Multiple sequence alignment - TraesCS6B01G115700

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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 TraesCS6B01G115700 chr6B 100.000 3092 0 0 1 3092 100959119 100956028 0.000000e+00 5710.0
1 TraesCS6B01G115700 chr6B 95.896 804 16 5 1 802 164789913 164789125 0.000000e+00 1286.0
2 TraesCS6B01G115700 chr6A 89.957 2320 114 45 812 3092 55276402 55278641 0.000000e+00 2883.0
3 TraesCS6B01G115700 chr6A 92.241 232 9 3 592 815 376924924 376924694 1.380000e-83 320.0
4 TraesCS6B01G115700 chr4D 95.808 811 23 6 1 802 381550277 381551085 0.000000e+00 1299.0
5 TraesCS6B01G115700 chr2B 95.808 811 23 6 1 803 787114986 787115793 0.000000e+00 1299.0
6 TraesCS6B01G115700 chr2B 95.314 811 28 4 1 802 29716270 29717079 0.000000e+00 1279.0
7 TraesCS6B01G115700 chr2B 96.196 736 20 4 1 730 44119077 44119810 0.000000e+00 1197.0
8 TraesCS6B01G115700 chr3B 93.988 815 36 7 1 805 822090710 822089899 0.000000e+00 1221.0
9 TraesCS6B01G115700 chr3B 89.394 66 6 1 946 1010 44782365 44782430 7.110000e-12 82.4
10 TraesCS6B01G115700 chr7B 96.196 736 21 3 1 730 713418834 713418100 0.000000e+00 1197.0
11 TraesCS6B01G115700 chr7B 95.788 736 23 3 1 730 329783178 329783911 0.000000e+00 1181.0
12 TraesCS6B01G115700 chr7B 95.516 736 25 3 1 730 493035557 493036290 0.000000e+00 1170.0
13 TraesCS6B01G115700 chr4B 95.387 737 26 4 1 730 483919786 483919051 0.000000e+00 1166.0
14 TraesCS6B01G115700 chr5A 92.752 814 39 9 7 802 341159812 341159001 0.000000e+00 1158.0
15 TraesCS6B01G115700 chr7D 94.290 753 31 9 72 815 77428025 77427276 0.000000e+00 1142.0
16 TraesCS6B01G115700 chr5B 94.687 734 27 7 87 810 185216223 185216954 0.000000e+00 1129.0
17 TraesCS6B01G115700 chr1A 92.191 794 39 7 30 802 442238500 442239291 0.000000e+00 1101.0
18 TraesCS6B01G115700 chr1A 93.215 339 13 4 477 806 39646186 39646523 9.960000e-135 490.0
19 TraesCS6B01G115700 chrUn 88.662 785 62 12 2314 3092 69322107 69321344 0.000000e+00 931.0
20 TraesCS6B01G115700 chrUn 87.566 756 47 15 818 1544 69323607 69322870 0.000000e+00 832.0
21 TraesCS6B01G115700 chrUn 88.235 527 42 10 1776 2293 69322805 69322290 2.040000e-171 612.0
22 TraesCS6B01G115700 chr3D 97.436 39 1 0 965 1003 6166005 6165967 1.990000e-07 67.6
23 TraesCS6B01G115700 chr3A 97.436 39 1 0 965 1003 14768014 14768052 1.990000e-07 67.6


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 TraesCS6B01G115700 chr6B 100956028 100959119 3091 True 5710.000000 5710 100.000000 1 3092 1 chr6B.!!$R1 3091
1 TraesCS6B01G115700 chr6B 164789125 164789913 788 True 1286.000000 1286 95.896000 1 802 1 chr6B.!!$R2 801
2 TraesCS6B01G115700 chr6A 55276402 55278641 2239 False 2883.000000 2883 89.957000 812 3092 1 chr6A.!!$F1 2280
3 TraesCS6B01G115700 chr4D 381550277 381551085 808 False 1299.000000 1299 95.808000 1 802 1 chr4D.!!$F1 801
4 TraesCS6B01G115700 chr2B 787114986 787115793 807 False 1299.000000 1299 95.808000 1 803 1 chr2B.!!$F3 802
5 TraesCS6B01G115700 chr2B 29716270 29717079 809 False 1279.000000 1279 95.314000 1 802 1 chr2B.!!$F1 801
6 TraesCS6B01G115700 chr2B 44119077 44119810 733 False 1197.000000 1197 96.196000 1 730 1 chr2B.!!$F2 729
7 TraesCS6B01G115700 chr3B 822089899 822090710 811 True 1221.000000 1221 93.988000 1 805 1 chr3B.!!$R1 804
8 TraesCS6B01G115700 chr7B 713418100 713418834 734 True 1197.000000 1197 96.196000 1 730 1 chr7B.!!$R1 729
9 TraesCS6B01G115700 chr7B 329783178 329783911 733 False 1181.000000 1181 95.788000 1 730 1 chr7B.!!$F1 729
10 TraesCS6B01G115700 chr7B 493035557 493036290 733 False 1170.000000 1170 95.516000 1 730 1 chr7B.!!$F2 729
11 TraesCS6B01G115700 chr4B 483919051 483919786 735 True 1166.000000 1166 95.387000 1 730 1 chr4B.!!$R1 729
12 TraesCS6B01G115700 chr5A 341159001 341159812 811 True 1158.000000 1158 92.752000 7 802 1 chr5A.!!$R1 795
13 TraesCS6B01G115700 chr7D 77427276 77428025 749 True 1142.000000 1142 94.290000 72 815 1 chr7D.!!$R1 743
14 TraesCS6B01G115700 chr5B 185216223 185216954 731 False 1129.000000 1129 94.687000 87 810 1 chr5B.!!$F1 723
15 TraesCS6B01G115700 chr1A 442238500 442239291 791 False 1101.000000 1101 92.191000 30 802 1 chr1A.!!$F2 772
16 TraesCS6B01G115700 chrUn 69321344 69323607 2263 True 791.666667 931 88.154333 818 3092 3 chrUn.!!$R1 2274

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
823 854 0.392461 TAGAGATTTGGGCGCCACAC 60.392 55.0 30.85 12.03 30.78 3.82 F
1385 1446 0.179097 GCCAGAATCACTCCGGAGTC 60.179 60.0 34.28 22.30 40.20 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1650 1711 0.387239 GGCACCAGCGACATCAAAAC 60.387 55.000 0.00 0.0 43.41 2.43 R
2649 2891 1.205893 GGTTCAGGCCACAACAAACAA 59.794 47.619 16.38 0.0 0.00 2.83 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
356 360 1.001597 GACGTCGACTGACAAAGACCT 60.002 52.381 14.70 0.00 45.80 3.85
437 442 6.232692 AGGTGCATGCAAATAATTGTTCTTT 58.767 32.000 24.58 0.00 38.85 2.52
820 851 1.138266 GTAGTAGAGATTTGGGCGCCA 59.862 52.381 30.85 12.04 0.00 5.69
823 854 0.392461 TAGAGATTTGGGCGCCACAC 60.392 55.000 30.85 12.03 30.78 3.82
837 868 1.401409 GCCACACACATGGTTTCATCG 60.401 52.381 0.00 0.00 42.28 3.84
843 874 3.084039 ACACATGGTTTCATCGCTCATT 58.916 40.909 0.00 0.00 0.00 2.57
848 879 7.066887 ACACATGGTTTCATCGCTCATTAAATA 59.933 33.333 0.00 0.00 0.00 1.40
853 884 9.554395 TGGTTTCATCGCTCATTAAATAGAATA 57.446 29.630 0.00 0.00 0.00 1.75
898 929 2.270205 CTGATCCAACGGCCAGCT 59.730 61.111 2.24 0.00 0.00 4.24
941 990 2.553602 ACACAACACTGTACGTATCGGA 59.446 45.455 0.00 0.00 33.22 4.55
1163 1220 2.219325 CTCTCCTTGCTCTCCGCGTT 62.219 60.000 4.92 0.00 43.27 4.84
1204 1261 2.612251 CCTCCCTCTCCCTCTCCC 59.388 72.222 0.00 0.00 0.00 4.30
1205 1262 2.018086 CCTCCCTCTCCCTCTCCCT 61.018 68.421 0.00 0.00 0.00 4.20
1206 1263 1.232792 CTCCCTCTCCCTCTCCCTG 59.767 68.421 0.00 0.00 0.00 4.45
1207 1264 1.547755 TCCCTCTCCCTCTCCCTGT 60.548 63.158 0.00 0.00 0.00 4.00
1208 1265 1.075600 CCCTCTCCCTCTCCCTGTC 60.076 68.421 0.00 0.00 0.00 3.51
1209 1266 1.075600 CCTCTCCCTCTCCCTGTCC 60.076 68.421 0.00 0.00 0.00 4.02
1241 1298 1.883084 CCCAGTACGCTTCCGCATC 60.883 63.158 0.00 0.00 38.22 3.91
1380 1441 1.672854 TACCCGCCAGAATCACTCCG 61.673 60.000 0.00 0.00 0.00 4.63
1381 1442 2.202932 CCGCCAGAATCACTCCGG 60.203 66.667 0.00 0.00 35.36 5.14
1382 1443 2.721167 CCGCCAGAATCACTCCGGA 61.721 63.158 2.93 2.93 40.64 5.14
1383 1444 1.227089 CGCCAGAATCACTCCGGAG 60.227 63.158 30.11 30.11 0.00 4.63
1384 1445 1.901085 GCCAGAATCACTCCGGAGT 59.099 57.895 31.69 31.69 43.61 3.85
1385 1446 0.179097 GCCAGAATCACTCCGGAGTC 60.179 60.000 34.28 22.30 40.20 3.36
1386 1447 1.186200 CCAGAATCACTCCGGAGTCA 58.814 55.000 34.28 24.43 40.20 3.41
1421 1482 0.599558 TTCCCACGTACCGTTCTCTG 59.400 55.000 0.00 0.00 38.32 3.35
1467 1528 3.554692 CCGCGTCCTGTTCGATGC 61.555 66.667 4.92 0.00 40.69 3.91
1477 1538 1.869132 GTTCGATGCAATGCCGCAC 60.869 57.895 1.53 0.00 46.56 5.34
1551 1612 1.398958 GCTGCTCTCCTGGTCCTAGG 61.399 65.000 0.82 0.82 39.29 3.02
1559 1620 1.306141 CTGGTCCTAGGCCCTGTGA 60.306 63.158 10.86 0.00 0.00 3.58
1564 1625 2.370445 CCTAGGCCCTGTGACTGGG 61.370 68.421 21.87 21.87 44.16 4.45
1603 1664 4.020617 CGGGCCTCACCTTGCTCA 62.021 66.667 0.84 0.00 39.10 4.26
1606 1667 2.360475 GCCTCACCTTGCTCACCC 60.360 66.667 0.00 0.00 0.00 4.61
1607 1668 2.900106 GCCTCACCTTGCTCACCCT 61.900 63.158 0.00 0.00 0.00 4.34
1608 1669 1.298014 CCTCACCTTGCTCACCCTC 59.702 63.158 0.00 0.00 0.00 4.30
1642 1703 0.392193 CATGGTCCAGGTGAGTGAGC 60.392 60.000 0.00 0.00 0.00 4.26
1648 1709 1.425066 TCCAGGTGAGTGAGCCATTTT 59.575 47.619 0.00 0.00 0.00 1.82
1649 1710 1.815003 CCAGGTGAGTGAGCCATTTTC 59.185 52.381 0.00 0.00 0.00 2.29
1650 1711 1.466167 CAGGTGAGTGAGCCATTTTCG 59.534 52.381 0.00 0.00 0.00 3.46
1662 1724 2.090503 GCCATTTTCGTTTTGATGTCGC 59.909 45.455 0.00 0.00 0.00 5.19
1668 1730 0.725784 CGTTTTGATGTCGCTGGTGC 60.726 55.000 0.00 0.00 0.00 5.01
1675 1737 3.357079 GTCGCTGGTGCCACCTTG 61.357 66.667 16.23 9.14 39.58 3.61
1677 1739 4.954970 CGCTGGTGCCACCTTGGT 62.955 66.667 16.23 0.00 40.46 3.67
1679 1741 2.859981 GCTGGTGCCACCTTGGTTG 61.860 63.158 16.23 0.00 40.46 3.77
1680 1742 1.455587 CTGGTGCCACCTTGGTTGT 60.456 57.895 16.23 0.00 40.46 3.32
1681 1743 1.454847 TGGTGCCACCTTGGTTGTC 60.455 57.895 16.23 0.00 40.46 3.18
1682 1744 1.454847 GGTGCCACCTTGGTTGTCA 60.455 57.895 6.63 0.00 40.46 3.58
1683 1745 0.827507 GGTGCCACCTTGGTTGTCAT 60.828 55.000 6.63 0.00 40.46 3.06
1685 1747 1.039068 TGCCACCTTGGTTGTCATTG 58.961 50.000 0.00 0.00 40.46 2.82
1694 1758 4.685628 CCTTGGTTGTCATTGTGTTATTGC 59.314 41.667 0.00 0.00 0.00 3.56
1696 1760 5.119931 TGGTTGTCATTGTGTTATTGCTC 57.880 39.130 0.00 0.00 0.00 4.26
1697 1761 4.582240 TGGTTGTCATTGTGTTATTGCTCA 59.418 37.500 0.00 0.00 0.00 4.26
1706 1770 5.957842 TGTGTTATTGCTCAAAACCTAGG 57.042 39.130 7.41 7.41 0.00 3.02
1739 1803 2.049959 CATGATCTCGTAGCTGCGAAG 58.950 52.381 26.71 19.66 40.57 3.79
1753 1817 2.349590 TGCGAAGTCCTGATCATTGTG 58.650 47.619 0.00 0.00 0.00 3.33
1820 1889 5.744666 TCACAAAAGTAAACACAGTAGCC 57.255 39.130 0.00 0.00 0.00 3.93
1825 1894 1.965643 AGTAAACACAGTAGCCACCGA 59.034 47.619 0.00 0.00 0.00 4.69
1829 1898 0.246635 ACACAGTAGCCACCGATGTC 59.753 55.000 0.00 0.00 0.00 3.06
1831 1900 1.248785 ACAGTAGCCACCGATGTCGT 61.249 55.000 1.44 0.00 37.74 4.34
1840 1909 2.044135 CACCGATGTCGTATGATCACG 58.956 52.381 0.00 0.00 43.28 4.35
1846 1915 4.607646 CGATGTCGTATGATCACGTAACTC 59.392 45.833 0.00 0.00 42.51 3.01
1855 1924 0.318360 TCACGTAACTCACACAGGCG 60.318 55.000 0.00 0.00 0.00 5.52
1883 1952 2.879103 TTCTCATCCCCTTTGTGGTC 57.121 50.000 0.00 0.00 0.00 4.02
1887 1956 3.455910 TCTCATCCCCTTTGTGGTCTATG 59.544 47.826 0.00 0.00 0.00 2.23
1888 1957 3.189606 TCATCCCCTTTGTGGTCTATGT 58.810 45.455 0.00 0.00 0.00 2.29
1890 1959 2.626785 TCCCCTTTGTGGTCTATGTGA 58.373 47.619 0.00 0.00 0.00 3.58
1894 1963 4.218417 CCCCTTTGTGGTCTATGTGAAAAG 59.782 45.833 0.00 0.00 0.00 2.27
1909 1978 9.499585 CTATGTGAAAAGAAAATCTATGCAGTG 57.500 33.333 0.00 0.00 0.00 3.66
2030 2099 5.929415 GGTTTATTCTACTCTATCTGCAGGC 59.071 44.000 15.13 0.00 0.00 4.85
2094 2163 1.960417 GGCTGAGAGTGGAATAAGCC 58.040 55.000 0.00 0.00 43.05 4.35
2096 2165 1.137086 GCTGAGAGTGGAATAAGCCGA 59.863 52.381 0.00 0.00 0.00 5.54
2106 2175 4.215613 GTGGAATAAGCCGAAAAGAACTGT 59.784 41.667 0.00 0.00 0.00 3.55
2131 2200 2.847234 TGGTTGCTGTCGAGGGGT 60.847 61.111 0.00 0.00 0.00 4.95
2132 2201 2.358737 GGTTGCTGTCGAGGGGTG 60.359 66.667 0.00 0.00 0.00 4.61
2134 2203 2.847234 TTGCTGTCGAGGGGTGGT 60.847 61.111 0.00 0.00 0.00 4.16
2135 2204 3.177194 TTGCTGTCGAGGGGTGGTG 62.177 63.158 0.00 0.00 0.00 4.17
2137 2206 4.742201 CTGTCGAGGGGTGGTGCG 62.742 72.222 0.00 0.00 0.00 5.34
2250 2327 5.997384 TTTGGTAGGAAAGAGGTAGAGTC 57.003 43.478 0.00 0.00 0.00 3.36
2319 2558 2.493675 TGCTACTCTACCTTCTGCTGTG 59.506 50.000 0.00 0.00 0.00 3.66
2425 2664 2.404215 CAGGACACTGTTACTTCCGTG 58.596 52.381 0.00 0.00 39.92 4.94
2626 2868 1.202879 TGTCATTGTGACCTGAACCCC 60.203 52.381 7.55 0.00 46.40 4.95
2684 2929 4.674362 GCCTGAACCCAAAATAAAGCGTAG 60.674 45.833 0.00 0.00 0.00 3.51
2724 2969 8.451748 GCTGAGTATATGACTATGAATACACGA 58.548 37.037 0.00 0.00 39.06 4.35
2808 3053 7.615582 TGTCATTCATTTCTATCACCTTCAC 57.384 36.000 0.00 0.00 0.00 3.18
2889 3134 3.712218 GCTACCTTCCTTTGGGACTCTAT 59.288 47.826 0.00 0.00 42.05 1.98
2890 3135 4.900054 GCTACCTTCCTTTGGGACTCTATA 59.100 45.833 0.00 0.00 42.05 1.31
3046 3291 6.889494 TCGAAATTCTGTAATACGCAACAAA 58.111 32.000 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
124 126 6.949352 ATCACATGTTGATGGTTATTCTCC 57.051 37.500 0.00 0.00 43.87 3.71
356 360 3.181455 CCCCTCCATCATCGTTACATCAA 60.181 47.826 0.00 0.00 0.00 2.57
806 837 1.971167 TGTGTGGCGCCCAAATCTC 60.971 57.895 26.77 9.49 34.18 2.75
807 838 2.115052 TGTGTGGCGCCCAAATCT 59.885 55.556 26.77 0.00 34.18 2.40
808 839 1.876497 ATGTGTGTGGCGCCCAAATC 61.876 55.000 26.77 12.39 34.18 2.17
809 840 1.907807 ATGTGTGTGGCGCCCAAAT 60.908 52.632 26.77 12.76 34.18 2.32
810 841 2.520500 ATGTGTGTGGCGCCCAAA 60.521 55.556 26.77 14.10 34.18 3.28
816 847 0.597568 ATGAAACCATGTGTGTGGCG 59.402 50.000 0.00 0.00 43.27 5.69
820 851 1.806542 GAGCGATGAAACCATGTGTGT 59.193 47.619 0.00 0.00 0.00 3.72
823 854 3.770263 AATGAGCGATGAAACCATGTG 57.230 42.857 0.00 0.00 0.00 3.21
848 879 8.147058 ACGCACTAGATTGAATCTTCATATTCT 58.853 33.333 13.54 0.91 40.76 2.40
853 884 6.108687 TCAACGCACTAGATTGAATCTTCAT 58.891 36.000 13.54 0.00 40.76 2.57
869 900 1.737838 TGGATCAGGAATCAACGCAC 58.262 50.000 0.00 0.00 35.96 5.34
870 901 2.083774 GTTGGATCAGGAATCAACGCA 58.916 47.619 0.00 0.00 35.96 5.24
898 929 1.376942 GACGACTCGAGGACTCCCA 60.377 63.158 18.41 0.00 33.88 4.37
941 990 0.179084 CGGAGGTGTGAACTGTGTGT 60.179 55.000 0.00 0.00 0.00 3.72
1072 1129 2.035940 AGGAGGACGAAGCGAGGT 59.964 61.111 0.00 0.00 0.00 3.85
1082 1139 2.610859 TTGGGGCAGGAGGAGGAC 60.611 66.667 0.00 0.00 0.00 3.85
1204 1261 4.899239 GGAGGATGCGCGGGACAG 62.899 72.222 8.83 0.00 0.00 3.51
1206 1263 4.593864 GAGGAGGATGCGCGGGAC 62.594 72.222 8.83 0.00 0.00 4.46
1241 1298 3.141488 CGTGGGAGAGGGACGAGG 61.141 72.222 0.00 0.00 35.05 4.63
1355 1416 0.527817 GATTCTGGCGGGTAGTGACG 60.528 60.000 0.00 0.00 0.00 4.35
1380 1441 2.807108 GCCGAATATTGGTCCTGACTCC 60.807 54.545 0.00 0.00 0.00 3.85
1381 1442 2.103263 AGCCGAATATTGGTCCTGACTC 59.897 50.000 0.00 0.00 0.00 3.36
1382 1443 2.119495 AGCCGAATATTGGTCCTGACT 58.881 47.619 0.00 0.00 0.00 3.41
1383 1444 2.622064 AGCCGAATATTGGTCCTGAC 57.378 50.000 0.00 0.00 0.00 3.51
1384 1445 2.158813 GGAAGCCGAATATTGGTCCTGA 60.159 50.000 0.00 0.00 0.00 3.86
1385 1446 2.222027 GGAAGCCGAATATTGGTCCTG 58.778 52.381 0.00 0.00 0.00 3.86
1386 1447 1.143073 GGGAAGCCGAATATTGGTCCT 59.857 52.381 0.00 0.00 0.00 3.85
1421 1482 4.142730 GGTGAGCTGATGAATCTTGACAAC 60.143 45.833 0.00 0.00 0.00 3.32
1467 1528 1.267806 AGAACAAAGAGTGCGGCATTG 59.732 47.619 5.72 9.26 0.00 2.82
1477 1538 6.384224 TGCAGCATTTCATAAGAACAAAGAG 58.616 36.000 0.00 0.00 32.39 2.85
1564 1625 3.462678 GGAGAGGCGGAGGGTGAC 61.463 72.222 0.00 0.00 0.00 3.67
1586 1647 4.020617 TGAGCAAGGTGAGGCCCG 62.021 66.667 0.00 0.00 38.26 6.13
1603 1664 2.418910 CGGATGAGTCGCAGAGGGT 61.419 63.158 0.00 0.00 36.95 4.34
1606 1667 2.279120 GCCGGATGAGTCGCAGAG 60.279 66.667 5.05 0.00 36.95 3.35
1607 1668 2.426406 ATGCCGGATGAGTCGCAGA 61.426 57.895 5.05 0.00 0.00 4.26
1608 1669 2.107750 ATGCCGGATGAGTCGCAG 59.892 61.111 5.05 0.00 0.00 5.18
1642 1703 3.361644 CAGCGACATCAAAACGAAAATGG 59.638 43.478 0.00 0.00 0.00 3.16
1648 1709 0.865111 CACCAGCGACATCAAAACGA 59.135 50.000 0.00 0.00 0.00 3.85
1649 1710 0.725784 GCACCAGCGACATCAAAACG 60.726 55.000 0.00 0.00 0.00 3.60
1650 1711 0.387239 GGCACCAGCGACATCAAAAC 60.387 55.000 0.00 0.00 43.41 2.43
1662 1724 1.455383 GACAACCAAGGTGGCACCAG 61.455 60.000 36.28 26.96 42.67 4.00
1668 1730 2.031120 ACACAATGACAACCAAGGTGG 58.969 47.619 0.00 0.00 45.02 4.61
1675 1737 5.119931 TGAGCAATAACACAATGACAACC 57.880 39.130 0.00 0.00 0.00 3.77
1677 1739 6.478344 GGTTTTGAGCAATAACACAATGACAA 59.522 34.615 0.00 0.00 0.00 3.18
1679 1741 6.215845 AGGTTTTGAGCAATAACACAATGAC 58.784 36.000 0.00 0.00 0.00 3.06
1680 1742 6.403866 AGGTTTTGAGCAATAACACAATGA 57.596 33.333 0.00 0.00 0.00 2.57
1681 1743 6.808212 CCTAGGTTTTGAGCAATAACACAATG 59.192 38.462 0.00 0.00 0.00 2.82
1682 1744 6.071391 CCCTAGGTTTTGAGCAATAACACAAT 60.071 38.462 8.29 0.00 0.00 2.71
1683 1745 5.242838 CCCTAGGTTTTGAGCAATAACACAA 59.757 40.000 8.29 0.00 0.00 3.33
1685 1747 4.157840 CCCCTAGGTTTTGAGCAATAACAC 59.842 45.833 8.29 0.00 0.00 3.32
1694 1758 3.270877 CGATGTTCCCCTAGGTTTTGAG 58.729 50.000 8.29 0.00 0.00 3.02
1696 1760 2.290705 ACCGATGTTCCCCTAGGTTTTG 60.291 50.000 8.29 0.00 0.00 2.44
1697 1761 1.990327 ACCGATGTTCCCCTAGGTTTT 59.010 47.619 8.29 0.00 0.00 2.43
1719 1783 2.049959 CTTCGCAGCTACGAGATCATG 58.950 52.381 9.35 0.00 44.00 3.07
1739 1803 5.752472 CAGAGTACATCACAATGATCAGGAC 59.248 44.000 0.09 0.00 34.28 3.85
1820 1889 2.044135 CGTGATCATACGACATCGGTG 58.956 52.381 0.00 0.00 46.46 4.94
1825 1894 5.163693 TGTGAGTTACGTGATCATACGACAT 60.164 40.000 12.18 0.00 46.46 3.06
1831 1900 4.676986 GCCTGTGTGAGTTACGTGATCATA 60.677 45.833 0.00 0.00 0.00 2.15
1840 1909 1.860676 TGTTCGCCTGTGTGAGTTAC 58.139 50.000 0.00 0.00 31.46 2.50
1846 1915 4.154015 TGAGAATATTTGTTCGCCTGTGTG 59.846 41.667 0.00 0.00 33.36 3.82
1855 1924 7.260603 CACAAAGGGGATGAGAATATTTGTTC 58.739 38.462 0.00 0.00 37.31 3.18
1883 1952 9.499585 CACTGCATAGATTTTCTTTTCACATAG 57.500 33.333 0.00 0.00 0.00 2.23
1887 1956 7.536622 CAGACACTGCATAGATTTTCTTTTCAC 59.463 37.037 0.00 0.00 0.00 3.18
1888 1957 7.308770 CCAGACACTGCATAGATTTTCTTTTCA 60.309 37.037 0.00 0.00 0.00 2.69
1890 1959 6.491403 ACCAGACACTGCATAGATTTTCTTTT 59.509 34.615 0.00 0.00 0.00 2.27
1894 1963 5.886960 AACCAGACACTGCATAGATTTTC 57.113 39.130 0.00 0.00 0.00 2.29
1995 2064 3.825908 AGAATAAACCCAGGGCTTGAA 57.174 42.857 4.91 0.00 0.00 2.69
2030 2099 1.565305 GTATTCTGGCAGAGCTGTCG 58.435 55.000 17.91 0.00 38.19 4.35
2151 2220 0.620556 ATTGATGGCTTCTGTCGGGT 59.379 50.000 1.86 0.00 0.00 5.28
2250 2327 2.969628 ATTCTAACCAGGCTGAGTCG 57.030 50.000 17.94 0.84 0.00 4.18
2294 2371 4.808364 CAGCAGAAGGTAGAGTAGCATTTC 59.192 45.833 0.00 0.00 0.00 2.17
2319 2558 1.827969 ACACCCTACTGCTGATCTGTC 59.172 52.381 0.00 0.00 0.00 3.51
2425 2664 5.709164 CCTGATCCCATTTCTGTTATGATCC 59.291 44.000 0.00 0.00 0.00 3.36
2593 2835 2.689471 ACAATGACAAGCAGCTTCAACA 59.311 40.909 4.07 6.30 0.00 3.33
2649 2891 1.205893 GGTTCAGGCCACAACAAACAA 59.794 47.619 16.38 0.00 0.00 2.83
2713 2958 3.364920 CGATGCGCTAATCGTGTATTCAT 59.635 43.478 18.86 0.00 43.49 2.57
2724 2969 1.665679 CAACCAGTTCGATGCGCTAAT 59.334 47.619 9.73 0.00 0.00 1.73
2730 2975 1.464997 GTTCTCCAACCAGTTCGATGC 59.535 52.381 0.00 0.00 0.00 3.91
2735 2980 3.134458 CTCAGTGTTCTCCAACCAGTTC 58.866 50.000 0.00 0.00 0.00 3.01
2808 3053 8.697846 TGTCCAATTAGTAATTTCTAGACACG 57.302 34.615 16.27 0.00 0.00 4.49
2889 3134 8.069375 TTCACAGTGAAGTTGGAAATGTTCCTA 61.069 37.037 12.24 0.00 39.93 2.94
2890 3135 7.307777 TTCACAGTGAAGTTGGAAATGTTCCT 61.308 38.462 12.24 0.00 39.93 3.36
2908 3153 3.815401 GGTAGCAACATCAGTTTCACAGT 59.185 43.478 0.00 0.00 35.28 3.55


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

AutoCloner maintained by Alex Coulton.