645 8.532186 TGGCACCATTAATTGAGTTTATGTAT 57.468 30.769 0.00 0.00 0.00 2.29
1555 1646 8.412456 TGGCACCATTAATTGAGTTTATGTATG 58.588 33.333 0.00 0.00 0.00 2.39
1556 1647 8.413229 GGCACCATTAATTGAGTTTATGTATGT 58.587 33.333 0.00 0.00 0.00 2.29
1577 1668 3.915437 ATTTTGGGTCGTTTGTAGCAG 57.085 42.857 0.00 0.00 0.00 4.24
1579 1670 1.225376 TTGGGTCGTTTGTAGCAGCG 61.225 55.000 0.00 0.00 0.00 5.18
1587 1678 0.652071 TTTGTAGCAGCGCGATGATG 59.348 50.000 30.90 12.55 36.94 3.07
1591 1682 2.288152 TGTAGCAGCGCGATGATGATAA 60.288 45.455 30.90 2.89 36.50 1.75
1592 1683 2.090400 AGCAGCGCGATGATGATAAT 57.910 45.000 30.90 0.54 35.47 1.28
1593 1684 3.236632 AGCAGCGCGATGATGATAATA 57.763 42.857 30.90 0.00 35.47 0.98
1594 1685 3.790091 AGCAGCGCGATGATGATAATAT 58.210 40.909 30.90 0.00 35.47 1.28
1595 1686 4.936891 AGCAGCGCGATGATGATAATATA 58.063 39.130 30.90 0.00 35.47 0.86
1596 1687 4.981054 AGCAGCGCGATGATGATAATATAG 59.019 41.667 30.90 0.00 35.47 1.31
1848 2059 9.196552 GAAGAAGAAGAAGAAGAAGAAGAAGAG 57.803 37.037 0.00 0.00 0.00 2.85
1863 2074 3.185455 AGAAGAGGCATGGTAAAGGTCT 58.815 45.455 0.00 0.00 0.00 3.85
1867 2078 2.237392 GAGGCATGGTAAAGGTCTGTCT 59.763 50.000 0.00 0.00 0.00 3.41
1876 2119 1.693627 AAGGTCTGTCTGTGACGACT 58.306 50.000 15.90 2.14 36.82 4.18
1884 2127 0.796927 TCTGTGACGACTAGTGCGAG 59.203 55.000 17.67 7.77 0.00 5.03
1930 2173 2.579201 CCGACGCACAGGATCCTT 59.421 61.111 13.00 0.00 0.00 3.36
1932 2175 1.513158 CGACGCACAGGATCCTTCT 59.487 57.895 13.00 0.00 0.00 2.85
1962 2223 2.550855 GCAACATCTGTCTTGTCAGGGA 60.551 50.000 0.00 0.00 36.25 4.20
1981 2242 0.179000 AGATGGACAAGGCCACGATC 59.821 55.000 5.01 5.88 41.56 3.69
2021 2290 2.082437 GAAGACGATCGCCATGCACG 62.082 60.000 16.60 0.30 0.00 5.34
2035 2304 3.118454 CACGGCCGCAGTCGATTT 61.118 61.111 28.58 0.00 38.10 2.17
2036 2305 2.358247 ACGGCCGCAGTCGATTTT 60.358 55.556 28.58 0.00 38.10 1.82
2037 2306 2.098298 CGGCCGCAGTCGATTTTG 59.902 61.111 14.67 0.00 38.10 2.44
2038 2307 2.202479 GGCCGCAGTCGATTTTGC 60.202 61.111 8.84 8.84 38.10 3.68
2039 2308 2.202479 GCCGCAGTCGATTTTGCC 60.202 61.111 12.09 0.00 37.00 4.52
2040 2309 2.098298 CCGCAGTCGATTTTGCCG 59.902 61.111 12.09 8.33 37.00 5.69
2041 2310 2.574212 CGCAGTCGATTTTGCCGC 60.574 61.111 12.09 0.00 37.00 6.53
2042 2311 2.202479 GCAGTCGATTTTGCCGCC 60.202 61.111 7.94 0.00 34.28 6.13
2043 2312 2.098298 CAGTCGATTTTGCCGCCG 59.902 61.111 0.00 0.00 0.00 6.46
2044 2313 3.124921 AGTCGATTTTGCCGCCGG 61.125 61.111 0.00 0.00 0.00 6.13
2091 2384 3.318539 ATCCACCACGACGACGACG 62.319 63.158 17.60 17.60 42.66 5.12
2092 2385 4.016629 CCACCACGACGACGACGA 62.017 66.667 25.15 0.00 42.66 4.20
2093 2386 2.794166 CACCACGACGACGACGAC 60.794 66.667 25.15 7.02 42.66 4.34
2101 2394 3.110178 CGACGACGACTTTGGCCC 61.110 66.667 0.00 0.00 42.66 5.80
2106 2399 4.675029 ACGACTTTGGCCCGTCCG 62.675 66.667 0.00 0.00 37.80 4.79
2109 2402 3.236003 GACTTTGGCCCGTCCGTCT 62.236 63.158 0.00 0.00 37.80 4.18
2111 2404 3.530910 CTTTGGCCCGTCCGTCTGT 62.531 63.158 0.00 0.00 37.80 3.41
2112 2405 3.109592 TTTGGCCCGTCCGTCTGTT 62.110 57.895 0.00 0.00 37.80 3.16
2116 2409 2.430244 CCCGTCCGTCTGTTCGTG 60.430 66.667 0.00 0.00 0.00 4.35
2159 2473 1.069823 GATGATGAGTGTGGCGAGGAT 59.930 52.381 0.00 0.00 0.00 3.24
2171 2485 0.602372 GCGAGGATGATGAAGAGGGC 60.602 60.000 0.00 0.00 0.00 5.19
2274 2621 4.758251 CAGATGGTCACGGCCGCA 62.758 66.667 28.58 16.16 0.00 5.69
2276 2623 3.499737 GATGGTCACGGCCGCAAG 61.500 66.667 28.58 16.28 0.00 4.01
2292 2639 3.483587 AGGATCACCTTGCACGGT 58.516 55.556 9.49 9.49 45.36 4.83
2294 2641 1.194781 AGGATCACCTTGCACGGTCT 61.195 55.000 12.77 3.58 45.36 3.85
2295 2642 1.021390 GGATCACCTTGCACGGTCTG 61.021 60.000 12.77 2.47 34.29 3.51
2391 2982 0.103755 GCTCGCTGTGGATCTGATCA 59.896 55.000 18.64 0.00 0.00 2.92
2462 3061 6.944862 AGAGCTCACATTCAATTAAGGTCTTT 59.055 34.615 17.77 0.00 38.13 2.52
2485 3084 7.606135 TTAATTAGGATTGAGTCACCCGATA 57.394 36.000 0.00 0.00 0.00 2.92
2487 3086 7.792364 AATTAGGATTGAGTCACCCGATATA 57.208 36.000 0.00 0.00 0.00 0.86
2561 3190 7.661127 ACTAGTAAATTGTACGTGATTTGCA 57.339 32.000 17.28 0.00 32.49 4.08
2575 3204 6.826893 GTGATTTGCACGCCATTTAAATAT 57.173 33.333 0.00 0.00 37.83 1.28
2576 3205 7.922505 GTGATTTGCACGCCATTTAAATATA 57.077 32.000 0.00 0.00 37.83 0.86
2578 3207 9.619316 GTGATTTGCACGCCATTTAAATATATA 57.381 29.630 0.00 0.00 37.83 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
299 303 4.354162 TTAGTTGGGCGGGGGTGC 62.354 66.667 0.00 0.00 0.00 5.01
300 304 1.921869 ATCTTAGTTGGGCGGGGGTG 61.922 60.000 0.00 0.00 0.00 4.61
311 315 5.515008 GGTTTCCTCCTCCAACATCTTAGTT 60.515 44.000 0.00 0.00 0.00 2.24
319 323 2.307686 GGTATGGTTTCCTCCTCCAACA 59.692 50.000 0.00 0.00 34.80 3.33
321 325 2.576191 CAGGTATGGTTTCCTCCTCCAA 59.424 50.000 0.00 0.00 34.80 3.53
324 328 1.134068 GGCAGGTATGGTTTCCTCCTC 60.134 57.143 0.00 0.00 30.91 3.71
327 331 2.576615 GATGGCAGGTATGGTTTCCTC 58.423 52.381 0.00 0.00 30.91 3.71
424 428 4.356979 CGGAGCTTGGGAGGTAGA 57.643 61.111 0.00 0.00 32.79 2.59
496 500 3.499737 CGACGGCATCCTTGTGGC 61.500 66.667 0.00 0.00 40.91 5.01
706 710 1.346062 TGGCTGCAGAGGAGGATATC 58.654 55.000 20.43 0.00 0.00 1.63
719 723 3.559655 TGACGACATGTATTTATGGCTGC 59.440 43.478 0.00 0.00 33.79 5.25
732 736 9.528847 CAATATACGGAAATAAATGACGACATG 57.471 33.333 0.05 0.00 36.79 3.21
734 738 8.874744 TCAATATACGGAAATAAATGACGACA 57.125 30.769 0.00 0.00 0.00 4.35
836 916 8.646004 GCATTTATAGCTGGAGATGAGGATATA 58.354 37.037 0.00 0.00 0.00 0.86
931 1011 6.655003 TGATTGGTGAGAAGAAGATTTGGTAC 59.345 38.462 0.00 0.00 0.00 3.34
932 1012 6.655003 GTGATTGGTGAGAAGAAGATTTGGTA 59.345 38.462 0.00 0.00 0.00 3.25
939 1019 5.868454 TGAATGTGATTGGTGAGAAGAAGA 58.132 37.500 0.00 0.00 0.00 2.87
945 1025 3.374988 GCGATTGAATGTGATTGGTGAGA 59.625 43.478 0.00 0.00 0.00 3.27
946 1026 3.127376 TGCGATTGAATGTGATTGGTGAG 59.873 43.478 0.00 0.00 0.00 3.51
947 1027 3.080319 TGCGATTGAATGTGATTGGTGA 58.920 40.909 0.00 0.00 0.00 4.02
949 1029 2.159338 GCTGCGATTGAATGTGATTGGT 60.159 45.455 0.00 0.00 0.00 3.67
950 1030 2.456989 GCTGCGATTGAATGTGATTGG 58.543 47.619 0.00 0.00 0.00 3.16
951 1031 2.159352 TGGCTGCGATTGAATGTGATTG 60.159 45.455 0.00 0.00 0.00 2.67
952 1032 2.093890 TGGCTGCGATTGAATGTGATT 58.906 42.857 0.00 0.00 0.00 2.57
954 1034 1.532523 TTGGCTGCGATTGAATGTGA 58.467 45.000 0.00 0.00 0.00 3.58
955 1035 2.350899 TTTGGCTGCGATTGAATGTG 57.649 45.000 0.00 0.00 0.00 3.21
956 1036 3.598019 AATTTGGCTGCGATTGAATGT 57.402 38.095 0.00 0.00 0.00 2.71
957 1037 4.389382 TCAAAATTTGGCTGCGATTGAATG 59.611 37.500 5.83 0.00 0.00 2.67
958 1038 4.567971 TCAAAATTTGGCTGCGATTGAAT 58.432 34.783 5.83 0.00 0.00 2.57
959 1039 3.987547 TCAAAATTTGGCTGCGATTGAA 58.012 36.364 5.83 0.00 0.00 2.69
969 1049 4.335037 TCTTGTGGCTTTTCAAAATTTGGC 59.665 37.500 5.83 1.24 0.00 4.52
970 1050 6.315891 TCTTCTTGTGGCTTTTCAAAATTTGG 59.684 34.615 5.83 0.00 0.00 3.28
979 1059 4.900635 TCTTGTCTTCTTGTGGCTTTTC 57.099 40.909 0.00 0.00 0.00 2.29
994 1074 6.169094 TCAAGAATGGAACTCTCATCTTGTC 58.831 40.000 11.68 0.00 35.97 3.18
995 1075 6.119240 TCAAGAATGGAACTCTCATCTTGT 57.881 37.500 11.68 0.00 35.97 3.16
1032 1112 2.154854 TGCACTGGAGAAAGAGAACG 57.845 50.000 0.00 0.00 0.00 3.95
1040 1120 1.538047 GGAAGCATTGCACTGGAGAA 58.462 50.000 11.91 0.00 35.98 2.87
1056 1145 4.778958 TCCTTATCTCTTACAAACGGGGAA 59.221 41.667 0.00 0.00 0.00 3.97
1063 1152 7.311092 TGTTGGTCTCCTTATCTCTTACAAA 57.689 36.000 0.00 0.00 0.00 2.83
1119 1208 3.990469 CGAGGACCGATAATGAATCCTTG 59.010 47.826 0.00 0.00 39.96 3.61
1130 1219 1.307355 TTGTGCGACGAGGACCGATA 61.307 55.000 0.00 0.00 40.82 2.92
1131 1220 2.149803 TTTGTGCGACGAGGACCGAT 62.150 55.000 0.00 0.00 40.82 4.18
1140 1229 1.119635 CATTGGTGTTTTGTGCGACG 58.880 50.000 0.00 0.00 0.00 5.12
1153 1242 2.129146 CATGGGCGATGGCATTGGT 61.129 57.895 16.33 0.00 42.47 3.67
1164 1253 4.562425 ATACCACGGGCATGGGCG 62.562 66.667 11.32 0.00 44.81 6.13
1173 1262 0.176219 TAAAGGCCACGATACCACGG 59.824 55.000 5.01 0.00 37.61 4.94
1215 1304 4.530857 GGCCCCTCGGTGATCACG 62.531 72.222 19.33 14.31 0.00 4.35
1281 1370 0.390124 TGTACCCGTCTTTCGCTGTT 59.610 50.000 0.00 0.00 38.35 3.16
1287 1376 3.742369 TCAAAATCGTGTACCCGTCTTTC 59.258 43.478 0.00 0.00 0.00 2.62
1293 1382 1.063469 GCCATCAAAATCGTGTACCCG 59.937 52.381 0.00 0.00 0.00 5.28
1320 1409 1.078759 GCCCAGTTGTGATCTCGACG 61.079 60.000 9.05 0.00 0.00 5.12
1323 1412 0.107508 ATGGCCCAGTTGTGATCTCG 60.108 55.000 0.00 0.00 0.00 4.04
1338 1427 0.739813 ACGAGCTACCGTTGAATGGC 60.740 55.000 2.72 0.00 40.17 4.40
1347 1436 2.846039 ACAGTATGAACGAGCTACCG 57.154 50.000 0.00 0.00 39.69 4.02
1350 1439 3.937079 TCGAGAACAGTATGAACGAGCTA 59.063 43.478 0.00 0.00 39.69 3.32
1381 1470 1.138661 GAGCTCCCTGGTTGATCTCAG 59.861 57.143 0.87 0.00 0.00 3.35
1467 1556 1.540267 GTAGAGGCGAGACAGTGAACA 59.460 52.381 0.00 0.00 0.00 3.18
1480 1569 1.677637 CTGGGAGGGTTCGTAGAGGC 61.678 65.000 0.00 0.00 38.43 4.70
1525 1616 3.624777 ACTCAATTAATGGTGCCAGAGG 58.375 45.455 0.00 0.00 0.00 3.69
1554 1645 4.135306 TGCTACAAACGACCCAAAATACA 58.865 39.130 0.00 0.00 0.00 2.29
1555 1646 4.719040 CTGCTACAAACGACCCAAAATAC 58.281 43.478 0.00 0.00 0.00 1.89
1556 1647 3.189702 GCTGCTACAAACGACCCAAAATA 59.810 43.478 0.00 0.00 0.00 1.40
1557 1648 2.030274 GCTGCTACAAACGACCCAAAAT 60.030 45.455 0.00 0.00 0.00 1.82
1577 1668 7.595130 TCCATTACTATATTATCATCATCGCGC 59.405 37.037 0.00 0.00 0.00 6.86
1592 1683 9.913310 TGGAAAACACAATCATCCATTACTATA 57.087 29.630 0.00 0.00 35.33 1.31
1593 1684 8.821686 TGGAAAACACAATCATCCATTACTAT 57.178 30.769 0.00 0.00 35.33 2.12
1594 1685 7.888021 ACTGGAAAACACAATCATCCATTACTA 59.112 33.333 0.00 0.00 39.33 1.82
1595 1686 6.721208 ACTGGAAAACACAATCATCCATTACT 59.279 34.615 0.00 0.00 39.33 2.24
1596 1687 6.924111 ACTGGAAAACACAATCATCCATTAC 58.076 36.000 0.00 0.00 39.33 1.89
1610 1701 7.032580 CACAACAAGTCAATAACTGGAAAACA 58.967 34.615 0.00 0.00 38.58 2.83
1617 1708 6.035843 ACAAAGCACAACAAGTCAATAACTG 58.964 36.000 0.00 0.00 38.58 3.16
1729 1820 3.499918 CGGCTAGCTAAAAATCATCCCAG 59.500 47.826 15.72 0.00 0.00 4.45
1848 2059 2.290323 ACAGACAGACCTTTACCATGCC 60.290 50.000 0.00 0.00 0.00 4.40
1863 2074 0.237498 CGCACTAGTCGTCACAGACA 59.763 55.000 0.00 0.00 43.24 3.41
1867 2078 1.209383 GCTCGCACTAGTCGTCACA 59.791 57.895 12.36 0.00 0.00 3.58
1876 2119 3.662623 GACGCTCGTGCTCGCACTA 62.663 63.158 18.63 8.14 44.16 2.74
1915 2158 0.460987 CCAGAAGGATCCTGTGCGTC 60.461 60.000 17.02 8.78 36.89 5.19
1930 2173 2.369860 ACAGATGTTGCTCTTGTCCAGA 59.630 45.455 0.00 0.00 0.00 3.86
1932 2175 2.369860 AGACAGATGTTGCTCTTGTCCA 59.630 45.455 0.00 0.00 30.32 4.02
1962 2223 0.179000 GATCGTGGCCTTGTCCATCT 59.821 55.000 3.32 0.00 38.57 2.90
1981 2242 2.430921 GGTCTGGTGACGCTGTCG 60.431 66.667 4.65 0.00 43.79 4.35
2021 2290 2.202479 GCAAAATCGACTGCGGCC 60.202 61.111 0.00 0.00 38.28 6.13
2023 2292 2.098298 CGGCAAAATCGACTGCGG 59.902 61.111 9.20 8.83 39.55 5.69
2025 2294 2.202479 GGCGGCAAAATCGACTGC 60.202 61.111 3.07 7.30 37.86 4.40
2026 2295 2.098298 CGGCGGCAAAATCGACTG 59.902 61.111 10.53 0.00 32.71 3.51
2027 2296 3.124921 CCGGCGGCAAAATCGACT 61.125 61.111 15.42 0.00 32.71 4.18
2045 2314 4.218578 AGCCAGAGCGAGCGATGG 62.219 66.667 14.49 14.49 46.67 3.51
2046 2315 2.657944 GAGCCAGAGCGAGCGATG 60.658 66.667 0.00 0.00 46.67 3.84
2047 2316 2.832661 AGAGCCAGAGCGAGCGAT 60.833 61.111 0.00 0.00 46.67 4.58
2091 2384 2.741211 GACGGACGGGCCAAAGTC 60.741 66.667 4.39 10.97 35.94 3.01
2092 2385 3.239253 AGACGGACGGGCCAAAGT 61.239 61.111 4.39 0.06 35.94 2.66
2093 2386 2.742372 CAGACGGACGGGCCAAAG 60.742 66.667 4.39 0.00 35.94 2.77
2101 2394 1.442184 CTCCACGAACAGACGGACG 60.442 63.158 0.00 0.00 37.61 4.79
2106 2399 0.037232 CTTCCCCTCCACGAACAGAC 60.037 60.000 0.00 0.00 0.00 3.51
2109 2402 1.460689 ACCTTCCCCTCCACGAACA 60.461 57.895 0.00 0.00 0.00 3.18
2111 2404 2.221299 CCACCTTCCCCTCCACGAA 61.221 63.158 0.00 0.00 0.00 3.85
2112 2405 2.606519 CCACCTTCCCCTCCACGA 60.607 66.667 0.00 0.00 0.00 4.35
2116 2409 4.097361 GCGACCACCTTCCCCTCC 62.097 72.222 0.00 0.00 0.00 4.30
2159 2473 2.586245 CCTGCGCCCTCTTCATCA 59.414 61.111 4.18 0.00 0.00 3.07
2188 2502 3.842923 CGCCAGGATCCTCTGCGT 61.843 66.667 32.56 5.19 38.63 5.24
2189 2503 3.081311 TTCGCCAGGATCCTCTGCG 62.081 63.158 34.06 34.06 42.24 5.18
2190 2504 1.522580 GTTCGCCAGGATCCTCTGC 60.523 63.158 12.69 16.60 33.64 4.26
2264 2584 3.700970 TGATCCTTGCGGCCGTGA 61.701 61.111 28.70 18.21 0.00 4.35
2276 2623 1.021390 CAGACCGTGCAAGGTGATCC 61.021 60.000 29.65 14.28 46.09 3.36
2291 2638 1.373497 CCAGACCACGACTGCAGAC 60.373 63.158 23.35 14.26 34.47 3.51
2292 2639 3.051210 CCAGACCACGACTGCAGA 58.949 61.111 23.35 0.00 34.47 4.26
2294 2641 3.226429 GAGCCAGACCACGACTGCA 62.226 63.158 0.00 0.00 34.47 4.41
2295 2642 2.433318 GAGCCAGACCACGACTGC 60.433 66.667 0.00 0.00 34.47 4.40
2296 2643 1.892819 ATGGAGCCAGACCACGACTG 61.893 60.000 0.00 0.00 40.36 3.51
2297 2644 0.324368 TATGGAGCCAGACCACGACT 60.324 55.000 0.00 0.00 40.36 4.18
2298 2645 0.535335 TTATGGAGCCAGACCACGAC 59.465 55.000 0.00 0.00 40.36 4.34
2299 2646 0.824109 CTTATGGAGCCAGACCACGA 59.176 55.000 0.00 0.00 40.36 4.35
2325 2672 3.768922 AGCAGTCAGGAGAGCGGC 61.769 66.667 0.00 0.00 0.00 6.53
2425 3024 8.902540 TGAATGTGAGCTCTTTAAAACTAGAA 57.097 30.769 16.19 0.00 0.00 2.10
2426 3025 8.902540 TTGAATGTGAGCTCTTTAAAACTAGA 57.097 30.769 16.19 0.00 0.00 2.43
2454 3053 7.829706 GGTGACTCAATCCTAATTAAAGACCTT 59.170 37.037 0.00 0.00 0.00 3.50
2462 3061 7.792364 ATATCGGGTGACTCAATCCTAATTA 57.208 36.000 0.00 0.00 0.00 1.40
2474 3073 1.906990 CCGGTCTATATCGGGTGACT 58.093 55.000 0.00 0.00 46.21 3.41
2485 3084 4.341235 TGAGAAATTGTCGATCCGGTCTAT 59.659 41.667 0.00 0.00 0.00 1.98
2487 3086 2.496070 TGAGAAATTGTCGATCCGGTCT 59.504 45.455 0.00 0.00 0.00 3.85
2538 3167 7.932643 GTGCAAATCACGTACAATTTACTAG 57.067 36.000 0.00 0.00 35.76 2.57
2552 3181 6.826893 ATATTTAAATGGCGTGCAAATCAC 57.173 33.333 11.05 0.00 42.23 3.06


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

AutoCloner maintained by Alex Coulton.