Multiple sequence alignment - TraesCS6D01G084200

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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 TraesCS6D01G084200 chr6D 100.000 4022 0 0 1 4022 49180720 49184741 0.000000e+00 7428.0
1 TraesCS6D01G084200 chr6D 89.843 1851 156 12 1911 3729 50604941 50606791 0.000000e+00 2348.0
2 TraesCS6D01G084200 chr6D 86.832 1367 166 10 2043 3396 50179795 50181160 0.000000e+00 1515.0
3 TraesCS6D01G084200 chr6D 90.368 924 86 3 1 923 50602772 50603693 0.000000e+00 1210.0
4 TraesCS6D01G084200 chr6D 87.355 862 85 10 977 1816 50604069 50604928 0.000000e+00 966.0
5 TraesCS6D01G084200 chr6D 88.235 272 25 6 3462 3729 50181276 50181544 6.490000e-83 318.0
6 TraesCS6D01G084200 chr6D 81.526 249 40 2 99 341 457258187 457257939 2.450000e-47 200.0
7 TraesCS6D01G084200 chr6B 93.467 3995 203 23 1 3965 121962151 121958185 0.000000e+00 5879.0
8 TraesCS6D01G084200 chr6B 93.436 3824 205 21 1 3802 122188689 122184890 0.000000e+00 5629.0
9 TraesCS6D01G084200 chr6B 81.595 3135 425 74 321 3401 121434368 121431332 0.000000e+00 2453.0
10 TraesCS6D01G084200 chr6B 86.121 281 29 9 3454 3729 121431228 121430953 1.090000e-75 294.0
11 TraesCS6D01G084200 chr6B 91.080 213 16 3 3755 3965 121958171 121957960 6.580000e-73 285.0
12 TraesCS6D01G084200 chr6B 100.000 58 0 0 3965 4022 703823789 703823846 1.530000e-19 108.0
13 TraesCS6D01G084200 chr7A 85.783 3306 345 62 472 3726 591022665 591025896 0.000000e+00 3386.0
14 TraesCS6D01G084200 chr7A 77.333 1275 226 29 105 1351 616445761 616444522 0.000000e+00 695.0
15 TraesCS6D01G084200 chr7A 79.277 719 82 31 1743 2405 615785793 615786500 1.330000e-119 440.0
16 TraesCS6D01G084200 chr7A 79.050 716 88 33 1743 2405 616444051 616443345 6.170000e-118 435.0
17 TraesCS6D01G084200 chrUn 89.633 1852 158 20 1911 3729 277361152 277363002 0.000000e+00 2326.0
18 TraesCS6D01G084200 chrUn 85.890 1056 121 14 786 1815 373934200 373933147 0.000000e+00 1099.0
19 TraesCS6D01G084200 chrUn 90.573 785 70 3 1 784 71748839 71749620 0.000000e+00 1037.0
20 TraesCS6D01G084200 chrUn 90.727 399 34 3 1265 1661 478961346 478960949 2.750000e-146 529.0
21 TraesCS6D01G084200 chr6A 89.525 1852 160 20 1911 3729 64679792 64677942 0.000000e+00 2314.0
22 TraesCS6D01G084200 chr6A 88.207 1840 187 14 1 1815 64681636 64679802 0.000000e+00 2169.0
23 TraesCS6D01G084200 chr6A 86.282 1385 163 11 2022 3381 577723350 577721968 0.000000e+00 1480.0
24 TraesCS6D01G084200 chr6A 85.996 1371 173 14 2046 3401 64908453 64907087 0.000000e+00 1450.0
25 TraesCS6D01G084200 chr6A 82.286 796 131 8 321 1112 64910078 64909289 0.000000e+00 680.0
26 TraesCS6D01G084200 chr6A 83.212 137 19 3 1169 1303 577689728 577689594 5.460000e-24 122.0
27 TraesCS6D01G084200 chr6A 83.212 137 19 3 1169 1303 577707291 577707157 5.460000e-24 122.0
28 TraesCS6D01G084200 chr7B 82.730 608 90 13 1 604 517936164 517935568 9.900000e-146 527.0
29 TraesCS6D01G084200 chr7B 94.898 196 9 1 3737 3931 691252157 691251962 5.050000e-79 305.0
30 TraesCS6D01G084200 chr2D 81.754 570 87 12 1 562 89438085 89438645 1.020000e-125 460.0
31 TraesCS6D01G084200 chr2A 80.640 594 100 11 3 589 89202923 89203508 2.850000e-121 446.0
32 TraesCS6D01G084200 chr2A 94.118 68 3 1 3956 4022 719094618 719094551 7.110000e-18 102.0
33 TraesCS6D01G084200 chr7D 93.220 236 12 4 3729 3963 559781229 559781461 1.070000e-90 344.0
34 TraesCS6D01G084200 chr7D 95.833 192 8 0 3738 3929 612800663 612800472 1.090000e-80 311.0
35 TraesCS6D01G084200 chr7D 93.564 202 11 2 3731 3931 589000674 589000474 2.350000e-77 300.0
36 TraesCS6D01G084200 chr7D 93.846 195 11 1 3738 3931 589985331 589985137 3.930000e-75 292.0
37 TraesCS6D01G084200 chr7D 98.507 67 0 1 3957 4022 510701872 510701938 2.540000e-22 117.0
38 TraesCS6D01G084200 chr7D 92.857 70 5 0 3953 4022 554421552 554421621 7.110000e-18 102.0
39 TraesCS6D01G084200 chr4A 92.140 229 16 2 3738 3965 271050382 271050609 5.010000e-84 322.0
40 TraesCS6D01G084200 chr1D 90.435 230 18 4 3738 3965 3847479 3847706 2.350000e-77 300.0
41 TraesCS6D01G084200 chr1D 90.000 190 16 3 3772 3960 3855690 3855877 4.020000e-60 243.0
42 TraesCS6D01G084200 chr2B 88.971 136 12 3 1374 1506 142295679 142295814 8.940000e-37 165.0
43 TraesCS6D01G084200 chr2B 80.469 128 24 1 3457 3583 142297550 142297677 3.310000e-16 97.1
44 TraesCS6D01G084200 chr5A 85.000 160 11 4 3583 3729 531402536 531402695 2.500000e-32 150.0
45 TraesCS6D01G084200 chr3D 96.923 65 1 1 3959 4022 12055527 12055591 1.530000e-19 108.0
46 TraesCS6D01G084200 chr3D 96.875 64 1 1 3960 4022 325185135 325185198 5.500000e-19 106.0
47 TraesCS6D01G084200 chr3D 98.333 60 1 0 3963 4022 578648523 578648464 5.500000e-19 106.0
48 TraesCS6D01G084200 chr5D 95.455 66 2 1 3958 4022 254593510 254593575 1.980000e-18 104.0
49 TraesCS6D01G084200 chr4D 94.118 68 3 1 3956 4022 319985813 319985746 7.110000e-18 102.0


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 TraesCS6D01G084200 chr6D 49180720 49184741 4021 False 7428.0 7428 100.000000 1 4022 1 chr6D.!!$F1 4021
1 TraesCS6D01G084200 chr6D 50602772 50606791 4019 False 1508.0 2348 89.188667 1 3729 3 chr6D.!!$F3 3728
2 TraesCS6D01G084200 chr6D 50179795 50181544 1749 False 916.5 1515 87.533500 2043 3729 2 chr6D.!!$F2 1686
3 TraesCS6D01G084200 chr6B 122184890 122188689 3799 True 5629.0 5629 93.436000 1 3802 1 chr6B.!!$R1 3801
4 TraesCS6D01G084200 chr6B 121957960 121962151 4191 True 3082.0 5879 92.273500 1 3965 2 chr6B.!!$R3 3964
5 TraesCS6D01G084200 chr6B 121430953 121434368 3415 True 1373.5 2453 83.858000 321 3729 2 chr6B.!!$R2 3408
6 TraesCS6D01G084200 chr7A 591022665 591025896 3231 False 3386.0 3386 85.783000 472 3726 1 chr7A.!!$F1 3254
7 TraesCS6D01G084200 chr7A 616443345 616445761 2416 True 565.0 695 78.191500 105 2405 2 chr7A.!!$R1 2300
8 TraesCS6D01G084200 chr7A 615785793 615786500 707 False 440.0 440 79.277000 1743 2405 1 chr7A.!!$F2 662
9 TraesCS6D01G084200 chrUn 277361152 277363002 1850 False 2326.0 2326 89.633000 1911 3729 1 chrUn.!!$F2 1818
10 TraesCS6D01G084200 chrUn 373933147 373934200 1053 True 1099.0 1099 85.890000 786 1815 1 chrUn.!!$R1 1029
11 TraesCS6D01G084200 chrUn 71748839 71749620 781 False 1037.0 1037 90.573000 1 784 1 chrUn.!!$F1 783
12 TraesCS6D01G084200 chr6A 64677942 64681636 3694 True 2241.5 2314 88.866000 1 3729 2 chr6A.!!$R4 3728
13 TraesCS6D01G084200 chr6A 577721968 577723350 1382 True 1480.0 1480 86.282000 2022 3381 1 chr6A.!!$R3 1359
14 TraesCS6D01G084200 chr6A 64907087 64910078 2991 True 1065.0 1450 84.141000 321 3401 2 chr6A.!!$R5 3080
15 TraesCS6D01G084200 chr7B 517935568 517936164 596 True 527.0 527 82.730000 1 604 1 chr7B.!!$R1 603
16 TraesCS6D01G084200 chr2D 89438085 89438645 560 False 460.0 460 81.754000 1 562 1 chr2D.!!$F1 561
17 TraesCS6D01G084200 chr2A 89202923 89203508 585 False 446.0 446 80.640000 3 589 1 chr2A.!!$F1 586

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
754 764 3.057315 CCAACACGCAAGATTTTCCTGAT 60.057 43.478 0.0 0.0 43.62 2.90 F
1076 1409 0.036164 ACAAAGGCGACACTATGGCA 59.964 50.000 0.0 0.0 32.68 4.92 F
2676 3339 0.473755 TTGGCTGCTCTGACTTGGAA 59.526 50.000 0.0 0.0 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2638 3301 0.111253 AAGGAGTTGCTTCCCTGGTG 59.889 55.0 0.00 0.00 38.02 4.17 R
2830 3496 0.179048 TGAGGCACCACTGAGTTGTG 60.179 55.0 12.02 12.02 37.66 3.33 R
3971 4949 0.438445 CACACGTGTGGCACTTATCG 59.562 55.0 35.65 18.40 42.10 2.92 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
306 310 9.884465 GTAAATAGCTATGAGTTATTTGCAAGG 57.116 33.333 7.09 0.00 40.70 3.61
308 312 8.930846 AATAGCTATGAGTTATTTGCAAGGAT 57.069 30.769 7.09 0.00 29.01 3.24
311 315 8.930846 AGCTATGAGTTATTTGCAAGGATATT 57.069 30.769 0.00 0.00 0.00 1.28
312 316 9.007901 AGCTATGAGTTATTTGCAAGGATATTC 57.992 33.333 0.00 0.00 0.00 1.75
313 317 7.959651 GCTATGAGTTATTTGCAAGGATATTCG 59.040 37.037 0.00 0.00 0.00 3.34
314 318 6.060028 TGAGTTATTTGCAAGGATATTCGC 57.940 37.500 0.00 0.00 0.00 4.70
315 319 5.588246 TGAGTTATTTGCAAGGATATTCGCA 59.412 36.000 0.00 0.00 0.00 5.10
316 320 6.262944 TGAGTTATTTGCAAGGATATTCGCAT 59.737 34.615 0.00 0.00 33.71 4.73
317 321 7.042797 AGTTATTTGCAAGGATATTCGCATT 57.957 32.000 0.00 0.00 33.71 3.56
319 323 8.292448 AGTTATTTGCAAGGATATTCGCATTAG 58.708 33.333 0.00 0.00 33.71 1.73
323 327 8.565896 TTTGCAAGGATATTCGCATTAGATAT 57.434 30.769 0.00 0.00 33.71 1.63
653 663 4.567959 GGCTAATAAATGTTTGCTTGCCTG 59.432 41.667 0.00 0.00 34.42 4.85
754 764 3.057315 CCAACACGCAAGATTTTCCTGAT 60.057 43.478 0.00 0.00 43.62 2.90
870 880 4.729595 TCACATGTCCATCGCGTATATAC 58.270 43.478 5.77 2.53 0.00 1.47
1076 1409 0.036164 ACAAAGGCGACACTATGGCA 59.964 50.000 0.00 0.00 32.68 4.92
1083 1416 2.279741 GCGACACTATGGCATGAGAAA 58.720 47.619 10.98 0.00 31.07 2.52
1176 1531 3.588842 TGGATGACAATGAGGAGGACTTT 59.411 43.478 0.00 0.00 0.00 2.66
1245 1600 2.294791 GGATGAGAAGGATGACGACGAT 59.705 50.000 0.00 0.00 0.00 3.73
1284 1642 1.667830 CTTTGCCGCCGTCAAGAGA 60.668 57.895 0.00 0.00 0.00 3.10
1608 2205 5.163152 ACACTGTCCCTTTCTTTCAGAGAAT 60.163 40.000 0.00 0.00 43.65 2.40
1609 2206 5.767168 CACTGTCCCTTTCTTTCAGAGAATT 59.233 40.000 0.00 0.00 43.65 2.17
1640 2237 5.067283 GGTTGTTAGGTTGTTGATCTTGTGT 59.933 40.000 0.00 0.00 0.00 3.72
1698 2295 8.677300 CATAAGCTTAGCATTTAGTCAAAAGGA 58.323 33.333 12.54 0.00 30.31 3.36
1781 2378 6.590234 AAATCATTTCCTTGTTAGGTGGTC 57.410 37.500 0.00 0.00 42.60 4.02
1956 2568 7.770897 GGTCTAACATGAGGTCTTGTTTATCAT 59.229 37.037 14.37 0.00 42.08 2.45
2398 3060 5.221641 GCCAAGGTTAACTTTCCAAAGGAAT 60.222 40.000 5.42 0.00 41.71 3.01
2442 3104 2.037620 CTCGCCCTGCTGCTCCTAAT 62.038 60.000 0.00 0.00 0.00 1.73
2534 3196 3.654414 CTTTCATCTACCCATCCGCTAC 58.346 50.000 0.00 0.00 0.00 3.58
2536 3198 1.147191 TCATCTACCCATCCGCTACCT 59.853 52.381 0.00 0.00 0.00 3.08
2539 3201 1.760613 TCTACCCATCCGCTACCTTTG 59.239 52.381 0.00 0.00 0.00 2.77
2591 3254 4.247267 ACATGTCATTTGTTCCTGCAAG 57.753 40.909 0.00 0.00 0.00 4.01
2638 3301 8.388484 AGCATTTGTTATGAATCCATACTCTC 57.612 34.615 0.00 0.00 35.16 3.20
2676 3339 0.473755 TTGGCTGCTCTGACTTGGAA 59.526 50.000 0.00 0.00 0.00 3.53
2769 3432 2.584835 TTGCACTTGCCCAGAGTAAT 57.415 45.000 0.00 0.00 41.18 1.89
2791 3454 3.580895 TGCCTACAACTCAGTGGTGATTA 59.419 43.478 0.00 0.00 36.72 1.75
2830 3496 0.400594 ACTTGCCCAGAGTAACACCC 59.599 55.000 0.00 0.00 0.00 4.61
2856 3522 3.774766 ACTCAGTGGTGCCTCATGTTATA 59.225 43.478 0.00 0.00 0.00 0.98
2952 3618 3.859386 GCCTTCTGAATTTTAATGTGCCG 59.141 43.478 0.00 0.00 0.00 5.69
3258 3944 2.612000 TCGACCCTTTCCCTACTCAAA 58.388 47.619 0.00 0.00 0.00 2.69
3274 3960 5.528043 ACTCAAATGTTTATGTGTGGCAA 57.472 34.783 0.00 0.00 0.00 4.52
3514 4276 3.768468 TGGACGTTTCAACCACTTTTC 57.232 42.857 0.00 0.00 0.00 2.29
3584 4346 4.826733 TCACTTCAAGCTCTGGCAAAATAA 59.173 37.500 0.00 0.00 41.70 1.40
3716 4480 2.044793 TGAGTTGGGGGATCTGTTCT 57.955 50.000 0.00 0.00 0.00 3.01
3734 4498 7.212976 TCTGTTCTATTTCAGTGCATCTATCC 58.787 38.462 0.00 0.00 33.89 2.59
3742 4506 8.789825 ATTTCAGTGCATCTATCCATTCTATC 57.210 34.615 0.00 0.00 0.00 2.08
3778 4542 4.904253 TTTGACGGGTTAACCAGAAAAG 57.096 40.909 28.52 13.17 40.22 2.27
3802 4566 8.828688 AGGATAAATACGCTAGAAATTACCAC 57.171 34.615 0.00 0.00 0.00 4.16
3824 4800 7.132213 CCACAATAAATAGAAACATACAGCCG 58.868 38.462 0.00 0.00 0.00 5.52
3909 4886 7.450014 CCCACCATTGCCATTACAATTATAGTA 59.550 37.037 0.00 0.00 38.19 1.82
3969 4947 9.677567 AATAAATCGGATCATTAAATTTGGACG 57.322 29.630 0.00 0.00 0.00 4.79
3970 4948 4.545823 TCGGATCATTAAATTTGGACGC 57.454 40.909 0.00 0.00 0.00 5.19
3971 4949 3.314080 TCGGATCATTAAATTTGGACGCC 59.686 43.478 0.00 1.57 0.00 5.68
3972 4950 3.628017 GGATCATTAAATTTGGACGCCG 58.372 45.455 0.00 0.00 0.00 6.46
3973 4951 3.314080 GGATCATTAAATTTGGACGCCGA 59.686 43.478 0.00 0.00 0.00 5.54
3974 4952 4.023193 GGATCATTAAATTTGGACGCCGAT 60.023 41.667 0.00 0.00 0.00 4.18
3975 4953 5.180492 GGATCATTAAATTTGGACGCCGATA 59.820 40.000 0.00 0.00 0.00 2.92
3976 4954 6.293735 GGATCATTAAATTTGGACGCCGATAA 60.294 38.462 0.00 0.00 0.00 1.75
3977 4955 6.055231 TCATTAAATTTGGACGCCGATAAG 57.945 37.500 0.00 0.00 0.00 1.73
3978 4956 5.587043 TCATTAAATTTGGACGCCGATAAGT 59.413 36.000 0.00 0.00 0.00 2.24
3979 4957 3.757745 AAATTTGGACGCCGATAAGTG 57.242 42.857 0.00 0.00 0.00 3.16
3980 4958 1.014352 ATTTGGACGCCGATAAGTGC 58.986 50.000 0.00 0.00 0.00 4.40
3981 4959 1.022451 TTTGGACGCCGATAAGTGCC 61.022 55.000 0.00 0.00 0.00 5.01
3982 4960 2.173758 TTGGACGCCGATAAGTGCCA 62.174 55.000 0.00 0.00 0.00 4.92
3983 4961 2.171725 GGACGCCGATAAGTGCCAC 61.172 63.158 0.00 0.00 0.00 5.01
3984 4962 1.447140 GACGCCGATAAGTGCCACA 60.447 57.895 0.00 0.00 0.00 4.17
3985 4963 1.693083 GACGCCGATAAGTGCCACAC 61.693 60.000 0.00 0.00 34.10 3.82
3986 4964 2.798501 CGCCGATAAGTGCCACACG 61.799 63.158 0.00 0.00 39.64 4.49
3987 4965 1.740296 GCCGATAAGTGCCACACGT 60.740 57.895 0.00 0.00 39.64 4.49
3988 4966 1.966493 GCCGATAAGTGCCACACGTG 61.966 60.000 15.48 15.48 39.64 4.49
3989 4967 0.669318 CCGATAAGTGCCACACGTGT 60.669 55.000 17.22 17.22 39.64 4.49
3990 4968 0.438445 CGATAAGTGCCACACGTGTG 59.562 55.000 36.13 36.13 45.23 3.82
3998 4976 3.240203 CACACGTGTGGGCGTTAG 58.760 61.111 35.65 12.08 43.83 2.34
3999 4977 2.029964 ACACGTGTGGGCGTTAGG 59.970 61.111 22.71 0.00 43.83 2.69
4000 4978 2.740826 CACGTGTGGGCGTTAGGG 60.741 66.667 7.58 0.00 43.83 3.53
4001 4979 4.011517 ACGTGTGGGCGTTAGGGG 62.012 66.667 0.00 0.00 43.04 4.79
4002 4980 4.770874 CGTGTGGGCGTTAGGGGG 62.771 72.222 0.00 0.00 0.00 5.40
4003 4981 3.643554 GTGTGGGCGTTAGGGGGT 61.644 66.667 0.00 0.00 0.00 4.95
4004 4982 2.855014 TGTGGGCGTTAGGGGGTT 60.855 61.111 0.00 0.00 0.00 4.11
4005 4983 2.437449 GTGGGCGTTAGGGGGTTT 59.563 61.111 0.00 0.00 0.00 3.27
4006 4984 1.974875 GTGGGCGTTAGGGGGTTTG 60.975 63.158 0.00 0.00 0.00 2.93
4007 4985 3.066190 GGGCGTTAGGGGGTTTGC 61.066 66.667 0.00 0.00 0.00 3.68
4008 4986 3.066190 GGCGTTAGGGGGTTTGCC 61.066 66.667 0.00 0.00 35.04 4.52
4020 4998 2.323968 GGTTTGCCCACACATTTTGT 57.676 45.000 0.00 0.00 39.97 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
296 300 7.977789 TCTAATGCGAATATCCTTGCAAATA 57.022 32.000 0.00 0.00 41.22 1.40
298 302 6.882610 ATCTAATGCGAATATCCTTGCAAA 57.117 33.333 0.00 0.00 41.22 3.68
341 349 7.432869 TCATCCAACCAAACTTTTAGACAATG 58.567 34.615 0.00 0.00 0.00 2.82
653 663 6.025280 TGTACGTTTCACTTTCTTTCTTTGC 58.975 36.000 0.00 0.00 0.00 3.68
754 764 2.053627 GTTCCGAACGAGCGTTTCTAA 58.946 47.619 9.80 2.30 38.60 2.10
831 841 0.902984 TGAAGGCGTGAGAGGGCTTA 60.903 55.000 5.23 0.00 46.56 3.09
961 977 2.330372 CGAAGTCGTCGTCAGGGGA 61.330 63.158 0.00 0.00 45.09 4.81
990 1323 3.576356 CCGCACATGATGGCCGAC 61.576 66.667 0.00 0.00 0.00 4.79
1076 1409 1.839424 CCGGGGCTTCTTTTTCTCAT 58.161 50.000 0.00 0.00 0.00 2.90
1083 1416 2.362889 CCATGCCGGGGCTTCTTT 60.363 61.111 11.55 0.00 42.51 2.52
1245 1600 1.738350 GACTTGATCTCGACGACCTCA 59.262 52.381 0.00 0.00 0.00 3.86
1284 1642 2.524440 TCTGATACCTTGGGAGAGGGAT 59.476 50.000 0.00 0.00 43.31 3.85
1608 2205 6.936279 TCAACAACCTAACAACCAAAATCAA 58.064 32.000 0.00 0.00 0.00 2.57
1609 2206 6.531503 TCAACAACCTAACAACCAAAATCA 57.468 33.333 0.00 0.00 0.00 2.57
1698 2295 2.770232 CCCTTCCCACGGATTTACTACT 59.230 50.000 0.00 0.00 0.00 2.57
1781 2378 2.288825 ACAATCCTCACACACACCTACG 60.289 50.000 0.00 0.00 0.00 3.51
1827 2432 6.580041 CGATGATTGGCAGAATAAGCATTTAC 59.420 38.462 0.00 0.00 33.53 2.01
1834 2439 6.426025 TCAGATTCGATGATTGGCAGAATAAG 59.574 38.462 0.00 0.00 32.42 1.73
1920 2531 5.249393 ACCTCATGTTAGACCTTTGACATCT 59.751 40.000 0.00 0.00 30.78 2.90
2024 2667 4.759693 TGGTAATGAACACTGAACCATGAC 59.240 41.667 0.00 0.00 32.24 3.06
2398 3060 1.412710 ACGCTTCTGAGGAACTGTTGA 59.587 47.619 0.00 0.00 41.55 3.18
2442 3104 1.965930 CACGCTTAGCTTGGGTGCA 60.966 57.895 18.37 0.00 40.45 4.57
2534 3196 0.680618 TGGCTGGTTTGATGCAAAGG 59.319 50.000 0.00 0.00 33.82 3.11
2536 3198 1.412079 AGTGGCTGGTTTGATGCAAA 58.588 45.000 0.00 0.00 0.00 3.68
2539 3201 0.668401 GCAAGTGGCTGGTTTGATGC 60.668 55.000 0.00 0.00 40.25 3.91
2591 3254 0.984995 AACAGGGGCAGTAGAGTTCC 59.015 55.000 0.00 0.00 0.00 3.62
2638 3301 0.111253 AAGGAGTTGCTTCCCTGGTG 59.889 55.000 0.00 0.00 38.02 4.17
2676 3339 4.141390 GGAGTCTTGGTGTCATAATCCCAT 60.141 45.833 0.00 0.00 0.00 4.00
2750 3413 2.161855 CATTACTCTGGGCAAGTGCAA 58.838 47.619 5.52 0.00 44.36 4.08
2769 3432 1.419381 TCACCACTGAGTTGTAGGCA 58.581 50.000 0.00 0.00 0.00 4.75
2830 3496 0.179048 TGAGGCACCACTGAGTTGTG 60.179 55.000 12.02 12.02 37.66 3.33
2856 3522 5.410924 TCGAAATCGACATCATTGTTCTCT 58.589 37.500 0.58 0.00 44.22 3.10
2952 3618 1.225855 TGTTGACAACGACATCCTGC 58.774 50.000 13.46 0.00 35.72 4.85
3063 3733 4.126437 CCTCACACCGAACATGCAATATA 58.874 43.478 0.00 0.00 0.00 0.86
3258 3944 4.888326 AATGGTTGCCACACATAAACAT 57.112 36.364 0.00 0.00 35.80 2.71
3274 3960 3.404899 ACAACGGTTCGTCATAAATGGT 58.595 40.909 0.00 0.00 39.99 3.55
3321 4013 5.301555 TCACATTCAGAAATGGTAACGACA 58.698 37.500 0.00 0.00 45.48 4.35
3401 4095 4.278170 TCACCAATTAAACAGGCAGAACTG 59.722 41.667 0.00 0.00 44.03 3.16
3493 4254 3.759618 AGAAAAGTGGTTGAAACGTCCAA 59.240 39.130 0.00 0.00 32.82 3.53
3514 4276 2.808543 GGCCTAACACACACTCTTTCAG 59.191 50.000 0.00 0.00 0.00 3.02
3716 4480 9.881649 GATAGAATGGATAGATGCACTGAAATA 57.118 33.333 0.00 0.00 0.00 1.40
3778 4542 8.597662 TGTGGTAATTTCTAGCGTATTTATCC 57.402 34.615 0.00 0.00 0.00 2.59
3818 4582 9.227777 AGAAAGTCTATTAAAATTAACGGCTGT 57.772 29.630 0.00 0.00 0.00 4.40
3882 4858 2.317371 TTGTAATGGCAATGGTGGGT 57.683 45.000 0.00 0.00 0.00 4.51
3883 4859 3.910568 AATTGTAATGGCAATGGTGGG 57.089 42.857 0.00 0.00 38.87 4.61
3909 4886 8.398665 GTGTGTGTTTTTAGTCTGATTTTCTCT 58.601 33.333 0.00 0.00 0.00 3.10
3945 4923 7.136119 GCGTCCAAATTTAATGATCCGATTTA 58.864 34.615 0.00 0.00 0.00 1.40
3951 4929 3.314080 TCGGCGTCCAAATTTAATGATCC 59.686 43.478 6.85 0.00 0.00 3.36
3965 4943 2.171725 GTGGCACTTATCGGCGTCC 61.172 63.158 11.13 0.00 0.00 4.79
3966 4944 1.447140 TGTGGCACTTATCGGCGTC 60.447 57.895 19.83 0.00 0.00 5.19
3967 4945 1.740296 GTGTGGCACTTATCGGCGT 60.740 57.895 19.83 0.00 0.00 5.68
3968 4946 2.798501 CGTGTGGCACTTATCGGCG 61.799 63.158 19.83 0.00 31.34 6.46
3969 4947 1.740296 ACGTGTGGCACTTATCGGC 60.740 57.895 19.83 0.00 31.34 5.54
3970 4948 0.669318 ACACGTGTGGCACTTATCGG 60.669 55.000 22.71 13.07 34.19 4.18
3971 4949 0.438445 CACACGTGTGGCACTTATCG 59.562 55.000 35.65 18.40 42.10 2.92
3985 4963 4.770874 CCCCCTAACGCCCACACG 62.771 72.222 0.00 0.00 39.50 4.49
3986 4964 2.702040 AAACCCCCTAACGCCCACAC 62.702 60.000 0.00 0.00 0.00 3.82
3987 4965 2.462626 AAACCCCCTAACGCCCACA 61.463 57.895 0.00 0.00 0.00 4.17
3988 4966 1.974875 CAAACCCCCTAACGCCCAC 60.975 63.158 0.00 0.00 0.00 4.61
3989 4967 2.437002 CAAACCCCCTAACGCCCA 59.563 61.111 0.00 0.00 0.00 5.36
3990 4968 3.066190 GCAAACCCCCTAACGCCC 61.066 66.667 0.00 0.00 0.00 6.13
3991 4969 3.066190 GGCAAACCCCCTAACGCC 61.066 66.667 0.00 0.00 0.00 5.68
4001 4979 2.323968 ACAAAATGTGTGGGCAAACC 57.676 45.000 0.00 0.00 39.72 3.27


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

AutoCloner maintained by Alex Coulton.