Multiple sequence alignment - TraesCS6D01G307900

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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 TraesCS6D01G307900 chr6D 100.000 2815 0 0 1 2815 418884024 418881210 0.000000e+00 5199.0
1 TraesCS6D01G307900 chr6D 82.400 1125 86 56 315 1422 418770714 418769685 0.000000e+00 878.0
2 TraesCS6D01G307900 chr6D 84.047 771 80 23 709 1471 418893102 418892367 0.000000e+00 702.0
3 TraesCS6D01G307900 chr6D 91.340 485 16 7 994 1456 418732825 418733305 8.500000e-180 640.0
4 TraesCS6D01G307900 chr6D 84.310 580 46 28 247 813 418732183 418732730 2.480000e-145 525.0
5 TraesCS6D01G307900 chr6D 73.419 775 158 35 1912 2648 29138867 29138103 2.170000e-61 246.0
6 TraesCS6D01G307900 chr6D 79.479 307 58 3 2375 2676 144598371 144598677 2.200000e-51 213.0
7 TraesCS6D01G307900 chr6D 88.571 140 6 6 503 642 418944878 418944749 8.070000e-36 161.0
8 TraesCS6D01G307900 chr6B 83.890 1825 147 46 324 2062 631535623 631533860 0.000000e+00 1605.0
9 TraesCS6D01G307900 chr6B 82.656 1747 106 78 125 1815 631741980 631740375 0.000000e+00 1365.0
10 TraesCS6D01G307900 chr6B 82.344 1382 99 60 125 1465 631192417 631193694 0.000000e+00 1066.0
11 TraesCS6D01G307900 chr6B 80.867 946 83 43 915 1818 631844116 631843227 0.000000e+00 654.0
12 TraesCS6D01G307900 chr6B 88.000 525 44 13 959 1471 631246237 631245720 1.120000e-168 603.0
13 TraesCS6D01G307900 chr6B 79.322 590 48 30 315 895 631247038 631246514 2.080000e-91 346.0
14 TraesCS6D01G307900 chr6B 82.152 381 35 14 309 672 631846276 631845912 2.120000e-76 296.0
15 TraesCS6D01G307900 chr6B 91.089 101 6 1 18 115 631660612 631660512 1.760000e-27 134.0
16 TraesCS6D01G307900 chr6B 92.188 64 5 0 18 81 631192012 631192075 1.070000e-14 91.6
17 TraesCS6D01G307900 chr6A 84.834 1721 119 49 193 1867 562471357 562469733 0.000000e+00 1602.0
18 TraesCS6D01G307900 chr6A 83.002 1459 132 53 667 2064 562250423 562251826 0.000000e+00 1214.0
19 TraesCS6D01G307900 chr6A 81.544 1425 106 72 315 1661 562271221 562272566 0.000000e+00 1029.0
20 TraesCS6D01G307900 chr6A 86.211 950 90 26 1891 2815 562469561 562468628 0.000000e+00 990.0
21 TraesCS6D01G307900 chr6A 86.724 693 43 23 816 1471 562400802 562400122 0.000000e+00 725.0
22 TraesCS6D01G307900 chr6A 88.714 381 28 5 247 613 562249616 562249995 4.280000e-123 451.0
23 TraesCS6D01G307900 chr6A 78.926 503 42 30 315 816 562402389 562401950 1.650000e-72 283.0
24 TraesCS6D01G307900 chr6A 91.156 147 13 0 2063 2209 562251979 562252125 1.710000e-47 200.0
25 TraesCS6D01G307900 chr6A 90.217 92 5 2 125 214 562246806 562246895 1.770000e-22 117.0
26 TraesCS6D01G307900 chr6A 97.059 34 1 0 1837 1870 594488607 594488640 1.090000e-04 58.4
27 TraesCS6D01G307900 chr6A 100.000 29 0 0 620 648 562249988 562250016 1.000000e-03 54.7
28 TraesCS6D01G307900 chr4D 77.379 809 123 25 1904 2665 497193151 497192356 2.590000e-115 425.0
29 TraesCS6D01G307900 chr5D 73.318 892 166 39 1837 2663 255977212 255978096 2.150000e-66 263.0
30 TraesCS6D01G307900 chr5D 78.788 297 53 10 2339 2628 354494285 354493992 1.030000e-44 191.0
31 TraesCS6D01G307900 chr4B 79.530 298 53 7 1916 2206 123461035 123461331 3.680000e-49 206.0
32 TraesCS6D01G307900 chr5B 77.015 335 68 9 2355 2682 418803912 418803580 1.720000e-42 183.0
33 TraesCS6D01G307900 chr2A 83.684 190 31 0 2344 2533 652577509 652577698 2.230000e-41 180.0
34 TraesCS6D01G307900 chr1B 78.451 297 49 11 1902 2190 530757588 530757877 2.230000e-41 180.0
35 TraesCS6D01G307900 chr1B 80.714 140 27 0 2329 2468 45598801 45598940 2.960000e-20 110.0
36 TraesCS6D01G307900 chr1D 76.220 328 58 6 2209 2516 28168335 28168662 3.750000e-34 156.0
37 TraesCS6D01G307900 chr3B 79.798 198 35 3 1990 2182 582409816 582409619 3.780000e-29 139.0
38 TraesCS6D01G307900 chr2D 77.056 231 46 7 2427 2650 547759666 547759896 2.940000e-25 126.0
39 TraesCS6D01G307900 chr1A 76.170 235 48 7 2474 2703 521288116 521287885 1.770000e-22 117.0
40 TraesCS6D01G307900 chr5A 76.562 192 38 5 2021 2206 354547702 354547512 6.420000e-17 99.0
41 TraesCS6D01G307900 chr3D 74.747 198 44 6 2482 2676 63991924 63991730 1.800000e-12 84.2
42 TraesCS6D01G307900 chr3D 84.507 71 11 0 2135 2205 18418211 18418141 1.400000e-08 71.3
43 TraesCS6D01G307900 chr7B 77.953 127 25 3 2483 2606 451174500 451174374 3.010000e-10 76.8
44 TraesCS6D01G307900 chr3A 86.154 65 9 0 2126 2190 26024666 26024730 1.400000e-08 71.3


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 TraesCS6D01G307900 chr6D 418881210 418884024 2814 True 5199.00 5199 100.0000 1 2815 1 chr6D.!!$R3 2814
1 TraesCS6D01G307900 chr6D 418769685 418770714 1029 True 878.00 878 82.4000 315 1422 1 chr6D.!!$R2 1107
2 TraesCS6D01G307900 chr6D 418892367 418893102 735 True 702.00 702 84.0470 709 1471 1 chr6D.!!$R4 762
3 TraesCS6D01G307900 chr6D 418732183 418733305 1122 False 582.50 640 87.8250 247 1456 2 chr6D.!!$F2 1209
4 TraesCS6D01G307900 chr6D 29138103 29138867 764 True 246.00 246 73.4190 1912 2648 1 chr6D.!!$R1 736
5 TraesCS6D01G307900 chr6B 631533860 631535623 1763 True 1605.00 1605 83.8900 324 2062 1 chr6B.!!$R1 1738
6 TraesCS6D01G307900 chr6B 631740375 631741980 1605 True 1365.00 1365 82.6560 125 1815 1 chr6B.!!$R3 1690
7 TraesCS6D01G307900 chr6B 631192012 631193694 1682 False 578.80 1066 87.2660 18 1465 2 chr6B.!!$F1 1447
8 TraesCS6D01G307900 chr6B 631843227 631846276 3049 True 475.00 654 81.5095 309 1818 2 chr6B.!!$R5 1509
9 TraesCS6D01G307900 chr6B 631245720 631247038 1318 True 474.50 603 83.6610 315 1471 2 chr6B.!!$R4 1156
10 TraesCS6D01G307900 chr6A 562468628 562471357 2729 True 1296.00 1602 85.5225 193 2815 2 chr6A.!!$R2 2622
11 TraesCS6D01G307900 chr6A 562271221 562272566 1345 False 1029.00 1029 81.5440 315 1661 1 chr6A.!!$F1 1346
12 TraesCS6D01G307900 chr6A 562400122 562402389 2267 True 504.00 725 82.8250 315 1471 2 chr6A.!!$R1 1156
13 TraesCS6D01G307900 chr6A 562246806 562252125 5319 False 407.34 1214 90.6178 125 2209 5 chr6A.!!$F3 2084
14 TraesCS6D01G307900 chr4D 497192356 497193151 795 True 425.00 425 77.3790 1904 2665 1 chr4D.!!$R1 761
15 TraesCS6D01G307900 chr5D 255977212 255978096 884 False 263.00 263 73.3180 1837 2663 1 chr5D.!!$F1 826

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
119 120 0.627986 CCCTGATCTGGCCCTCTTTT 59.372 55.0 13.02 0.0 0.00 2.27 F
1072 7218 0.391793 GTGACCTCTTAGCACCTGCC 60.392 60.0 0.00 0.0 43.38 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1676 7943 0.533755 GGCCTGTGCTATACCTGCTG 60.534 60.0 0.0 0.0 37.74 4.41 R
2546 9203 0.539986 GAAGGATTGCGGGGTACTCA 59.460 55.0 0.0 0.0 0.00 3.41 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
49 50 8.638873 CCCCAAAATCCTACCTCAAATTATTAC 58.361 37.037 0.00 0.00 0.00 1.89
61 62 9.840427 ACCTCAAATTATTACAGATTTTTCACG 57.160 29.630 0.00 0.00 0.00 4.35
71 72 2.552315 AGATTTTTCACGTTGTCGCCAT 59.448 40.909 0.00 0.00 41.18 4.40
74 75 1.588674 TTTCACGTTGTCGCCATTCT 58.411 45.000 0.00 0.00 41.18 2.40
81 82 2.417719 GTTGTCGCCATTCTCTGTTCT 58.582 47.619 0.00 0.00 0.00 3.01
83 84 3.953712 TGTCGCCATTCTCTGTTCTAA 57.046 42.857 0.00 0.00 0.00 2.10
84 85 4.471904 TGTCGCCATTCTCTGTTCTAAT 57.528 40.909 0.00 0.00 0.00 1.73
85 86 4.183865 TGTCGCCATTCTCTGTTCTAATG 58.816 43.478 0.00 0.00 0.00 1.90
87 88 2.033407 CGCCATTCTCTGTTCTAATGCG 60.033 50.000 0.00 0.00 30.81 4.73
88 89 3.198068 GCCATTCTCTGTTCTAATGCGA 58.802 45.455 0.00 0.00 30.81 5.10
89 90 3.812053 GCCATTCTCTGTTCTAATGCGAT 59.188 43.478 0.00 0.00 30.81 4.58
90 91 4.274459 GCCATTCTCTGTTCTAATGCGATT 59.726 41.667 0.00 0.00 30.81 3.34
92 93 6.678900 GCCATTCTCTGTTCTAATGCGATTTT 60.679 38.462 0.00 0.00 30.81 1.82
93 94 7.253422 CCATTCTCTGTTCTAATGCGATTTTT 58.747 34.615 0.00 0.00 30.81 1.94
117 118 2.381941 GCCCTGATCTGGCCCTCTT 61.382 63.158 13.02 0.00 43.33 2.85
118 119 1.931007 GCCCTGATCTGGCCCTCTTT 61.931 60.000 13.02 0.00 43.33 2.52
119 120 0.627986 CCCTGATCTGGCCCTCTTTT 59.372 55.000 13.02 0.00 0.00 2.27
120 121 1.006400 CCCTGATCTGGCCCTCTTTTT 59.994 52.381 13.02 0.00 0.00 1.94
185 485 6.613755 AGAAACAAGCTACGTTTTACACAT 57.386 33.333 13.66 0.00 36.72 3.21
229 3207 2.166459 TGAAATACAGCCCACGAGAGAG 59.834 50.000 0.00 0.00 0.00 3.20
268 3257 0.691413 AGCTAGTAGAAGGGCCCCAC 60.691 60.000 21.43 13.48 0.00 4.61
343 3332 1.152030 AGAGGGTGGCTCCAACAGA 60.152 57.895 8.03 0.00 38.11 3.41
385 3375 3.492102 TGAGCAAAGCCAGACTAAAGT 57.508 42.857 0.00 0.00 0.00 2.66
389 3379 2.076863 CAAAGCCAGACTAAAGTCCGG 58.923 52.381 7.86 7.86 45.85 5.14
402 3394 4.882842 AAAGTCCGGCCAATTTAATTGT 57.117 36.364 15.40 0.00 38.59 2.71
405 3397 2.758423 GTCCGGCCAATTTAATTGTCCT 59.242 45.455 14.56 0.00 36.19 3.85
460 3464 2.543848 CAGTCACGTACAGCAAACATGT 59.456 45.455 0.00 0.00 34.62 3.21
465 3469 4.274705 TCACGTACAGCAAACATGTCAATT 59.725 37.500 0.00 0.00 32.02 2.32
466 3470 4.975502 CACGTACAGCAAACATGTCAATTT 59.024 37.500 0.00 0.00 32.02 1.82
468 3472 6.019961 CACGTACAGCAAACATGTCAATTTTT 60.020 34.615 0.00 0.00 32.02 1.94
613 3645 2.203938 TGCCCCTCCTTCTCCGTT 60.204 61.111 0.00 0.00 0.00 4.44
912 6675 4.501714 CTACGCACCGCCGGCTAA 62.502 66.667 26.68 0.34 0.00 3.09
913 6676 3.785189 CTACGCACCGCCGGCTAAT 62.785 63.158 26.68 6.49 0.00 1.73
971 7103 3.689649 AGCCGTGCAAGTCCTATAAAAAG 59.310 43.478 0.00 0.00 0.00 2.27
1020 7153 1.268079 CCACACACACAAACACACACA 59.732 47.619 0.00 0.00 0.00 3.72
1069 7215 0.610687 GCAGTGACCTCTTAGCACCT 59.389 55.000 0.00 0.00 33.14 4.00
1072 7218 0.391793 GTGACCTCTTAGCACCTGCC 60.392 60.000 0.00 0.00 43.38 4.85
1275 7442 1.633774 CCATCGCCTACCTCTACCAT 58.366 55.000 0.00 0.00 0.00 3.55
1465 7655 3.086600 AGCAGCAGGCCTACTCCC 61.087 66.667 3.98 0.00 46.50 4.30
1466 7656 4.537433 GCAGCAGGCCTACTCCCG 62.537 72.222 3.98 0.00 36.11 5.14
1584 7815 2.725312 GCCTGCCGGAGATGACAGA 61.725 63.158 5.05 0.00 31.67 3.41
1587 7818 0.459237 CTGCCGGAGATGACAGACAC 60.459 60.000 5.05 0.00 31.67 3.67
1588 7819 1.184970 TGCCGGAGATGACAGACACA 61.185 55.000 5.05 0.00 0.00 3.72
1591 7822 1.000843 CCGGAGATGACAGACACACAA 59.999 52.381 0.00 0.00 0.00 3.33
1626 7871 2.750712 GGGAGAGAGATACCAGATACGC 59.249 54.545 0.00 0.00 0.00 4.42
1661 7925 3.181474 GGCAGTCAGTAGGTGATTAGTCC 60.181 52.174 0.00 0.00 37.56 3.85
1738 8009 4.460263 TGTATTGATTGGTATCAGGTGGC 58.540 43.478 0.00 0.00 41.60 5.01
1739 8010 2.435372 TTGATTGGTATCAGGTGGCC 57.565 50.000 0.00 0.00 41.60 5.36
1740 8011 1.595311 TGATTGGTATCAGGTGGCCT 58.405 50.000 3.32 0.00 35.87 5.19
1781 8052 3.826157 TGAAACCAGTAGGCTTTTGGATG 59.174 43.478 19.96 0.00 39.06 3.51
1854 8127 1.095807 GTTAGGGCATCTCCAACGCC 61.096 60.000 0.00 0.00 45.47 5.68
1899 8320 6.042552 ACATCTGTCTATGGATCGGAGAAAAT 59.957 38.462 0.00 0.00 43.58 1.82
1935 8356 2.356793 GCAGGAGCCGATCATCCG 60.357 66.667 0.00 0.00 40.73 4.18
1946 8367 2.099263 CCGATCATCCGACTGTAGTTGT 59.901 50.000 0.00 0.00 0.00 3.32
1999 8420 4.509970 AGACGATTTTCATCAAACACGACA 59.490 37.500 0.00 0.00 34.01 4.35
2006 8427 6.820470 TTTCATCAAACACGACAAAATTCC 57.180 33.333 0.00 0.00 0.00 3.01
2107 8716 6.819649 ACGAGATTAACCGGATGTTCAATAAA 59.180 34.615 9.46 0.00 38.42 1.40
2118 8727 9.316730 CCGGATGTTCAATAAATTTTTCATGAT 57.683 29.630 0.00 0.00 0.00 2.45
2140 8750 6.992123 TGATCTGATTATGTTATCCCACACAC 59.008 38.462 0.00 0.00 0.00 3.82
2160 8770 4.067896 CACACTACACCTTGAGCTTCATT 58.932 43.478 0.00 0.00 0.00 2.57
2190 8800 0.038599 TGTGCATGAATGGTCTGCCT 59.961 50.000 0.00 0.00 35.02 4.75
2231 8853 3.131223 GCAGGCTAGACAATGTGTAGAGA 59.869 47.826 19.93 0.00 32.13 3.10
2233 8855 5.105752 CAGGCTAGACAATGTGTAGAGAAC 58.894 45.833 19.93 7.56 32.13 3.01
2250 8876 5.885465 AGAGAACCAATGAGTGAAGGAATT 58.115 37.500 0.00 0.00 0.00 2.17
2393 9037 3.815401 ACACTAAGGACTTGACATTGCAC 59.185 43.478 0.00 0.00 0.00 4.57
2421 9065 6.178607 AGATGATGTGCATGTTATAGGACA 57.821 37.500 0.00 0.00 40.35 4.02
2533 9190 3.146066 ACCACACATCGCATAACAACTT 58.854 40.909 0.00 0.00 0.00 2.66
2535 9192 4.153475 ACCACACATCGCATAACAACTTAC 59.847 41.667 0.00 0.00 0.00 2.34
2538 9195 3.064820 CACATCGCATAACAACTTACCCC 59.935 47.826 0.00 0.00 0.00 4.95
2628 9287 0.893727 ATTTGACCGAACACCTGCCC 60.894 55.000 0.00 0.00 0.00 5.36
2629 9288 2.272230 TTTGACCGAACACCTGCCCA 62.272 55.000 0.00 0.00 0.00 5.36
2630 9289 2.063015 TTGACCGAACACCTGCCCAT 62.063 55.000 0.00 0.00 0.00 4.00
2696 9355 3.289834 GGCCGCGGACGTATCCTA 61.290 66.667 33.48 0.00 43.73 2.94
2707 9366 3.015327 GACGTATCCTAGTGTGGTGTCT 58.985 50.000 0.00 0.00 0.00 3.41
2708 9367 2.753452 ACGTATCCTAGTGTGGTGTCTG 59.247 50.000 0.00 0.00 0.00 3.51
2716 9375 1.133823 AGTGTGGTGTCTGCCATTTCA 60.134 47.619 0.00 0.00 41.08 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.138967 GGGTATATCCGGGGTACATATAACT 58.861 44.000 0.00 0.00 37.00 2.24
1 2 5.305386 GGGGTATATCCGGGGTACATATAAC 59.695 48.000 0.00 4.09 37.00 1.89
2 3 5.466819 GGGGTATATCCGGGGTACATATAA 58.533 45.833 0.00 0.00 37.00 0.98
3 4 4.140710 GGGGGTATATCCGGGGTACATATA 60.141 50.000 0.00 0.00 37.00 0.86
5 6 2.023113 GGGGGTATATCCGGGGTACATA 60.023 54.545 0.00 0.00 37.00 2.29
6 7 1.274011 GGGGGTATATCCGGGGTACAT 60.274 57.143 0.00 0.00 37.00 2.29
7 8 0.116940 GGGGGTATATCCGGGGTACA 59.883 60.000 0.00 0.00 37.00 2.90
8 9 0.116940 TGGGGGTATATCCGGGGTAC 59.883 60.000 0.00 2.30 37.00 3.34
9 10 0.873163 TTGGGGGTATATCCGGGGTA 59.127 55.000 0.00 0.00 37.00 3.69
10 11 0.028851 TTTGGGGGTATATCCGGGGT 60.029 55.000 0.00 0.00 37.00 4.95
11 12 1.150872 TTTTGGGGGTATATCCGGGG 58.849 55.000 0.00 0.00 37.00 5.73
12 13 2.291346 GGATTTTGGGGGTATATCCGGG 60.291 54.545 0.00 0.00 37.00 5.73
13 14 2.647802 AGGATTTTGGGGGTATATCCGG 59.352 50.000 0.00 0.00 39.75 5.14
14 15 4.324022 GGTAGGATTTTGGGGGTATATCCG 60.324 50.000 0.00 0.00 39.75 4.18
15 16 4.856182 AGGTAGGATTTTGGGGGTATATCC 59.144 45.833 0.00 0.00 35.97 2.59
16 17 5.550403 TGAGGTAGGATTTTGGGGGTATATC 59.450 44.000 0.00 0.00 0.00 1.63
20 21 3.223940 TGAGGTAGGATTTTGGGGGTA 57.776 47.619 0.00 0.00 0.00 3.69
49 50 2.286713 TGGCGACAACGTGAAAAATCTG 60.287 45.455 0.00 0.00 41.98 2.90
100 101 0.627986 AAAAGAGGGCCAGATCAGGG 59.372 55.000 6.18 2.58 0.00 4.45
101 102 2.521547 AAAAAGAGGGCCAGATCAGG 57.478 50.000 6.18 0.00 0.00 3.86
117 118 6.607019 AGGATGGGAACTAGTTGTGTAAAAA 58.393 36.000 14.14 0.00 0.00 1.94
118 119 6.043938 AGAGGATGGGAACTAGTTGTGTAAAA 59.956 38.462 14.14 0.00 0.00 1.52
119 120 5.546499 AGAGGATGGGAACTAGTTGTGTAAA 59.454 40.000 14.14 0.00 0.00 2.01
120 121 5.091552 AGAGGATGGGAACTAGTTGTGTAA 58.908 41.667 14.14 0.00 0.00 2.41
121 122 4.684724 AGAGGATGGGAACTAGTTGTGTA 58.315 43.478 14.14 0.00 0.00 2.90
122 123 3.521727 AGAGGATGGGAACTAGTTGTGT 58.478 45.455 14.14 0.00 0.00 3.72
123 124 4.559862 AAGAGGATGGGAACTAGTTGTG 57.440 45.455 14.14 0.00 0.00 3.33
151 451 7.880105 ACGTAGCTTGTTTCTACTTACTACTT 58.120 34.615 0.00 0.00 35.47 2.24
156 456 8.755018 TGTAAAACGTAGCTTGTTTCTACTTAC 58.245 33.333 14.76 13.13 38.52 2.34
200 500 2.310538 GGGCTGTATTTCATCTTGGGG 58.689 52.381 0.00 0.00 0.00 4.96
229 3207 4.044426 GCTGTTGTCTCAAACATGGTTTC 58.956 43.478 0.00 0.00 39.25 2.78
268 3257 5.529581 TTAGGCAAGGTTTCTTTCTTTGG 57.470 39.130 0.00 0.00 0.00 3.28
402 3394 2.775960 AGGAGATGTTGATGCATGAGGA 59.224 45.455 2.46 0.00 0.00 3.71
405 3397 3.275999 CACAGGAGATGTTGATGCATGA 58.724 45.455 2.46 0.00 41.41 3.07
474 3478 4.362279 GAATTGTTTTCTTGAGCTGTGCA 58.638 39.130 0.00 0.00 0.00 4.57
613 3645 2.362503 ACGGACGGAGAGATGGCA 60.363 61.111 0.00 0.00 0.00 4.92
729 5049 2.048503 GTCGCTGGCCGTACAAGT 60.049 61.111 0.00 0.00 38.35 3.16
731 5051 4.382320 GGGTCGCTGGCCGTACAA 62.382 66.667 0.00 0.00 38.35 2.41
896 6391 3.778360 GATTAGCCGGCGGTGCGTA 62.778 63.158 28.82 11.34 0.00 4.42
912 6675 9.045745 GGAGGAGATTGGAAGATTAGATTAGAT 57.954 37.037 0.00 0.00 0.00 1.98
913 6676 7.456269 GGGAGGAGATTGGAAGATTAGATTAGA 59.544 40.741 0.00 0.00 0.00 2.10
1122 7268 3.382803 GATGGTGGCAGCTCGCTCT 62.383 63.158 18.53 0.00 41.91 4.09
1126 7272 2.831366 GCATGATGGTGGCAGCTCG 61.831 63.158 18.53 2.95 0.00 5.03
1236 7403 2.125673 ATGACGAACCGCCGGAAG 60.126 61.111 11.71 2.52 0.00 3.46
1465 7655 2.202298 GGACGTGATTTTGGCGCG 60.202 61.111 0.00 0.00 44.14 6.86
1466 7656 1.154225 CAGGACGTGATTTTGGCGC 60.154 57.895 0.00 0.00 0.00 6.53
1584 7815 4.098044 CCCTCTCTATGTACGATTGTGTGT 59.902 45.833 0.00 0.00 0.00 3.72
1587 7818 4.822350 TCTCCCTCTCTATGTACGATTGTG 59.178 45.833 0.00 0.00 0.00 3.33
1588 7819 5.050126 TCTCCCTCTCTATGTACGATTGT 57.950 43.478 0.00 0.00 0.00 2.71
1591 7822 4.841813 TCTCTCTCCCTCTCTATGTACGAT 59.158 45.833 0.00 0.00 0.00 3.73
1626 7871 0.805322 GACTGCCTCTCATGCGTCTG 60.805 60.000 0.00 0.00 33.00 3.51
1676 7943 0.533755 GGCCTGTGCTATACCTGCTG 60.534 60.000 0.00 0.00 37.74 4.41
1738 8009 2.311287 AGGCCACCTGATACCAAGG 58.689 57.895 5.01 0.00 29.57 3.61
1822 8095 3.194620 TGCCCTAACTTCCCCTTTGATA 58.805 45.455 0.00 0.00 0.00 2.15
2118 8727 6.070251 AGTGTGTGTGGGATAACATAATCAGA 60.070 38.462 0.00 0.00 31.49 3.27
2140 8750 4.318332 TGAATGAAGCTCAAGGTGTAGTG 58.682 43.478 0.00 0.00 0.00 2.74
2160 8770 5.185442 ACCATTCATGCACATACATTGTTGA 59.815 36.000 0.00 0.00 36.00 3.18
2190 8800 2.101082 TGCAACGTAGTACAGGTCACAA 59.899 45.455 0.38 0.00 45.00 3.33
2231 8853 8.421249 TTGATTAATTCCTTCACTCATTGGTT 57.579 30.769 0.00 0.00 0.00 3.67
2233 8855 8.689061 TGATTGATTAATTCCTTCACTCATTGG 58.311 33.333 0.00 0.00 28.01 3.16
2272 8898 7.775120 TGAAGATCATAATTTTTGCCTCTTCC 58.225 34.615 18.15 9.30 37.59 3.46
2413 9057 3.845178 CGAAAGCACACTGTGTCCTATA 58.155 45.455 11.12 0.00 35.75 1.31
2538 9195 1.898154 CGGGGTACTCAGTGAAGGG 59.102 63.158 0.00 0.00 0.00 3.95
2546 9203 0.539986 GAAGGATTGCGGGGTACTCA 59.460 55.000 0.00 0.00 0.00 3.41
2606 9265 2.423577 GCAGGTGTTCGGTCAAATAGT 58.576 47.619 0.00 0.00 0.00 2.12
2665 9324 4.509737 GGCCCACGTACTCTCCGC 62.510 72.222 0.00 0.00 0.00 5.54
2666 9325 4.189188 CGGCCCACGTACTCTCCG 62.189 72.222 0.00 0.00 37.93 4.63
2688 9347 2.479730 GCAGACACCACACTAGGATACG 60.480 54.545 0.00 0.00 46.39 3.06
2690 9349 2.108168 GGCAGACACCACACTAGGATA 58.892 52.381 0.00 0.00 0.00 2.59
2696 9355 1.133823 TGAAATGGCAGACACCACACT 60.134 47.619 0.00 0.00 44.17 3.55
2708 9367 4.516321 ACATGCCTTTCTTTTTGAAATGGC 59.484 37.500 16.82 16.82 46.71 4.40
2783 9451 7.776618 TCGATTCCTGGTGTATATACATCTT 57.223 36.000 23.34 6.72 38.14 2.40
2786 9454 6.070767 CCCTTCGATTCCTGGTGTATATACAT 60.071 42.308 18.27 0.79 38.63 2.29
2789 9457 5.399991 ACCCTTCGATTCCTGGTGTATATA 58.600 41.667 0.00 0.00 0.00 0.86
2790 9458 4.232091 ACCCTTCGATTCCTGGTGTATAT 58.768 43.478 0.00 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.