Multiple sequence alignment - TraesCS5D01G129200

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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 TraesCS5D01G129200 chr5D 100.000 4075 0 0 1 4075 202849025 202853099 0.000000e+00 7526.0
1 TraesCS5D01G129200 chr5D 96.056 710 18 2 3352 4060 203065363 203066063 0.000000e+00 1147.0
2 TraesCS5D01G129200 chr5B 91.459 3407 186 45 3 3340 208729591 208726221 0.000000e+00 4582.0
3 TraesCS5D01G129200 chr5A 97.290 1513 29 4 1830 3340 219643865 219645367 0.000000e+00 2556.0
4 TraesCS5D01G129200 chr5A 88.557 1774 129 26 3 1727 219642111 219643859 0.000000e+00 2084.0
5 TraesCS5D01G129200 chr5A 88.696 230 21 5 98 323 219641954 219642182 4.010000e-70 276.0
6 TraesCS5D01G129200 chr4A 94.274 716 31 2 3352 4066 39552202 39552908 0.000000e+00 1086.0
7 TraesCS5D01G129200 chr4A 83.178 1183 165 30 1912 3080 501133451 501132289 0.000000e+00 1051.0
8 TraesCS5D01G129200 chr4B 83.418 1182 168 24 1912 3080 124927623 124926457 0.000000e+00 1072.0
9 TraesCS5D01G129200 chr4D 83.192 1178 171 25 1912 3079 88153264 88152104 0.000000e+00 1053.0
10 TraesCS5D01G129200 chr4D 87.798 713 64 10 3352 4062 45994174 45993483 0.000000e+00 813.0
11 TraesCS5D01G129200 chr4D 90.278 216 17 1 3707 3918 35588203 35588418 3.100000e-71 279.0
12 TraesCS5D01G129200 chr2B 86.053 717 63 12 3352 4062 506481865 506481180 0.000000e+00 736.0
13 TraesCS5D01G129200 chr2B 83.698 411 57 7 3654 4062 583342816 583343218 2.970000e-101 379.0
14 TraesCS5D01G129200 chr2A 89.873 158 10 5 104 259 640228344 640228497 8.930000e-47 198.0
15 TraesCS5D01G129200 chr7B 83.696 92 9 5 3352 3440 34617942 34618030 9.390000e-12 82.4


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 TraesCS5D01G129200 chr5D 202849025 202853099 4074 False 7526.000000 7526 100.000000 1 4075 1 chr5D.!!$F1 4074
1 TraesCS5D01G129200 chr5D 203065363 203066063 700 False 1147.000000 1147 96.056000 3352 4060 1 chr5D.!!$F2 708
2 TraesCS5D01G129200 chr5B 208726221 208729591 3370 True 4582.000000 4582 91.459000 3 3340 1 chr5B.!!$R1 3337
3 TraesCS5D01G129200 chr5A 219641954 219645367 3413 False 1638.666667 2556 91.514333 3 3340 3 chr5A.!!$F1 3337
4 TraesCS5D01G129200 chr4A 39552202 39552908 706 False 1086.000000 1086 94.274000 3352 4066 1 chr4A.!!$F1 714
5 TraesCS5D01G129200 chr4A 501132289 501133451 1162 True 1051.000000 1051 83.178000 1912 3080 1 chr4A.!!$R1 1168
6 TraesCS5D01G129200 chr4B 124926457 124927623 1166 True 1072.000000 1072 83.418000 1912 3080 1 chr4B.!!$R1 1168
7 TraesCS5D01G129200 chr4D 88152104 88153264 1160 True 1053.000000 1053 83.192000 1912 3079 1 chr4D.!!$R2 1167
8 TraesCS5D01G129200 chr4D 45993483 45994174 691 True 813.000000 813 87.798000 3352 4062 1 chr4D.!!$R1 710
9 TraesCS5D01G129200 chr2B 506481180 506481865 685 True 736.000000 736 86.053000 3352 4062 1 chr2B.!!$R1 710

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
866 1101 0.038159 CGCGGAGGTCATATTCTCCC 60.038 60.0 0.00 4.22 44.99 4.30 F
2005 2249 0.548926 TGGCCTATGTGAAGACCCCA 60.549 55.0 3.32 0.00 0.00 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2194 2438 2.504175 AGTATGGGCAATAACACGGACT 59.496 45.455 0.00 0.00 0.00 3.85 R
3343 3594 0.179073 CCACGACTAATCCTGCCAGG 60.179 60.000 3.69 3.69 36.46 4.45 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
55 212 8.744568 TTTTGGGAAGCTTTTTATGATTGTTT 57.255 26.923 0.00 0.00 0.00 2.83
63 220 5.729424 GCTTTTTATGATTGTTTTGATGCGC 59.271 36.000 0.00 0.00 0.00 6.09
73 230 1.069924 TTTGATGCGCGCGGAAAATG 61.070 50.000 31.36 0.00 0.00 2.32
74 231 3.314765 GATGCGCGCGGAAAATGC 61.315 61.111 31.36 11.64 0.00 3.56
81 238 4.096558 GCGGAAAATGCGTGCGGA 62.097 61.111 0.00 0.00 32.35 5.54
82 239 2.558821 CGGAAAATGCGTGCGGAA 59.441 55.556 0.00 0.00 0.00 4.30
83 240 1.081774 CGGAAAATGCGTGCGGAAA 60.082 52.632 0.00 0.00 0.00 3.13
84 241 0.661780 CGGAAAATGCGTGCGGAAAA 60.662 50.000 0.00 0.00 0.00 2.29
85 242 1.708822 GGAAAATGCGTGCGGAAAAT 58.291 45.000 0.00 0.00 0.00 1.82
122 279 7.496920 TCAAAGCAACTATTCTATGGATCACAG 59.503 37.037 0.00 0.00 0.00 3.66
184 342 3.118298 AGAAAAACAAGCCCATGCAAACT 60.118 39.130 0.00 0.00 41.13 2.66
217 375 4.251268 ACAACTCCTATTTGTCGCCTTAC 58.749 43.478 0.00 0.00 31.30 2.34
233 391 3.111098 CCTTACACGTCGGTTATAGTGC 58.889 50.000 0.00 0.00 38.08 4.40
303 462 6.678568 TTTTGGGGAAGCTTTTCATGATTA 57.321 33.333 0.00 0.00 0.00 1.75
316 475 5.678132 TTCATGATTATTCTGATGCGTGG 57.322 39.130 0.00 0.00 0.00 4.94
318 477 3.836365 TGATTATTCTGATGCGTGGGA 57.164 42.857 0.00 0.00 0.00 4.37
327 506 0.798009 GATGCGTGGGAAAATGCACG 60.798 55.000 0.00 0.00 44.49 5.34
338 517 2.561478 AAATGCACGGTACAACTCCT 57.439 45.000 0.00 0.00 0.00 3.69
459 639 4.388499 ACGTGGTGGCGGCTAAGG 62.388 66.667 11.43 3.98 35.98 2.69
472 652 1.312371 GCTAAGGGCGTGCCAAATGA 61.312 55.000 13.76 0.00 37.98 2.57
474 654 0.326595 TAAGGGCGTGCCAAATGAGA 59.673 50.000 13.76 0.00 37.98 3.27
475 655 0.539438 AAGGGCGTGCCAAATGAGAA 60.539 50.000 13.76 0.00 37.98 2.87
477 657 0.960364 GGGCGTGCCAAATGAGAAGA 60.960 55.000 13.76 0.00 37.98 2.87
490 670 2.588027 GAGAAGATCTCAACCGACCC 57.412 55.000 0.00 0.00 42.90 4.46
491 671 1.825474 GAGAAGATCTCAACCGACCCA 59.175 52.381 0.00 0.00 42.90 4.51
500 680 1.972075 TCAACCGACCCACAAGTGATA 59.028 47.619 0.94 0.00 0.00 2.15
506 686 2.778299 GACCCACAAGTGATAGTTGCA 58.222 47.619 0.94 0.00 31.85 4.08
515 695 0.107703 TGATAGTTGCAAGGCTCCCG 60.108 55.000 0.00 0.00 0.00 5.14
553 734 0.618968 AGTTGCCCCAACAAACCCAA 60.619 50.000 10.34 0.00 45.66 4.12
569 766 0.937304 CCAAATCGATACGTGCTGGG 59.063 55.000 0.00 0.00 0.00 4.45
575 772 1.274167 TCGATACGTGCTGGGAAAAGT 59.726 47.619 0.00 0.00 0.00 2.66
583 781 4.399934 ACGTGCTGGGAAAAGTTAAAGAAA 59.600 37.500 0.00 0.00 0.00 2.52
649 868 3.661648 ACCAAGCCCGGCATTCCT 61.662 61.111 13.15 0.00 0.00 3.36
657 886 2.511600 CGGCATTCCTGTCGGACC 60.512 66.667 5.55 0.00 46.55 4.46
658 887 2.124695 GGCATTCCTGTCGGACCC 60.125 66.667 5.55 0.00 39.60 4.46
659 888 2.668632 GCATTCCTGTCGGACCCA 59.331 61.111 5.55 0.00 39.60 4.51
660 889 1.002624 GCATTCCTGTCGGACCCAA 60.003 57.895 5.55 0.00 39.60 4.12
661 890 1.026718 GCATTCCTGTCGGACCCAAG 61.027 60.000 5.55 0.00 39.60 3.61
662 891 1.026718 CATTCCTGTCGGACCCAAGC 61.027 60.000 5.55 0.00 39.60 4.01
663 892 2.198304 ATTCCTGTCGGACCCAAGCC 62.198 60.000 5.55 0.00 39.60 4.35
664 893 3.636231 CCTGTCGGACCCAAGCCA 61.636 66.667 5.55 0.00 0.00 4.75
665 894 2.429930 CTGTCGGACCCAAGCCAA 59.570 61.111 5.55 0.00 0.00 4.52
734 963 0.882042 CTTCGCCTTCTGCACACAGT 60.882 55.000 0.00 0.00 44.77 3.55
735 964 0.463654 TTCGCCTTCTGCACACAGTT 60.464 50.000 0.00 0.00 44.77 3.16
777 1012 1.901085 CTCTACCCCAGGTGAGCAC 59.099 63.158 0.00 0.00 36.19 4.40
803 1038 0.179062 CAATCCCTCCTGCCTCTTCG 60.179 60.000 0.00 0.00 0.00 3.79
813 1048 2.279784 CCTCTTCGCCGATCTGCC 60.280 66.667 3.31 0.00 0.00 4.85
823 1058 3.267860 GATCTGCCGCTGCCGAAG 61.268 66.667 0.00 0.00 34.24 3.79
833 1068 2.559785 CTGCCGAAGCCATCACTTT 58.440 52.632 0.00 0.00 38.69 2.66
866 1101 0.038159 CGCGGAGGTCATATTCTCCC 60.038 60.000 0.00 4.22 44.99 4.30
873 1108 2.103263 AGGTCATATTCTCCCGCTGTTC 59.897 50.000 0.00 0.00 0.00 3.18
875 1110 3.321111 GGTCATATTCTCCCGCTGTTCTA 59.679 47.826 0.00 0.00 0.00 2.10
876 1111 4.551388 GTCATATTCTCCCGCTGTTCTAG 58.449 47.826 0.00 0.00 0.00 2.43
916 1151 3.919973 GACTCCGGCGCGTTTGGTA 62.920 63.158 8.43 0.00 0.00 3.25
956 1191 6.291377 TCTAATGGTTGCAGATCTAATGGTC 58.709 40.000 0.00 0.00 0.00 4.02
980 1215 2.262471 CTGTTTCTGGCATCGCAGGC 62.262 60.000 0.00 0.00 0.00 4.85
1120 1355 1.442769 ACACTTGCATTAGAGCACCG 58.557 50.000 0.00 0.00 45.61 4.94
1166 1401 5.255687 TCCATGCTGATGTTATTGAGTGTT 58.744 37.500 0.00 0.00 0.00 3.32
1232 1476 6.106673 AGGTTGTTTGATTCGGATGTACTAG 58.893 40.000 0.00 0.00 0.00 2.57
1441 1685 6.894339 ACCCTGTAACTATTTGTTTCCTTG 57.106 37.500 0.00 0.00 39.89 3.61
1557 1801 0.825010 CTTGCCACCTCACTGCCTTT 60.825 55.000 0.00 0.00 0.00 3.11
1650 1894 7.116736 ACCCTTCCATTATTCTAATCACGTTT 58.883 34.615 0.00 0.00 0.00 3.60
1731 1975 5.431765 ACATGACCTTCAAGTAGCAATAGG 58.568 41.667 0.00 0.00 0.00 2.57
1826 2070 6.478512 TTTGCCAACCAAAGTTATCTTCTT 57.521 33.333 0.00 0.00 38.46 2.52
1828 2072 6.478512 TGCCAACCAAAGTTATCTTCTTTT 57.521 33.333 0.00 0.00 33.27 2.27
1890 2134 6.402550 GCTCTTGTTGATTCTTAAGATCGCAA 60.403 38.462 5.89 8.30 0.00 4.85
2005 2249 0.548926 TGGCCTATGTGAAGACCCCA 60.549 55.000 3.32 0.00 0.00 4.96
2074 2318 5.068460 CGAAGATGTGAGGAGAAGGTTCTAT 59.932 44.000 0.00 0.00 37.73 1.98
2194 2438 7.553334 AGAAAATGAAGAAGTACGCCACTATA 58.447 34.615 0.00 0.00 36.04 1.31
2756 3002 4.024218 GTGAATCTGATTAGGTGCATGCTC 60.024 45.833 20.33 15.68 0.00 4.26
3141 3392 2.079170 TTGTGGCAGATTGTTTGGGA 57.921 45.000 0.00 0.00 0.00 4.37
3257 3508 3.666274 CATGCCTTCAAATTTGGAAGCA 58.334 40.909 22.08 22.08 40.29 3.91
3269 3520 4.405116 TTTGGAAGCAAATGTTTCAGCT 57.595 36.364 11.32 0.00 37.05 4.24
3270 3521 3.374220 TGGAAGCAAATGTTTCAGCTG 57.626 42.857 7.63 7.63 37.05 4.24
3271 3522 2.694628 TGGAAGCAAATGTTTCAGCTGT 59.305 40.909 14.67 0.00 37.05 4.40
3272 3523 3.054878 GGAAGCAAATGTTTCAGCTGTG 58.945 45.455 14.67 3.58 37.05 3.66
3273 3524 2.144482 AGCAAATGTTTCAGCTGTGC 57.856 45.000 14.67 14.07 35.72 4.57
3274 3525 1.142474 GCAAATGTTTCAGCTGTGCC 58.858 50.000 14.67 3.00 0.00 5.01
3275 3526 1.787012 CAAATGTTTCAGCTGTGCCC 58.213 50.000 14.67 1.14 0.00 5.36
3276 3527 1.068895 CAAATGTTTCAGCTGTGCCCA 59.931 47.619 14.67 7.07 0.00 5.36
3289 3540 2.203266 GCCCATGCTGTAGCCTCC 60.203 66.667 0.80 0.00 41.18 4.30
3348 3599 2.092323 GGTATCAAACCTCAACCTGGC 58.908 52.381 0.00 0.00 45.75 4.85
3349 3600 2.554344 GGTATCAAACCTCAACCTGGCA 60.554 50.000 0.00 0.00 45.75 4.92
3350 3601 1.915141 ATCAAACCTCAACCTGGCAG 58.085 50.000 7.75 7.75 0.00 4.85
3393 3644 3.534554 GGGTTTAAGTGTATACCCGTGG 58.465 50.000 0.00 0.00 40.42 4.94
3394 3645 3.534554 GGTTTAAGTGTATACCCGTGGG 58.465 50.000 2.58 2.58 42.03 4.61
3590 3842 4.454728 GGTATGTTACCCACACGTTAGA 57.545 45.455 0.00 0.00 43.18 2.10
3616 3868 5.119694 TGGCCCATTTTTAACTTCAACAAC 58.880 37.500 0.00 0.00 0.00 3.32
3695 3947 5.180117 CACTAGGCCCATAAAAGATGAATCG 59.820 44.000 0.00 0.00 0.00 3.34
4053 4311 2.738480 CAAACCCGACCCGACTGA 59.262 61.111 0.00 0.00 0.00 3.41
4062 4320 0.391597 GACCCGACTGACAGGTTGAA 59.608 55.000 7.51 0.00 32.81 2.69
4066 4324 2.549992 CCCGACTGACAGGTTGAATCAA 60.550 50.000 7.51 0.00 0.00 2.57
4067 4325 3.138304 CCGACTGACAGGTTGAATCAAA 58.862 45.455 7.51 0.00 0.00 2.69
4068 4326 3.058914 CCGACTGACAGGTTGAATCAAAC 60.059 47.826 2.18 2.18 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 212 1.513800 CATTTTCCGCGCGCATCAA 60.514 52.632 32.61 16.96 0.00 2.57
95 252 7.828717 TGTGATCCATAGAATAGTTGCTTTGAA 59.171 33.333 0.00 0.00 0.00 2.69
97 254 7.281774 ACTGTGATCCATAGAATAGTTGCTTTG 59.718 37.037 0.00 0.00 0.00 2.77
217 375 4.084223 ACAAAAAGCACTATAACCGACGTG 60.084 41.667 0.00 0.00 0.00 4.49
233 391 1.125270 GTGCGCCGGTTTACAAAAAG 58.875 50.000 4.18 0.00 0.00 2.27
279 438 4.605640 TCATGAAAAGCTTCCCCAAAAG 57.394 40.909 0.00 0.00 0.00 2.27
303 462 2.159198 GCATTTTCCCACGCATCAGAAT 60.159 45.455 0.00 0.00 0.00 2.40
316 475 2.095415 GGAGTTGTACCGTGCATTTTCC 60.095 50.000 0.00 0.00 0.00 3.13
318 477 2.858745 AGGAGTTGTACCGTGCATTTT 58.141 42.857 0.00 0.00 0.00 1.82
327 506 6.870971 TGTTTTTCACATAGGAGTTGTACC 57.129 37.500 0.00 0.00 0.00 3.34
379 559 3.247411 GCACGCACTTTTGGCTTTTTAAT 59.753 39.130 0.00 0.00 0.00 1.40
384 564 1.588667 CGCACGCACTTTTGGCTTT 60.589 52.632 0.00 0.00 0.00 3.51
390 570 3.357166 TTATTTTCCGCACGCACTTTT 57.643 38.095 0.00 0.00 0.00 2.27
419 599 4.930592 GCTCTGGGCACTCTCTTC 57.069 61.111 0.00 0.00 41.35 2.87
459 639 1.064654 GATCTTCTCATTTGGCACGCC 59.935 52.381 0.00 0.00 0.00 5.68
472 652 1.550976 GTGGGTCGGTTGAGATCTTCT 59.449 52.381 0.00 0.00 0.00 2.85
474 654 1.348064 TGTGGGTCGGTTGAGATCTT 58.652 50.000 0.00 0.00 0.00 2.40
475 655 1.276421 CTTGTGGGTCGGTTGAGATCT 59.724 52.381 0.00 0.00 0.00 2.75
477 657 1.056660 ACTTGTGGGTCGGTTGAGAT 58.943 50.000 0.00 0.00 0.00 2.75
483 663 1.640917 ACTATCACTTGTGGGTCGGT 58.359 50.000 0.64 0.00 0.00 4.69
486 666 2.778299 TGCAACTATCACTTGTGGGTC 58.222 47.619 0.64 0.00 0.00 4.46
490 670 2.816087 AGCCTTGCAACTATCACTTGTG 59.184 45.455 0.00 0.00 0.00 3.33
491 671 3.077359 GAGCCTTGCAACTATCACTTGT 58.923 45.455 0.00 0.00 0.00 3.16
500 680 0.890996 CTTTCGGGAGCCTTGCAACT 60.891 55.000 0.00 0.00 0.00 3.16
515 695 3.060602 ACTAGTTGACAAGCGCTCTTTC 58.939 45.455 12.06 8.24 0.00 2.62
553 734 2.684001 TTTCCCAGCACGTATCGATT 57.316 45.000 1.71 0.00 0.00 3.34
649 868 1.527380 GTTTGGCTTGGGTCCGACA 60.527 57.895 0.00 0.00 0.00 4.35
656 885 3.373565 GCGAGGGTTTGGCTTGGG 61.374 66.667 0.00 0.00 0.00 4.12
657 886 1.535204 AATGCGAGGGTTTGGCTTGG 61.535 55.000 0.00 0.00 0.00 3.61
658 887 0.109132 GAATGCGAGGGTTTGGCTTG 60.109 55.000 0.00 0.00 0.00 4.01
659 888 1.250840 GGAATGCGAGGGTTTGGCTT 61.251 55.000 0.00 0.00 0.00 4.35
660 889 1.678970 GGAATGCGAGGGTTTGGCT 60.679 57.895 0.00 0.00 0.00 4.75
661 890 2.885113 GGAATGCGAGGGTTTGGC 59.115 61.111 0.00 0.00 0.00 4.52
662 891 3.051392 GCGGAATGCGAGGGTTTGG 62.051 63.158 0.00 0.00 0.00 3.28
663 892 2.485122 GCGGAATGCGAGGGTTTG 59.515 61.111 0.00 0.00 0.00 2.93
777 1012 1.592669 CAGGAGGGATTGTAGCGCG 60.593 63.158 0.00 0.00 0.00 6.86
823 1058 1.060698 GAACTACGCGAAAGTGATGGC 59.939 52.381 15.93 1.07 46.66 4.40
828 1063 1.385743 CGAAGGAACTACGCGAAAGTG 59.614 52.381 15.93 0.00 44.32 3.16
916 1151 1.533625 TAGAGCCGCAAACTGCAAAT 58.466 45.000 0.00 0.00 45.36 2.32
956 1191 1.699656 CGATGCCAGAAACAGCCGAG 61.700 60.000 0.00 0.00 0.00 4.63
980 1215 2.586792 CCGCTCCTCCCTTCCTTG 59.413 66.667 0.00 0.00 0.00 3.61
1120 1355 4.875713 ACGGCCCGCCATGGAATC 62.876 66.667 18.40 0.00 42.00 2.52
1133 1368 0.881118 TCAGCATGGAAAGAAACGGC 59.119 50.000 0.00 0.00 36.16 5.68
1166 1401 7.182817 AGACTATAGGCTATGTGTGAAAACA 57.817 36.000 17.24 0.00 0.00 2.83
1258 1502 8.225603 CACCATTTGCTACTATTTACAGGATT 57.774 34.615 0.00 0.00 0.00 3.01
1557 1801 0.840288 TTCCAGCCTTGTAGCCCAGA 60.840 55.000 0.00 0.00 0.00 3.86
1826 2070 3.396685 AACATGCAGGGCCCTATTAAA 57.603 42.857 28.13 8.88 0.00 1.52
1828 2072 6.401537 AATATAACATGCAGGGCCCTATTA 57.598 37.500 28.13 17.66 0.00 0.98
1890 2134 5.301551 TCTGCAAGATGTAACAACAACCATT 59.698 36.000 0.00 0.00 38.67 3.16
2005 2249 3.575351 GAGAGTGCGAAGGCCACGT 62.575 63.158 20.09 4.36 38.85 4.49
2074 2318 2.928801 TGCTCTTGCACCAGTTCTTA 57.071 45.000 0.00 0.00 45.31 2.10
2194 2438 2.504175 AGTATGGGCAATAACACGGACT 59.496 45.455 0.00 0.00 0.00 3.85
2756 3002 3.811497 TGTTCAAGAGCACAACAGATGAG 59.189 43.478 0.00 0.00 0.00 2.90
3141 3392 3.608316 ATTGCAATGCATAAACCGGTT 57.392 38.095 15.86 15.86 38.76 4.44
3257 3508 1.412079 TGGGCACAGCTGAAACATTT 58.588 45.000 23.35 0.00 0.00 2.32
3269 3520 2.045045 GGCTACAGCATGGGCACA 60.045 61.111 0.00 0.00 43.62 4.57
3270 3521 1.821332 GAGGCTACAGCATGGGCAC 60.821 63.158 3.24 0.00 43.62 5.01
3271 3522 2.591753 GAGGCTACAGCATGGGCA 59.408 61.111 3.24 0.00 43.62 5.36
3272 3523 2.203266 GGAGGCTACAGCATGGGC 60.203 66.667 3.24 0.00 43.62 5.36
3273 3524 1.153086 GTGGAGGCTACAGCATGGG 60.153 63.158 0.00 0.00 43.62 4.00
3274 3525 1.522355 CGTGGAGGCTACAGCATGG 60.522 63.158 0.00 0.00 43.62 3.66
3275 3526 1.086067 CACGTGGAGGCTACAGCATG 61.086 60.000 7.95 0.00 44.36 4.06
3276 3527 1.219124 CACGTGGAGGCTACAGCAT 59.781 57.895 7.95 0.00 44.36 3.79
3340 3591 1.066143 ACGACTAATCCTGCCAGGTTG 60.066 52.381 11.27 0.00 36.53 3.77
3341 3592 1.066143 CACGACTAATCCTGCCAGGTT 60.066 52.381 11.27 7.18 36.53 3.50
3342 3593 0.537188 CACGACTAATCCTGCCAGGT 59.463 55.000 11.27 0.00 36.53 4.00
3343 3594 0.179073 CCACGACTAATCCTGCCAGG 60.179 60.000 3.69 3.69 36.46 4.45
3344 3595 0.179073 CCCACGACTAATCCTGCCAG 60.179 60.000 0.00 0.00 0.00 4.85
3345 3596 0.907704 ACCCACGACTAATCCTGCCA 60.908 55.000 0.00 0.00 0.00 4.92
3346 3597 1.068741 CTACCCACGACTAATCCTGCC 59.931 57.143 0.00 0.00 0.00 4.85
3347 3598 1.068741 CCTACCCACGACTAATCCTGC 59.931 57.143 0.00 0.00 0.00 4.85
3348 3599 1.687123 CCCTACCCACGACTAATCCTG 59.313 57.143 0.00 0.00 0.00 3.86
3349 3600 1.290130 ACCCTACCCACGACTAATCCT 59.710 52.381 0.00 0.00 0.00 3.24
3350 3601 1.785647 ACCCTACCCACGACTAATCC 58.214 55.000 0.00 0.00 0.00 3.01
3390 3641 3.963733 GGTAACCCACCTTACCCAC 57.036 57.895 0.00 0.00 44.79 4.61
3483 3735 9.357652 TGACGTGATATGTCATATATCAATGTG 57.642 33.333 12.54 4.80 39.05 3.21
3590 3842 7.251321 TGTTGAAGTTAAAAATGGGCCATAT 57.749 32.000 21.54 9.34 0.00 1.78
3616 3868 1.117150 AGCTATTTTGCATGGGCCAG 58.883 50.000 13.78 5.44 40.13 4.85


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

AutoCloner maintained by Alex Coulton.