Multiple sequence alignment - TraesCS6A01G394100

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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 TraesCS6A01G394100 chr6A 100.000 4622 0 0 1 4622 607932048 607927427 0.000000e+00 8536
1 TraesCS6A01G394100 chr6B 93.231 4668 205 44 1 4622 702816065 702811463 0.000000e+00 6767
2 TraesCS6A01G394100 chr6D 95.486 4231 158 12 1 4228 461333924 461329724 0.000000e+00 6724
3 TraesCS6A01G394100 chr6D 92.786 402 15 9 4226 4615 461329683 461329284 1.870000e-158 569


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 TraesCS6A01G394100 chr6A 607927427 607932048 4621 True 8536.0 8536 100.000 1 4622 1 chr6A.!!$R1 4621
1 TraesCS6A01G394100 chr6B 702811463 702816065 4602 True 6767.0 6767 93.231 1 4622 1 chr6B.!!$R1 4621
2 TraesCS6A01G394100 chr6D 461329284 461333924 4640 True 3646.5 6724 94.136 1 4615 2 chr6D.!!$R1 4614

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
462 480 0.255890 GAGCAAACCATAGGGAGGCA 59.744 55.000 0.00 0.0 38.05 4.75 F
463 481 0.257039 AGCAAACCATAGGGAGGCAG 59.743 55.000 0.00 0.0 38.05 4.85 F
465 483 0.625849 CAAACCATAGGGAGGCAGGT 59.374 55.000 0.00 0.0 38.05 4.00 F
1518 1538 0.667487 CATGGACGTCGTTGCTCACT 60.667 55.000 9.92 0.0 0.00 3.41 F
1524 1544 1.000506 ACGTCGTTGCTCACTGGTTAT 59.999 47.619 0.00 0.0 0.00 1.89 F
2817 2837 0.107703 TGGATGGCGTCACATTCCTC 60.108 55.000 9.41 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1482 1502 0.034896 ATGTGCCGACGTTCCTCTTT 59.965 50.000 0.00 0.0 0.00 2.52 R
1779 1799 0.182061 CCATGTCCCTGGTCTCCATG 59.818 60.000 0.00 0.0 30.82 3.66 R
2301 2321 1.202698 AGAAGTGCAGTCCCAACAGAC 60.203 52.381 0.00 0.0 37.01 3.51 R
2770 2790 0.035725 CCTGCAGCTTCCATCTGACA 60.036 55.000 8.66 0.0 33.54 3.58 R
3301 3321 0.179179 GTCATCGCCTTCAGCTTTGC 60.179 55.000 0.00 0.0 40.39 3.68 R
4441 4515 0.524862 GCTGTGGAAACATGGCTCAG 59.475 55.000 0.00 0.0 46.14 3.35 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
29 30 6.518200 GCCTAAGATATGAACCAGGAGAAGAG 60.518 46.154 0.00 0.00 0.00 2.85
99 100 1.541147 GGTGAGCTGCTTATTGTTGCA 59.459 47.619 2.53 0.00 37.63 4.08
106 107 3.673052 GCTGCTTATTGTTGCATTTCGGA 60.673 43.478 0.00 0.00 38.59 4.55
112 113 6.292596 GCTTATTGTTGCATTTCGGAAAAACA 60.293 34.615 12.71 12.71 0.00 2.83
126 127 6.731164 TCGGAAAAACAAGTCTTCCAAATAC 58.269 36.000 12.05 0.00 38.88 1.89
181 198 1.665599 CGCCGGTACCGAAACAAGT 60.666 57.895 35.41 0.00 42.83 3.16
192 209 1.993370 CGAAACAAGTCGCTAGAAGGG 59.007 52.381 0.00 0.00 33.66 3.95
214 231 1.560770 CACACGACAACGCGCTTTA 59.439 52.632 5.73 0.00 43.96 1.85
279 297 0.615331 CCAAGAGCTACCAAGAGCCA 59.385 55.000 0.00 0.00 43.97 4.75
282 300 3.462021 CAAGAGCTACCAAGAGCCATAC 58.538 50.000 0.00 0.00 43.97 2.39
323 341 2.954318 CCCTTTTCATCCAAGATGCGAT 59.046 45.455 0.00 0.00 0.00 4.58
384 402 4.225042 TGAAGCCTAATCCAAGTTAGCTGA 59.775 41.667 0.00 0.00 31.72 4.26
446 464 4.571176 CGGGACCTAGTTAAAATTCAGAGC 59.429 45.833 0.00 0.00 0.00 4.09
452 470 6.775629 ACCTAGTTAAAATTCAGAGCAAACCA 59.224 34.615 0.00 0.00 0.00 3.67
453 471 7.451566 ACCTAGTTAAAATTCAGAGCAAACCAT 59.548 33.333 0.00 0.00 0.00 3.55
454 472 8.956426 CCTAGTTAAAATTCAGAGCAAACCATA 58.044 33.333 0.00 0.00 0.00 2.74
455 473 9.994432 CTAGTTAAAATTCAGAGCAAACCATAG 57.006 33.333 0.00 0.00 0.00 2.23
456 474 7.830739 AGTTAAAATTCAGAGCAAACCATAGG 58.169 34.615 0.00 0.00 0.00 2.57
457 475 5.665916 AAAATTCAGAGCAAACCATAGGG 57.334 39.130 0.00 0.00 41.29 3.53
458 476 4.591321 AATTCAGAGCAAACCATAGGGA 57.409 40.909 0.00 0.00 38.05 4.20
459 477 3.634397 TTCAGAGCAAACCATAGGGAG 57.366 47.619 0.00 0.00 38.05 4.30
460 478 1.839994 TCAGAGCAAACCATAGGGAGG 59.160 52.381 0.00 0.00 38.05 4.30
461 479 0.548510 AGAGCAAACCATAGGGAGGC 59.451 55.000 0.00 0.02 38.05 4.70
462 480 0.255890 GAGCAAACCATAGGGAGGCA 59.744 55.000 0.00 0.00 38.05 4.75
463 481 0.257039 AGCAAACCATAGGGAGGCAG 59.743 55.000 0.00 0.00 38.05 4.85
464 482 0.753111 GCAAACCATAGGGAGGCAGG 60.753 60.000 0.00 0.00 38.05 4.85
465 483 0.625849 CAAACCATAGGGAGGCAGGT 59.374 55.000 0.00 0.00 38.05 4.00
466 484 1.843851 CAAACCATAGGGAGGCAGGTA 59.156 52.381 0.00 0.00 38.05 3.08
467 485 1.807814 AACCATAGGGAGGCAGGTAG 58.192 55.000 0.00 0.00 38.05 3.18
706 724 3.141488 GAGAGGAAGGCGAGGCGA 61.141 66.667 0.00 0.00 0.00 5.54
825 843 3.047877 GTTTGGGCTCGTCCGGTG 61.048 66.667 0.00 0.00 34.94 4.94
864 883 2.658593 CGCGCCAACTCCTATCGG 60.659 66.667 0.00 0.00 0.00 4.18
1101 1121 3.473647 CTGGAGGAGGATGGCGCA 61.474 66.667 10.83 0.00 0.00 6.09
1368 1388 2.772691 GGAGCAGCTGCATTGCCTC 61.773 63.158 38.24 25.27 45.16 4.70
1482 1502 2.668632 GTGTTCGAGGGGATGCCA 59.331 61.111 5.30 0.00 0.00 4.92
1483 1503 1.002624 GTGTTCGAGGGGATGCCAA 60.003 57.895 5.30 0.00 0.00 4.52
1500 1520 0.878523 CAAAGAGGAACGTCGGCACA 60.879 55.000 0.00 0.00 0.00 4.57
1518 1538 0.667487 CATGGACGTCGTTGCTCACT 60.667 55.000 9.92 0.00 0.00 3.41
1524 1544 1.000506 ACGTCGTTGCTCACTGGTTAT 59.999 47.619 0.00 0.00 0.00 1.89
1680 1700 2.447887 CGTGCATGCTCAGTCGGTC 61.448 63.158 20.33 0.00 0.00 4.79
1710 1730 2.728383 CGCTCGACCGTGTTCGTT 60.728 61.111 0.00 0.00 40.07 3.85
1737 1757 1.552792 TCCCTGATGAACATGTACGCA 59.447 47.619 0.00 0.00 0.00 5.24
1779 1799 1.656441 CAAGGCTGTGTTCTGTGGC 59.344 57.895 0.00 0.00 0.00 5.01
2073 2093 5.244402 TGAACTGGATGATGCTTTCAACATT 59.756 36.000 0.51 0.00 36.09 2.71
2094 2114 1.210538 TCTTGCTGATGCCAGGATCT 58.789 50.000 0.00 0.00 40.50 2.75
2208 2228 5.302568 AGAAGACAATGTCAAGCCAAATGAA 59.697 36.000 16.38 0.00 34.60 2.57
2268 2288 1.530183 GCCTCCCCAGATTCATGCC 60.530 63.158 0.00 0.00 0.00 4.40
2301 2321 1.647545 CCAACTACCAGCATGCACCG 61.648 60.000 21.98 8.82 31.97 4.94
2310 2330 2.981560 GCATGCACCGTCTGTTGGG 61.982 63.158 14.21 0.00 0.00 4.12
2605 2625 3.735237 AATACAGATACCAGGACGCTG 57.265 47.619 0.00 0.00 0.00 5.18
2770 2790 2.781667 AGGAGGCCCTTGATACATTCT 58.218 47.619 0.00 0.00 40.78 2.40
2817 2837 0.107703 TGGATGGCGTCACATTCCTC 60.108 55.000 9.41 0.00 0.00 3.71
2987 3007 5.800296 TGAAACAATGAACCTTATCGGAGA 58.200 37.500 0.00 0.00 45.75 3.71
2994 3014 1.794714 ACCTTATCGGAGACATGCCT 58.205 50.000 0.00 0.00 42.51 4.75
3099 3119 2.167281 AGAGAAGCTGCTATCGCTTGAA 59.833 45.455 0.90 0.00 46.85 2.69
3301 3321 2.484651 CCTCTGTCCGACCAGATATACG 59.515 54.545 4.74 0.00 40.53 3.06
3535 3555 0.179111 GATGAAGATGGTGTCGGCGA 60.179 55.000 4.99 4.99 0.00 5.54
3651 3671 4.083802 GCAGAACAAACTGACAGTGGATAC 60.084 45.833 9.33 1.87 39.94 2.24
3696 3716 3.769739 ACAATGTGACCTGCAAGTAGA 57.230 42.857 0.00 0.00 0.00 2.59
3698 3718 2.744202 CAATGTGACCTGCAAGTAGACC 59.256 50.000 0.00 0.00 0.00 3.85
3702 3722 1.267121 GACCTGCAAGTAGACCCTGA 58.733 55.000 0.00 0.00 0.00 3.86
3703 3723 1.623811 GACCTGCAAGTAGACCCTGAA 59.376 52.381 0.00 0.00 0.00 3.02
3704 3724 1.625818 ACCTGCAAGTAGACCCTGAAG 59.374 52.381 0.00 0.00 0.00 3.02
3705 3725 1.625818 CCTGCAAGTAGACCCTGAAGT 59.374 52.381 0.00 0.00 0.00 3.01
3828 3848 2.166664 GAGCCGTCATACAGTTTCCTCT 59.833 50.000 0.00 0.00 0.00 3.69
3829 3849 3.362706 AGCCGTCATACAGTTTCCTCTA 58.637 45.455 0.00 0.00 0.00 2.43
3842 3865 8.974060 ACAGTTTCCTCTATACTTGTTTTTGA 57.026 30.769 0.00 0.00 0.00 2.69
3871 3894 2.432146 ACATGAGTCATATGGAGCGTGT 59.568 45.455 5.03 7.16 0.00 4.49
3926 3950 5.825679 ACACAACAAGGAAGCTAAACATACA 59.174 36.000 0.00 0.00 0.00 2.29
3993 4017 7.416213 GCCTATACTGAGCCATTGACTATCTAG 60.416 44.444 0.00 0.00 0.00 2.43
3995 4019 5.782893 ACTGAGCCATTGACTATCTAGAC 57.217 43.478 0.00 0.00 0.00 2.59
4094 4118 1.959899 CTTTAGGCGAGTGCAGCACG 61.960 60.000 19.96 10.46 45.35 5.34
4095 4119 2.709125 TTTAGGCGAGTGCAGCACGT 62.709 55.000 19.96 8.49 45.35 4.49
4165 4192 6.577103 TGTCTCTGTTATGGACTCATCATTC 58.423 40.000 0.00 0.00 34.96 2.67
4284 4355 5.245977 CACCATTTGGGATTGGTTCTAACTT 59.754 40.000 0.96 0.00 43.73 2.66
4294 4366 2.875933 TGGTTCTAACTTCAGCGTTTGG 59.124 45.455 0.00 0.00 0.00 3.28
4311 4383 3.205815 GGCATGGCCTGTGGATTTA 57.794 52.632 8.35 0.00 46.69 1.40
4312 4384 1.708341 GGCATGGCCTGTGGATTTAT 58.292 50.000 8.35 0.00 46.69 1.40
4315 4387 3.640967 GGCATGGCCTGTGGATTTATTTA 59.359 43.478 8.35 0.00 46.69 1.40
4380 4453 5.234752 GGTGACCAAACTTTTTGTGAACTT 58.765 37.500 0.00 0.00 0.00 2.66
4381 4454 5.120053 GGTGACCAAACTTTTTGTGAACTTG 59.880 40.000 0.00 0.00 0.00 3.16
4382 4455 5.923684 GTGACCAAACTTTTTGTGAACTTGA 59.076 36.000 0.00 0.00 0.00 3.02
4384 4457 6.811170 TGACCAAACTTTTTGTGAACTTGATC 59.189 34.615 0.00 0.00 0.00 2.92
4441 4515 6.144175 CACCATTGGCAATTCAAATTTTGTC 58.856 36.000 10.65 0.00 0.00 3.18
4454 4528 5.984926 TCAAATTTTGTCTGAGCCATGTTTC 59.015 36.000 8.89 0.00 0.00 2.78
4574 4653 4.339247 ACACAACCTTTTGTTCTCATCCAG 59.661 41.667 0.00 0.00 43.89 3.86
4579 4666 6.380079 ACCTTTTGTTCTCATCCAGATAGT 57.620 37.500 0.00 0.00 0.00 2.12
4580 4667 6.176183 ACCTTTTGTTCTCATCCAGATAGTG 58.824 40.000 0.00 0.00 0.00 2.74
4616 4703 4.101430 ACTTTGATGATGCAAACCAAACCT 59.899 37.500 0.00 0.00 34.35 3.50
4619 4706 5.132897 TGATGATGCAAACCAAACCTTAC 57.867 39.130 0.00 0.00 0.00 2.34
4620 4707 4.832266 TGATGATGCAAACCAAACCTTACT 59.168 37.500 0.00 0.00 0.00 2.24
4621 4708 4.582701 TGATGCAAACCAAACCTTACTG 57.417 40.909 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 3.258622 AGCCAGTAGTTAGGTTCAGTGTC 59.741 47.826 0.00 0.00 0.00 3.67
99 100 5.845391 TGGAAGACTTGTTTTTCCGAAAT 57.155 34.783 0.00 0.00 42.60 2.17
106 107 8.474025 TGATGTGTATTTGGAAGACTTGTTTTT 58.526 29.630 0.00 0.00 0.00 1.94
112 113 6.061441 TGTGTGATGTGTATTTGGAAGACTT 58.939 36.000 0.00 0.00 0.00 3.01
126 127 2.296792 TCTTGGTGGTTGTGTGATGTG 58.703 47.619 0.00 0.00 0.00 3.21
181 198 1.974875 TGTGCGACCCTTCTAGCGA 60.975 57.895 0.00 0.00 0.00 4.93
214 231 3.074538 AGCTCACCTTCAGTTTTACCCAT 59.925 43.478 0.00 0.00 0.00 4.00
279 297 4.589374 GGCTCATCTAGTTACCCTGTGTAT 59.411 45.833 0.00 0.00 0.00 2.29
282 300 2.103263 GGGCTCATCTAGTTACCCTGTG 59.897 54.545 0.00 0.00 34.34 3.66
323 341 3.396611 GTGGCCTTATGGGGGTAGAAATA 59.603 47.826 3.32 0.00 35.12 1.40
384 402 6.989155 AATGGGTTATCATGAATCATGCTT 57.011 33.333 17.81 10.37 41.18 3.91
446 464 0.625849 ACCTGCCTCCCTATGGTTTG 59.374 55.000 0.00 0.00 0.00 2.93
452 470 3.315596 GGTAAACTACCTGCCTCCCTAT 58.684 50.000 0.00 0.00 45.52 2.57
453 471 2.755686 GGTAAACTACCTGCCTCCCTA 58.244 52.381 0.00 0.00 45.52 3.53
454 472 1.581223 GGTAAACTACCTGCCTCCCT 58.419 55.000 0.00 0.00 45.52 4.20
464 482 3.888934 TCGTCGTGTTCTGGTAAACTAC 58.111 45.455 0.00 0.00 0.00 2.73
465 483 4.478699 CATCGTCGTGTTCTGGTAAACTA 58.521 43.478 0.00 0.00 0.00 2.24
466 484 3.314553 CATCGTCGTGTTCTGGTAAACT 58.685 45.455 0.00 0.00 0.00 2.66
467 485 2.410730 CCATCGTCGTGTTCTGGTAAAC 59.589 50.000 0.00 0.00 0.00 2.01
846 864 2.658593 CGATAGGAGTTGGCGCGG 60.659 66.667 8.83 0.00 0.00 6.46
976 996 3.329688 CTCGCTTCGTCGCTGGAGT 62.330 63.158 0.00 0.00 0.00 3.85
981 1001 2.792599 CTACCTCGCTTCGTCGCT 59.207 61.111 0.00 0.00 0.00 4.93
1345 1365 3.052909 AATGCAGCTGCTCCCCGAT 62.053 57.895 36.61 19.64 42.66 4.18
1346 1366 3.720601 AATGCAGCTGCTCCCCGA 61.721 61.111 36.61 18.16 42.66 5.14
1458 1478 2.266055 CCCTCGAACACCAGCCTC 59.734 66.667 0.00 0.00 0.00 4.70
1482 1502 0.034896 ATGTGCCGACGTTCCTCTTT 59.965 50.000 0.00 0.00 0.00 2.52
1483 1503 0.670546 CATGTGCCGACGTTCCTCTT 60.671 55.000 0.00 0.00 0.00 2.85
1500 1520 0.667487 CAGTGAGCAACGACGTCCAT 60.667 55.000 10.58 0.00 0.00 3.41
1593 1613 0.383590 TCGTGAACGTGAACGGGTTA 59.616 50.000 19.44 1.85 44.95 2.85
1710 1730 3.833650 ACATGTTCATCAGGGAATTGCAA 59.166 39.130 0.00 0.00 31.56 4.08
1737 1757 1.454847 TTCAACCAGCCCGCACTTT 60.455 52.632 0.00 0.00 0.00 2.66
1779 1799 0.182061 CCATGTCCCTGGTCTCCATG 59.818 60.000 0.00 0.00 30.82 3.66
2049 2069 4.143543 TGTTGAAAGCATCATCCAGTTCA 58.856 39.130 0.00 0.00 38.03 3.18
2073 2093 2.025605 AGATCCTGGCATCAGCAAGAAA 60.026 45.455 0.00 0.00 45.14 2.52
2094 2114 2.628178 AGTCCATGAAACGACACTCTGA 59.372 45.455 0.00 0.00 0.00 3.27
2208 2228 2.025155 AGCATCGTCGAGTAGGTGAAT 58.975 47.619 0.00 0.00 0.00 2.57
2268 2288 5.009631 TGGTAGTTGGTTTTGATGATCTGG 58.990 41.667 0.00 0.00 0.00 3.86
2301 2321 1.202698 AGAAGTGCAGTCCCAACAGAC 60.203 52.381 0.00 0.00 37.01 3.51
2502 2522 6.231211 TGCATCGATGACACTAGAGATAGTA 58.769 40.000 29.20 0.00 0.00 1.82
2770 2790 0.035725 CCTGCAGCTTCCATCTGACA 60.036 55.000 8.66 0.00 33.54 3.58
2787 2807 3.133014 CCATCCATCTCGACGCCT 58.867 61.111 0.00 0.00 0.00 5.52
2817 2837 1.726791 GTGCATCCTATGATAACCGCG 59.273 52.381 0.00 0.00 0.00 6.46
2987 3007 2.361610 CCGCTGGGAAAGGCATGT 60.362 61.111 0.00 0.00 34.06 3.21
3155 3175 2.573915 ACTTCATCCCTCTCTTTCCACC 59.426 50.000 0.00 0.00 0.00 4.61
3301 3321 0.179179 GTCATCGCCTTCAGCTTTGC 60.179 55.000 0.00 0.00 40.39 3.68
3380 3400 1.002888 TGGCTTCCTTCTGCTCTTCTG 59.997 52.381 0.00 0.00 0.00 3.02
3438 3458 2.108168 GGTGGTGTAGCTATCAGACCA 58.892 52.381 11.01 11.01 34.26 4.02
3471 3491 3.354089 CGCAGGTTTTTGACAATCTGT 57.646 42.857 0.00 0.00 0.00 3.41
3535 3555 3.662078 TGATGATCTCCCTGTCCTCAAT 58.338 45.455 0.00 0.00 0.00 2.57
3696 3716 5.721960 ACATACTCATGAACTACTTCAGGGT 59.278 40.000 0.00 0.00 39.83 4.34
3698 3718 6.634805 ACACATACTCATGAACTACTTCAGG 58.365 40.000 0.00 0.00 39.83 3.86
3702 3722 7.600375 CAGACAACACATACTCATGAACTACTT 59.400 37.037 0.00 0.00 35.96 2.24
3703 3723 7.039714 TCAGACAACACATACTCATGAACTACT 60.040 37.037 0.00 0.00 35.96 2.57
3704 3724 7.090808 TCAGACAACACATACTCATGAACTAC 58.909 38.462 0.00 0.00 35.96 2.73
3705 3725 7.227049 TCAGACAACACATACTCATGAACTA 57.773 36.000 0.00 0.00 35.96 2.24
3828 3848 9.462174 CATGTTGCTCTTTCAAAAACAAGTATA 57.538 29.630 0.00 0.00 34.67 1.47
3829 3849 8.196771 TCATGTTGCTCTTTCAAAAACAAGTAT 58.803 29.630 0.00 0.00 34.67 2.12
3842 3865 5.748402 TCCATATGACTCATGTTGCTCTTT 58.252 37.500 3.65 0.00 0.00 2.52
3871 3894 7.634671 TCATCTAAACCGTCAGTGTAAGATA 57.365 36.000 0.00 0.00 0.00 1.98
3926 3950 5.584251 CCAAAGCCAGTAAAAACACAAACAT 59.416 36.000 0.00 0.00 0.00 2.71
3942 3966 1.077005 AGGTTTAGATGCCCAAAGCCA 59.923 47.619 0.00 0.00 42.71 4.75
3993 4017 3.982576 AAATTGTGGTGTTCTTCCGTC 57.017 42.857 0.00 0.00 0.00 4.79
3995 4019 4.677584 TGAAAAATTGTGGTGTTCTTCCG 58.322 39.130 0.00 0.00 0.00 4.30
4094 4118 8.851960 TGAACAAAGATCATATACTACGTCAC 57.148 34.615 0.00 0.00 0.00 3.67
4095 4119 9.678941 GATGAACAAAGATCATATACTACGTCA 57.321 33.333 0.00 0.00 37.64 4.35
4114 4138 3.455543 TCAGATATGCACCAGGATGAACA 59.544 43.478 0.00 0.00 39.69 3.18
4165 4192 5.975693 TTTCTTTACTTACCAGGCCAATG 57.024 39.130 5.01 0.00 0.00 2.82
4219 4247 1.472480 ACGGAAACTGGCATGCATAAC 59.528 47.619 21.36 1.89 0.00 1.89
4220 4248 1.472082 CACGGAAACTGGCATGCATAA 59.528 47.619 21.36 3.22 0.00 1.90
4294 4366 3.825143 AAATAAATCCACAGGCCATGC 57.175 42.857 5.01 0.00 0.00 4.06
4380 4453 5.219739 GCCATAGATATAAGAGGGGGATCA 58.780 45.833 0.00 0.00 0.00 2.92
4381 4454 5.219739 TGCCATAGATATAAGAGGGGGATC 58.780 45.833 0.00 0.00 0.00 3.36
4382 4455 5.240702 TGCCATAGATATAAGAGGGGGAT 57.759 43.478 0.00 0.00 0.00 3.85
4384 4457 4.723789 ACATGCCATAGATATAAGAGGGGG 59.276 45.833 0.00 0.00 0.00 5.40
4441 4515 0.524862 GCTGTGGAAACATGGCTCAG 59.475 55.000 0.00 0.00 46.14 3.35
4454 4528 1.202687 TCTCTCACCAAACAGCTGTGG 60.203 52.381 22.49 20.55 41.00 4.17
4494 4568 5.868043 TGTTACTCATGATCAAAGTGCAG 57.132 39.130 19.25 7.96 0.00 4.41
4579 4666 8.289618 GCATCATCAAAGTGTACTTCTTTTACA 58.710 33.333 11.76 0.00 34.61 2.41
4580 4667 8.289618 TGCATCATCAAAGTGTACTTCTTTTAC 58.710 33.333 11.76 0.00 34.61 2.01


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

AutoCloner maintained by Alex Coulton.