Multiple sequence alignment - TraesCS7A01G216200

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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 TraesCS7A01G216200 chr7A 100.000 4227 0 0 1 4227 182619322 182615096 0 7806
1 TraesCS7A01G216200 chr7D 92.891 4276 209 43 1 4227 178612231 178608002 0 6124
2 TraesCS7A01G216200 chr7B 93.484 3729 158 39 1 3686 144664723 144661037 0 5461
3 TraesCS7A01G216200 chr7B 91.522 519 26 10 3713 4227 144661041 144660537 0 699


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 TraesCS7A01G216200 chr7A 182615096 182619322 4226 True 7806 7806 100.000 1 4227 1 chr7A.!!$R1 4226
1 TraesCS7A01G216200 chr7D 178608002 178612231 4229 True 6124 6124 92.891 1 4227 1 chr7D.!!$R1 4226
2 TraesCS7A01G216200 chr7B 144660537 144664723 4186 True 3080 5461 92.503 1 4227 2 chr7B.!!$R1 4226


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
277 297 0.392461 TGATTTCCCGCTTTCCCTCG 60.392 55.000 0.00 0.0 0.00 4.63 F
707 732 0.546122 AGTTGTGGCTTGTGACAGGA 59.454 50.000 0.00 0.0 0.00 3.86 F
1359 1384 1.919012 TGGAAGTGCCAGGTTGACA 59.081 52.632 0.00 0.0 43.33 3.58 F
2554 2585 0.603707 CACTTCGGAAGAGCAGCCAA 60.604 55.000 23.74 0.0 43.69 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1332 1357 0.472044 TGGCACTTCCACTTGCACTA 59.528 50.000 0.00 0.00 40.72 2.74 R
1569 1594 0.884259 CACTGCCGATGTCACCACAA 60.884 55.000 0.00 0.00 35.64 3.33 R
2565 2596 1.311859 CTCTGCACAAGCTGGTTGAA 58.688 50.000 24.71 9.72 42.74 2.69 R
3526 3576 1.601914 CCAAGCAGGTAAAAACACCGC 60.602 52.381 0.00 0.00 43.84 5.68 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
47 48 3.945285 TCTCGCACCTTTTCTTGTTCTTT 59.055 39.130 0.00 0.00 0.00 2.52
77 78 0.541863 TTTCCCCTGCTTCGATCTCC 59.458 55.000 0.00 0.00 0.00 3.71
84 85 1.323271 TGCTTCGATCTCCGGCTCTT 61.323 55.000 0.00 0.00 39.14 2.85
119 120 4.389772 CGTTACCGGACCGTGATC 57.610 61.111 9.46 0.00 0.00 2.92
141 142 1.303309 GCCATGTTTAGATCTGCGCT 58.697 50.000 9.73 0.00 0.00 5.92
176 186 2.481568 GCCGCCGTTTACTCTTTTTACT 59.518 45.455 0.00 0.00 0.00 2.24
223 233 1.553308 GCATTCCGCAGATCAAAAGC 58.447 50.000 0.00 0.00 41.79 3.51
277 297 0.392461 TGATTTCCCGCTTTCCCTCG 60.392 55.000 0.00 0.00 0.00 4.63
283 303 1.583495 CCCGCTTTCCCTCGGTTTTC 61.583 60.000 0.00 0.00 43.87 2.29
284 304 0.605589 CCGCTTTCCCTCGGTTTTCT 60.606 55.000 0.00 0.00 40.72 2.52
385 409 1.060553 CACCGTTTCCAATCGATCGTG 59.939 52.381 15.94 6.88 0.00 4.35
560 585 1.137872 GAGTGGGGAGTGCTACATCTG 59.862 57.143 0.00 0.00 0.00 2.90
589 614 7.279981 TCCATAGTGTTGCATGATTACAGTTAC 59.720 37.037 0.00 0.00 0.00 2.50
613 638 0.884704 CGGTTGGACAGGTTCAGTGG 60.885 60.000 0.00 0.00 0.00 4.00
614 639 1.172812 GGTTGGACAGGTTCAGTGGC 61.173 60.000 0.00 0.00 0.00 5.01
707 732 0.546122 AGTTGTGGCTTGTGACAGGA 59.454 50.000 0.00 0.00 0.00 3.86
782 807 4.074970 TGGAGGTTCTTTCTTGATCTTGC 58.925 43.478 0.00 0.00 0.00 4.01
789 814 4.330250 TCTTTCTTGATCTTGCTTGGGAG 58.670 43.478 0.00 0.00 0.00 4.30
806 831 2.154462 GGAGTGATGGTTGACTGTTGG 58.846 52.381 0.00 0.00 0.00 3.77
963 988 5.308497 TCAAACCCTTGATTGACCAGTAGTA 59.692 40.000 0.00 0.00 36.62 1.82
976 1001 3.117888 ACCAGTAGTATTGCAATCTGGGG 60.118 47.826 32.28 22.45 44.39 4.96
1118 1143 3.257624 AGTTCGAGTAAACCCAGTACAGG 59.742 47.826 0.00 0.00 0.00 4.00
1263 1288 4.040095 CCTGCAGATGATGAGAAGGATACA 59.960 45.833 17.39 0.00 41.41 2.29
1332 1357 2.709934 AGATAAGGATCATGGTGCAGCT 59.290 45.455 18.08 0.00 34.17 4.24
1359 1384 1.919012 TGGAAGTGCCAGGTTGACA 59.081 52.632 0.00 0.00 43.33 3.58
1392 1417 6.494952 TGAGACTGGAGAAAGAGGTATTAGT 58.505 40.000 0.00 0.00 0.00 2.24
1428 1453 4.709840 ACAGGCAGTGATGTCAGC 57.290 55.556 0.00 0.00 0.00 4.26
1524 1549 5.597430 TCCAGATGATCAGGACTAGAGAT 57.403 43.478 2.06 0.00 26.13 2.75
1735 1760 4.766891 TGGATCATCCTTTTCTTCCAACAC 59.233 41.667 4.96 0.00 37.46 3.32
1749 1774 3.945346 TCCAACACTGTACACACACTTT 58.055 40.909 0.00 0.00 0.00 2.66
1758 1783 4.430007 TGTACACACACTTTGAGACTGAC 58.570 43.478 0.00 0.00 0.00 3.51
1770 1795 4.944619 TGAGACTGACAAGTTCTCATGT 57.055 40.909 6.89 0.00 36.50 3.21
1773 1798 4.880759 AGACTGACAAGTTCTCATGTCTG 58.119 43.478 10.29 10.10 44.86 3.51
1785 1810 5.762179 TCTCATGTCTGGTTATGGAGTTT 57.238 39.130 0.00 0.00 0.00 2.66
1854 1879 5.948992 AGTATTTTCCAGAACAAGCTGTC 57.051 39.130 0.00 0.00 34.06 3.51
2015 2042 3.939592 AGCCAAGAATAGCGGAAAGTTAC 59.060 43.478 0.00 0.00 0.00 2.50
2020 2047 7.210873 CCAAGAATAGCGGAAAGTTACTATCT 58.789 38.462 0.00 0.00 0.00 1.98
2044 2071 7.877612 TCTGTTTCAAGTTAGCTGAATGTATGA 59.122 33.333 0.00 0.00 0.00 2.15
2054 2081 6.290294 AGCTGAATGTATGAAAAATTGCCT 57.710 33.333 0.00 0.00 0.00 4.75
2072 2100 2.223805 GCCTGTAATGTGCTAATTGGCC 60.224 50.000 11.64 0.00 32.50 5.36
2074 2102 3.067180 CCTGTAATGTGCTAATTGGCCAG 59.933 47.826 11.64 9.50 0.00 4.85
2082 2110 4.039852 TGTGCTAATTGGCCAGATATCGTA 59.960 41.667 11.64 0.00 0.00 3.43
2093 2121 4.867047 GCCAGATATCGTATGATCTTGTGG 59.133 45.833 14.87 14.87 35.78 4.17
2251 2279 9.383519 AGCGACATAAATATCCCAGTAATATTG 57.616 33.333 0.00 0.00 31.35 1.90
2252 2280 9.162764 GCGACATAAATATCCCAGTAATATTGT 57.837 33.333 0.00 0.00 31.35 2.71
2262 2290 8.691661 ATCCCAGTAATATTGTTGTGAATACC 57.308 34.615 0.00 0.00 0.00 2.73
2319 2350 3.806625 AAAAACTGCTGCACACTGATT 57.193 38.095 0.00 0.00 0.00 2.57
2504 2535 1.067071 GCTGTACAGTTAGCCCGACTT 60.067 52.381 23.44 0.00 33.89 3.01
2524 2555 5.449553 ACTTTAATCAGGTCATCCAATCCC 58.550 41.667 0.00 0.00 35.89 3.85
2554 2585 0.603707 CACTTCGGAAGAGCAGCCAA 60.604 55.000 23.74 0.00 43.69 4.52
2565 2596 1.302832 GCAGCCAAGCCTACTGTGT 60.303 57.895 0.00 0.00 33.87 3.72
2617 2648 2.171209 TACAGCCATCGTGCACAGCT 62.171 55.000 18.64 15.48 0.00 4.24
2770 2801 4.766373 TCATTTGTTGGCACACATGAGTAT 59.234 37.500 0.00 0.00 42.62 2.12
2942 2973 1.283613 TGCGTTTCCCAGAATACCCAT 59.716 47.619 0.00 0.00 0.00 4.00
3272 3303 9.434420 TTTCCCATTTGTTTTGCATAATTAGAG 57.566 29.630 0.00 0.00 0.00 2.43
3285 3316 6.542370 TGCATAATTAGAGGTTGTAGGCTTTC 59.458 38.462 0.00 0.00 0.00 2.62
3338 3369 7.740346 CGTATGTAGATTTTTGTGTCTGTCAAC 59.260 37.037 0.00 0.00 0.00 3.18
3345 3376 8.352942 AGATTTTTGTGTCTGTCAACCTATTTC 58.647 33.333 0.00 0.00 0.00 2.17
3369 3401 5.008217 CCTGTTTTGTAGTGAACGAATGGAA 59.992 40.000 0.00 0.00 31.33 3.53
3433 3465 6.867662 ATCTTTGTGAGTTGAAATCTTCGT 57.132 33.333 0.00 0.00 0.00 3.85
3435 3467 3.878086 TGTGAGTTGAAATCTTCGTGC 57.122 42.857 0.00 0.00 0.00 5.34
3436 3468 3.202097 TGTGAGTTGAAATCTTCGTGCA 58.798 40.909 0.00 0.00 0.00 4.57
3437 3469 3.248363 TGTGAGTTGAAATCTTCGTGCAG 59.752 43.478 0.00 0.00 0.00 4.41
3468 3501 4.725556 TTAAGCTCAGTTTTGTACAGCG 57.274 40.909 0.00 0.00 32.54 5.18
3520 3570 1.952193 CAAGCCTTGTTTTGTTGGGG 58.048 50.000 0.00 0.00 0.00 4.96
3521 3571 1.484240 CAAGCCTTGTTTTGTTGGGGA 59.516 47.619 0.00 0.00 0.00 4.81
3522 3572 1.119684 AGCCTTGTTTTGTTGGGGAC 58.880 50.000 0.00 0.00 0.00 4.46
3526 3576 3.306019 GCCTTGTTTTGTTGGGGACTATG 60.306 47.826 0.00 0.00 0.00 2.23
3658 3709 5.822519 TGATTGAAGTAGGGTAATCATGTGC 59.177 40.000 0.00 0.00 35.34 4.57
3665 3716 3.966979 AGGGTAATCATGTGCATGTCAA 58.033 40.909 11.38 0.00 39.72 3.18
3702 3753 7.593644 GGCACTGATGACGTTATTTAACTTTTT 59.406 33.333 0.00 0.00 34.12 1.94
3703 3754 9.601971 GCACTGATGACGTTATTTAACTTTTTA 57.398 29.630 0.00 0.00 34.12 1.52
3726 3777 3.137446 AGTTGCTGAGCTCACTGATTT 57.863 42.857 13.74 0.00 0.00 2.17
3727 3778 2.812591 AGTTGCTGAGCTCACTGATTTG 59.187 45.455 13.74 2.01 0.00 2.32
3728 3779 2.551459 GTTGCTGAGCTCACTGATTTGT 59.449 45.455 13.74 0.00 0.00 2.83
3730 3781 1.736681 GCTGAGCTCACTGATTTGTCC 59.263 52.381 13.74 0.00 0.00 4.02
3731 3782 2.614987 GCTGAGCTCACTGATTTGTCCT 60.615 50.000 13.74 0.00 0.00 3.85
3773 3824 9.778741 CTCCCTATCAACAATTATGCTACTAAA 57.221 33.333 0.00 0.00 0.00 1.85
3794 3845 6.759497 AAATGATTGGCTACAACTTCTACC 57.241 37.500 0.00 0.00 39.87 3.18
3802 3853 5.105064 TGGCTACAACTTCTACCTAACCATC 60.105 44.000 0.00 0.00 0.00 3.51
3822 3888 4.193826 TCTTCTCTGTCCAGTTATGCAC 57.806 45.455 0.00 0.00 0.00 4.57
3826 3892 2.668457 CTCTGTCCAGTTATGCACGTTC 59.332 50.000 0.00 0.00 0.00 3.95
3850 3916 9.897744 TTCTGCAAAATGTTTATGAAGTCTTAG 57.102 29.630 0.00 0.00 0.00 2.18
3893 3960 6.990798 TCATCTGTATGTTTCCAAATGCAAA 58.009 32.000 0.00 0.00 34.50 3.68
3990 4058 4.828072 AGAAAGAACCCCACAGAGATAC 57.172 45.455 0.00 0.00 0.00 2.24
4017 4085 5.353123 TGAAAAGCTCCATGTACGGTAAATC 59.647 40.000 0.00 0.00 0.00 2.17
4032 4100 9.042008 GTACGGTAAATCATCTCATTTGTACAT 57.958 33.333 0.00 0.00 30.38 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 1.699137 AGGGGAAATGCTGCCATGA 59.301 52.632 0.00 0.00 37.23 3.07
77 78 1.219393 GGAAGAGGGACAAGAGCCG 59.781 63.158 0.00 0.00 0.00 5.52
84 85 2.683933 GCGGGAGGAAGAGGGACA 60.684 66.667 0.00 0.00 0.00 4.02
119 120 0.947244 GCAGATCTAAACATGGCCGG 59.053 55.000 0.00 0.00 0.00 6.13
176 186 4.435436 AATCTCGCGGTCGCTGCA 62.435 61.111 6.13 0.00 39.32 4.41
248 258 1.242076 CGGGAAATCATCATGGAGCC 58.758 55.000 0.00 0.00 0.00 4.70
252 262 2.035066 GGAAAGCGGGAAATCATCATGG 59.965 50.000 0.00 0.00 0.00 3.66
253 263 2.035066 GGGAAAGCGGGAAATCATCATG 59.965 50.000 0.00 0.00 0.00 3.07
254 264 2.091665 AGGGAAAGCGGGAAATCATCAT 60.092 45.455 0.00 0.00 0.00 2.45
256 266 1.950216 GAGGGAAAGCGGGAAATCATC 59.050 52.381 0.00 0.00 0.00 2.92
283 303 1.506493 ACGCAGACTTTCTTGCAGAG 58.494 50.000 0.00 0.00 0.00 3.35
284 304 1.953559 AACGCAGACTTTCTTGCAGA 58.046 45.000 0.00 0.00 0.00 4.26
365 385 1.060553 CACGATCGATTGGAAACGGTG 59.939 52.381 24.34 0.32 34.45 4.94
367 387 0.650512 CCACGATCGATTGGAAACGG 59.349 55.000 24.34 5.47 34.46 4.44
385 409 1.062525 CTCGCAGGCGCATTTTACC 59.937 57.895 10.83 0.00 38.40 2.85
503 528 1.300481 GTTAGGGATCCGCAAAGAGC 58.700 55.000 5.45 0.00 40.87 4.09
560 585 4.579454 AATCATGCAACACTATGGATGC 57.421 40.909 0.00 0.00 45.52 3.91
589 614 3.491598 AACCTGTCCAACCGCCCAG 62.492 63.158 0.00 0.00 0.00 4.45
613 638 0.036010 ATATATGGCACTGGCGAGGC 60.036 55.000 0.00 0.58 42.47 4.70
614 639 2.159043 CCTATATATGGCACTGGCGAGG 60.159 54.545 0.00 0.00 42.47 4.63
707 732 3.964031 ACCAAAGTGAGAGAGAAGTGAGT 59.036 43.478 0.00 0.00 0.00 3.41
782 807 2.224621 ACAGTCAACCATCACTCCCAAG 60.225 50.000 0.00 0.00 0.00 3.61
789 814 2.571212 TCACCAACAGTCAACCATCAC 58.429 47.619 0.00 0.00 0.00 3.06
806 831 6.064846 TCAACTCAAAGAGCAAAAGATCAC 57.935 37.500 0.00 0.00 32.04 3.06
963 988 1.077663 ACCTGAACCCCAGATTGCAAT 59.922 47.619 12.83 12.83 45.78 3.56
976 1001 3.002759 GCTCTGACAACTGAAACCTGAAC 59.997 47.826 0.00 0.00 0.00 3.18
1118 1143 1.159285 GGGCAATTTTCTTGGCAAGC 58.841 50.000 22.31 9.50 45.48 4.01
1152 1177 3.003793 GGACTTCTTTGTTTGGACTGCTC 59.996 47.826 0.00 0.00 0.00 4.26
1263 1288 4.281688 CCATCTGTGTTTCCATTTTCCACT 59.718 41.667 0.00 0.00 0.00 4.00
1332 1357 0.472044 TGGCACTTCCACTTGCACTA 59.528 50.000 0.00 0.00 40.72 2.74
1359 1384 1.713647 TCTCCAGTCTCAGACCTTCCT 59.286 52.381 0.00 0.00 32.18 3.36
1428 1453 4.139420 CTGCACGCGCTTTCCTCG 62.139 66.667 5.73 0.00 39.64 4.63
1524 1549 1.304282 GCTGAGGCCAAGAATCCCA 59.696 57.895 5.01 0.00 0.00 4.37
1569 1594 0.884259 CACTGCCGATGTCACCACAA 60.884 55.000 0.00 0.00 35.64 3.33
1735 1760 4.504461 GTCAGTCTCAAAGTGTGTGTACAG 59.496 45.833 0.00 0.00 37.52 2.74
1749 1774 4.586421 AGACATGAGAACTTGTCAGTCTCA 59.414 41.667 0.00 12.66 46.61 3.27
1758 1783 5.491070 TCCATAACCAGACATGAGAACTTG 58.509 41.667 0.00 0.00 0.00 3.16
1770 1795 2.378547 AGGGCAAAACTCCATAACCAGA 59.621 45.455 0.00 0.00 0.00 3.86
1773 1798 1.824852 CCAGGGCAAAACTCCATAACC 59.175 52.381 0.00 0.00 0.00 2.85
1785 1810 2.121506 AAGTCTCCCCCAGGGCAA 60.122 61.111 0.00 0.00 43.94 4.52
1854 1879 7.517417 GCGTAAAAGATGGATCAGACATACTTG 60.517 40.741 0.00 0.00 0.00 3.16
1955 1982 2.009774 GGGAACACACAGAATCGGATG 58.990 52.381 0.00 0.00 0.00 3.51
1995 2022 7.169982 CAGATAGTAACTTTCCGCTATTCTTGG 59.830 40.741 0.00 0.00 0.00 3.61
1996 2023 7.707035 ACAGATAGTAACTTTCCGCTATTCTTG 59.293 37.037 0.00 0.00 0.00 3.02
2015 2042 8.261492 ACATTCAGCTAACTTGAAACAGATAG 57.739 34.615 0.00 0.00 38.01 2.08
2020 2047 7.977789 TCATACATTCAGCTAACTTGAAACA 57.022 32.000 0.00 0.00 38.01 2.83
2044 2071 7.119553 CCAATTAGCACATTACAGGCAATTTTT 59.880 33.333 0.00 0.00 0.00 1.94
2054 2081 3.961849 TCTGGCCAATTAGCACATTACA 58.038 40.909 7.01 0.00 0.00 2.41
2072 2100 8.768957 ATTTCCACAAGATCATACGATATCTG 57.231 34.615 0.34 0.00 32.79 2.90
2074 2102 8.993121 ACAATTTCCACAAGATCATACGATATC 58.007 33.333 0.00 0.00 29.66 1.63
2082 2110 5.473162 TCGTTGACAATTTCCACAAGATCAT 59.527 36.000 0.00 0.00 0.00 2.45
2093 2121 5.034152 TGTTGCTTTCTCGTTGACAATTTC 58.966 37.500 0.00 0.00 0.00 2.17
2141 2169 5.833131 TCTGAAGCAAAGTAGATGGGTTTTT 59.167 36.000 0.00 0.00 0.00 1.94
2146 2174 6.115446 TGTAATCTGAAGCAAAGTAGATGGG 58.885 40.000 0.00 0.00 30.77 4.00
2154 2182 5.163591 TGCATGGATGTAATCTGAAGCAAAG 60.164 40.000 0.00 0.00 44.71 2.77
2306 2337 3.847467 GCAATATCGAATCAGTGTGCAGC 60.847 47.826 0.00 0.00 0.00 5.25
2319 2350 9.108284 TGTGATTAAGAAGAAATGCAATATCGA 57.892 29.630 0.00 0.00 0.00 3.59
2343 2374 7.372260 AGGATTTCTGCTACATAGAATCTGT 57.628 36.000 0.00 0.00 34.42 3.41
2504 2535 3.714280 TCGGGATTGGATGACCTGATTAA 59.286 43.478 0.00 0.00 34.63 1.40
2524 2555 1.497991 TCCGAAGTGCTTCTGTTTCG 58.502 50.000 9.84 0.00 41.35 3.46
2554 2585 1.543429 GCTGGTTGAACACAGTAGGCT 60.543 52.381 12.93 0.00 37.07 4.58
2565 2596 1.311859 CTCTGCACAAGCTGGTTGAA 58.688 50.000 24.71 9.72 42.74 2.69
2617 2648 1.470996 GGCCAAAGCATGTTGTGGGA 61.471 55.000 19.42 0.00 42.56 4.37
2770 2801 4.280819 CTTTGATAATCTCAGGGGCCAAA 58.719 43.478 4.39 0.00 34.68 3.28
2942 2973 3.136763 CTCTTGCTGAGAAGCTCACAAA 58.863 45.455 0.00 0.00 45.39 2.83
3248 3279 7.180051 ACCTCTAATTATGCAAAACAAATGGGA 59.820 33.333 0.00 0.00 0.00 4.37
3250 3281 8.658609 CAACCTCTAATTATGCAAAACAAATGG 58.341 33.333 0.00 0.00 0.00 3.16
3251 3282 9.206870 ACAACCTCTAATTATGCAAAACAAATG 57.793 29.630 0.00 0.00 0.00 2.32
3254 3285 8.519526 CCTACAACCTCTAATTATGCAAAACAA 58.480 33.333 0.00 0.00 0.00 2.83
3255 3286 7.362574 GCCTACAACCTCTAATTATGCAAAACA 60.363 37.037 0.00 0.00 0.00 2.83
3256 3287 6.972901 GCCTACAACCTCTAATTATGCAAAAC 59.027 38.462 0.00 0.00 0.00 2.43
3257 3288 6.889722 AGCCTACAACCTCTAATTATGCAAAA 59.110 34.615 0.00 0.00 0.00 2.44
3285 3316 1.929169 CTGTCAGACACATACATGCGG 59.071 52.381 0.00 0.00 33.23 5.69
3338 3369 6.425721 TCGTTCACTACAAAACAGGAAATAGG 59.574 38.462 0.00 0.00 0.00 2.57
3345 3376 4.513692 TCCATTCGTTCACTACAAAACAGG 59.486 41.667 0.00 0.00 0.00 4.00
3392 3424 8.067784 CACAAAGATTAGCGACTTCAAAACTTA 58.932 33.333 0.00 0.00 0.00 2.24
3435 3467 3.750130 ACTGAGCTTAATTCTGCACACTG 59.250 43.478 0.00 3.91 0.00 3.66
3436 3468 4.013267 ACTGAGCTTAATTCTGCACACT 57.987 40.909 0.00 0.00 0.00 3.55
3437 3469 4.756084 AACTGAGCTTAATTCTGCACAC 57.244 40.909 0.00 0.00 0.00 3.82
3520 3570 3.425758 GCAGGTAAAAACACCGCATAGTC 60.426 47.826 0.00 0.00 43.84 2.59
3521 3571 2.486592 GCAGGTAAAAACACCGCATAGT 59.513 45.455 0.00 0.00 43.84 2.12
3522 3572 2.747446 AGCAGGTAAAAACACCGCATAG 59.253 45.455 10.24 0.00 43.84 2.23
3526 3576 1.601914 CCAAGCAGGTAAAAACACCGC 60.602 52.381 0.00 0.00 43.84 5.68
3658 3709 2.553602 TGCCTTAGTGCAAGTTGACATG 59.446 45.455 7.16 0.00 38.56 3.21
3665 3716 2.038952 TCATCAGTGCCTTAGTGCAAGT 59.961 45.455 0.00 0.00 44.11 3.16
3675 3726 5.488341 AGTTAAATAACGTCATCAGTGCCT 58.512 37.500 0.00 0.00 40.96 4.75
3702 3753 5.604758 ATCAGTGAGCTCAGCAACTTATA 57.395 39.130 18.89 0.00 0.00 0.98
3703 3754 3.969287 TCAGTGAGCTCAGCAACTTAT 57.031 42.857 18.89 0.00 0.00 1.73
3773 3824 5.700402 AGGTAGAAGTTGTAGCCAATCAT 57.300 39.130 5.68 0.00 32.11 2.45
3794 3845 5.413309 AACTGGACAGAGAAGATGGTTAG 57.587 43.478 6.29 0.00 0.00 2.34
3802 3853 2.926200 CGTGCATAACTGGACAGAGAAG 59.074 50.000 6.29 0.00 43.36 2.85
3822 3888 6.857964 AGACTTCATAAACATTTTGCAGAACG 59.142 34.615 0.00 0.00 0.00 3.95
3826 3892 7.274250 GCCTAAGACTTCATAAACATTTTGCAG 59.726 37.037 0.00 0.00 0.00 4.41
3850 3916 2.038952 TGATATAGATGCACCTGTGGCC 59.961 50.000 0.00 0.00 0.00 5.36
4017 4085 6.647895 TCGATCCATGATGTACAAATGAGATG 59.352 38.462 18.68 13.82 0.00 2.90
4032 4100 8.560355 TGAATTTTAAACTTCTCGATCCATGA 57.440 30.769 16.45 0.00 0.00 3.07



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

AutoCloner maintained by Alex Coulton.