Multiple sequence alignment - TraesCS3D01G464700

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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 TraesCS3D01G464700 chr3D 100.000 4248 0 0 1 4248 568606230 568601983 0.000000e+00 7845
1 TraesCS3D01G464700 chr3D 100.000 3191 0 0 4714 7904 568601517 568598327 0.000000e+00 5893
2 TraesCS3D01G464700 chr3D 97.385 2486 48 4 5420 7904 134854598 134852129 0.000000e+00 4215
3 TraesCS3D01G464700 chr3D 96.019 2311 45 12 1 2267 134856900 134854593 0.000000e+00 3714
4 TraesCS3D01G464700 chr3D 95.362 2307 59 20 1 2266 132534296 132536595 0.000000e+00 3624
5 TraesCS3D01G464700 chr3D 93.790 2319 80 16 1 2267 382772837 382770531 0.000000e+00 3426
6 TraesCS3D01G464700 chr3D 96.483 1962 63 6 2268 4226 423037763 423035805 0.000000e+00 3236
7 TraesCS3D01G464700 chr3D 96.924 1723 51 2 5420 7141 132536591 132538312 0.000000e+00 2887
8 TraesCS3D01G464700 chr3D 96.868 1724 51 3 5420 7141 382770536 382768814 0.000000e+00 2881
9 TraesCS3D01G464700 chr3D 93.511 1387 46 18 1 1354 451202104 451203479 0.000000e+00 2023
10 TraesCS3D01G464700 chr3D 93.172 703 25 14 4727 5420 423035740 423035052 0.000000e+00 1011
11 TraesCS3D01G464700 chr3D 92.727 715 28 18 4715 5420 461998620 461999319 0.000000e+00 1011
12 TraesCS3D01G464700 chr3D 96.269 134 3 1 7768 7901 451204363 451204494 1.340000e-52 219
13 TraesCS3D01G464700 chr3D 95.522 134 6 0 7771 7904 382767923 382767790 1.730000e-51 215
14 TraesCS3D01G464700 chr4D 95.321 2308 61 15 1 2267 25345598 25347899 0.000000e+00 3620
15 TraesCS3D01G464700 chr4D 94.586 2161 58 20 161 2267 483439414 483441569 0.000000e+00 3288
16 TraesCS3D01G464700 chr4D 96.564 1979 60 8 2267 4241 96949176 96947202 0.000000e+00 3271
17 TraesCS3D01G464700 chr4D 97.384 1720 44 1 5420 7138 25347894 25349613 0.000000e+00 2926
18 TraesCS3D01G464700 chr4D 97.143 630 18 0 7140 7769 25349886 25350515 0.000000e+00 1064
19 TraesCS3D01G464700 chr4D 96.269 134 4 1 7768 7901 25350573 25350705 1.340000e-52 219
20 TraesCS3D01G464700 chr4D 94.531 128 5 1 7774 7901 483443825 483443950 6.260000e-46 196
21 TraesCS3D01G464700 chr5D 95.232 2307 63 14 1 2267 424618433 424616134 0.000000e+00 3607
22 TraesCS3D01G464700 chr5D 95.067 2311 58 12 1 2267 423195415 423197713 0.000000e+00 3585
23 TraesCS3D01G464700 chr5D 97.005 1970 43 14 2267 4229 288028532 288026572 0.000000e+00 3297
24 TraesCS3D01G464700 chr5D 96.416 1981 61 9 2265 4243 353099764 353101736 0.000000e+00 3256
25 TraesCS3D01G464700 chr5D 96.917 1946 52 7 2268 4210 244882217 244880277 0.000000e+00 3254
26 TraesCS3D01G464700 chr5D 96.915 1945 55 5 2268 4210 353107498 353109439 0.000000e+00 3254
27 TraesCS3D01G464700 chr5D 97.272 1723 45 2 5420 7141 424616139 424614418 0.000000e+00 2920
28 TraesCS3D01G464700 chr5D 97.214 1723 43 3 5420 7141 423197708 423199426 0.000000e+00 2911
29 TraesCS3D01G464700 chr5D 95.969 645 23 3 4777 5420 288025956 288025314 0.000000e+00 1044
30 TraesCS3D01G464700 chr5D 96.907 582 18 0 7140 7721 217021867 217022448 0.000000e+00 976
31 TraesCS3D01G464700 chr5D 94.081 642 27 10 4783 5420 321211036 321211670 0.000000e+00 965
32 TraesCS3D01G464700 chr5D 97.015 134 3 1 7768 7901 423200342 423200474 2.870000e-54 224
33 TraesCS3D01G464700 chr5D 96.269 134 4 1 7771 7904 424613486 424613354 1.340000e-52 219
34 TraesCS3D01G464700 chr5D 94.776 134 4 2 7768 7901 217022526 217022656 1.040000e-48 206
35 TraesCS3D01G464700 chr2D 97.466 1934 40 7 2268 4196 196247250 196249179 0.000000e+00 3291
36 TraesCS3D01G464700 chr2D 96.796 1966 54 7 2265 4224 166466556 166468518 0.000000e+00 3273
37 TraesCS3D01G464700 chr2D 96.563 611 15 6 4813 5420 196250009 196250616 0.000000e+00 1007
38 TraesCS3D01G464700 chr7B 92.381 2323 108 27 1 2267 223192682 223190373 0.000000e+00 3245
39 TraesCS3D01G464700 chr7B 92.324 2319 118 18 1 2267 11643891 11646201 0.000000e+00 3241
40 TraesCS3D01G464700 chr2A 92.255 2324 112 28 1 2267 41015730 41013418 0.000000e+00 3232
41 TraesCS3D01G464700 chr6D 96.232 1964 65 9 2268 4226 306229240 306231199 0.000000e+00 3208
42 TraesCS3D01G464700 chr6D 90.116 1295 91 13 530 1793 41197342 41196054 0.000000e+00 1648
43 TraesCS3D01G464700 chr6D 94.286 630 22 10 4799 5420 92592406 92591783 0.000000e+00 952
44 TraesCS3D01G464700 chr6D 90.139 720 37 18 4721 5424 314870915 314870214 0.000000e+00 905
45 TraesCS3D01G464700 chr2B 96.810 1724 51 2 5420 7141 95515868 95517589 0.000000e+00 2876
46 TraesCS3D01G464700 chr2B 94.054 1749 69 8 550 2267 95514129 95515873 0.000000e+00 2621
47 TraesCS3D01G464700 chr2B 91.900 642 48 3 7128 7768 53291045 53290407 0.000000e+00 894
48 TraesCS3D01G464700 chr2B 90.179 560 36 9 1 545 95513652 95514207 0.000000e+00 712
49 TraesCS3D01G464700 chr5A 96.230 1724 59 4 5420 7141 534003525 534005244 0.000000e+00 2819
50 TraesCS3D01G464700 chr5A 93.726 1817 68 15 492 2267 534001719 534003530 0.000000e+00 2682
51 TraesCS3D01G464700 chr5A 93.182 132 9 0 7770 7901 534006511 534006642 2.250000e-45 195
52 TraesCS3D01G464700 chr5B 96.111 1723 63 3 5420 7141 398083369 398085088 0.000000e+00 2808
53 TraesCS3D01G464700 chr5B 94.812 1253 38 13 1041 2267 398082123 398083374 0.000000e+00 1929
54 TraesCS3D01G464700 chr5B 93.323 629 41 1 7140 7768 398085360 398085987 0.000000e+00 928
55 TraesCS3D01G464700 chr6B 93.005 629 42 2 7140 7768 653283492 653284118 0.000000e+00 917
56 TraesCS3D01G464700 chr6B 92.210 629 47 2 7140 7768 653254461 653255087 0.000000e+00 889
57 TraesCS3D01G464700 chr7D 90.070 715 46 23 4717 5420 82825270 82824570 0.000000e+00 904
58 TraesCS3D01G464700 chr1D 90.395 708 39 22 4724 5420 436694601 436695290 0.000000e+00 904
59 TraesCS3D01G464700 chr6A 92.687 629 41 4 7140 7768 19971343 19971966 0.000000e+00 902
60 TraesCS3D01G464700 chr1B 92.063 630 44 6 7140 7768 599914279 599914903 0.000000e+00 881


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 TraesCS3D01G464700 chr3D 568598327 568606230 7903 True 6869.000000 7845 100.000000 1 7904 2 chr3D.!!$R4 7903
1 TraesCS3D01G464700 chr3D 134852129 134856900 4771 True 3964.500000 4215 96.702000 1 7904 2 chr3D.!!$R1 7903
2 TraesCS3D01G464700 chr3D 132534296 132538312 4016 False 3255.500000 3624 96.143000 1 7141 2 chr3D.!!$F2 7140
3 TraesCS3D01G464700 chr3D 382767790 382772837 5047 True 2174.000000 3426 95.393333 1 7904 3 chr3D.!!$R2 7903
4 TraesCS3D01G464700 chr3D 423035052 423037763 2711 True 2123.500000 3236 94.827500 2268 5420 2 chr3D.!!$R3 3152
5 TraesCS3D01G464700 chr3D 451202104 451204494 2390 False 1121.000000 2023 94.890000 1 7901 2 chr3D.!!$F3 7900
6 TraesCS3D01G464700 chr3D 461998620 461999319 699 False 1011.000000 1011 92.727000 4715 5420 1 chr3D.!!$F1 705
7 TraesCS3D01G464700 chr4D 96947202 96949176 1974 True 3271.000000 3271 96.564000 2267 4241 1 chr4D.!!$R1 1974
8 TraesCS3D01G464700 chr4D 25345598 25350705 5107 False 1957.250000 3620 96.529250 1 7901 4 chr4D.!!$F1 7900
9 TraesCS3D01G464700 chr4D 483439414 483443950 4536 False 1742.000000 3288 94.558500 161 7901 2 chr4D.!!$F2 7740
10 TraesCS3D01G464700 chr5D 353099764 353101736 1972 False 3256.000000 3256 96.416000 2265 4243 1 chr5D.!!$F2 1978
11 TraesCS3D01G464700 chr5D 244880277 244882217 1940 True 3254.000000 3254 96.917000 2268 4210 1 chr5D.!!$R1 1942
12 TraesCS3D01G464700 chr5D 353107498 353109439 1941 False 3254.000000 3254 96.915000 2268 4210 1 chr5D.!!$F3 1942
13 TraesCS3D01G464700 chr5D 424613354 424618433 5079 True 2248.666667 3607 96.257667 1 7904 3 chr5D.!!$R3 7903
14 TraesCS3D01G464700 chr5D 423195415 423200474 5059 False 2240.000000 3585 96.432000 1 7901 3 chr5D.!!$F5 7900
15 TraesCS3D01G464700 chr5D 288025314 288028532 3218 True 2170.500000 3297 96.487000 2267 5420 2 chr5D.!!$R2 3153
16 TraesCS3D01G464700 chr5D 321211036 321211670 634 False 965.000000 965 94.081000 4783 5420 1 chr5D.!!$F1 637
17 TraesCS3D01G464700 chr5D 217021867 217022656 789 False 591.000000 976 95.841500 7140 7901 2 chr5D.!!$F4 761
18 TraesCS3D01G464700 chr2D 166466556 166468518 1962 False 3273.000000 3273 96.796000 2265 4224 1 chr2D.!!$F1 1959
19 TraesCS3D01G464700 chr2D 196247250 196250616 3366 False 2149.000000 3291 97.014500 2268 5420 2 chr2D.!!$F2 3152
20 TraesCS3D01G464700 chr7B 223190373 223192682 2309 True 3245.000000 3245 92.381000 1 2267 1 chr7B.!!$R1 2266
21 TraesCS3D01G464700 chr7B 11643891 11646201 2310 False 3241.000000 3241 92.324000 1 2267 1 chr7B.!!$F1 2266
22 TraesCS3D01G464700 chr2A 41013418 41015730 2312 True 3232.000000 3232 92.255000 1 2267 1 chr2A.!!$R1 2266
23 TraesCS3D01G464700 chr6D 306229240 306231199 1959 False 3208.000000 3208 96.232000 2268 4226 1 chr6D.!!$F1 1958
24 TraesCS3D01G464700 chr6D 41196054 41197342 1288 True 1648.000000 1648 90.116000 530 1793 1 chr6D.!!$R1 1263
25 TraesCS3D01G464700 chr6D 92591783 92592406 623 True 952.000000 952 94.286000 4799 5420 1 chr6D.!!$R2 621
26 TraesCS3D01G464700 chr6D 314870214 314870915 701 True 905.000000 905 90.139000 4721 5424 1 chr6D.!!$R3 703
27 TraesCS3D01G464700 chr2B 95513652 95517589 3937 False 2069.666667 2876 93.681000 1 7141 3 chr2B.!!$F1 7140
28 TraesCS3D01G464700 chr2B 53290407 53291045 638 True 894.000000 894 91.900000 7128 7768 1 chr2B.!!$R1 640
29 TraesCS3D01G464700 chr5A 534001719 534006642 4923 False 1898.666667 2819 94.379333 492 7901 3 chr5A.!!$F1 7409
30 TraesCS3D01G464700 chr5B 398082123 398085987 3864 False 1888.333333 2808 94.748667 1041 7768 3 chr5B.!!$F1 6727
31 TraesCS3D01G464700 chr6B 653283492 653284118 626 False 917.000000 917 93.005000 7140 7768 1 chr6B.!!$F2 628
32 TraesCS3D01G464700 chr6B 653254461 653255087 626 False 889.000000 889 92.210000 7140 7768 1 chr6B.!!$F1 628
33 TraesCS3D01G464700 chr7D 82824570 82825270 700 True 904.000000 904 90.070000 4717 5420 1 chr7D.!!$R1 703
34 TraesCS3D01G464700 chr1D 436694601 436695290 689 False 904.000000 904 90.395000 4724 5420 1 chr1D.!!$F1 696
35 TraesCS3D01G464700 chr6A 19971343 19971966 623 False 902.000000 902 92.687000 7140 7768 1 chr6A.!!$F1 628
36 TraesCS3D01G464700 chr1B 599914279 599914903 624 False 881.000000 881 92.063000 7140 7768 1 chr1B.!!$F1 628

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
405 426 1.053424 TTTCCTTGTACGTCCAGCCT 58.947 50.000 0.0 0.0 0.0 4.58 F
1050 1105 3.013921 ACTGAAGGACAAAAAGCAACGA 58.986 40.909 0.0 0.0 0.0 3.85 F
2212 2303 3.632145 CCTTTTTACTGCACACCTGAGTT 59.368 43.478 0.0 0.0 0.0 3.01 F
3175 3274 3.746492 ACACGGAAGTTTCTAGCATGAAC 59.254 43.478 0.0 0.0 46.4 3.18 F
3556 3658 1.005097 ACTTGCCTTGCTGATGATCCA 59.995 47.619 0.0 0.0 0.0 3.41 F
4773 4895 1.917568 GCGGGGTATTTATATGGGGGA 59.082 52.381 0.0 0.0 0.0 4.81 F
5597 5957 0.383949 ACCGAACAAGCGTGCAAAAT 59.616 45.000 0.0 0.0 0.0 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2212 2303 1.702957 CACCCTTGAAACTACCCCAGA 59.297 52.381 0.00 0.0 0.00 3.86 R
2445 2536 3.314541 AGTCTTCCGCTGTTATCGTTT 57.685 42.857 0.00 0.0 0.00 3.60 R
3338 3438 0.381089 GCTATGCTCGTAGACGTGGT 59.619 55.000 0.00 0.0 40.80 4.16 R
3985 4090 3.996150 TTCTCTGTTAACGAACGTCCT 57.004 42.857 0.26 0.0 38.51 3.85 R
5424 5784 3.192844 AGATGTGGCAGCTTTTTCATCTG 59.807 43.478 12.14 0.0 39.90 2.90 R
6074 6436 2.159014 TGCTTCATAATCGTTACCGGCT 60.159 45.455 0.00 0.0 33.95 5.52 R
7329 7974 1.002315 GTTGGGCCTAGTTTACACGGA 59.998 52.381 4.53 0.0 0.00 4.69 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
302 319 2.575893 TTGGCCGTCTCGCTAACCA 61.576 57.895 0.00 0.00 0.00 3.67
405 426 1.053424 TTTCCTTGTACGTCCAGCCT 58.947 50.000 0.00 0.00 0.00 4.58
626 669 4.671590 TGCCTCTCCCACCGTCGA 62.672 66.667 0.00 0.00 0.00 4.20
970 1025 4.823989 CCTTATTTCACTAAGGCCTGATGG 59.176 45.833 5.69 0.00 40.90 3.51
1003 1058 6.429385 TCCATATTTGGTTGGAAAAACAATGC 59.571 34.615 1.86 0.00 44.06 3.56
1038 1093 5.479124 TGGGTTTCTTAGTACTGAAGGAC 57.521 43.478 5.39 7.86 0.00 3.85
1050 1105 3.013921 ACTGAAGGACAAAAAGCAACGA 58.986 40.909 0.00 0.00 0.00 3.85
1693 1782 4.115516 CGATGACAACATTACAGAGGAGG 58.884 47.826 0.00 0.00 36.82 4.30
1949 2040 9.604626 CACTGAATTGAAGAACTAAGATGAAAC 57.395 33.333 0.00 0.00 0.00 2.78
2138 2229 3.892588 GGTTCCACACACCTTCCAAAATA 59.107 43.478 0.00 0.00 0.00 1.40
2212 2303 3.632145 CCTTTTTACTGCACACCTGAGTT 59.368 43.478 0.00 0.00 0.00 3.01
3175 3274 3.746492 ACACGGAAGTTTCTAGCATGAAC 59.254 43.478 0.00 0.00 46.40 3.18
3338 3438 7.174413 TGTCATGAATATCTCTCAAACCCAAA 58.826 34.615 0.00 0.00 0.00 3.28
3556 3658 1.005097 ACTTGCCTTGCTGATGATCCA 59.995 47.619 0.00 0.00 0.00 3.41
3624 3727 6.094048 ACTCTATCGCAAACAAACAAGCATAT 59.906 34.615 0.00 0.00 0.00 1.78
3677 3780 3.009723 TCGAATGAAAGATCCAACCAGC 58.990 45.455 0.00 0.00 0.00 4.85
3732 3835 4.816385 AGAATCAACTCGAAAGAAGCAACA 59.184 37.500 0.00 0.00 41.32 3.33
3832 3936 4.675976 TGAGTAGGTTGAACGGAAAGAA 57.324 40.909 0.00 0.00 0.00 2.52
3941 4045 6.925718 AGAAATCGAATCTGAGATAATCGCAA 59.074 34.615 10.76 0.00 33.76 4.85
3985 4090 5.754543 AAATGGACGAACGGTTAAAGAAA 57.245 34.783 0.00 0.00 0.00 2.52
4770 4892 2.619590 GGGTGCGGGGTATTTATATGGG 60.620 54.545 0.00 0.00 0.00 4.00
4773 4895 1.917568 GCGGGGTATTTATATGGGGGA 59.082 52.381 0.00 0.00 0.00 4.81
4774 4896 2.092592 GCGGGGTATTTATATGGGGGAG 60.093 54.545 0.00 0.00 0.00 4.30
4775 4897 3.456842 CGGGGTATTTATATGGGGGAGA 58.543 50.000 0.00 0.00 0.00 3.71
5206 5564 7.422399 TCTCCTCTCGTTTGTTTTTAAAATGG 58.578 34.615 0.55 0.00 0.00 3.16
5241 5600 8.517056 TCCGGAGAGAAAATAATTAAAACCAAC 58.483 33.333 0.00 0.00 0.00 3.77
5421 5781 9.054922 CAAATTGAAAATTTGGGATGTTACAGT 57.945 29.630 14.76 0.00 35.87 3.55
5464 5824 2.731572 TCTTTAGGGACGGACGAGATT 58.268 47.619 0.00 0.00 0.00 2.40
5597 5957 0.383949 ACCGAACAAGCGTGCAAAAT 59.616 45.000 0.00 0.00 0.00 1.82
5644 6004 7.532682 TTTTGTGTTTCTAATTGTTCTTGCC 57.467 32.000 0.00 0.00 0.00 4.52
6074 6436 3.581332 ACATTAGACCCGGAAAGAAGACA 59.419 43.478 0.73 0.00 0.00 3.41
6126 6489 6.740401 GCATAGTAATGGACCCGTGAATAGAA 60.740 42.308 0.00 0.00 33.38 2.10
6149 6512 6.541111 AGTGAGGACGAGTATTTCAAAAAC 57.459 37.500 0.00 0.00 0.00 2.43
6288 6651 3.186909 GTTACTGTCGTCATGCATAGCA 58.813 45.455 0.00 0.00 44.86 3.49
6333 6696 3.000727 GACTCGTTGATGACCGGAAAAT 58.999 45.455 9.46 0.00 0.00 1.82
6754 7118 7.001922 CGCAAGTAATGTTTATACTACGATGC 58.998 38.462 0.00 0.00 36.19 3.91
6817 7183 7.151308 GTCAATTGATGATTCGAGAGAGGTAT 58.849 38.462 12.12 0.00 40.97 2.73
7329 7974 1.583054 GACAGGCGTTTCAGAACACT 58.417 50.000 0.00 0.00 35.44 3.55
7363 8008 1.452651 CCAACAGGGCAGCATCGAT 60.453 57.895 0.00 0.00 0.00 3.59
7593 8238 1.297364 GCCCAGTTAACCCACGCTA 59.703 57.895 0.88 0.00 0.00 4.26
7666 8313 1.339946 GGCGACGACGACCAGTTTAC 61.340 60.000 12.29 0.00 42.35 2.01
7755 8428 3.458653 CCTGTTGGGCCTGGTTTG 58.541 61.111 4.53 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
285 302 2.575893 TTGGTTAGCGAGACGGCCA 61.576 57.895 2.24 0.00 0.00 5.36
571 614 1.939838 GCGACAGGTCAGGGTACAAAG 60.940 57.143 0.00 0.00 0.00 2.77
573 616 1.669440 GCGACAGGTCAGGGTACAA 59.331 57.895 0.00 0.00 0.00 2.41
574 617 2.280552 GGCGACAGGTCAGGGTACA 61.281 63.158 0.00 0.00 0.00 2.90
1003 1058 4.670896 AGAAACCCAAAAACATCCACTG 57.329 40.909 0.00 0.00 0.00 3.66
1120 1176 4.325741 CGTCAGTGCTCTTATTCTTCACAG 59.674 45.833 0.00 0.00 0.00 3.66
1354 1413 4.079446 CTTGCAAAAGGGCGAGGA 57.921 55.556 0.00 0.00 40.86 3.71
1949 2040 4.154737 TCAATCATCCTCTGCAAGAAAACG 59.845 41.667 0.00 0.00 46.34 3.60
2138 2229 4.931002 CCGTCATCATCCTTTTGCAAATTT 59.069 37.500 13.65 0.00 0.00 1.82
2212 2303 1.702957 CACCCTTGAAACTACCCCAGA 59.297 52.381 0.00 0.00 0.00 3.86
2414 2505 5.689819 GCCTTAAGCCATGTTTATCATACG 58.310 41.667 0.00 0.00 35.07 3.06
2440 2531 4.628333 TCTTCCGCTGTTATCGTTTTTAGG 59.372 41.667 0.00 0.00 0.00 2.69
2445 2536 3.314541 AGTCTTCCGCTGTTATCGTTT 57.685 42.857 0.00 0.00 0.00 3.60
3151 3250 2.163818 TGCTAGAAACTTCCGTGTGG 57.836 50.000 0.00 0.00 0.00 4.17
3175 3274 5.241064 CAGGCTCAAAGGGATCATAAGATTG 59.759 44.000 0.00 0.00 33.72 2.67
3338 3438 0.381089 GCTATGCTCGTAGACGTGGT 59.619 55.000 0.00 0.00 40.80 4.16
3556 3658 3.660865 ACTTCGAATCGCTAGGTTTTGT 58.339 40.909 0.00 0.00 0.00 2.83
3624 3727 7.069950 ACCTGTGCATTAGATGAGTACTGATTA 59.930 37.037 0.00 0.00 0.00 1.75
3732 3835 3.768468 TTCTTTCGCCGTTTGACTTTT 57.232 38.095 0.00 0.00 0.00 2.27
3832 3936 5.292101 CGCCTAGAGTTTCATCTCGAAATTT 59.708 40.000 0.00 0.00 45.21 1.82
3953 4057 5.038033 CCGTTCGTCCATTTTTCTTTTTCA 58.962 37.500 0.00 0.00 0.00 2.69
3966 4071 3.132925 CCTTTCTTTAACCGTTCGTCCA 58.867 45.455 0.00 0.00 0.00 4.02
3985 4090 3.996150 TTCTCTGTTAACGAACGTCCT 57.004 42.857 0.26 0.00 38.51 3.85
5139 5496 9.546428 AAAACAATTGAAATACTGGAGGAAAAG 57.454 29.630 13.59 0.00 0.00 2.27
5421 5781 4.334552 TGTGGCAGCTTTTTCATCTGATA 58.665 39.130 0.00 0.00 0.00 2.15
5424 5784 3.192844 AGATGTGGCAGCTTTTTCATCTG 59.807 43.478 12.14 0.00 39.90 2.90
5597 5957 4.067972 ACTTACTTCCTTTCGCAGAACA 57.932 40.909 0.00 0.00 45.90 3.18
6000 6362 8.676401 TGTCAACATGAAACGATCATCATTAAT 58.324 29.630 0.00 0.00 45.91 1.40
6074 6436 2.159014 TGCTTCATAATCGTTACCGGCT 60.159 45.455 0.00 0.00 33.95 5.52
6126 6489 6.289064 AGTTTTTGAAATACTCGTCCTCACT 58.711 36.000 0.00 0.00 0.00 3.41
6149 6512 7.860872 GTGTAACCAATCAAACTTACCTTTGAG 59.139 37.037 1.30 0.00 42.13 3.02
6288 6651 4.488770 AGAACCTGAAACTCTCTCTTCCT 58.511 43.478 0.00 0.00 0.00 3.36
6333 6696 6.039047 ACGAGTTCTCTAGTAACACTGTCAAA 59.961 38.462 11.52 0.00 0.00 2.69
6711 7075 3.403968 TGCGTACCTGTGAAAATAAGCA 58.596 40.909 0.00 0.00 31.07 3.91
6754 7118 3.976942 GTGTTAGCACAGCTTTCATTGTG 59.023 43.478 4.65 0.50 45.70 3.33
6817 7183 5.220586 CCGAAAAGATAAGTTGCGCTATCAA 60.221 40.000 9.73 0.00 0.00 2.57
7329 7974 1.002315 GTTGGGCCTAGTTTACACGGA 59.998 52.381 4.53 0.00 0.00 4.69
7363 8008 2.222124 TACCCCGTCGATGTACCCCA 62.222 60.000 3.52 0.00 0.00 4.96
7570 8215 4.043100 GGGTTAACTGGGCCGGCT 62.043 66.667 28.56 8.66 0.00 5.52
7666 8313 2.417516 CGACGGGAGCTGGGTATG 59.582 66.667 0.00 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.