Multiple sequence alignment - TraesCS2D01G386100

Loading Multiple Alignment...

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 TraesCS2D01G386100 chr2D 100.000 4159 0 0 1 4159 491191491 491195649 0.000000e+00 7681
1 TraesCS2D01G386100 chr2B 92.421 2982 112 41 1227 4159 575834989 575837905 0.000000e+00 4150
2 TraesCS2D01G386100 chr2B 93.852 488 19 5 710 1196 575833946 575834423 0.000000e+00 725
3 TraesCS2D01G386100 chr2B 86.932 528 53 9 198 723 575828191 575828704 2.790000e-161 579
4 TraesCS2D01G386100 chr2B 93.657 268 14 3 50 315 575828803 575829069 8.380000e-107 398
5 TraesCS2D01G386100 chr2B 83.582 201 9 5 1 201 575827413 575827589 2.570000e-37 167
6 TraesCS2D01G386100 chr2A 91.086 2625 77 34 1192 3734 635510524 635513073 0.000000e+00 3406
7 TraesCS2D01G386100 chr2A 86.927 742 64 15 2 720 635509212 635509943 0.000000e+00 802
8 TraesCS2D01G386100 chr2A 89.697 495 28 9 710 1192 635510002 635510485 9.880000e-171 610
9 TraesCS2D01G386100 chr2A 91.443 409 7 7 3747 4140 635517022 635517417 1.700000e-148 536
10 TraesCS2D01G386100 chr6D 78.341 651 83 34 2380 3007 312558754 312559369 6.570000e-98 368
11 TraesCS2D01G386100 chr6B 78.341 651 83 42 2380 3007 514478652 514478037 6.570000e-98 368
12 TraesCS2D01G386100 chr6A 86.071 280 35 3 2732 3007 449182019 449182298 8.740000e-77 298
13 TraesCS2D01G386100 chr1A 81.221 213 28 8 2749 2955 390709561 390709767 1.200000e-35 161
14 TraesCS2D01G386100 chr3A 82.051 195 23 11 2749 2937 504024846 504025034 5.570000e-34 156
15 TraesCS2D01G386100 chr1B 80.569 211 33 8 2749 2955 420685667 420685873 5.570000e-34 156


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 TraesCS2D01G386100 chr2D 491191491 491195649 4158 False 7681.000000 7681 100.00000 1 4159 1 chr2D.!!$F1 4158
1 TraesCS2D01G386100 chr2B 575833946 575837905 3959 False 2437.500000 4150 93.13650 710 4159 2 chr2B.!!$F2 3449
2 TraesCS2D01G386100 chr2B 575827413 575829069 1656 False 381.333333 579 88.05700 1 723 3 chr2B.!!$F1 722
3 TraesCS2D01G386100 chr2A 635509212 635517417 8205 False 1338.500000 3406 89.78825 2 4140 4 chr2A.!!$F1 4138
4 TraesCS2D01G386100 chr6D 312558754 312559369 615 False 368.000000 368 78.34100 2380 3007 1 chr6D.!!$F1 627
5 TraesCS2D01G386100 chr6B 514478037 514478652 615 True 368.000000 368 78.34100 2380 3007 1 chr6B.!!$R1 627

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
840 1544 0.320050 GAATTCAAAGGGCGCCCAAA 59.680 50.0 45.13 31.38 38.92 3.28 F
1948 3242 0.318275 GAGTTCTGCGAGCCGGATAG 60.318 60.0 5.05 0.00 0.00 2.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 3291 0.319641 GCCCGTCGTTCAACTTCTCT 60.320 55.0 0.0 0.0 0.0 3.10 R
3443 4788 0.032130 TGCGTTGCTCTCTTCTCGTT 59.968 50.0 0.0 0.0 0.0 3.85 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
101 102 5.527951 GAGAGCACTCGAGATTGATTACAT 58.472 41.667 21.68 0.00 33.32 2.29
104 105 7.312154 AGAGCACTCGAGATTGATTACATATC 58.688 38.462 21.68 0.00 34.09 1.63
121 122 4.578928 ACATATCTGACAATAAAACGCCCC 59.421 41.667 0.00 0.00 0.00 5.80
241 848 9.595823 TTACTATTAGTGCCTATGTTGACTTTC 57.404 33.333 6.60 0.00 0.00 2.62
285 893 3.106827 TGATGCTGTCCAACCATAGAGA 58.893 45.455 0.00 0.00 0.00 3.10
324 932 6.624710 TGTTTGATAAAACATTATGCGCAC 57.375 33.333 14.90 0.00 37.71 5.34
374 982 5.749109 CCAATAGATAGACACACTTTCGACC 59.251 44.000 0.00 0.00 33.06 4.79
375 983 6.405953 CCAATAGATAGACACACTTTCGACCT 60.406 42.308 0.00 0.00 33.06 3.85
376 984 6.777213 ATAGATAGACACACTTTCGACCTT 57.223 37.500 0.00 0.00 33.06 3.50
409 1042 9.146984 GTAGCATTGTTTTGTAGTACTACATGA 57.853 33.333 31.05 21.36 44.54 3.07
422 1055 2.938451 ACTACATGATTGATGTGTGCCG 59.062 45.455 0.00 0.00 45.43 5.69
431 1064 0.439600 GATGTGTGCCGCATTTTTGC 59.560 50.000 0.00 0.00 34.53 3.68
455 1088 2.110990 GTTGTACGAAAAACGCCAACC 58.889 47.619 0.00 0.00 44.09 3.77
477 1112 9.537848 CAACCGTTTTAAATGAGTAGACAATAC 57.462 33.333 0.00 0.00 0.00 1.89
527 1162 7.894376 AATCAACCACTATTTTGCAAATCTG 57.106 32.000 13.65 8.32 0.00 2.90
566 1201 2.158682 TGTCAAAAGTGGAAGCTGCCTA 60.159 45.455 13.40 0.00 0.00 3.93
574 1209 3.072184 AGTGGAAGCTGCCTATATTCTGG 59.928 47.826 13.40 0.00 0.00 3.86
602 1237 6.142480 CGGTATACAGAAAATCGTCATCAGTC 59.858 42.308 5.01 0.00 0.00 3.51
614 1249 6.267496 TCGTCATCAGTCTAAAGTGAATGA 57.733 37.500 0.00 0.00 43.59 2.57
616 1251 6.808704 TCGTCATCAGTCTAAAGTGAATGAAG 59.191 38.462 0.00 0.00 42.88 3.02
694 1329 6.268825 CACAAGTGTGTAGTGTATACTCCT 57.731 41.667 4.17 2.92 40.96 3.69
695 1330 7.387119 CACAAGTGTGTAGTGTATACTCCTA 57.613 40.000 4.17 1.97 40.96 2.94
696 1331 7.823665 CACAAGTGTGTAGTGTATACTCCTAA 58.176 38.462 4.17 0.00 40.96 2.69
697 1332 8.301720 CACAAGTGTGTAGTGTATACTCCTAAA 58.698 37.037 4.17 0.00 40.96 1.85
698 1333 8.863086 ACAAGTGTGTAGTGTATACTCCTAAAA 58.137 33.333 4.17 0.00 38.36 1.52
699 1334 9.355215 CAAGTGTGTAGTGTATACTCCTAAAAG 57.645 37.037 4.17 0.00 38.36 2.27
726 1430 6.671190 TGTATGAATGCAGCATATTTACAGC 58.329 36.000 8.75 3.52 31.54 4.40
730 1434 6.905578 TGAATGCAGCATATTTACAGCTATG 58.094 36.000 8.75 0.00 36.73 2.23
840 1544 0.320050 GAATTCAAAGGGCGCCCAAA 59.680 50.000 45.13 31.38 38.92 3.28
991 1701 2.108776 ACCCACTTTACCTTAACCCACC 59.891 50.000 0.00 0.00 0.00 4.61
992 1702 2.555892 CCCACTTTACCTTAACCCACCC 60.556 54.545 0.00 0.00 0.00 4.61
993 1703 2.108601 CCACTTTACCTTAACCCACCCA 59.891 50.000 0.00 0.00 0.00 4.51
994 1704 3.151554 CACTTTACCTTAACCCACCCAC 58.848 50.000 0.00 0.00 0.00 4.61
1095 1810 3.126225 AGAGACGACGAGACCGCC 61.126 66.667 0.00 0.00 39.95 6.13
1107 1822 4.675029 ACCGCCGCGCTGTTACTT 62.675 61.111 7.42 0.00 0.00 2.24
1131 1846 0.602905 CGTCACCCTTCTTTTCCGCT 60.603 55.000 0.00 0.00 0.00 5.52
1142 1857 2.946990 TCTTTTCCGCTTCCGTTTCTTT 59.053 40.909 0.00 0.00 0.00 2.52
1150 1865 4.497507 CCGCTTCCGTTTCTTTCTTTTCTT 60.498 41.667 0.00 0.00 0.00 2.52
1152 1867 5.515270 CGCTTCCGTTTCTTTCTTTTCTTTT 59.485 36.000 0.00 0.00 0.00 2.27
1153 1868 6.034577 CGCTTCCGTTTCTTTCTTTTCTTTTT 59.965 34.615 0.00 0.00 0.00 1.94
1208 1981 4.512198 CAGTGTCGATACCGAGAAGATAGT 59.488 45.833 8.86 0.00 46.52 2.12
1234 2007 6.795399 AGGTGGCGACATAAAAATAAAGATG 58.205 36.000 0.00 0.00 46.14 2.90
1266 2526 2.278330 GGGAGCACCAAAGGCCAAG 61.278 63.158 5.01 0.00 39.85 3.61
1452 2723 0.698818 TCCCTTCTTCCCTTGCCTTC 59.301 55.000 0.00 0.00 0.00 3.46
1453 2724 0.701147 CCCTTCTTCCCTTGCCTTCT 59.299 55.000 0.00 0.00 0.00 2.85
1454 2725 1.340502 CCCTTCTTCCCTTGCCTTCTC 60.341 57.143 0.00 0.00 0.00 2.87
1455 2726 1.340502 CCTTCTTCCCTTGCCTTCTCC 60.341 57.143 0.00 0.00 0.00 3.71
1456 2727 0.324943 TTCTTCCCTTGCCTTCTCCG 59.675 55.000 0.00 0.00 0.00 4.63
1457 2728 1.746991 CTTCCCTTGCCTTCTCCGC 60.747 63.158 0.00 0.00 0.00 5.54
1497 2768 3.532155 CCTCTCCCCTTCGCCTCG 61.532 72.222 0.00 0.00 0.00 4.63
1690 2978 4.373156 TTGGGAGAGGAAGGAAGAAAAG 57.627 45.455 0.00 0.00 0.00 2.27
1712 3000 3.677596 GGAGCGTTCTTTCTCTTTCTCTG 59.322 47.826 0.00 0.00 0.00 3.35
1715 3003 4.987912 AGCGTTCTTTCTCTTTCTCTGAAG 59.012 41.667 0.00 0.00 0.00 3.02
1757 3045 8.266473 CCTGGAATTGGGAATTTATGATTTTCA 58.734 33.333 0.00 0.00 0.00 2.69
1777 3065 0.318762 TGTGTGTATGTGTGCGCCTA 59.681 50.000 4.18 0.00 0.00 3.93
1934 3228 1.251527 TGCTGGACCTCGAGGAGTTC 61.252 60.000 37.69 23.63 38.94 3.01
1948 3242 0.318275 GAGTTCTGCGAGCCGGATAG 60.318 60.000 5.05 0.00 0.00 2.08
2372 3691 2.675423 TACCGTGCTCTGCCGTCT 60.675 61.111 0.00 0.00 0.00 4.18
2711 4036 3.646715 CCCAAGAACCTCCCCGCA 61.647 66.667 0.00 0.00 0.00 5.69
2714 4042 3.647771 AAGAACCTCCCCGCACCC 61.648 66.667 0.00 0.00 0.00 4.61
3010 4347 2.330372 TGGCGTCGTTCTAGCTCGT 61.330 57.895 0.00 0.00 0.00 4.18
3416 4761 1.133167 CCCAGAACCAACCTTCCCTTT 60.133 52.381 0.00 0.00 0.00 3.11
3417 4762 1.963515 CCAGAACCAACCTTCCCTTTG 59.036 52.381 0.00 0.00 0.00 2.77
3418 4763 1.963515 CAGAACCAACCTTCCCTTTGG 59.036 52.381 0.00 0.00 46.72 3.28
3419 4764 1.133167 AGAACCAACCTTCCCTTTGGG 60.133 52.381 5.40 0.00 45.76 4.12
3439 4784 0.777446 TGGGGTGAAGGAAAAGAGGG 59.223 55.000 0.00 0.00 0.00 4.30
3443 4788 2.375509 GGGTGAAGGAAAAGAGGGAGAA 59.624 50.000 0.00 0.00 0.00 2.87
3463 4808 0.244994 ACGAGAAGAGAGCAACGCAT 59.755 50.000 0.00 0.00 0.00 4.73
3573 4943 1.440938 CGGGACAGCGAGAGGTAGAG 61.441 65.000 0.00 0.00 41.81 2.43
3602 4972 2.050714 CTGCAAGCAACCACGCTG 60.051 61.111 0.00 0.00 42.89 5.18
3619 4989 2.127609 GCGCTGTCTGTTTCGTGC 60.128 61.111 0.00 0.00 0.00 5.34
3636 5006 3.566130 GCAAGAGCAGGAATGGAGT 57.434 52.632 0.00 0.00 41.58 3.85
3637 5007 1.093159 GCAAGAGCAGGAATGGAGTG 58.907 55.000 0.00 0.00 41.58 3.51
3640 5010 1.202330 AGAGCAGGAATGGAGTGGAG 58.798 55.000 0.00 0.00 0.00 3.86
3641 5011 0.908198 GAGCAGGAATGGAGTGGAGT 59.092 55.000 0.00 0.00 0.00 3.85
3642 5012 1.280421 GAGCAGGAATGGAGTGGAGTT 59.720 52.381 0.00 0.00 0.00 3.01
3643 5013 1.004044 AGCAGGAATGGAGTGGAGTTG 59.996 52.381 0.00 0.00 0.00 3.16
3644 5014 1.952367 GCAGGAATGGAGTGGAGTTGG 60.952 57.143 0.00 0.00 0.00 3.77
3714 5086 1.820906 CATATGCAGCGGTGTGGCT 60.821 57.895 17.07 1.30 46.13 4.75
3718 5090 2.980233 GCAGCGGTGTGGCTCTTT 60.980 61.111 17.07 0.00 42.53 2.52
3737 5109 5.396484 TCTTTGCAGTGTGTAGTCGTATAC 58.604 41.667 0.00 0.00 0.00 1.47
3738 5110 4.769859 TTGCAGTGTGTAGTCGTATACA 57.230 40.909 3.32 0.00 33.30 2.29
3811 9117 2.282462 AGGCGCCCCTGTCTTTTG 60.282 61.111 26.15 0.00 40.94 2.44
4075 9396 3.943381 CCCCAACTTATTTCCGACCTAAC 59.057 47.826 0.00 0.00 0.00 2.34
4078 9399 5.005094 CCAACTTATTTCCGACCTAACCAA 58.995 41.667 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.188817 GGTACCTCTGAACCTGGTGAT 58.811 52.381 4.06 0.00 35.48 3.06
101 102 4.497291 AGGGGCGTTTTATTGTCAGATA 57.503 40.909 0.00 0.00 0.00 1.98
104 105 3.869065 TCTAGGGGCGTTTTATTGTCAG 58.131 45.455 0.00 0.00 0.00 3.51
115 116 5.129815 TCATTACACTTAAATCTAGGGGCGT 59.870 40.000 0.00 0.00 0.00 5.68
176 177 7.681939 TTAGTGGGTCAATTTCTACATTCAC 57.318 36.000 0.00 0.00 0.00 3.18
241 848 6.430925 TCAATGATGACCACTAAAAACTGAGG 59.569 38.462 0.00 0.00 0.00 3.86
285 893 6.610075 ATCAAACATTTCATGGTTTAGCCT 57.390 33.333 0.00 0.00 38.32 4.58
321 929 5.448438 TGTTGATTAACGTCAAGATTGTGC 58.552 37.500 0.00 0.00 38.68 4.57
324 932 8.265998 GGTTTTTGTTGATTAACGTCAAGATTG 58.734 33.333 0.00 0.00 38.68 2.67
400 1033 4.119136 CGGCACACATCAATCATGTAGTA 58.881 43.478 0.00 0.00 44.60 1.82
401 1034 2.938451 CGGCACACATCAATCATGTAGT 59.062 45.455 0.00 0.00 44.60 2.73
402 1035 2.286595 GCGGCACACATCAATCATGTAG 60.287 50.000 0.00 0.00 44.60 2.74
403 1036 1.670295 GCGGCACACATCAATCATGTA 59.330 47.619 0.00 0.00 44.60 2.29
405 1038 0.452585 TGCGGCACACATCAATCATG 59.547 50.000 0.00 0.00 38.64 3.07
409 1042 2.737783 CAAAAATGCGGCACACATCAAT 59.262 40.909 4.03 0.00 27.33 2.57
422 1055 1.377505 CGTACAACGACGCAAAAATGC 59.622 47.619 0.00 0.00 46.05 3.56
437 1070 0.304098 CGGTTGGCGTTTTTCGTACA 59.696 50.000 0.00 0.00 42.13 2.90
441 1074 1.270068 AAAACGGTTGGCGTTTTTCG 58.730 45.000 1.21 0.00 44.01 3.46
477 1112 8.761575 AGTGCTCCAACAATTAACAATATTTG 57.238 30.769 0.00 0.00 0.00 2.32
484 1119 7.367285 GTTGATTAGTGCTCCAACAATTAACA 58.633 34.615 0.00 0.00 38.84 2.41
488 1123 4.832266 TGGTTGATTAGTGCTCCAACAATT 59.168 37.500 0.00 0.00 40.26 2.32
566 1201 3.786553 TCTGTATACCGGCCCAGAATAT 58.213 45.455 0.00 0.00 31.36 1.28
574 1209 2.798847 GACGATTTTCTGTATACCGGCC 59.201 50.000 0.00 0.00 0.00 6.13
616 1251 8.082852 CCGTATGGTAGAGCAATATGTATATCC 58.917 40.741 0.00 0.00 0.00 2.59
687 1322 9.461312 TGCATTCATACAAACTTTTAGGAGTAT 57.539 29.630 0.00 0.00 0.00 2.12
688 1323 8.856153 TGCATTCATACAAACTTTTAGGAGTA 57.144 30.769 0.00 0.00 0.00 2.59
689 1324 7.575720 GCTGCATTCATACAAACTTTTAGGAGT 60.576 37.037 0.00 0.00 0.00 3.85
690 1325 6.749118 GCTGCATTCATACAAACTTTTAGGAG 59.251 38.462 0.00 0.00 0.00 3.69
691 1326 6.208402 TGCTGCATTCATACAAACTTTTAGGA 59.792 34.615 0.00 0.00 0.00 2.94
693 1328 9.740239 ATATGCTGCATTCATACAAACTTTTAG 57.260 29.630 21.56 0.00 30.16 1.85
695 1330 9.439500 AAATATGCTGCATTCATACAAACTTTT 57.561 25.926 21.56 0.00 30.16 2.27
697 1332 9.520204 GTAAATATGCTGCATTCATACAAACTT 57.480 29.630 21.56 0.00 30.16 2.66
698 1333 8.685427 TGTAAATATGCTGCATTCATACAAACT 58.315 29.630 21.56 0.00 30.16 2.66
699 1334 8.854979 TGTAAATATGCTGCATTCATACAAAC 57.145 30.769 21.56 9.03 30.16 2.93
840 1544 1.201414 GTTCGAATTGGATTTGGGCGT 59.799 47.619 0.00 0.00 0.00 5.68
844 1549 4.494484 GGAAAGGTTCGAATTGGATTTGG 58.506 43.478 0.00 0.00 0.00 3.28
958 1664 2.674796 AAGTGGGTGAGCGATTAGTC 57.325 50.000 0.00 0.00 0.00 2.59
991 1701 0.247736 CTTCTCTTCGGGGTCAGTGG 59.752 60.000 0.00 0.00 0.00 4.00
992 1702 1.257743 TCTTCTCTTCGGGGTCAGTG 58.742 55.000 0.00 0.00 0.00 3.66
993 1703 1.619332 GTTCTTCTCTTCGGGGTCAGT 59.381 52.381 0.00 0.00 0.00 3.41
994 1704 1.066787 GGTTCTTCTCTTCGGGGTCAG 60.067 57.143 0.00 0.00 0.00 3.51
1107 1822 2.549349 GGAAAAGAAGGGTGACGCTACA 60.549 50.000 1.54 0.00 0.00 2.74
1155 1870 8.833231 TCGAACTCATCTTCTTTTCTTTATGT 57.167 30.769 0.00 0.00 0.00 2.29
1156 1871 9.752274 CTTCGAACTCATCTTCTTTTCTTTATG 57.248 33.333 0.00 0.00 0.00 1.90
1158 1873 7.095187 GCCTTCGAACTCATCTTCTTTTCTTTA 60.095 37.037 0.00 0.00 0.00 1.85
1162 1877 4.142795 GGCCTTCGAACTCATCTTCTTTTC 60.143 45.833 0.00 0.00 0.00 2.29
1208 1981 5.941058 TCTTTATTTTTATGTCGCCACCTCA 59.059 36.000 0.00 0.00 0.00 3.86
1266 2526 1.069255 GTCTCGTCCGCTCTTTTTCC 58.931 55.000 0.00 0.00 0.00 3.13
1321 2581 4.767255 CACTCCACCTCCTGCGCC 62.767 72.222 4.18 0.00 0.00 6.53
1322 2582 2.731691 TTTCACTCCACCTCCTGCGC 62.732 60.000 0.00 0.00 0.00 6.09
1323 2583 0.036010 ATTTCACTCCACCTCCTGCG 60.036 55.000 0.00 0.00 0.00 5.18
1324 2584 1.457346 CATTTCACTCCACCTCCTGC 58.543 55.000 0.00 0.00 0.00 4.85
1325 2585 1.457346 GCATTTCACTCCACCTCCTG 58.543 55.000 0.00 0.00 0.00 3.86
1326 2586 0.036010 CGCATTTCACTCCACCTCCT 60.036 55.000 0.00 0.00 0.00 3.69
1327 2587 0.036388 TCGCATTTCACTCCACCTCC 60.036 55.000 0.00 0.00 0.00 4.30
1455 2726 4.840005 GAAGGGGAAGCGGAGGCG 62.840 72.222 0.00 0.00 46.35 5.52
1456 2727 4.491409 GGAAGGGGAAGCGGAGGC 62.491 72.222 0.00 0.00 40.37 4.70
1457 2728 3.798511 GGGAAGGGGAAGCGGAGG 61.799 72.222 0.00 0.00 0.00 4.30
1468 2739 2.764547 GAGAGGGTCGGGGGAAGG 60.765 72.222 0.00 0.00 0.00 3.46
1671 2959 2.913617 TCCTTTTCTTCCTTCCTCTCCC 59.086 50.000 0.00 0.00 0.00 4.30
1690 2978 3.677596 CAGAGAAAGAGAAAGAACGCTCC 59.322 47.826 0.00 0.00 0.00 4.70
1712 3000 3.066760 CAGGAACCAAGAACCACAACTTC 59.933 47.826 0.00 0.00 0.00 3.01
1715 3003 1.681264 CCAGGAACCAAGAACCACAAC 59.319 52.381 0.00 0.00 0.00 3.32
1757 3045 0.321564 AGGCGCACACATACACACAT 60.322 50.000 10.83 0.00 0.00 3.21
1777 3065 0.822121 GTCCTTCACGGCCCAAAAGT 60.822 55.000 0.00 0.00 0.00 2.66
1830 3118 3.519930 GTCGGGCGTCTCCTCCTC 61.520 72.222 0.00 0.00 34.39 3.71
1934 3228 2.912542 TCCCTATCCGGCTCGCAG 60.913 66.667 0.00 0.00 0.00 5.18
1987 3281 4.318121 CGTTCAACTTCTCTTCTTTCACGG 60.318 45.833 0.00 0.00 0.00 4.94
1994 3288 2.288273 CCCGTCGTTCAACTTCTCTTCT 60.288 50.000 0.00 0.00 0.00 2.85
1997 3291 0.319641 GCCCGTCGTTCAACTTCTCT 60.320 55.000 0.00 0.00 0.00 3.10
2025 3319 1.022982 AGCTCATACGACACGACGGA 61.023 55.000 0.00 0.00 37.61 4.69
2063 3357 1.741770 GTCAACAATCTCCGGCGCT 60.742 57.895 7.64 0.00 0.00 5.92
3398 4743 1.963515 CCAAAGGGAAGGTTGGTTCTG 59.036 52.381 0.00 0.00 39.61 3.02
3416 4761 0.187361 CTTTTCCTTCACCCCACCCA 59.813 55.000 0.00 0.00 0.00 4.51
3417 4762 0.481128 TCTTTTCCTTCACCCCACCC 59.519 55.000 0.00 0.00 0.00 4.61
3418 4763 1.547901 CCTCTTTTCCTTCACCCCACC 60.548 57.143 0.00 0.00 0.00 4.61
3419 4764 1.547901 CCCTCTTTTCCTTCACCCCAC 60.548 57.143 0.00 0.00 0.00 4.61
3439 4784 2.659279 CGTTGCTCTCTTCTCGTTTCTC 59.341 50.000 0.00 0.00 0.00 2.87
3443 4788 0.032130 TGCGTTGCTCTCTTCTCGTT 59.968 50.000 0.00 0.00 0.00 3.85
3495 4840 2.365293 CACCATGTGATGTATCCGAGGA 59.635 50.000 0.00 0.00 35.23 3.71
3499 4844 3.270027 ACAACACCATGTGATGTATCCG 58.730 45.455 8.16 0.00 45.18 4.18
3573 4943 0.950116 GCTTGCAGCATCCATCTACC 59.050 55.000 0.00 0.00 41.89 3.18
3602 4972 2.127609 GCACGAAACAGACAGCGC 60.128 61.111 0.00 0.00 0.00 5.92
3619 4989 1.280133 TCCACTCCATTCCTGCTCTTG 59.720 52.381 0.00 0.00 0.00 3.02
3636 5006 3.053991 TGAACAAGAACTTCCCAACTCCA 60.054 43.478 0.00 0.00 0.00 3.86
3637 5007 3.551846 TGAACAAGAACTTCCCAACTCC 58.448 45.455 0.00 0.00 0.00 3.85
3640 5010 3.888930 TCCATGAACAAGAACTTCCCAAC 59.111 43.478 0.00 0.00 0.00 3.77
3641 5011 4.177537 TCCATGAACAAGAACTTCCCAA 57.822 40.909 0.00 0.00 0.00 4.12
3642 5012 3.874383 TCCATGAACAAGAACTTCCCA 57.126 42.857 0.00 0.00 0.00 4.37
3643 5013 3.445096 CCATCCATGAACAAGAACTTCCC 59.555 47.826 0.00 0.00 0.00 3.97
3644 5014 3.119352 GCCATCCATGAACAAGAACTTCC 60.119 47.826 0.00 0.00 0.00 3.46
3697 5069 1.524621 GAGCCACACCGCTGCATAT 60.525 57.895 0.00 0.00 39.87 1.78
3698 5070 2.125147 GAGCCACACCGCTGCATA 60.125 61.111 0.00 0.00 39.87 3.14
3714 5086 2.882927 ACGACTACACACTGCAAAGA 57.117 45.000 0.00 0.00 0.00 2.52
3718 5090 4.087510 GTGTATACGACTACACACTGCA 57.912 45.455 19.96 0.00 46.94 4.41
3737 5109 0.464036 TTATGGCTCAGGCGTAGGTG 59.536 55.000 0.00 0.00 39.81 4.00
3738 5110 0.464452 GTTATGGCTCAGGCGTAGGT 59.536 55.000 0.00 0.00 39.81 3.08
3744 5116 2.436417 TCAAACAGTTATGGCTCAGGC 58.564 47.619 0.00 0.00 37.82 4.85
3811 9117 4.473477 AGCCGATATAATAACTGAGCCC 57.527 45.455 0.00 0.00 0.00 5.19
3841 9147 3.190744 TGTAGGAGTACAAGAACAGAGCG 59.809 47.826 0.00 0.00 36.15 5.03
3910 9222 2.159043 TGAATCACGAGGGAGAAGCATC 60.159 50.000 0.00 0.00 0.00 3.91
4075 9396 1.743394 GATTACGGCCTCTGGTTTTGG 59.257 52.381 0.00 0.00 0.00 3.28
4078 9399 0.611714 ACGATTACGGCCTCTGGTTT 59.388 50.000 0.00 0.00 44.46 3.27


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

AutoCloner maintained by Alex Coulton.