Multiple sequence alignment - TraesCS7A01G216400

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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 TraesCS7A01G216400 chr7A 100.000 2682 0 0 1 2682 182732636 182735317 0.000000e+00 4953
1 TraesCS7A01G216400 chr1D 94.133 1977 70 26 712 2682 203164812 203162876 0.000000e+00 2966
2 TraesCS7A01G216400 chr1D 93.472 720 38 5 1 712 416922878 416923596 0.000000e+00 1061
3 TraesCS7A01G216400 chr1D 87.983 233 20 5 1961 2192 203163644 203163419 4.400000e-68 268
4 TraesCS7A01G216400 chr5D 95.077 1361 59 6 713 2066 14175914 14177273 0.000000e+00 2135
5 TraesCS7A01G216400 chr5D 93.801 742 22 5 1961 2682 14177084 14177821 0.000000e+00 1094
6 TraesCS7A01G216400 chr5D 94.093 711 18 16 1980 2682 371672400 371673094 0.000000e+00 1059
7 TraesCS7A01G216400 chr5D 93.324 719 40 4 1 712 97706826 97706109 0.000000e+00 1055
8 TraesCS7A01G216400 chr5D 92.639 720 44 4 1 712 418731199 418731917 0.000000e+00 1027
9 TraesCS7A01G216400 chr5D 92.490 719 46 3 1 712 418749069 418749786 0.000000e+00 1022
10 TraesCS7A01G216400 chr5A 95.559 1306 47 7 712 2011 685594695 685595995 0.000000e+00 2080
11 TraesCS7A01G216400 chr5A 97.006 668 18 2 2016 2682 685595861 685596527 0.000000e+00 1122
12 TraesCS7A01G216400 chr7B 93.052 1281 80 7 711 1984 48707235 48705957 0.000000e+00 1864
13 TraesCS7A01G216400 chr7B 90.799 663 29 7 2043 2682 48706064 48705411 0.000000e+00 857
14 TraesCS7A01G216400 chr3D 95.413 1090 47 1 712 1798 162956777 162955688 0.000000e+00 1733
15 TraesCS7A01G216400 chr3D 92.490 719 46 4 1 712 483728006 483728723 0.000000e+00 1022
16 TraesCS7A01G216400 chr3D 92.350 719 46 5 1 712 483729056 483729772 0.000000e+00 1014
17 TraesCS7A01G216400 chr2B 90.120 1336 80 19 713 2011 382179457 382178137 0.000000e+00 1688
18 TraesCS7A01G216400 chr2B 86.404 684 47 18 2009 2682 382178251 382177604 0.000000e+00 706
19 TraesCS7A01G216400 chr3B 87.358 1408 114 23 712 2066 548011626 548010230 0.000000e+00 1555
20 TraesCS7A01G216400 chr3B 84.615 741 57 25 1967 2682 548010432 548009724 0.000000e+00 684
21 TraesCS7A01G216400 chr7D 87.462 1332 112 23 713 1997 394403172 394404495 0.000000e+00 1483
22 TraesCS7A01G216400 chr7D 92.414 725 41 6 1 712 151454836 151455559 0.000000e+00 1022
23 TraesCS7A01G216400 chr1A 86.800 1250 126 18 713 1929 143345118 143346361 0.000000e+00 1358
24 TraesCS7A01G216400 chr4D 95.018 843 41 1 713 1555 82356560 82357401 0.000000e+00 1323
25 TraesCS7A01G216400 chr4D 92.222 720 45 7 1 712 483744636 483745352 0.000000e+00 1009
26 TraesCS7A01G216400 chr4D 97.790 362 5 3 2321 2682 82357391 82357749 2.930000e-174 621
27 TraesCS7A01G216400 chr6A 93.584 717 40 2 2 712 560312503 560313219 0.000000e+00 1064
28 TraesCS7A01G216400 chr6D 93.501 677 43 1 713 1389 419310963 419311638 0.000000e+00 1005
29 TraesCS7A01G216400 chr6D 88.313 753 41 21 1942 2682 419312405 419313122 0.000000e+00 859
30 TraesCS7A01G216400 chr6D 89.231 650 32 19 1483 2094 419311973 419312622 0.000000e+00 778


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 TraesCS7A01G216400 chr7A 182732636 182735317 2681 False 4953.000000 4953 100.000000 1 2682 1 chr7A.!!$F1 2681
1 TraesCS7A01G216400 chr1D 203162876 203164812 1936 True 1617.000000 2966 91.058000 712 2682 2 chr1D.!!$R1 1970
2 TraesCS7A01G216400 chr1D 416922878 416923596 718 False 1061.000000 1061 93.472000 1 712 1 chr1D.!!$F1 711
3 TraesCS7A01G216400 chr5D 14175914 14177821 1907 False 1614.500000 2135 94.439000 713 2682 2 chr5D.!!$F4 1969
4 TraesCS7A01G216400 chr5D 371672400 371673094 694 False 1059.000000 1059 94.093000 1980 2682 1 chr5D.!!$F1 702
5 TraesCS7A01G216400 chr5D 97706109 97706826 717 True 1055.000000 1055 93.324000 1 712 1 chr5D.!!$R1 711
6 TraesCS7A01G216400 chr5D 418731199 418731917 718 False 1027.000000 1027 92.639000 1 712 1 chr5D.!!$F2 711
7 TraesCS7A01G216400 chr5D 418749069 418749786 717 False 1022.000000 1022 92.490000 1 712 1 chr5D.!!$F3 711
8 TraesCS7A01G216400 chr5A 685594695 685596527 1832 False 1601.000000 2080 96.282500 712 2682 2 chr5A.!!$F1 1970
9 TraesCS7A01G216400 chr7B 48705411 48707235 1824 True 1360.500000 1864 91.925500 711 2682 2 chr7B.!!$R1 1971
10 TraesCS7A01G216400 chr3D 162955688 162956777 1089 True 1733.000000 1733 95.413000 712 1798 1 chr3D.!!$R1 1086
11 TraesCS7A01G216400 chr3D 483728006 483729772 1766 False 1018.000000 1022 92.420000 1 712 2 chr3D.!!$F1 711
12 TraesCS7A01G216400 chr2B 382177604 382179457 1853 True 1197.000000 1688 88.262000 713 2682 2 chr2B.!!$R1 1969
13 TraesCS7A01G216400 chr3B 548009724 548011626 1902 True 1119.500000 1555 85.986500 712 2682 2 chr3B.!!$R1 1970
14 TraesCS7A01G216400 chr7D 394403172 394404495 1323 False 1483.000000 1483 87.462000 713 1997 1 chr7D.!!$F2 1284
15 TraesCS7A01G216400 chr7D 151454836 151455559 723 False 1022.000000 1022 92.414000 1 712 1 chr7D.!!$F1 711
16 TraesCS7A01G216400 chr1A 143345118 143346361 1243 False 1358.000000 1358 86.800000 713 1929 1 chr1A.!!$F1 1216
17 TraesCS7A01G216400 chr4D 483744636 483745352 716 False 1009.000000 1009 92.222000 1 712 1 chr4D.!!$F1 711
18 TraesCS7A01G216400 chr4D 82356560 82357749 1189 False 972.000000 1323 96.404000 713 2682 2 chr4D.!!$F2 1969
19 TraesCS7A01G216400 chr6A 560312503 560313219 716 False 1064.000000 1064 93.584000 2 712 1 chr6A.!!$F1 710
20 TraesCS7A01G216400 chr6D 419310963 419313122 2159 False 880.666667 1005 90.348333 713 2682 3 chr6D.!!$F1 1969

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
504 1569 0.17668 ACCTCATCTGCACTAAGGCG 59.823 55.0 0.0 0.0 36.28 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1947 3376 0.031043 TCGTCGTCGTGTGAACCATT 59.969 50.0 1.33 0.0 38.33 3.16 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
34 35 1.532794 CCTCCATCCCCTCTCTCGG 60.533 68.421 0.00 0.00 0.00 4.63
104 105 4.016706 CGAAGCCGTGACCCCCTT 62.017 66.667 0.00 0.00 0.00 3.95
113 114 1.072648 CGTGACCCCCTTTGTTTCCTA 59.927 52.381 0.00 0.00 0.00 2.94
219 1270 1.414897 GCTTTACGCCTTCGACGTG 59.585 57.895 9.54 0.55 44.79 4.49
312 1371 8.055279 TCTTCAACCATAAGTCCAAATGAATC 57.945 34.615 0.00 0.00 0.00 2.52
316 1375 6.867662 ACCATAAGTCCAAATGAATCGATC 57.132 37.500 0.00 0.00 0.00 3.69
333 1398 3.559655 TCGATCCCATTATGTTCTTTGCG 59.440 43.478 0.00 0.00 0.00 4.85
391 1456 3.866651 TGAGCTGTCTAGAATTTCTGGC 58.133 45.455 9.22 3.72 0.00 4.85
463 1528 0.322008 GAGGGTGAGGCTTGTCTTGG 60.322 60.000 0.00 0.00 0.00 3.61
504 1569 0.176680 ACCTCATCTGCACTAAGGCG 59.823 55.000 0.00 0.00 36.28 5.52
967 2039 3.477224 GACCGTGCGGCAAAAGCAA 62.477 57.895 3.23 0.00 46.97 3.91
1208 2280 1.551430 TCCGAGTTTTATCTGCCGGAA 59.449 47.619 5.05 0.00 42.31 4.30
1216 2288 0.824109 TATCTGCCGGAAGACACCTG 59.176 55.000 16.56 0.00 0.00 4.00
1233 2305 2.172483 CTGCACCGGCTTGGAGTACT 62.172 60.000 0.00 0.00 42.00 2.73
1279 2351 3.072468 CCTAGTTCCGGCCCGTCA 61.072 66.667 0.85 0.00 0.00 4.35
1283 2355 1.474332 TAGTTCCGGCCCGTCAAGTT 61.474 55.000 0.85 0.00 0.00 2.66
1395 2467 5.737860 ACATGTCTTTGCTGTGATCTGATA 58.262 37.500 0.00 0.00 0.00 2.15
1399 2471 7.692460 TGTCTTTGCTGTGATCTGATATTTT 57.308 32.000 0.00 0.00 0.00 1.82
1614 2929 1.952990 TGAAATGTTGCGTGTGTGGAT 59.047 42.857 0.00 0.00 0.00 3.41
1944 3373 5.398176 TTGTTCACACGACAACAAGATAC 57.602 39.130 0.00 0.00 37.54 2.24
1945 3374 3.805422 TGTTCACACGACAACAAGATACC 59.195 43.478 0.00 0.00 29.43 2.73
1946 3375 3.737032 TCACACGACAACAAGATACCA 57.263 42.857 0.00 0.00 0.00 3.25
1947 3376 4.061357 TCACACGACAACAAGATACCAA 57.939 40.909 0.00 0.00 0.00 3.67
1948 3377 4.443621 TCACACGACAACAAGATACCAAA 58.556 39.130 0.00 0.00 0.00 3.28
1949 3378 5.060506 TCACACGACAACAAGATACCAAAT 58.939 37.500 0.00 0.00 0.00 2.32
1950 3379 5.049749 TCACACGACAACAAGATACCAAATG 60.050 40.000 0.00 0.00 0.00 2.32
1951 3380 4.215399 ACACGACAACAAGATACCAAATGG 59.785 41.667 0.00 0.00 42.17 3.16
1962 3391 3.746108 CCAAATGGTTCACACGACG 57.254 52.632 0.00 0.00 0.00 5.12
1963 3392 1.222300 CCAAATGGTTCACACGACGA 58.778 50.000 0.00 0.00 0.00 4.20
1964 3393 1.070175 CCAAATGGTTCACACGACGAC 60.070 52.381 0.00 0.00 0.00 4.34
1965 3394 0.856641 AAATGGTTCACACGACGACG 59.143 50.000 5.58 5.58 45.75 5.12
1966 3395 0.031043 AATGGTTCACACGACGACGA 59.969 50.000 15.32 0.00 42.66 4.20
1967 3396 0.662374 ATGGTTCACACGACGACGAC 60.662 55.000 15.32 0.63 42.66 4.34
1968 3397 1.298563 GGTTCACACGACGACGACA 60.299 57.895 15.32 0.00 42.66 4.35
1969 3398 0.662374 GGTTCACACGACGACGACAT 60.662 55.000 15.32 0.00 42.66 3.06
1970 3399 1.400113 GGTTCACACGACGACGACATA 60.400 52.381 15.32 0.00 42.66 2.29
1971 3400 1.640915 GTTCACACGACGACGACATAC 59.359 52.381 15.32 1.88 42.66 2.39
1972 3401 0.166597 TCACACGACGACGACATACC 59.833 55.000 15.32 0.00 42.66 2.73
1973 3402 0.110101 CACACGACGACGACATACCA 60.110 55.000 15.32 0.00 42.66 3.25
1974 3403 0.592637 ACACGACGACGACATACCAA 59.407 50.000 15.32 0.00 42.66 3.67
1975 3404 1.001487 ACACGACGACGACATACCAAA 60.001 47.619 15.32 0.00 42.66 3.28
1976 3405 1.647213 CACGACGACGACATACCAAAG 59.353 52.381 15.32 0.00 42.66 2.77
1977 3406 1.267806 ACGACGACGACATACCAAAGT 59.732 47.619 15.32 0.00 42.66 2.66
1978 3407 2.287788 ACGACGACGACATACCAAAGTT 60.288 45.455 15.32 0.00 42.66 2.66
1991 3420 3.013921 ACCAAAGTTGTTCACACGACAT 58.986 40.909 0.00 0.00 39.58 3.06
2094 3615 4.607557 CGACGACATACCAAAGTTGTTCAC 60.608 45.833 0.00 0.00 32.66 3.18
2095 3616 4.193090 ACGACATACCAAAGTTGTTCACA 58.807 39.130 0.00 0.00 0.00 3.58
2096 3617 4.034742 ACGACATACCAAAGTTGTTCACAC 59.965 41.667 0.00 0.00 0.00 3.82
2097 3618 4.523813 GACATACCAAAGTTGTTCACACG 58.476 43.478 0.00 0.00 0.00 4.49
2098 3619 4.193090 ACATACCAAAGTTGTTCACACGA 58.807 39.130 0.00 0.00 0.00 4.35
2099 3620 4.034742 ACATACCAAAGTTGTTCACACGAC 59.965 41.667 0.00 0.00 37.56 4.34
2100 3621 1.395608 ACCAAAGTTGTTCACACGACG 59.604 47.619 0.00 0.00 41.74 5.12
2101 3622 1.661617 CCAAAGTTGTTCACACGACGA 59.338 47.619 0.00 0.00 41.74 4.20
2102 3623 2.536130 CCAAAGTTGTTCACACGACGAC 60.536 50.000 0.00 0.00 41.74 4.34
2103 3624 0.918619 AAGTTGTTCACACGACGACG 59.081 50.000 5.58 5.58 41.74 5.12
2104 3625 0.099259 AGTTGTTCACACGACGACGA 59.901 50.000 15.32 0.00 41.74 4.20
2105 3626 0.225489 GTTGTTCACACGACGACGAC 59.775 55.000 15.32 1.53 42.66 4.34
2106 3627 0.179169 TTGTTCACACGACGACGACA 60.179 50.000 15.32 4.43 42.66 4.35
2107 3628 0.029700 TGTTCACACGACGACGACAT 59.970 50.000 15.32 0.00 42.66 3.06
2108 3629 1.263752 TGTTCACACGACGACGACATA 59.736 47.619 15.32 0.00 42.66 2.29
2109 3630 1.640915 GTTCACACGACGACGACATAC 59.359 52.381 15.32 1.88 42.66 2.39
2111 3632 0.179243 CACACGACGACGACATACGA 60.179 55.000 15.32 0.00 45.77 3.43
2112 3633 0.512518 ACACGACGACGACATACGAA 59.487 50.000 15.32 0.00 45.77 3.85
2113 3634 1.069973 ACACGACGACGACATACGAAA 60.070 47.619 15.32 0.00 45.77 3.46
2114 3635 1.571840 CACGACGACGACATACGAAAG 59.428 52.381 15.32 0.00 45.77 2.62
2115 3636 1.195448 ACGACGACGACATACGAAAGT 59.805 47.619 15.32 0.00 45.77 2.66
2116 3637 2.236690 CGACGACGACATACGAAAGTT 58.763 47.619 0.00 0.00 45.77 2.66
2117 3638 2.024875 CGACGACGACATACGAAAGTTG 59.975 50.000 0.00 0.00 45.77 3.16
2118 3639 2.975851 GACGACGACATACGAAAGTTGT 59.024 45.455 0.00 0.00 46.40 3.32
2119 3640 3.374745 ACGACGACATACGAAAGTTGTT 58.625 40.909 0.00 0.00 46.40 2.83
2120 3641 3.423206 ACGACGACATACGAAAGTTGTTC 59.577 43.478 0.00 0.00 46.40 3.18
2121 3642 3.422876 CGACGACATACGAAAGTTGTTCA 59.577 43.478 0.00 0.00 46.40 3.18
2122 3643 4.659922 CGACGACATACGAAAGTTGTTCAC 60.660 45.833 0.00 0.00 46.40 3.18
2123 3644 4.114073 ACGACATACGAAAGTTGTTCACA 58.886 39.130 0.00 0.00 46.40 3.58
2124 3645 4.748102 ACGACATACGAAAGTTGTTCACAT 59.252 37.500 0.00 0.00 46.40 3.21
2125 3646 5.072823 CGACATACGAAAGTTGTTCACATG 58.927 41.667 0.00 0.00 46.40 3.21
2126 3647 5.107645 CGACATACGAAAGTTGTTCACATGA 60.108 40.000 0.00 0.00 46.40 3.07
2127 3648 5.985781 ACATACGAAAGTTGTTCACATGAC 58.014 37.500 0.00 0.00 46.40 3.06
2128 3649 5.525745 ACATACGAAAGTTGTTCACATGACA 59.474 36.000 0.00 0.00 46.40 3.58
2129 3650 4.955925 ACGAAAGTTGTTCACATGACAA 57.044 36.364 0.00 0.00 46.40 3.18
2130 3651 4.658071 ACGAAAGTTGTTCACATGACAAC 58.342 39.130 17.01 17.01 46.40 3.32
2131 3652 3.718864 CGAAAGTTGTTCACATGACAACG 59.281 43.478 18.07 7.37 45.75 4.10
2132 3653 4.493382 CGAAAGTTGTTCACATGACAACGA 60.493 41.667 18.07 9.35 45.75 3.85
2133 3654 3.944422 AGTTGTTCACATGACAACGAC 57.056 42.857 18.07 17.73 45.75 4.34
2134 3655 3.266636 AGTTGTTCACATGACAACGACA 58.733 40.909 22.84 8.79 45.75 4.35
2135 3656 3.876914 AGTTGTTCACATGACAACGACAT 59.123 39.130 22.84 12.24 45.75 3.06
2136 3657 5.053811 AGTTGTTCACATGACAACGACATA 58.946 37.500 22.84 1.68 45.75 2.29
2137 3658 4.983215 TGTTCACATGACAACGACATAC 57.017 40.909 0.00 0.00 0.00 2.39
2138 3659 3.743911 TGTTCACATGACAACGACATACC 59.256 43.478 0.00 0.00 0.00 2.73
2139 3660 3.669251 TCACATGACAACGACATACCA 57.331 42.857 0.00 0.00 0.00 3.25
2140 3661 3.996480 TCACATGACAACGACATACCAA 58.004 40.909 0.00 0.00 0.00 3.67
2141 3662 4.381411 TCACATGACAACGACATACCAAA 58.619 39.130 0.00 0.00 0.00 3.28
2142 3663 4.450757 TCACATGACAACGACATACCAAAG 59.549 41.667 0.00 0.00 0.00 2.77
2143 3664 4.213270 CACATGACAACGACATACCAAAGT 59.787 41.667 0.00 0.00 0.00 2.66
2144 3665 4.819630 ACATGACAACGACATACCAAAGTT 59.180 37.500 0.00 0.00 0.00 2.66
2145 3666 4.804608 TGACAACGACATACCAAAGTTG 57.195 40.909 5.25 5.25 45.25 3.16
2149 3670 5.163302 CAACGACATACCAAAGTTGTTCA 57.837 39.130 0.00 0.00 39.65 3.18
2158 3679 7.231317 ACATACCAAAGTTGTTCAAGATGACAT 59.769 33.333 0.00 0.00 0.00 3.06
2192 3729 9.890629 ACATAACATAGTAGTTCAACATGACAT 57.109 29.630 0.00 0.00 33.07 3.06
2405 3964 0.030705 AAGCCCCTCTATCAGCTGGA 60.031 55.000 15.13 2.10 35.30 3.86
2553 4113 3.055385 GGTCCAACTTGTGTAGATGGCTA 60.055 47.826 0.00 0.00 44.35 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 0.036294 CCAAAACGAGAGGGAGGGAC 60.036 60.000 0.00 0.00 0.00 4.46
95 96 2.374170 GAGTAGGAAACAAAGGGGGTCA 59.626 50.000 0.00 0.00 0.00 4.02
104 105 1.132332 TGGAGGGGGAGTAGGAAACAA 60.132 52.381 0.00 0.00 0.00 2.83
113 114 2.122954 GTGAGGTGGAGGGGGAGT 59.877 66.667 0.00 0.00 0.00 3.85
219 1270 8.818622 ATTTAAATAAAACAGACTAGGGGGTC 57.181 34.615 0.00 0.00 36.56 4.46
312 1371 3.559655 TCGCAAAGAACATAATGGGATCG 59.440 43.478 0.00 0.00 30.92 3.69
316 1375 4.963276 TCTTCGCAAAGAACATAATGGG 57.037 40.909 0.00 0.00 38.58 4.00
333 1398 3.866651 TGGTGAGCTGCTAGATTTCTTC 58.133 45.455 0.15 0.00 0.00 2.87
391 1456 9.831737 AAATATCAAGAACACTTCTGAAAATCG 57.168 29.630 0.00 0.00 40.59 3.34
463 1528 0.329596 ACAAGCCTTCTGGTGATCCC 59.670 55.000 0.00 0.00 35.27 3.85
504 1569 3.742369 CCATGAAAATGTTGTTGTGGCTC 59.258 43.478 0.00 0.00 0.00 4.70
954 2026 1.363443 CTCCTTTGCTTTTGCCGCA 59.637 52.632 0.00 0.00 46.87 5.69
967 2039 1.687493 CCTCCCGCTTCTCCTCCTT 60.687 63.158 0.00 0.00 0.00 3.36
1048 2120 1.625818 AGTGTTGCTTACCTCTCCAGG 59.374 52.381 0.00 0.00 46.87 4.45
1161 2233 1.613035 CCACAATGCCCACCCCATT 60.613 57.895 0.00 0.00 33.41 3.16
1208 2280 3.560251 AAGCCGGTGCAGGTGTCT 61.560 61.111 1.90 0.00 41.13 3.41
1216 2288 1.741770 CAGTACTCCAAGCCGGTGC 60.742 63.158 1.90 0.00 35.57 5.01
1364 2436 4.637091 CACAGCAAAGACATGTCCATATCA 59.363 41.667 22.21 0.00 0.00 2.15
1395 2467 5.011943 TCTGGCAACTGCAATTTAGGAAAAT 59.988 36.000 3.76 0.00 44.36 1.82
1399 2471 3.153369 TCTGGCAACTGCAATTTAGGA 57.847 42.857 3.76 0.00 44.36 2.94
1484 2796 3.427098 CGTTCAATCTCAGCATGCATGTT 60.427 43.478 26.79 19.46 34.76 2.71
1614 2929 8.384718 ACAATAGGGTAATACCAAACAACAGTA 58.615 33.333 12.03 0.00 41.02 2.74
1944 3373 1.070175 GTCGTCGTGTGAACCATTTGG 60.070 52.381 0.00 0.00 42.17 3.28
1945 3374 1.396690 CGTCGTCGTGTGAACCATTTG 60.397 52.381 0.00 0.00 0.00 2.32
1946 3375 0.856641 CGTCGTCGTGTGAACCATTT 59.143 50.000 0.00 0.00 0.00 2.32
1947 3376 0.031043 TCGTCGTCGTGTGAACCATT 59.969 50.000 1.33 0.00 38.33 3.16
1948 3377 0.662374 GTCGTCGTCGTGTGAACCAT 60.662 55.000 1.33 0.00 38.33 3.55
1949 3378 1.298563 GTCGTCGTCGTGTGAACCA 60.299 57.895 1.33 0.00 38.33 3.67
1950 3379 0.662374 ATGTCGTCGTCGTGTGAACC 60.662 55.000 1.33 0.00 38.33 3.62
1951 3380 1.640915 GTATGTCGTCGTCGTGTGAAC 59.359 52.381 1.33 0.00 38.33 3.18
1952 3381 1.400113 GGTATGTCGTCGTCGTGTGAA 60.400 52.381 1.33 0.00 38.33 3.18
1953 3382 0.166597 GGTATGTCGTCGTCGTGTGA 59.833 55.000 1.33 0.00 38.33 3.58
1954 3383 0.110101 TGGTATGTCGTCGTCGTGTG 60.110 55.000 1.33 0.00 38.33 3.82
1955 3384 0.592637 TTGGTATGTCGTCGTCGTGT 59.407 50.000 1.33 0.00 38.33 4.49
1956 3385 1.647213 CTTTGGTATGTCGTCGTCGTG 59.353 52.381 1.33 0.00 38.33 4.35
1957 3386 1.267806 ACTTTGGTATGTCGTCGTCGT 59.732 47.619 1.33 0.00 38.33 4.34
1958 3387 1.973138 ACTTTGGTATGTCGTCGTCG 58.027 50.000 0.00 0.00 38.55 5.12
1959 3388 3.054878 ACAACTTTGGTATGTCGTCGTC 58.945 45.455 0.00 0.00 0.00 4.20
1960 3389 3.102052 ACAACTTTGGTATGTCGTCGT 57.898 42.857 0.00 0.00 0.00 4.34
1961 3390 3.491639 TGAACAACTTTGGTATGTCGTCG 59.508 43.478 0.00 0.00 0.00 5.12
1962 3391 4.271533 TGTGAACAACTTTGGTATGTCGTC 59.728 41.667 0.00 0.00 0.00 4.20
1963 3392 4.034742 GTGTGAACAACTTTGGTATGTCGT 59.965 41.667 0.00 0.00 0.00 4.34
1964 3393 4.523813 GTGTGAACAACTTTGGTATGTCG 58.476 43.478 0.00 0.00 0.00 4.35
1965 3394 4.271533 TCGTGTGAACAACTTTGGTATGTC 59.728 41.667 0.00 0.00 0.00 3.06
1966 3395 4.034742 GTCGTGTGAACAACTTTGGTATGT 59.965 41.667 0.00 0.00 0.00 2.29
1967 3396 4.034626 TGTCGTGTGAACAACTTTGGTATG 59.965 41.667 0.00 0.00 0.00 2.39
1968 3397 4.193090 TGTCGTGTGAACAACTTTGGTAT 58.807 39.130 0.00 0.00 0.00 2.73
1969 3398 3.597255 TGTCGTGTGAACAACTTTGGTA 58.403 40.909 0.00 0.00 0.00 3.25
1970 3399 2.428491 TGTCGTGTGAACAACTTTGGT 58.572 42.857 0.00 0.00 0.00 3.67
1971 3400 3.691049 ATGTCGTGTGAACAACTTTGG 57.309 42.857 0.00 0.00 0.00 3.28
1972 3401 5.564768 TGTTATGTCGTGTGAACAACTTTG 58.435 37.500 0.00 0.00 0.00 2.77
1973 3402 5.804692 TGTTATGTCGTGTGAACAACTTT 57.195 34.783 0.00 0.00 0.00 2.66
1974 3403 6.073440 GGTATGTTATGTCGTGTGAACAACTT 60.073 38.462 0.00 0.00 35.56 2.66
1975 3404 5.407387 GGTATGTTATGTCGTGTGAACAACT 59.593 40.000 0.00 0.00 35.56 3.16
1976 3405 5.177881 TGGTATGTTATGTCGTGTGAACAAC 59.822 40.000 0.00 0.00 35.56 3.32
1977 3406 5.298347 TGGTATGTTATGTCGTGTGAACAA 58.702 37.500 0.00 0.00 35.56 2.83
1978 3407 4.884247 TGGTATGTTATGTCGTGTGAACA 58.116 39.130 0.00 0.00 36.32 3.18
1991 3420 5.816258 TCGTGTGAACAACTTTGGTATGTTA 59.184 36.000 0.00 0.00 37.41 2.41
2094 3615 1.571840 CTTTCGTATGTCGTCGTCGTG 59.428 52.381 1.33 0.00 40.80 4.35
2095 3616 1.195448 ACTTTCGTATGTCGTCGTCGT 59.805 47.619 1.33 0.00 40.80 4.34
2096 3617 1.874562 ACTTTCGTATGTCGTCGTCG 58.125 50.000 0.00 0.00 40.80 5.12
2097 3618 2.975851 ACAACTTTCGTATGTCGTCGTC 59.024 45.455 0.00 0.00 40.80 4.20
2098 3619 3.004024 ACAACTTTCGTATGTCGTCGT 57.996 42.857 0.00 0.00 40.80 4.34
2099 3620 3.422876 TGAACAACTTTCGTATGTCGTCG 59.577 43.478 0.00 0.00 40.80 5.12
2100 3621 4.207635 TGTGAACAACTTTCGTATGTCGTC 59.792 41.667 0.00 0.00 40.80 4.20
2101 3622 4.114073 TGTGAACAACTTTCGTATGTCGT 58.886 39.130 0.00 0.00 40.80 4.34
2102 3623 4.702247 TGTGAACAACTTTCGTATGTCG 57.298 40.909 0.00 0.00 41.41 4.35
2103 3624 6.071463 GTCATGTGAACAACTTTCGTATGTC 58.929 40.000 0.00 0.00 0.00 3.06
2104 3625 5.525745 TGTCATGTGAACAACTTTCGTATGT 59.474 36.000 0.00 0.00 0.00 2.29
2105 3626 5.984627 TGTCATGTGAACAACTTTCGTATG 58.015 37.500 0.00 0.00 0.00 2.39
2106 3627 6.427150 GTTGTCATGTGAACAACTTTCGTAT 58.573 36.000 17.30 0.00 40.17 3.06
2107 3628 5.501092 CGTTGTCATGTGAACAACTTTCGTA 60.501 40.000 20.36 0.00 40.89 3.43
2108 3629 4.658071 GTTGTCATGTGAACAACTTTCGT 58.342 39.130 17.30 0.00 40.17 3.85
2109 3630 3.718864 CGTTGTCATGTGAACAACTTTCG 59.281 43.478 20.36 8.78 40.89 3.46
2110 3631 4.728608 GTCGTTGTCATGTGAACAACTTTC 59.271 41.667 20.36 10.76 40.89 2.62
2111 3632 4.155099 TGTCGTTGTCATGTGAACAACTTT 59.845 37.500 20.36 0.00 40.89 2.66
2112 3633 3.687212 TGTCGTTGTCATGTGAACAACTT 59.313 39.130 20.36 0.00 40.89 2.66
2113 3634 3.266636 TGTCGTTGTCATGTGAACAACT 58.733 40.909 20.36 0.00 40.89 3.16
2114 3635 3.666883 TGTCGTTGTCATGTGAACAAC 57.333 42.857 15.46 15.46 39.99 3.32
2115 3636 4.212425 GGTATGTCGTTGTCATGTGAACAA 59.788 41.667 9.32 3.13 0.00 2.83
2116 3637 3.743911 GGTATGTCGTTGTCATGTGAACA 59.256 43.478 9.32 0.00 0.00 3.18
2117 3638 3.743911 TGGTATGTCGTTGTCATGTGAAC 59.256 43.478 0.00 0.00 0.00 3.18
2118 3639 3.996480 TGGTATGTCGTTGTCATGTGAA 58.004 40.909 0.00 0.00 0.00 3.18
2119 3640 3.669251 TGGTATGTCGTTGTCATGTGA 57.331 42.857 0.00 0.00 0.00 3.58
2120 3641 4.213270 ACTTTGGTATGTCGTTGTCATGTG 59.787 41.667 0.00 0.00 0.00 3.21
2121 3642 4.385825 ACTTTGGTATGTCGTTGTCATGT 58.614 39.130 0.00 0.00 0.00 3.21
2122 3643 5.146460 CAACTTTGGTATGTCGTTGTCATG 58.854 41.667 0.00 0.00 32.52 3.07
2123 3644 4.819630 ACAACTTTGGTATGTCGTTGTCAT 59.180 37.500 0.00 0.00 43.07 3.06
2124 3645 4.193090 ACAACTTTGGTATGTCGTTGTCA 58.807 39.130 0.00 0.00 43.07 3.58
2125 3646 4.806342 ACAACTTTGGTATGTCGTTGTC 57.194 40.909 0.00 0.00 43.07 3.18
2126 3647 4.636648 TGAACAACTTTGGTATGTCGTTGT 59.363 37.500 0.00 0.00 47.00 3.32
2127 3648 5.163302 TGAACAACTTTGGTATGTCGTTG 57.837 39.130 0.00 0.00 40.41 4.10
2128 3649 5.587043 TCTTGAACAACTTTGGTATGTCGTT 59.413 36.000 0.00 0.00 0.00 3.85
2129 3650 5.120399 TCTTGAACAACTTTGGTATGTCGT 58.880 37.500 0.00 0.00 0.00 4.34
2130 3651 5.666969 TCTTGAACAACTTTGGTATGTCG 57.333 39.130 0.00 0.00 0.00 4.35
2131 3652 7.078228 GTCATCTTGAACAACTTTGGTATGTC 58.922 38.462 0.00 0.00 0.00 3.06
2132 3653 6.545666 TGTCATCTTGAACAACTTTGGTATGT 59.454 34.615 0.00 0.00 0.00 2.29
2133 3654 6.969366 TGTCATCTTGAACAACTTTGGTATG 58.031 36.000 0.00 0.00 0.00 2.39
2134 3655 7.448161 TCATGTCATCTTGAACAACTTTGGTAT 59.552 33.333 0.00 0.00 0.00 2.73
2135 3656 6.770303 TCATGTCATCTTGAACAACTTTGGTA 59.230 34.615 0.00 0.00 0.00 3.25
2136 3657 5.593909 TCATGTCATCTTGAACAACTTTGGT 59.406 36.000 0.00 0.00 0.00 3.67
2137 3658 5.916883 GTCATGTCATCTTGAACAACTTTGG 59.083 40.000 0.00 0.00 31.27 3.28
2138 3659 5.622448 CGTCATGTCATCTTGAACAACTTTG 59.378 40.000 0.00 0.00 31.27 2.77
2139 3660 5.527214 TCGTCATGTCATCTTGAACAACTTT 59.473 36.000 0.00 0.00 31.27 2.66
2140 3661 5.050091 GTCGTCATGTCATCTTGAACAACTT 60.050 40.000 0.00 0.00 31.27 2.66
2141 3662 4.449068 GTCGTCATGTCATCTTGAACAACT 59.551 41.667 0.00 0.00 31.27 3.16
2142 3663 4.211164 TGTCGTCATGTCATCTTGAACAAC 59.789 41.667 0.00 0.00 31.27 3.32
2143 3664 4.376146 TGTCGTCATGTCATCTTGAACAA 58.624 39.130 0.00 0.00 31.27 2.83
2144 3665 3.988819 TGTCGTCATGTCATCTTGAACA 58.011 40.909 0.00 0.00 31.27 3.18
2145 3666 4.211164 TGTTGTCGTCATGTCATCTTGAAC 59.789 41.667 0.00 0.00 31.27 3.18
2146 3667 4.376146 TGTTGTCGTCATGTCATCTTGAA 58.624 39.130 0.00 0.00 31.27 2.69
2147 3668 3.988819 TGTTGTCGTCATGTCATCTTGA 58.011 40.909 0.00 0.00 0.00 3.02
2148 3669 4.934075 ATGTTGTCGTCATGTCATCTTG 57.066 40.909 0.00 0.00 0.00 3.02
2149 3670 5.931724 TGTTATGTTGTCGTCATGTCATCTT 59.068 36.000 0.00 0.00 0.00 2.40
2158 3679 7.595604 TGAACTACTATGTTATGTTGTCGTCA 58.404 34.615 0.00 0.00 0.00 4.35
2192 3729 8.334263 TCTTCACTTAATAATGTGATGTGCAA 57.666 30.769 0.00 0.00 41.93 4.08
2405 3964 4.658435 AGCCCCAGGAAAAATTACAAAAGT 59.342 37.500 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.