Multiple sequence alignment - TraesCS3D01G371300

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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 TraesCS3D01G371300 chr3D 100.000 2362 0 0 622 2983 484804683 484807044 0.000000e+00 4362.0
1 TraesCS3D01G371300 chr3D 88.834 1415 137 16 998 2402 484726149 484727552 0.000000e+00 1718.0
2 TraesCS3D01G371300 chr3D 91.878 788 62 2 919 1705 484734392 484735178 0.000000e+00 1099.0
3 TraesCS3D01G371300 chr3D 88.081 688 73 8 1720 2404 484735942 484736623 0.000000e+00 808.0
4 TraesCS3D01G371300 chr3D 100.000 343 0 0 1 343 484804062 484804404 4.190000e-178 634.0
5 TraesCS3D01G371300 chr3D 75.927 1213 214 39 1048 2226 484672904 484674072 4.350000e-153 551.0
6 TraesCS3D01G371300 chr3D 80.952 168 32 0 1058 1225 28124400 28124233 1.870000e-27 134.0
7 TraesCS3D01G371300 chr3D 81.366 161 30 0 1058 1218 28217892 28217732 6.710000e-27 132.0
8 TraesCS3D01G371300 chr3D 95.238 42 2 0 2916 2957 484728177 484728218 1.920000e-07 67.6
9 TraesCS3D01G371300 chr3D 95.238 42 2 0 2916 2957 484737291 484737332 1.920000e-07 67.6
10 TraesCS3D01G371300 chr3B 92.140 1883 82 16 930 2759 647542264 647544133 0.000000e+00 2597.0
11 TraesCS3D01G371300 chr3B 88.327 514 53 4 1852 2359 647470134 647470646 7.070000e-171 610.0
12 TraesCS3D01G371300 chr3B 75.621 1329 235 46 1005 2292 647465536 647466816 7.170000e-161 577.0
13 TraesCS3D01G371300 chr3B 94.975 199 8 2 2768 2966 647544171 647544367 8.030000e-81 311.0
14 TraesCS3D01G371300 chr3B 84.516 310 33 3 622 916 595375013 595374704 2.910000e-75 292.0
15 TraesCS3D01G371300 chr3A 88.098 2092 174 24 917 2964 627817182 627819242 0.000000e+00 2414.0
16 TraesCS3D01G371300 chr3A 89.331 1912 115 33 917 2755 627785340 627787235 0.000000e+00 2318.0
17 TraesCS3D01G371300 chr3A 83.333 414 27 15 2573 2964 627705953 627706346 7.920000e-91 344.0
18 TraesCS3D01G371300 chr3A 92.157 153 12 0 917 1069 627793689 627793841 1.800000e-52 217.0
19 TraesCS3D01G371300 chr3A 96.774 31 1 0 2916 2946 627787478 627787508 5.000000e-03 52.8
20 TraesCS3D01G371300 chr2B 96.897 290 9 0 54 343 109022364 109022075 1.240000e-133 486.0
21 TraesCS3D01G371300 chr2B 86.262 313 28 4 622 919 109022022 109021710 2.870000e-85 326.0
22 TraesCS3D01G371300 chr2D 95.517 290 13 0 54 343 377107532 377107821 5.820000e-127 464.0
23 TraesCS3D01G371300 chr2D 95.470 287 10 3 54 337 72321290 72321004 3.510000e-124 455.0
24 TraesCS3D01G371300 chr2D 94.483 290 16 0 54 343 509632459 509632170 5.870000e-122 448.0
25 TraesCS3D01G371300 chr2D 94.483 290 15 1 54 343 70675737 70675449 2.110000e-121 446.0
26 TraesCS3D01G371300 chr2D 85.942 313 27 9 622 919 543458112 543457802 4.800000e-83 318.0
27 TraesCS3D01G371300 chr2D 85.806 310 29 7 622 916 275227670 275227979 6.210000e-82 315.0
28 TraesCS3D01G371300 chr2D 84.936 312 32 5 622 918 610471475 610471786 4.830000e-78 302.0
29 TraesCS3D01G371300 chr2D 95.522 67 3 0 1 67 107698318 107698384 1.130000e-19 108.0
30 TraesCS3D01G371300 chr6D 93.357 286 19 0 55 340 200610347 200610632 9.880000e-115 424.0
31 TraesCS3D01G371300 chr6D 87.742 310 23 2 622 916 200610686 200610995 6.120000e-92 348.0
32 TraesCS3D01G371300 chr5D 92.466 292 19 3 54 343 256484431 256484141 5.950000e-112 414.0
33 TraesCS3D01G371300 chr5D 87.338 308 26 3 622 916 256484092 256483785 1.020000e-89 340.0
34 TraesCS3D01G371300 chr5D 89.189 74 7 1 5 77 56950013 56949940 1.140000e-14 91.6
35 TraesCS3D01G371300 chr1B 91.781 292 20 4 54 343 288449676 288449387 1.290000e-108 403.0
36 TraesCS3D01G371300 chr1B 98.246 57 1 0 1 57 411702648 411702704 1.890000e-17 100.0
37 TraesCS3D01G371300 chr1B 91.304 69 4 2 1 67 98240806 98240738 3.170000e-15 93.5
38 TraesCS3D01G371300 chr1D 91.379 290 23 2 55 343 276769008 276769296 2.150000e-106 396.0
39 TraesCS3D01G371300 chr1D 87.742 310 24 3 622 917 403378635 403378326 1.700000e-92 350.0
40 TraesCS3D01G371300 chr1D 83.230 161 27 0 1058 1218 456280423 456280263 6.660000e-32 148.0
41 TraesCS3D01G371300 chr6B 90.583 223 21 0 622 844 290894371 290894593 2.250000e-76 296.0
42 TraesCS3D01G371300 chr6B 81.152 191 27 7 1034 1218 75268438 75268251 8.620000e-31 145.0
43 TraesCS3D01G371300 chr6B 78.974 195 32 8 1029 1218 63989079 63989269 1.120000e-24 124.0
44 TraesCS3D01G371300 chr2A 100.000 57 0 0 1 57 649137615 649137559 4.070000e-19 106.0
45 TraesCS3D01G371300 chr7B 100.000 56 0 0 1 56 135973242 135973297 1.460000e-18 104.0
46 TraesCS3D01G371300 chr4A 100.000 56 0 0 1 56 29459605 29459660 1.460000e-18 104.0
47 TraesCS3D01G371300 chr5B 98.276 58 1 0 1 58 526918889 526918832 5.260000e-18 102.0
48 TraesCS3D01G371300 chr1A 96.721 61 1 1 1 61 52841552 52841611 1.890000e-17 100.0


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 TraesCS3D01G371300 chr3D 484804062 484807044 2982 False 2498.0 4362 100.000000 1 2983 2 chr3D.!!$F4 2982
1 TraesCS3D01G371300 chr3D 484726149 484728218 2069 False 892.8 1718 92.036000 998 2957 2 chr3D.!!$F2 1959
2 TraesCS3D01G371300 chr3D 484734392 484737332 2940 False 658.2 1099 91.732333 919 2957 3 chr3D.!!$F3 2038
3 TraesCS3D01G371300 chr3D 484672904 484674072 1168 False 551.0 551 75.927000 1048 2226 1 chr3D.!!$F1 1178
4 TraesCS3D01G371300 chr3B 647542264 647544367 2103 False 1454.0 2597 93.557500 930 2966 2 chr3B.!!$F2 2036
5 TraesCS3D01G371300 chr3B 647465536 647470646 5110 False 593.5 610 81.974000 1005 2359 2 chr3B.!!$F1 1354
6 TraesCS3D01G371300 chr3A 627817182 627819242 2060 False 2414.0 2414 88.098000 917 2964 1 chr3A.!!$F3 2047
7 TraesCS3D01G371300 chr3A 627785340 627787508 2168 False 1185.4 2318 93.052500 917 2946 2 chr3A.!!$F4 2029
8 TraesCS3D01G371300 chr2B 109021710 109022364 654 True 406.0 486 91.579500 54 919 2 chr2B.!!$R1 865
9 TraesCS3D01G371300 chr6D 200610347 200610995 648 False 386.0 424 90.549500 55 916 2 chr6D.!!$F1 861
10 TraesCS3D01G371300 chr5D 256483785 256484431 646 True 377.0 414 89.902000 54 916 2 chr5D.!!$R2 862

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
21 22 0.325933 TGAAGTGGGAGCACAGATGG 59.674 55.0 0.0 0.0 0.0 3.51 F
22 23 0.393537 GAAGTGGGAGCACAGATGGG 60.394 60.0 0.0 0.0 0.0 4.00 F
764 767 0.611896 GGGTTAGGTTGTGCAGGCAT 60.612 55.0 0.0 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1863 6403 0.035056 GGTTGGTGGTAGCAGCAGAT 60.035 55.000 24.06 0.00 33.88 2.90 R
1867 6408 1.675641 CAGGGTTGGTGGTAGCAGC 60.676 63.158 16.91 16.91 0.00 5.25 R
2332 6894 2.615447 CTCGGCAATTCACATGTAGCAT 59.385 45.455 0.00 0.00 0.00 3.79 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
19 20 2.706339 GATGAAGTGGGAGCACAGAT 57.294 50.000 0.00 0.00 0.00 2.90
20 21 2.286872 GATGAAGTGGGAGCACAGATG 58.713 52.381 0.00 0.00 0.00 2.90
21 22 0.325933 TGAAGTGGGAGCACAGATGG 59.674 55.000 0.00 0.00 0.00 3.51
22 23 0.393537 GAAGTGGGAGCACAGATGGG 60.394 60.000 0.00 0.00 0.00 4.00
23 24 0.842030 AAGTGGGAGCACAGATGGGA 60.842 55.000 0.00 0.00 0.00 4.37
24 25 1.222936 GTGGGAGCACAGATGGGAG 59.777 63.158 0.00 0.00 0.00 4.30
25 26 2.191641 GGGAGCACAGATGGGAGC 59.808 66.667 0.00 0.00 0.00 4.70
26 27 2.673200 GGGAGCACAGATGGGAGCA 61.673 63.158 0.00 0.00 0.00 4.26
27 28 1.530771 GGAGCACAGATGGGAGCAT 59.469 57.895 0.00 0.00 0.00 3.79
28 29 0.818445 GGAGCACAGATGGGAGCATG 60.818 60.000 0.00 0.00 0.00 4.06
29 30 0.818445 GAGCACAGATGGGAGCATGG 60.818 60.000 0.00 0.00 0.00 3.66
30 31 1.826921 GCACAGATGGGAGCATGGG 60.827 63.158 0.00 0.00 0.00 4.00
31 32 1.152819 CACAGATGGGAGCATGGGG 60.153 63.158 0.00 0.00 0.00 4.96
32 33 1.308128 ACAGATGGGAGCATGGGGA 60.308 57.895 0.00 0.00 0.00 4.81
33 34 1.351080 ACAGATGGGAGCATGGGGAG 61.351 60.000 0.00 0.00 0.00 4.30
34 35 1.773391 AGATGGGAGCATGGGGAGG 60.773 63.158 0.00 0.00 0.00 4.30
35 36 2.780040 ATGGGAGCATGGGGAGGG 60.780 66.667 0.00 0.00 0.00 4.30
36 37 3.367604 ATGGGAGCATGGGGAGGGA 62.368 63.158 0.00 0.00 0.00 4.20
37 38 3.174265 GGGAGCATGGGGAGGGAG 61.174 72.222 0.00 0.00 0.00 4.30
38 39 3.883549 GGAGCATGGGGAGGGAGC 61.884 72.222 0.00 0.00 0.00 4.70
39 40 3.092511 GAGCATGGGGAGGGAGCA 61.093 66.667 0.00 0.00 0.00 4.26
40 41 3.095163 AGCATGGGGAGGGAGCAG 61.095 66.667 0.00 0.00 0.00 4.24
41 42 4.201122 GCATGGGGAGGGAGCAGG 62.201 72.222 0.00 0.00 0.00 4.85
42 43 4.201122 CATGGGGAGGGAGCAGGC 62.201 72.222 0.00 0.00 0.00 4.85
43 44 4.765970 ATGGGGAGGGAGCAGGCA 62.766 66.667 0.00 0.00 0.00 4.75
45 46 4.120755 GGGGAGGGAGCAGGCAAG 62.121 72.222 0.00 0.00 0.00 4.01
46 47 4.811364 GGGAGGGAGCAGGCAAGC 62.811 72.222 0.00 0.00 0.00 4.01
47 48 4.811364 GGAGGGAGCAGGCAAGCC 62.811 72.222 2.02 2.02 34.23 4.35
51 52 4.496336 GGAGCAGGCAAGCCGGAT 62.496 66.667 15.46 8.74 41.95 4.18
52 53 2.899339 GAGCAGGCAAGCCGGATC 60.899 66.667 15.46 14.32 39.23 3.36
109 112 6.414732 CCCTGATTTAGTGAATCCTACACAA 58.585 40.000 5.27 0.00 42.90 3.33
116 119 7.786046 TTAGTGAATCCTACACAACCTTCTA 57.214 36.000 0.00 0.00 40.25 2.10
240 243 1.661197 CGTGGTGTGTTTGCCATGC 60.661 57.895 0.00 0.00 37.09 4.06
266 269 2.362397 GTGGATCTAGTCGCCATCTTCA 59.638 50.000 0.00 0.00 33.66 3.02
268 271 4.218635 GTGGATCTAGTCGCCATCTTCATA 59.781 45.833 0.00 0.00 33.66 2.15
329 332 3.653835 TGAGAAAGAGGAGGAGATCGA 57.346 47.619 0.00 0.00 0.00 3.59
675 678 3.700038 GAGAAGGAAGACGATGGAGGTAA 59.300 47.826 0.00 0.00 0.00 2.85
688 691 0.963225 GAGGTAAGGGATCGAGAGGC 59.037 60.000 0.00 0.00 0.00 4.70
759 762 2.281900 GGCGGGTTAGGTTGTGCA 60.282 61.111 0.00 0.00 0.00 4.57
764 767 0.611896 GGGTTAGGTTGTGCAGGCAT 60.612 55.000 0.00 0.00 0.00 4.40
790 793 3.080765 ATCGCCCGGATGTGTGGA 61.081 61.111 0.73 0.00 32.92 4.02
857 873 2.047274 CGCCGGTTGTCTCCATGT 60.047 61.111 1.90 0.00 0.00 3.21
866 882 3.466836 GTTGTCTCCATGTCACACAAGA 58.533 45.455 0.00 0.00 0.00 3.02
1297 1334 1.689582 ATCCCTCCCGACCACTTCC 60.690 63.158 0.00 0.00 0.00 3.46
1311 1348 2.236395 CCACTTCCCCCTACAACTACAG 59.764 54.545 0.00 0.00 0.00 2.74
1312 1349 1.907255 ACTTCCCCCTACAACTACAGC 59.093 52.381 0.00 0.00 0.00 4.40
1313 1350 1.906574 CTTCCCCCTACAACTACAGCA 59.093 52.381 0.00 0.00 0.00 4.41
1320 1357 1.000506 CTACAACTACAGCACCACGGT 59.999 52.381 0.00 0.00 0.00 4.83
1434 1471 2.636412 CGACCGCTCCCTCTTGTCA 61.636 63.158 0.00 0.00 0.00 3.58
1594 1637 2.399754 GTCGTCTTCGTGAGTGTTTACG 59.600 50.000 0.00 0.00 41.38 3.18
1686 1729 1.334059 CGCAGCACACTTGTTGGTAAG 60.334 52.381 0.00 0.00 34.62 2.34
1863 6403 2.856494 TGCCCCCACTGCCAGTAA 60.856 61.111 0.00 0.00 0.00 2.24
1867 6408 0.107017 CCCCCACTGCCAGTAATCTG 60.107 60.000 0.00 0.00 41.01 2.90
1991 6534 3.762288 GGGTTGGGGTTTAAGATTGAGAC 59.238 47.826 0.00 0.00 0.00 3.36
2109 6652 3.324846 AGCCCAAGGAGCTTTTTAAAAGG 59.675 43.478 17.68 5.73 37.24 3.11
2236 6795 7.987458 TGTACTTCTGAAGTGTTCAAAATCTCT 59.013 33.333 28.46 3.43 42.84 3.10
2370 6932 2.154462 CGAGTCAGGAAACAAGGCATT 58.846 47.619 0.00 0.00 0.00 3.56
2373 6935 4.301628 GAGTCAGGAAACAAGGCATTTTG 58.698 43.478 0.00 0.00 0.00 2.44
2384 6946 3.303351 AGGCATTTTGTAGGAGATGGG 57.697 47.619 0.00 0.00 0.00 4.00
2503 7092 4.708177 CCATCAGGTCATATCGGACTTTT 58.292 43.478 0.00 0.00 37.91 2.27
2513 7102 6.702282 GTCATATCGGACTTTTTAAGGGAGAG 59.298 42.308 0.00 0.00 34.92 3.20
2514 7103 3.975168 TCGGACTTTTTAAGGGAGAGG 57.025 47.619 0.00 0.00 0.00 3.69
2559 7168 4.579869 TGAGGCCTTTCTTACTTGCTAAG 58.420 43.478 6.77 0.00 34.12 2.18
2622 7275 6.374613 ACAGATCGATACACTTTGACACTAGA 59.625 38.462 0.00 0.00 0.00 2.43
2657 7310 1.271102 TGTGGCCTTTAATTTCGTGGC 59.729 47.619 3.32 0.00 42.56 5.01
2739 7392 0.671781 CTGGGGAGTTTCAGTCAGCG 60.672 60.000 0.00 0.00 0.00 5.18
2870 7572 5.412594 CACTGAAAACTTAGGCTGAAGCATA 59.587 40.000 4.43 0.00 44.36 3.14
2946 7690 8.492673 TTGTATTTCAGGTAGATCATGTGTTC 57.507 34.615 0.00 0.00 0.00 3.18
2966 7710 6.816640 GTGTTCATATTTACCTGCAGACTGTA 59.183 38.462 17.39 6.23 0.00 2.74
2967 7711 7.010552 GTGTTCATATTTACCTGCAGACTGTAG 59.989 40.741 17.39 13.19 0.00 2.74
2968 7712 6.791867 TCATATTTACCTGCAGACTGTAGT 57.208 37.500 17.39 5.73 0.00 2.73
2969 7713 6.573434 TCATATTTACCTGCAGACTGTAGTG 58.427 40.000 17.39 12.13 0.00 2.74
2970 7714 3.678056 TTTACCTGCAGACTGTAGTGG 57.322 47.619 17.39 8.31 0.00 4.00
2971 7715 1.557099 TACCTGCAGACTGTAGTGGG 58.443 55.000 17.39 7.64 0.00 4.61
2972 7716 1.194781 ACCTGCAGACTGTAGTGGGG 61.195 60.000 17.39 7.31 0.00 4.96
2973 7717 1.078848 CTGCAGACTGTAGTGGGGC 60.079 63.158 8.42 0.00 0.00 5.80
2974 7718 1.536418 TGCAGACTGTAGTGGGGCT 60.536 57.895 3.99 0.00 0.00 5.19
2975 7719 1.078848 GCAGACTGTAGTGGGGCTG 60.079 63.158 3.99 0.00 0.00 4.85
2976 7720 1.831652 GCAGACTGTAGTGGGGCTGT 61.832 60.000 3.99 0.00 0.00 4.40
2977 7721 0.687354 CAGACTGTAGTGGGGCTGTT 59.313 55.000 0.00 0.00 0.00 3.16
2978 7722 0.687354 AGACTGTAGTGGGGCTGTTG 59.313 55.000 0.00 0.00 0.00 3.33
2979 7723 0.321653 GACTGTAGTGGGGCTGTTGG 60.322 60.000 0.00 0.00 0.00 3.77
2980 7724 0.766674 ACTGTAGTGGGGCTGTTGGA 60.767 55.000 0.00 0.00 0.00 3.53
2981 7725 0.620556 CTGTAGTGGGGCTGTTGGAT 59.379 55.000 0.00 0.00 0.00 3.41
2982 7726 1.837439 CTGTAGTGGGGCTGTTGGATA 59.163 52.381 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 2.286872 CATCTGTGCTCCCACTTCATC 58.713 52.381 0.00 0.00 42.54 2.92
1 2 1.064906 CCATCTGTGCTCCCACTTCAT 60.065 52.381 0.00 0.00 42.54 2.57
2 3 0.325933 CCATCTGTGCTCCCACTTCA 59.674 55.000 0.00 0.00 42.54 3.02
3 4 0.393537 CCCATCTGTGCTCCCACTTC 60.394 60.000 0.00 0.00 42.54 3.01
4 5 0.842030 TCCCATCTGTGCTCCCACTT 60.842 55.000 0.00 0.00 42.54 3.16
5 6 1.229625 TCCCATCTGTGCTCCCACT 60.230 57.895 0.00 0.00 42.54 4.00
6 7 1.222936 CTCCCATCTGTGCTCCCAC 59.777 63.158 0.00 0.00 42.40 4.61
7 8 2.673200 GCTCCCATCTGTGCTCCCA 61.673 63.158 0.00 0.00 0.00 4.37
8 9 1.992519 ATGCTCCCATCTGTGCTCCC 61.993 60.000 0.00 0.00 0.00 4.30
9 10 0.818445 CATGCTCCCATCTGTGCTCC 60.818 60.000 0.00 0.00 0.00 4.70
10 11 0.818445 CCATGCTCCCATCTGTGCTC 60.818 60.000 0.00 0.00 0.00 4.26
11 12 1.226542 CCATGCTCCCATCTGTGCT 59.773 57.895 0.00 0.00 0.00 4.40
12 13 1.826921 CCCATGCTCCCATCTGTGC 60.827 63.158 0.00 0.00 0.00 4.57
13 14 1.152819 CCCCATGCTCCCATCTGTG 60.153 63.158 0.00 0.00 0.00 3.66
14 15 1.308128 TCCCCATGCTCCCATCTGT 60.308 57.895 0.00 0.00 0.00 3.41
15 16 1.454976 CTCCCCATGCTCCCATCTG 59.545 63.158 0.00 0.00 0.00 2.90
16 17 1.773391 CCTCCCCATGCTCCCATCT 60.773 63.158 0.00 0.00 0.00 2.90
17 18 2.838467 CCCTCCCCATGCTCCCATC 61.838 68.421 0.00 0.00 0.00 3.51
18 19 2.780040 CCCTCCCCATGCTCCCAT 60.780 66.667 0.00 0.00 0.00 4.00
19 20 4.037413 TCCCTCCCCATGCTCCCA 62.037 66.667 0.00 0.00 0.00 4.37
20 21 3.174265 CTCCCTCCCCATGCTCCC 61.174 72.222 0.00 0.00 0.00 4.30
21 22 3.883549 GCTCCCTCCCCATGCTCC 61.884 72.222 0.00 0.00 0.00 4.70
22 23 3.092511 TGCTCCCTCCCCATGCTC 61.093 66.667 0.00 0.00 0.00 4.26
23 24 3.095163 CTGCTCCCTCCCCATGCT 61.095 66.667 0.00 0.00 0.00 3.79
24 25 4.201122 CCTGCTCCCTCCCCATGC 62.201 72.222 0.00 0.00 0.00 4.06
25 26 4.201122 GCCTGCTCCCTCCCCATG 62.201 72.222 0.00 0.00 0.00 3.66
26 27 4.765970 TGCCTGCTCCCTCCCCAT 62.766 66.667 0.00 0.00 0.00 4.00
28 29 4.120755 CTTGCCTGCTCCCTCCCC 62.121 72.222 0.00 0.00 0.00 4.81
29 30 4.811364 GCTTGCCTGCTCCCTCCC 62.811 72.222 0.00 0.00 0.00 4.30
30 31 4.811364 GGCTTGCCTGCTCCCTCC 62.811 72.222 4.11 0.00 0.00 4.30
34 35 4.496336 ATCCGGCTTGCCTGCTCC 62.496 66.667 10.12 0.00 0.00 4.70
35 36 2.899339 GATCCGGCTTGCCTGCTC 60.899 66.667 10.12 0.76 0.00 4.26
36 37 4.496336 GGATCCGGCTTGCCTGCT 62.496 66.667 10.12 0.00 0.00 4.24
38 39 4.883354 GGGGATCCGGCTTGCCTG 62.883 72.222 5.45 3.29 0.00 4.85
39 40 3.714078 TAGGGGATCCGGCTTGCCT 62.714 63.158 5.45 7.93 38.33 4.75
40 41 3.168528 TAGGGGATCCGGCTTGCC 61.169 66.667 5.45 0.48 38.33 4.52
41 42 2.111251 GTAGGGGATCCGGCTTGC 59.889 66.667 5.45 0.00 38.33 4.01
42 43 2.421739 CGTAGGGGATCCGGCTTG 59.578 66.667 5.45 0.00 38.33 4.01
43 44 3.547513 GCGTAGGGGATCCGGCTT 61.548 66.667 5.45 0.00 38.33 4.35
44 45 4.853142 TGCGTAGGGGATCCGGCT 62.853 66.667 5.45 0.00 38.33 5.52
45 46 4.603946 GTGCGTAGGGGATCCGGC 62.604 72.222 5.45 4.64 38.33 6.13
46 47 3.925090 GGTGCGTAGGGGATCCGG 61.925 72.222 5.45 0.00 38.33 5.14
47 48 3.151710 TGGTGCGTAGGGGATCCG 61.152 66.667 5.45 0.00 38.33 4.18
48 49 2.504519 GTGGTGCGTAGGGGATCC 59.495 66.667 1.92 1.92 0.00 3.36
49 50 2.504519 GGTGGTGCGTAGGGGATC 59.495 66.667 0.00 0.00 0.00 3.36
50 51 3.087906 GGGTGGTGCGTAGGGGAT 61.088 66.667 0.00 0.00 0.00 3.85
51 52 4.642488 TGGGTGGTGCGTAGGGGA 62.642 66.667 0.00 0.00 0.00 4.81
52 53 2.493273 ATTTGGGTGGTGCGTAGGGG 62.493 60.000 0.00 0.00 0.00 4.79
109 112 2.424246 GCGAGTAGTTGCTCTAGAAGGT 59.576 50.000 2.21 0.00 33.55 3.50
116 119 2.135933 GTTGTTGCGAGTAGTTGCTCT 58.864 47.619 11.15 0.00 33.65 4.09
240 243 0.103208 GGCGACTAGATCCACACTGG 59.897 60.000 0.00 0.00 39.43 4.00
277 280 7.243604 TCTGTCCCAAAATAATTGCAATTCT 57.756 32.000 27.28 15.75 0.00 2.40
675 678 1.152567 CTCCTGCCTCTCGATCCCT 60.153 63.158 0.00 0.00 0.00 4.20
809 812 4.666253 AGCCACAGCCCGCATGTT 62.666 61.111 0.00 0.00 41.25 2.71
857 873 1.227793 TGCCGCATGTCTTGTGTGA 60.228 52.632 0.00 0.00 33.82 3.58
1297 1334 0.981183 TGGTGCTGTAGTTGTAGGGG 59.019 55.000 0.00 0.00 0.00 4.79
1320 1357 4.063967 AACGTCCATGGCTCGCGA 62.064 61.111 22.47 9.26 0.00 5.87
1594 1637 0.941463 CATACGCCAGTCTCCGATGC 60.941 60.000 0.00 0.00 0.00 3.91
1863 6403 0.035056 GGTTGGTGGTAGCAGCAGAT 60.035 55.000 24.06 0.00 33.88 2.90
1867 6408 1.675641 CAGGGTTGGTGGTAGCAGC 60.676 63.158 16.91 16.91 0.00 5.25
2019 6562 8.908678 CATAAAAATAATGCATGAACATCCTCG 58.091 33.333 0.00 0.00 0.00 4.63
2109 6652 9.561069 AAAGGATAATAGGTGTACACATGATTC 57.439 33.333 26.51 13.62 0.00 2.52
2252 6814 9.778741 AAGTCACTAACATAGAAAAGAACATGA 57.221 29.630 0.00 0.00 0.00 3.07
2332 6894 2.615447 CTCGGCAATTCACATGTAGCAT 59.385 45.455 0.00 0.00 0.00 3.79
2370 6932 9.627123 CAAAAATACTATCCCATCTCCTACAAA 57.373 33.333 0.00 0.00 0.00 2.83
2373 6935 9.057089 CAACAAAAATACTATCCCATCTCCTAC 57.943 37.037 0.00 0.00 0.00 3.18
2384 6946 7.903431 CGTCCAGCTAACAACAAAAATACTATC 59.097 37.037 0.00 0.00 0.00 2.08
2447 7036 5.497474 ACACAAGTACAGGACAAGAAAACT 58.503 37.500 0.00 0.00 0.00 2.66
2482 7071 7.041780 CCTTAAAAAGTCCGATATGACCTGATG 60.042 40.741 0.00 0.00 35.83 3.07
2483 7072 6.992715 CCTTAAAAAGTCCGATATGACCTGAT 59.007 38.462 0.00 0.00 35.83 2.90
2513 7102 6.712179 AGCCGGTATATTATCTTACTAGCC 57.288 41.667 1.90 0.00 0.00 3.93
2514 7103 7.769220 TCAAGCCGGTATATTATCTTACTAGC 58.231 38.462 1.90 0.00 0.00 3.42
2693 7346 8.848474 ACAGGCATCACCATTTTATACTATAC 57.152 34.615 0.00 0.00 43.14 1.47
2694 7347 9.938280 GTACAGGCATCACCATTTTATACTATA 57.062 33.333 0.00 0.00 43.14 1.31
2802 7484 2.290514 TGGCCCATGCTATAAGATCAGC 60.291 50.000 0.00 0.00 37.74 4.26
2946 7690 5.755375 CCACTACAGTCTGCAGGTAAATATG 59.245 44.000 15.13 5.69 0.00 1.78


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

AutoCloner maintained by Alex Coulton.