Multiple sequence alignment - TraesCS2B01G016300

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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 TraesCS2B01G016300 chr2B 100.000 2711 0 0 1 2711 7685099 7682389 0.000000e+00 5007.0
1 TraesCS2B01G016300 chr2B 77.600 125 22 6 2262 2383 482712181 482712060 1.350000e-08 71.3
2 TraesCS2B01G016300 chr2D 90.998 2055 94 36 52 2038 3003750 3005781 0.000000e+00 2686.0
3 TraesCS2B01G016300 chr2D 94.118 595 30 2 2119 2708 3005977 3006571 0.000000e+00 900.0
4 TraesCS2B01G016300 chr2D 81.373 102 18 1 2283 2383 406735240 406735139 6.220000e-12 82.4
5 TraesCS2B01G016300 chr2A 87.707 2115 155 59 255 2291 2709656 2707569 0.000000e+00 2368.0
6 TraesCS2B01G016300 chr2A 94.643 56 2 1 154 209 2709711 2709657 4.810000e-13 86.1
7 TraesCS2B01G016300 chr1B 82.368 1174 121 45 586 1727 432379774 432378655 0.000000e+00 942.0
8 TraesCS2B01G016300 chr1D 84.137 933 88 30 855 1776 319618129 319617246 0.000000e+00 848.0
9 TraesCS2B01G016300 chr1D 74.242 198 39 12 2189 2382 200717498 200717309 3.740000e-09 73.1
10 TraesCS2B01G016300 chr1A 80.526 1217 102 61 586 1778 403631890 403632995 0.000000e+00 809.0
11 TraesCS2B01G016300 chr1A 74.747 198 38 11 2189 2382 254198415 254198226 8.050000e-11 78.7
12 TraesCS2B01G016300 chr6D 80.833 360 53 10 2356 2708 325436921 325437271 4.450000e-68 268.0
13 TraesCS2B01G016300 chr5B 74.953 535 109 19 2189 2708 106919248 106919772 3.510000e-54 222.0
14 TraesCS2B01G016300 chr5D 75.153 491 92 22 2189 2668 97528874 97529345 1.270000e-48 204.0
15 TraesCS2B01G016300 chr6B 78.235 340 57 13 2356 2686 497757124 497756793 4.580000e-48 202.0
16 TraesCS2B01G016300 chr5A 90.625 64 4 2 2341 2403 106179099 106179037 1.730000e-12 84.2


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 TraesCS2B01G016300 chr2B 7682389 7685099 2710 True 5007.00 5007 100.000 1 2711 1 chr2B.!!$R1 2710
1 TraesCS2B01G016300 chr2D 3003750 3006571 2821 False 1793.00 2686 92.558 52 2708 2 chr2D.!!$F1 2656
2 TraesCS2B01G016300 chr2A 2707569 2709711 2142 True 1227.05 2368 91.175 154 2291 2 chr2A.!!$R1 2137
3 TraesCS2B01G016300 chr1B 432378655 432379774 1119 True 942.00 942 82.368 586 1727 1 chr1B.!!$R1 1141
4 TraesCS2B01G016300 chr1D 319617246 319618129 883 True 848.00 848 84.137 855 1776 1 chr1D.!!$R2 921
5 TraesCS2B01G016300 chr1A 403631890 403632995 1105 False 809.00 809 80.526 586 1778 1 chr1A.!!$F1 1192
6 TraesCS2B01G016300 chr5B 106919248 106919772 524 False 222.00 222 74.953 2189 2708 1 chr5B.!!$F1 519

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
32 33 0.108804 CACGAGATAGTTGGTGCGGT 60.109 55.0 0.0 0.0 0.0 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 2024 0.315568 GGCAGCTACCGATCGATCTT 59.684 55.0 22.43 12.01 0.0 2.4 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 4.451150 GCCCGCATGGTCTCACGA 62.451 66.667 0.00 0.00 36.04 4.35
18 19 2.202797 CCCGCATGGTCTCACGAG 60.203 66.667 0.00 0.00 0.00 4.18
19 20 2.710902 CCCGCATGGTCTCACGAGA 61.711 63.158 0.00 0.00 34.56 4.04
20 21 1.439228 CCGCATGGTCTCACGAGAT 59.561 57.895 0.00 0.00 39.97 2.75
21 22 0.668535 CCGCATGGTCTCACGAGATA 59.331 55.000 0.00 0.00 39.97 1.98
22 23 1.335415 CCGCATGGTCTCACGAGATAG 60.335 57.143 0.00 0.00 39.97 2.08
23 24 1.335182 CGCATGGTCTCACGAGATAGT 59.665 52.381 0.00 0.00 39.97 2.12
24 25 2.223595 CGCATGGTCTCACGAGATAGTT 60.224 50.000 0.00 0.00 39.97 2.24
25 26 3.119291 GCATGGTCTCACGAGATAGTTG 58.881 50.000 0.00 0.00 39.97 3.16
26 27 3.711086 CATGGTCTCACGAGATAGTTGG 58.289 50.000 0.00 0.00 39.97 3.77
27 28 2.803956 TGGTCTCACGAGATAGTTGGT 58.196 47.619 0.00 0.00 39.97 3.67
28 29 2.492088 TGGTCTCACGAGATAGTTGGTG 59.508 50.000 0.00 0.00 39.97 4.17
29 30 2.531206 GTCTCACGAGATAGTTGGTGC 58.469 52.381 0.00 0.00 39.97 5.01
30 31 1.132453 TCTCACGAGATAGTTGGTGCG 59.868 52.381 0.00 0.00 31.41 5.34
31 32 0.172578 TCACGAGATAGTTGGTGCGG 59.827 55.000 0.00 0.00 0.00 5.69
32 33 0.108804 CACGAGATAGTTGGTGCGGT 60.109 55.000 0.00 0.00 0.00 5.68
33 34 0.606604 ACGAGATAGTTGGTGCGGTT 59.393 50.000 0.00 0.00 0.00 4.44
34 35 1.820519 ACGAGATAGTTGGTGCGGTTA 59.179 47.619 0.00 0.00 0.00 2.85
35 36 2.429610 ACGAGATAGTTGGTGCGGTTAT 59.570 45.455 0.00 0.00 0.00 1.89
36 37 2.794910 CGAGATAGTTGGTGCGGTTATG 59.205 50.000 0.00 0.00 0.00 1.90
37 38 3.131396 GAGATAGTTGGTGCGGTTATGG 58.869 50.000 0.00 0.00 0.00 2.74
38 39 2.504175 AGATAGTTGGTGCGGTTATGGT 59.496 45.455 0.00 0.00 0.00 3.55
39 40 2.389962 TAGTTGGTGCGGTTATGGTC 57.610 50.000 0.00 0.00 0.00 4.02
40 41 0.398696 AGTTGGTGCGGTTATGGTCA 59.601 50.000 0.00 0.00 0.00 4.02
41 42 1.004277 AGTTGGTGCGGTTATGGTCAT 59.996 47.619 0.00 0.00 0.00 3.06
42 43 1.816224 GTTGGTGCGGTTATGGTCATT 59.184 47.619 0.00 0.00 0.00 2.57
43 44 1.458398 TGGTGCGGTTATGGTCATTG 58.542 50.000 0.00 0.00 0.00 2.82
44 45 1.271652 TGGTGCGGTTATGGTCATTGT 60.272 47.619 0.00 0.00 0.00 2.71
45 46 1.816224 GGTGCGGTTATGGTCATTGTT 59.184 47.619 0.00 0.00 0.00 2.83
46 47 2.415357 GGTGCGGTTATGGTCATTGTTG 60.415 50.000 0.00 0.00 0.00 3.33
47 48 2.227865 GTGCGGTTATGGTCATTGTTGT 59.772 45.455 0.00 0.00 0.00 3.32
48 49 3.437395 GTGCGGTTATGGTCATTGTTGTA 59.563 43.478 0.00 0.00 0.00 2.41
49 50 3.687212 TGCGGTTATGGTCATTGTTGTAG 59.313 43.478 0.00 0.00 0.00 2.74
50 51 3.486875 GCGGTTATGGTCATTGTTGTAGC 60.487 47.826 0.00 0.00 0.00 3.58
51 52 3.938963 CGGTTATGGTCATTGTTGTAGCT 59.061 43.478 0.00 0.00 0.00 3.32
52 53 4.394920 CGGTTATGGTCATTGTTGTAGCTT 59.605 41.667 0.00 0.00 0.00 3.74
53 54 5.106317 CGGTTATGGTCATTGTTGTAGCTTT 60.106 40.000 0.00 0.00 0.00 3.51
54 55 6.322491 GGTTATGGTCATTGTTGTAGCTTTC 58.678 40.000 0.00 0.00 0.00 2.62
55 56 6.151144 GGTTATGGTCATTGTTGTAGCTTTCT 59.849 38.462 0.00 0.00 0.00 2.52
56 57 7.309194 GGTTATGGTCATTGTTGTAGCTTTCTT 60.309 37.037 0.00 0.00 0.00 2.52
70 71 3.394606 AGCTTTCTTTTGTCCTCCCTACA 59.605 43.478 0.00 0.00 0.00 2.74
72 73 3.396260 TTCTTTTGTCCTCCCTACACG 57.604 47.619 0.00 0.00 0.00 4.49
73 74 2.322658 TCTTTTGTCCTCCCTACACGT 58.677 47.619 0.00 0.00 0.00 4.49
78 79 4.508551 TTGTCCTCCCTACACGTAGATA 57.491 45.455 5.77 0.00 35.21 1.98
88 89 7.663827 TCCCTACACGTAGATATGGTTTTATG 58.336 38.462 5.77 0.00 35.21 1.90
95 96 8.879759 CACGTAGATATGGTTTTATGTGACTTT 58.120 33.333 0.00 0.00 35.88 2.66
108 109 3.064207 TGTGACTTTGATACTTGCCGAC 58.936 45.455 0.00 0.00 0.00 4.79
109 110 2.092211 GTGACTTTGATACTTGCCGACG 59.908 50.000 0.00 0.00 0.00 5.12
125 129 5.691815 TGCCGACGGTTAATTTTAGAAAAG 58.308 37.500 16.73 0.00 0.00 2.27
128 132 6.857451 GCCGACGGTTAATTTTAGAAAAGAAA 59.143 34.615 16.73 0.00 0.00 2.52
130 134 8.846607 CCGACGGTTAATTTTAGAAAAGAAATG 58.153 33.333 5.48 0.00 0.00 2.32
131 135 8.363029 CGACGGTTAATTTTAGAAAAGAAATGC 58.637 33.333 0.00 0.00 0.00 3.56
147 151 8.955061 AAAGAAATGCCAATTAATATCGATCG 57.045 30.769 9.36 9.36 0.00 3.69
151 155 5.400066 TGCCAATTAATATCGATCGGAGA 57.600 39.130 16.41 0.79 45.75 3.71
209 226 1.530293 GCAGATGCTCATCGGTCAATC 59.470 52.381 10.72 0.00 42.48 2.67
311 330 2.046285 CGGGCCACCAAGAATGTCC 61.046 63.158 4.39 0.00 36.13 4.02
333 352 3.633986 CCTGGTTCCTTAGCCATGAATTC 59.366 47.826 0.00 0.00 33.84 2.17
405 425 2.363172 GCTTCTCTTCCCGCTCCCT 61.363 63.158 0.00 0.00 0.00 4.20
504 525 4.568152 TCGCAGAAATCAGTATCGATGA 57.432 40.909 8.54 0.00 0.00 2.92
551 572 4.617253 TGCTTAACTGAGTTGCCTCTTA 57.383 40.909 8.33 0.00 38.61 2.10
604 627 5.523438 TTGTTTTGCTTAACTTAGTGGGG 57.477 39.130 0.00 0.00 0.00 4.96
741 797 0.242555 CCCGAATTTTCAACGGTGGG 59.757 55.000 0.00 0.00 44.34 4.61
750 806 0.250989 TCAACGGTGGGAATGGGAAC 60.251 55.000 0.00 0.00 0.00 3.62
827 893 4.991472 CAAAAGCTGCTTCTTTATCCCTC 58.009 43.478 16.28 0.00 35.41 4.30
888 954 5.437946 CCTCCTTTTACCTCCATTACTTCC 58.562 45.833 0.00 0.00 0.00 3.46
892 958 5.585047 CCTTTTACCTCCATTACTTCCTTCG 59.415 44.000 0.00 0.00 0.00 3.79
897 963 3.127030 CCTCCATTACTTCCTTCGTTTGC 59.873 47.826 0.00 0.00 0.00 3.68
898 964 4.003648 CTCCATTACTTCCTTCGTTTGCT 58.996 43.478 0.00 0.00 0.00 3.91
900 966 3.127030 CCATTACTTCCTTCGTTTGCTCC 59.873 47.826 0.00 0.00 0.00 4.70
915 981 1.877576 GCTCCCCCTTTTGCTTTCCG 61.878 60.000 0.00 0.00 0.00 4.30
916 982 0.539669 CTCCCCCTTTTGCTTTCCGT 60.540 55.000 0.00 0.00 0.00 4.69
919 985 1.540146 CCCCCTTTTGCTTTCCGTTTG 60.540 52.381 0.00 0.00 0.00 2.93
921 987 1.410882 CCCTTTTGCTTTCCGTTTGGA 59.589 47.619 0.00 0.00 44.61 3.53
922 988 2.469826 CCTTTTGCTTTCCGTTTGGAC 58.530 47.619 0.00 0.00 46.45 4.02
923 989 2.159170 CCTTTTGCTTTCCGTTTGGACA 60.159 45.455 0.00 0.00 46.45 4.02
924 990 2.570442 TTTGCTTTCCGTTTGGACAC 57.430 45.000 0.00 0.00 46.45 3.67
962 1028 3.769300 GCTTCTTCTCTTCTCCTCTCCTT 59.231 47.826 0.00 0.00 0.00 3.36
963 1029 4.142160 GCTTCTTCTCTTCTCCTCTCCTTC 60.142 50.000 0.00 0.00 0.00 3.46
964 1030 4.946160 TCTTCTCTTCTCCTCTCCTTCT 57.054 45.455 0.00 0.00 0.00 2.85
965 1031 4.599041 TCTTCTCTTCTCCTCTCCTTCTG 58.401 47.826 0.00 0.00 0.00 3.02
967 1033 4.396357 TCTCTTCTCCTCTCCTTCTGTT 57.604 45.455 0.00 0.00 0.00 3.16
968 1034 4.085733 TCTCTTCTCCTCTCCTTCTGTTG 58.914 47.826 0.00 0.00 0.00 3.33
969 1035 3.831911 CTCTTCTCCTCTCCTTCTGTTGT 59.168 47.826 0.00 0.00 0.00 3.32
970 1036 4.227197 TCTTCTCCTCTCCTTCTGTTGTT 58.773 43.478 0.00 0.00 0.00 2.83
973 1039 3.711704 TCTCCTCTCCTTCTGTTGTTGTT 59.288 43.478 0.00 0.00 0.00 2.83
978 1074 3.128589 TCTCCTTCTGTTGTTGTTGTTGC 59.871 43.478 0.00 0.00 0.00 4.17
1023 1119 1.146774 GGTACTCCTAGTCCTACCCCC 59.853 61.905 0.00 0.00 0.00 5.40
1084 1180 2.490217 GCATGAAGCAGCAGCAGG 59.510 61.111 3.17 0.00 45.49 4.85
1125 1254 1.069090 GCCGCCGTCCAAGATCATA 59.931 57.895 0.00 0.00 0.00 2.15
1227 1356 1.179174 CCGGCCTCGTCATCCTCATA 61.179 60.000 0.00 0.00 33.95 2.15
1239 1368 5.512404 CGTCATCCTCATAGTCTACCTCTCT 60.512 48.000 0.00 0.00 0.00 3.10
1723 1870 9.559958 CAACATCAAAGTGATTAGTAATTGGTC 57.440 33.333 0.00 0.00 34.28 4.02
1732 1879 6.931840 GTGATTAGTAATTGGTCTCTGGATCC 59.068 42.308 4.20 4.20 0.00 3.36
1748 1895 4.458397 TGGATCCATGCTCTTTTGATCTC 58.542 43.478 11.44 0.00 33.87 2.75
1749 1896 4.080186 TGGATCCATGCTCTTTTGATCTCA 60.080 41.667 11.44 1.65 33.87 3.27
1866 2024 6.039616 GTGGCTTTCACATTTCTTGTTTACA 58.960 36.000 0.00 0.00 45.39 2.41
1867 2025 6.533367 GTGGCTTTCACATTTCTTGTTTACAA 59.467 34.615 0.00 0.00 45.39 2.41
1980 2141 8.248253 TGTCTAGATATTGTTTGTACATCGTGT 58.752 33.333 0.00 0.00 33.44 4.49
1981 2142 9.084164 GTCTAGATATTGTTTGTACATCGTGTT 57.916 33.333 0.00 0.00 33.44 3.32
2005 2167 9.003658 GTTTCTCATATATGGTTAACAGGATGG 57.996 37.037 12.78 0.00 43.62 3.51
2039 2217 3.642848 TGCTGCAGACATAGATGATACCA 59.357 43.478 20.43 0.00 0.00 3.25
2046 2224 5.187381 CAGACATAGATGATACCAGATGGCT 59.813 44.000 0.00 0.00 39.32 4.75
2065 2243 2.678190 GCTTTGGTGATTCTCCGTAGCT 60.678 50.000 17.09 0.00 33.91 3.32
2187 2473 6.029607 CAGTTGATTTGGTTTGATATCCACG 58.970 40.000 0.00 0.00 33.12 4.94
2260 2546 3.249917 CCGCGAAACCAAATTAAGCATT 58.750 40.909 8.23 0.00 0.00 3.56
2281 2571 8.592809 AGCATTGGGATTTGTAATCTTTTGTAA 58.407 29.630 0.00 0.00 0.00 2.41
2437 2728 6.970484 AGCAAGAAACAAAATCGTAAGTGAT 58.030 32.000 0.00 0.00 39.48 3.06
2486 2777 7.504924 TGAAGGTTTTGATTCACTTACGATT 57.495 32.000 0.00 0.00 0.00 3.34
2560 2851 6.183359 GCTATAGCGACGACAATGGTTATTAC 60.183 42.308 9.40 0.00 0.00 1.89
2644 2939 6.658188 AGGAATTATTCTCCTTCGTCTAGG 57.342 41.667 4.87 0.00 40.61 3.02
2672 2967 1.856265 GCTTGCCAGGAACACTTCGG 61.856 60.000 0.00 0.00 0.00 4.30
2708 3004 8.238631 GCAACGAAAACATTATTTAAGGGAGTA 58.761 33.333 0.00 0.00 0.00 2.59
2709 3005 9.769093 CAACGAAAACATTATTTAAGGGAGTAG 57.231 33.333 0.00 0.00 0.00 2.57
2710 3006 9.729281 AACGAAAACATTATTTAAGGGAGTAGA 57.271 29.630 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.451150 TCGTGAGACCATGCGGGC 62.451 66.667 0.00 0.00 43.02 6.13
1 2 2.021068 ATCTCGTGAGACCATGCGGG 62.021 60.000 0.86 0.00 40.75 6.13
2 3 0.668535 TATCTCGTGAGACCATGCGG 59.331 55.000 0.86 0.00 40.75 5.69
4 5 3.119291 CAACTATCTCGTGAGACCATGC 58.881 50.000 0.86 0.00 40.75 4.06
5 6 3.131223 ACCAACTATCTCGTGAGACCATG 59.869 47.826 0.86 0.14 40.75 3.66
6 7 3.131223 CACCAACTATCTCGTGAGACCAT 59.869 47.826 0.86 0.00 40.75 3.55
7 8 2.492088 CACCAACTATCTCGTGAGACCA 59.508 50.000 0.86 0.00 40.75 4.02
8 9 2.735762 GCACCAACTATCTCGTGAGACC 60.736 54.545 0.86 0.00 40.75 3.85
9 10 2.531206 GCACCAACTATCTCGTGAGAC 58.469 52.381 0.86 0.00 40.75 3.36
10 11 1.132453 CGCACCAACTATCTCGTGAGA 59.868 52.381 1.43 1.43 42.37 3.27
11 12 1.550065 CGCACCAACTATCTCGTGAG 58.450 55.000 0.00 0.00 0.00 3.51
12 13 0.172578 CCGCACCAACTATCTCGTGA 59.827 55.000 0.00 0.00 0.00 4.35
13 14 0.108804 ACCGCACCAACTATCTCGTG 60.109 55.000 0.00 0.00 0.00 4.35
14 15 0.606604 AACCGCACCAACTATCTCGT 59.393 50.000 0.00 0.00 0.00 4.18
15 16 2.572191 TAACCGCACCAACTATCTCG 57.428 50.000 0.00 0.00 0.00 4.04
16 17 3.131396 CCATAACCGCACCAACTATCTC 58.869 50.000 0.00 0.00 0.00 2.75
17 18 2.504175 ACCATAACCGCACCAACTATCT 59.496 45.455 0.00 0.00 0.00 1.98
18 19 2.870411 GACCATAACCGCACCAACTATC 59.130 50.000 0.00 0.00 0.00 2.08
19 20 2.237643 TGACCATAACCGCACCAACTAT 59.762 45.455 0.00 0.00 0.00 2.12
20 21 1.624312 TGACCATAACCGCACCAACTA 59.376 47.619 0.00 0.00 0.00 2.24
21 22 0.398696 TGACCATAACCGCACCAACT 59.601 50.000 0.00 0.00 0.00 3.16
22 23 1.459450 ATGACCATAACCGCACCAAC 58.541 50.000 0.00 0.00 0.00 3.77
23 24 1.815613 CAATGACCATAACCGCACCAA 59.184 47.619 0.00 0.00 0.00 3.67
24 25 1.271652 ACAATGACCATAACCGCACCA 60.272 47.619 0.00 0.00 0.00 4.17
25 26 1.459450 ACAATGACCATAACCGCACC 58.541 50.000 0.00 0.00 0.00 5.01
26 27 2.227865 ACAACAATGACCATAACCGCAC 59.772 45.455 0.00 0.00 0.00 5.34
27 28 2.509569 ACAACAATGACCATAACCGCA 58.490 42.857 0.00 0.00 0.00 5.69
28 29 3.486875 GCTACAACAATGACCATAACCGC 60.487 47.826 0.00 0.00 0.00 5.68
29 30 3.938963 AGCTACAACAATGACCATAACCG 59.061 43.478 0.00 0.00 0.00 4.44
30 31 5.897377 AAGCTACAACAATGACCATAACC 57.103 39.130 0.00 0.00 0.00 2.85
31 32 7.145932 AGAAAGCTACAACAATGACCATAAC 57.854 36.000 0.00 0.00 0.00 1.89
32 33 7.759489 AAGAAAGCTACAACAATGACCATAA 57.241 32.000 0.00 0.00 0.00 1.90
33 34 7.759489 AAAGAAAGCTACAACAATGACCATA 57.241 32.000 0.00 0.00 0.00 2.74
34 35 6.655078 AAAGAAAGCTACAACAATGACCAT 57.345 33.333 0.00 0.00 0.00 3.55
35 36 6.127479 ACAAAAGAAAGCTACAACAATGACCA 60.127 34.615 0.00 0.00 0.00 4.02
36 37 6.273071 ACAAAAGAAAGCTACAACAATGACC 58.727 36.000 0.00 0.00 0.00 4.02
37 38 6.417930 GGACAAAAGAAAGCTACAACAATGAC 59.582 38.462 0.00 0.00 0.00 3.06
38 39 6.321181 AGGACAAAAGAAAGCTACAACAATGA 59.679 34.615 0.00 0.00 0.00 2.57
39 40 6.507023 AGGACAAAAGAAAGCTACAACAATG 58.493 36.000 0.00 0.00 0.00 2.82
40 41 6.239036 GGAGGACAAAAGAAAGCTACAACAAT 60.239 38.462 0.00 0.00 0.00 2.71
41 42 5.067283 GGAGGACAAAAGAAAGCTACAACAA 59.933 40.000 0.00 0.00 0.00 2.83
42 43 4.578928 GGAGGACAAAAGAAAGCTACAACA 59.421 41.667 0.00 0.00 0.00 3.33
43 44 4.023107 GGGAGGACAAAAGAAAGCTACAAC 60.023 45.833 0.00 0.00 0.00 3.32
44 45 4.141251 AGGGAGGACAAAAGAAAGCTACAA 60.141 41.667 0.00 0.00 0.00 2.41
45 46 3.394606 AGGGAGGACAAAAGAAAGCTACA 59.605 43.478 0.00 0.00 0.00 2.74
46 47 4.022413 AGGGAGGACAAAAGAAAGCTAC 57.978 45.455 0.00 0.00 0.00 3.58
47 48 4.595781 TGTAGGGAGGACAAAAGAAAGCTA 59.404 41.667 0.00 0.00 0.00 3.32
48 49 3.394606 TGTAGGGAGGACAAAAGAAAGCT 59.605 43.478 0.00 0.00 0.00 3.74
49 50 3.502595 GTGTAGGGAGGACAAAAGAAAGC 59.497 47.826 0.00 0.00 0.00 3.51
50 51 3.746492 CGTGTAGGGAGGACAAAAGAAAG 59.254 47.826 0.00 0.00 0.00 2.62
51 52 3.135167 ACGTGTAGGGAGGACAAAAGAAA 59.865 43.478 0.00 0.00 0.00 2.52
52 53 2.701951 ACGTGTAGGGAGGACAAAAGAA 59.298 45.455 0.00 0.00 0.00 2.52
53 54 2.322658 ACGTGTAGGGAGGACAAAAGA 58.677 47.619 0.00 0.00 0.00 2.52
54 55 2.833631 ACGTGTAGGGAGGACAAAAG 57.166 50.000 0.00 0.00 0.00 2.27
55 56 3.499338 TCTACGTGTAGGGAGGACAAAA 58.501 45.455 0.00 0.00 34.06 2.44
56 57 3.159213 TCTACGTGTAGGGAGGACAAA 57.841 47.619 0.00 0.00 34.06 2.83
70 71 8.879759 CAAAGTCACATAAAACCATATCTACGT 58.120 33.333 0.00 0.00 0.00 3.57
78 79 8.028938 GCAAGTATCAAAGTCACATAAAACCAT 58.971 33.333 0.00 0.00 0.00 3.55
88 89 2.092211 CGTCGGCAAGTATCAAAGTCAC 59.908 50.000 0.00 0.00 0.00 3.67
95 96 3.530265 ATTAACCGTCGGCAAGTATCA 57.470 42.857 12.28 0.00 0.00 2.15
108 109 8.527567 TGGCATTTCTTTTCTAAAATTAACCG 57.472 30.769 0.00 0.00 0.00 4.44
125 129 7.064609 TCTCCGATCGATATTAATTGGCATTTC 59.935 37.037 18.66 0.00 0.00 2.17
128 132 5.977635 TCTCCGATCGATATTAATTGGCAT 58.022 37.500 18.66 0.00 0.00 4.40
130 134 5.517054 GTCTCTCCGATCGATATTAATTGGC 59.483 44.000 18.66 0.00 0.00 4.52
131 135 6.037098 GGTCTCTCCGATCGATATTAATTGG 58.963 44.000 18.66 0.00 0.00 3.16
142 146 2.531206 GACAAAAGGTCTCTCCGATCG 58.469 52.381 8.51 8.51 43.46 3.69
244 263 2.678836 TCTTGAACGCGTTCCTTTTTCA 59.321 40.909 40.08 23.74 38.77 2.69
311 330 2.806945 TTCATGGCTAAGGAACCAGG 57.193 50.000 0.00 0.00 39.88 4.45
385 404 2.363172 GGAGCGGGAAGAGAAGCCT 61.363 63.158 0.00 0.00 0.00 4.58
405 425 4.643463 TGAAAATTGTTACTAGTCCGGCA 58.357 39.130 0.00 0.00 0.00 5.69
484 505 4.919754 TCATCATCGATACTGATTTCTGCG 59.080 41.667 0.00 0.00 31.00 5.18
604 627 2.203126 CTGGAATGCGCTCTCCCC 60.203 66.667 21.03 10.77 0.00 4.81
607 630 1.285578 GTCTTCTGGAATGCGCTCTC 58.714 55.000 9.73 4.69 0.00 3.20
613 636 5.047802 TCCTTTTTCATGTCTTCTGGAATGC 60.048 40.000 0.00 0.00 0.00 3.56
741 797 1.064685 ACTCCATTCCCGTTCCCATTC 60.065 52.381 0.00 0.00 0.00 2.67
750 806 2.815308 CCTCGGACTCCATTCCCG 59.185 66.667 0.00 0.00 44.22 5.14
827 893 4.640364 TGCAAAAGCAAAATAAAGAGGGG 58.360 39.130 0.00 0.00 0.00 4.79
854 920 6.099990 GGAGGTAAAAGGAGGCTACTTCTAAT 59.900 42.308 13.49 2.50 30.24 1.73
858 924 3.518303 TGGAGGTAAAAGGAGGCTACTTC 59.482 47.826 13.49 0.00 0.00 3.01
859 925 3.527937 TGGAGGTAAAAGGAGGCTACTT 58.472 45.455 6.04 6.04 0.00 2.24
860 926 3.200958 TGGAGGTAAAAGGAGGCTACT 57.799 47.619 0.00 0.00 0.00 2.57
888 954 1.000274 CAAAAGGGGGAGCAAACGAAG 60.000 52.381 0.00 0.00 0.00 3.79
892 958 0.758734 AAGCAAAAGGGGGAGCAAAC 59.241 50.000 0.00 0.00 0.00 2.93
897 963 0.539669 ACGGAAAGCAAAAGGGGGAG 60.540 55.000 0.00 0.00 0.00 4.30
898 964 0.105913 AACGGAAAGCAAAAGGGGGA 60.106 50.000 0.00 0.00 0.00 4.81
900 966 1.540146 CCAAACGGAAAGCAAAAGGGG 60.540 52.381 0.00 0.00 0.00 4.79
915 981 3.008049 AGAGAGTATGGTGGTGTCCAAAC 59.992 47.826 0.00 0.00 41.09 2.93
916 982 3.248024 AGAGAGTATGGTGGTGTCCAAA 58.752 45.455 0.00 0.00 41.09 3.28
919 985 2.093447 CCAAGAGAGTATGGTGGTGTCC 60.093 54.545 0.00 0.00 31.84 4.02
921 987 1.279271 GCCAAGAGAGTATGGTGGTGT 59.721 52.381 0.00 0.00 39.00 4.16
922 988 1.556911 AGCCAAGAGAGTATGGTGGTG 59.443 52.381 0.00 0.00 39.00 4.17
923 989 1.958288 AGCCAAGAGAGTATGGTGGT 58.042 50.000 0.00 0.00 39.00 4.16
924 990 2.503356 AGAAGCCAAGAGAGTATGGTGG 59.497 50.000 0.00 0.00 39.00 4.61
962 1028 1.818060 AGCAGCAACAACAACAACAGA 59.182 42.857 0.00 0.00 0.00 3.41
963 1029 1.921887 CAGCAGCAACAACAACAACAG 59.078 47.619 0.00 0.00 0.00 3.16
964 1030 1.993542 CAGCAGCAACAACAACAACA 58.006 45.000 0.00 0.00 0.00 3.33
965 1031 0.646895 GCAGCAGCAACAACAACAAC 59.353 50.000 0.00 0.00 41.58 3.32
967 1033 0.179132 CAGCAGCAGCAACAACAACA 60.179 50.000 3.17 0.00 45.49 3.33
968 1034 1.485032 GCAGCAGCAGCAACAACAAC 61.485 55.000 4.63 0.00 45.49 3.32
969 1035 1.227031 GCAGCAGCAGCAACAACAA 60.227 52.632 4.63 0.00 45.49 2.83
970 1036 2.122797 AGCAGCAGCAGCAACAACA 61.123 52.632 12.92 0.00 45.49 3.33
997 1093 2.399580 AGGACTAGGAGTACCCATTGC 58.600 52.381 0.00 0.00 37.41 3.56
1023 1119 1.827969 CTTGGAGACTGGAGGTGGTAG 59.172 57.143 0.00 0.00 0.00 3.18
1227 1356 2.452505 GGCTTCACAGAGAGGTAGACT 58.547 52.381 0.00 0.00 0.00 3.24
1312 1441 0.739813 ATGTCGCCGTTGAAGTAGGC 60.740 55.000 0.00 0.00 46.88 3.93
1723 1870 3.882444 TCAAAAGAGCATGGATCCAGAG 58.118 45.455 21.33 15.94 0.00 3.35
1732 1879 7.813148 AGAAACAAATGAGATCAAAAGAGCATG 59.187 33.333 0.00 0.00 0.00 4.06
1866 2024 0.315568 GGCAGCTACCGATCGATCTT 59.684 55.000 22.43 12.01 0.00 2.40
1867 2025 0.538516 AGGCAGCTACCGATCGATCT 60.539 55.000 22.43 8.06 33.69 2.75
1868 2026 0.315568 AAGGCAGCTACCGATCGATC 59.684 55.000 18.66 15.68 33.69 3.69
1869 2027 1.269998 GTAAGGCAGCTACCGATCGAT 59.730 52.381 18.66 0.00 33.69 3.59
1980 2141 8.944138 TCCATCCTGTTAACCATATATGAGAAA 58.056 33.333 14.54 2.38 0.00 2.52
1981 2142 8.504811 TCCATCCTGTTAACCATATATGAGAA 57.495 34.615 14.54 2.49 0.00 2.87
2039 2217 2.681976 CGGAGAATCACCAAAGCCATCT 60.682 50.000 0.00 0.00 36.25 2.90
2046 2224 2.832129 AGAGCTACGGAGAATCACCAAA 59.168 45.455 0.00 0.00 36.25 3.28
2065 2243 1.159285 CGCCATTTGCAACAGAGAGA 58.841 50.000 0.00 0.00 41.33 3.10
2222 2508 1.165270 CGGGAAATGGACCACTTGAC 58.835 55.000 0.00 0.00 0.00 3.18
2328 2618 5.509840 CCGTTGTTTAAACCAAATCATCCCA 60.510 40.000 15.59 0.00 0.00 4.37
2337 2627 5.962433 TCATTTCACCGTTGTTTAAACCAA 58.038 33.333 15.59 7.37 0.00 3.67
2560 2851 1.967319 ATATGTTGGCCTAGGTTGCG 58.033 50.000 11.31 0.00 0.00 4.85
2623 2918 8.411683 TGTTACCTAGACGAAGGAGAATAATTC 58.588 37.037 9.64 0.00 39.15 2.17
2644 2939 1.604604 TCCTGGCAAGCAAGTGTTAC 58.395 50.000 0.00 0.00 0.00 2.50
2672 2967 5.949233 ATGTTTTCGTTGCAAAGTTCTTC 57.051 34.783 12.18 2.30 0.00 2.87


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

AutoCloner maintained by Alex Coulton.