Multiple sequence alignment - TraesCS5A01G353300

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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 TraesCS5A01G353300 chr5A 100.000 4167 0 0 1 4167 555772219 555776385 0.000000e+00 7696
1 TraesCS5A01G353300 chr5A 89.188 3376 235 66 1 3303 30406027 30409345 0.000000e+00 4093
2 TraesCS5A01G353300 chr5A 93.820 178 9 1 3731 3906 555780815 555780992 2.470000e-67 267
3 TraesCS5A01G353300 chr5D 95.769 3758 120 17 1 3726 440161878 440165628 0.000000e+00 6023
4 TraesCS5A01G353300 chr5D 90.027 3389 201 54 1 3303 42018334 42021671 0.000000e+00 4259
5 TraesCS5A01G353300 chr5B 95.430 3764 111 25 1 3727 535112790 535116529 0.000000e+00 5941
6 TraesCS5A01G353300 chr5B 90.497 3357 194 59 1 3300 36721980 36725268 0.000000e+00 4316
7 TraesCS5A01G353300 chr5B 95.983 697 27 1 1 697 36766177 36765482 0.000000e+00 1131
8 TraesCS5A01G353300 chr5B 82.633 904 97 35 2424 3303 36745965 36745098 0.000000e+00 745
9 TraesCS5A01G353300 chr5B 95.946 148 5 1 1275 1422 36765233 36765087 5.380000e-59 239
10 TraesCS5A01G353300 chr5B 96.154 130 5 0 1448 1577 36765090 36764961 3.260000e-51 213
11 TraesCS5A01G353300 chr7A 88.315 445 42 5 3730 4166 724495092 724494650 3.690000e-145 525
12 TraesCS5A01G353300 chr7A 85.393 178 22 4 3731 3906 724489977 724489802 9.200000e-42 182
13 TraesCS5A01G353300 chr6D 92.377 223 17 0 3940 4162 453700731 453700953 6.720000e-83 318
14 TraesCS5A01G353300 chr6D 92.398 171 12 1 3730 3899 453700299 453700469 4.160000e-60 243


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 TraesCS5A01G353300 chr5A 555772219 555776385 4166 False 7696.000000 7696 100.000000 1 4167 1 chr5A.!!$F2 4166
1 TraesCS5A01G353300 chr5A 30406027 30409345 3318 False 4093.000000 4093 89.188000 1 3303 1 chr5A.!!$F1 3302
2 TraesCS5A01G353300 chr5D 440161878 440165628 3750 False 6023.000000 6023 95.769000 1 3726 1 chr5D.!!$F2 3725
3 TraesCS5A01G353300 chr5D 42018334 42021671 3337 False 4259.000000 4259 90.027000 1 3303 1 chr5D.!!$F1 3302
4 TraesCS5A01G353300 chr5B 535112790 535116529 3739 False 5941.000000 5941 95.430000 1 3727 1 chr5B.!!$F2 3726
5 TraesCS5A01G353300 chr5B 36721980 36725268 3288 False 4316.000000 4316 90.497000 1 3300 1 chr5B.!!$F1 3299
6 TraesCS5A01G353300 chr5B 36745098 36745965 867 True 745.000000 745 82.633000 2424 3303 1 chr5B.!!$R1 879
7 TraesCS5A01G353300 chr5B 36764961 36766177 1216 True 527.666667 1131 96.027667 1 1577 3 chr5B.!!$R2 1576
8 TraesCS5A01G353300 chr6D 453700299 453700953 654 False 280.500000 318 92.387500 3730 4162 2 chr6D.!!$F1 432

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
490 491 1.000163 GAGGTCTCGCAGTTCAGTCAA 60.000 52.381 0.0 0.0 0.00 3.18 F
1543 1674 0.913934 TACTCTGGCCCATTCCTGCA 60.914 55.000 0.0 0.0 0.00 4.41 F
1871 2002 1.001641 GACTGGGCTGTCCATGCTT 60.002 57.895 0.0 0.0 46.01 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2332 2501 0.096802 CGCGAATGCTGCACAATACA 59.903 50.0 3.57 0.0 39.65 2.29 R
3157 3345 0.038618 CAACCGGTCATCAGACGTCA 60.039 55.0 19.50 0.0 45.92 4.35 R
3694 3920 0.179000 GGTTGCCCAGATCAGACGAT 59.821 55.0 0.00 0.0 33.31 3.73 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
75 76 1.009997 AGGGGGATTTGGAATCAGCA 58.990 50.000 3.39 0.00 0.00 4.41
255 256 6.656632 ACATACAGGACAGTGATACATAGG 57.343 41.667 0.00 0.00 0.00 2.57
490 491 1.000163 GAGGTCTCGCAGTTCAGTCAA 60.000 52.381 0.00 0.00 0.00 3.18
584 585 4.100963 TCAGCTGACCTTAGAGAAACAACA 59.899 41.667 13.74 0.00 0.00 3.33
586 587 5.296780 CAGCTGACCTTAGAGAAACAACAAA 59.703 40.000 8.42 0.00 0.00 2.83
589 590 6.183360 GCTGACCTTAGAGAAACAACAAACTT 60.183 38.462 0.00 0.00 0.00 2.66
950 1080 4.202493 TGCATATATCAGCATCACAAGGGT 60.202 41.667 0.00 0.00 35.51 4.34
1543 1674 0.913934 TACTCTGGCCCATTCCTGCA 60.914 55.000 0.00 0.00 0.00 4.41
1577 1708 4.314440 GAGGACGTGGCTGTGGCA 62.314 66.667 0.00 0.00 40.87 4.92
1679 1810 1.067425 CAGAACATCGTCAACCCCGTA 60.067 52.381 0.00 0.00 0.00 4.02
1703 1834 1.080772 CATGGTGCTTGCTGTGCTG 60.081 57.895 0.00 0.00 0.00 4.41
1724 1855 3.840078 TGGTCTTCCACATCTTCATCTCA 59.160 43.478 0.00 0.00 39.03 3.27
1763 1894 1.302832 CAGCTTTGGCCTTCTCGGT 60.303 57.895 3.32 0.00 39.73 4.69
1811 1942 3.712881 GTGCTCGTGGCGTTGACC 61.713 66.667 0.00 0.00 45.43 4.02
1871 2002 1.001641 GACTGGGCTGTCCATGCTT 60.002 57.895 0.00 0.00 46.01 3.91
1997 2128 3.980646 TGCTTGTTTATGTCTTGCGTT 57.019 38.095 0.00 0.00 0.00 4.84
2009 2140 3.057876 TGTCTTGCGTTGTTGTGTTCTTT 60.058 39.130 0.00 0.00 0.00 2.52
2010 2141 3.300590 GTCTTGCGTTGTTGTGTTCTTTG 59.699 43.478 0.00 0.00 0.00 2.77
2022 2153 2.033424 GTGTTCTTTGTCAGGTTGGAGC 59.967 50.000 0.00 0.00 0.00 4.70
2127 2258 1.341285 CCACTCCATGATTCAGCCCAA 60.341 52.381 0.00 0.00 0.00 4.12
2298 2467 4.087907 GAGACCTACCAGGATGTATACCC 58.912 52.174 0.00 0.00 37.67 3.69
2332 2501 5.350365 GTGCTGATCAAACATTTGCATCAAT 59.650 36.000 6.79 0.00 35.91 2.57
2354 2523 1.576451 ATTGTGCAGCATTCGCGTCA 61.576 50.000 5.77 0.00 45.49 4.35
2415 2584 1.218047 CGGTCATGGTGGTCGTCAT 59.782 57.895 0.00 0.00 0.00 3.06
2464 2633 1.559682 ACGATTGTAGTCATGGCCCTT 59.440 47.619 0.00 0.00 0.00 3.95
3041 3229 4.573900 TCAGCTGAATCTTCTGTTTCTCC 58.426 43.478 15.67 0.00 0.00 3.71
3053 3241 1.699083 TGTTTCTCCCTGTGCTCATGA 59.301 47.619 0.00 0.00 0.00 3.07
3157 3345 0.832626 TGCTGGTGGTCGATGATGAT 59.167 50.000 0.00 0.00 0.00 2.45
3190 3391 1.152830 GGTTGGGGGCTCTGTTTGA 59.847 57.895 0.00 0.00 0.00 2.69
3193 3394 1.701031 TTGGGGGCTCTGTTTGACGA 61.701 55.000 0.00 0.00 0.00 4.20
3205 3406 2.164422 TGTTTGACGACCATTGTTTGCA 59.836 40.909 0.00 0.00 0.00 4.08
3344 3564 0.913934 TTATCCCTGGCTGCTGGACA 60.914 55.000 12.39 0.00 0.00 4.02
3402 3622 3.513909 TGATGCCCCCAGATTATTGAG 57.486 47.619 0.00 0.00 0.00 3.02
3565 3787 5.615289 ACAATCCCTAGAAATTCAGATCCG 58.385 41.667 0.00 0.00 0.00 4.18
3638 3863 4.483977 GTGTTTGAAAAAGACAAGCACG 57.516 40.909 10.57 0.00 44.39 5.34
3642 3867 5.866633 TGTTTGAAAAAGACAAGCACGAAAT 59.133 32.000 0.00 0.00 34.60 2.17
3727 3953 0.323087 GCAACCGGACCTTGGGTATT 60.323 55.000 9.46 0.00 35.25 1.89
3728 3954 1.746470 CAACCGGACCTTGGGTATTC 58.254 55.000 9.46 0.00 35.25 1.75
3737 3963 4.441217 GGACCTTGGGTATTCGAGTAGAAC 60.441 50.000 0.00 0.00 37.65 3.01
3750 3976 5.651530 TCGAGTAGAACAGTGGATTGATTC 58.348 41.667 0.00 0.00 0.00 2.52
3752 3978 6.602009 TCGAGTAGAACAGTGGATTGATTCTA 59.398 38.462 0.00 0.00 32.11 2.10
3766 3993 9.460019 TGGATTGATTCTATCACACAATTACAA 57.540 29.630 9.74 0.00 39.39 2.41
3867 4094 0.106167 TAGGGCTGGACGTGCTAGAT 60.106 55.000 8.99 0.00 0.00 1.98
3872 4099 0.807667 CTGGACGTGCTAGATGTGCC 60.808 60.000 8.99 0.00 30.94 5.01
3874 4101 0.179073 GGACGTGCTAGATGTGCCAT 60.179 55.000 0.00 0.00 0.00 4.40
3892 4119 4.754618 TGCCATACTGTTACAACACAAGAG 59.245 41.667 0.00 0.00 34.70 2.85
3899 4126 7.246674 ACTGTTACAACACAAGAGTTACATG 57.753 36.000 0.00 0.00 34.70 3.21
3900 4127 6.821665 ACTGTTACAACACAAGAGTTACATGT 59.178 34.615 2.69 2.69 34.70 3.21
3901 4128 7.335924 ACTGTTACAACACAAGAGTTACATGTT 59.664 33.333 2.30 0.00 34.70 2.71
3902 4129 8.719560 TGTTACAACACAAGAGTTACATGTTA 57.280 30.769 2.30 0.00 33.17 2.41
3903 4130 9.163899 TGTTACAACACAAGAGTTACATGTTAA 57.836 29.630 2.30 0.00 33.17 2.01
3904 4131 9.429600 GTTACAACACAAGAGTTACATGTTAAC 57.570 33.333 2.30 6.86 32.39 2.01
3905 4132 7.618502 ACAACACAAGAGTTACATGTTAACA 57.381 32.000 11.41 11.41 32.39 2.41
3906 4133 7.469260 ACAACACAAGAGTTACATGTTAACAC 58.531 34.615 11.22 5.70 32.39 3.32
3907 4134 6.613755 ACACAAGAGTTACATGTTAACACC 57.386 37.500 11.22 3.69 0.00 4.16
3908 4135 5.529800 ACACAAGAGTTACATGTTAACACCC 59.470 40.000 11.22 0.00 0.00 4.61
3909 4136 5.763204 CACAAGAGTTACATGTTAACACCCT 59.237 40.000 11.22 2.41 0.00 4.34
3910 4137 5.995897 ACAAGAGTTACATGTTAACACCCTC 59.004 40.000 11.22 11.15 0.00 4.30
3911 4138 5.161943 AGAGTTACATGTTAACACCCTCC 57.838 43.478 11.22 0.00 0.00 4.30
3912 4139 4.844655 AGAGTTACATGTTAACACCCTCCT 59.155 41.667 11.22 4.60 0.00 3.69
3913 4140 5.046520 AGAGTTACATGTTAACACCCTCCTC 60.047 44.000 11.22 13.11 0.00 3.71
3914 4141 4.595781 AGTTACATGTTAACACCCTCCTCA 59.404 41.667 11.22 0.00 0.00 3.86
3915 4142 5.072600 AGTTACATGTTAACACCCTCCTCAA 59.927 40.000 11.22 0.00 0.00 3.02
3916 4143 3.751518 ACATGTTAACACCCTCCTCAAC 58.248 45.455 11.22 0.00 0.00 3.18
3917 4144 3.394606 ACATGTTAACACCCTCCTCAACT 59.605 43.478 11.22 0.00 0.00 3.16
3918 4145 3.485463 TGTTAACACCCTCCTCAACTG 57.515 47.619 3.59 0.00 0.00 3.16
3919 4146 2.105821 TGTTAACACCCTCCTCAACTGG 59.894 50.000 3.59 0.00 0.00 4.00
3920 4147 1.358152 TAACACCCTCCTCAACTGGG 58.642 55.000 0.00 0.00 46.07 4.45
3921 4148 0.401395 AACACCCTCCTCAACTGGGA 60.401 55.000 4.11 0.00 43.47 4.37
3922 4149 1.128188 ACACCCTCCTCAACTGGGAC 61.128 60.000 4.11 0.00 43.47 4.46
3923 4150 1.913762 ACCCTCCTCAACTGGGACG 60.914 63.158 4.11 0.00 43.47 4.79
3924 4151 2.266055 CCTCCTCAACTGGGACGC 59.734 66.667 0.00 0.00 0.00 5.19
3925 4152 2.266055 CTCCTCAACTGGGACGCC 59.734 66.667 0.00 0.00 0.00 5.68
3926 4153 2.525629 TCCTCAACTGGGACGCCA 60.526 61.111 0.00 0.00 0.00 5.69
3927 4154 1.903877 CTCCTCAACTGGGACGCCAT 61.904 60.000 0.00 0.00 0.00 4.40
3928 4155 1.002134 CCTCAACTGGGACGCCATT 60.002 57.895 0.00 0.00 0.00 3.16
3929 4156 1.308069 CCTCAACTGGGACGCCATTG 61.308 60.000 0.00 0.00 0.00 2.82
3930 4157 1.303236 TCAACTGGGACGCCATTGG 60.303 57.895 0.00 0.00 0.00 3.16
3931 4158 2.035626 AACTGGGACGCCATTGGG 59.964 61.111 4.53 0.00 37.18 4.12
3932 4159 2.840753 AACTGGGACGCCATTGGGT 61.841 57.895 4.53 0.48 40.88 4.51
3933 4160 1.493854 AACTGGGACGCCATTGGGTA 61.494 55.000 4.53 0.00 37.85 3.69
3934 4161 1.153168 CTGGGACGCCATTGGGTAG 60.153 63.158 4.53 0.00 37.85 3.18
3935 4162 2.192175 GGGACGCCATTGGGTAGG 59.808 66.667 4.53 0.00 37.85 3.18
3936 4163 2.372074 GGGACGCCATTGGGTAGGA 61.372 63.158 4.53 0.00 37.85 2.94
3937 4164 1.705997 GGGACGCCATTGGGTAGGAT 61.706 60.000 4.53 0.00 37.85 3.24
3938 4165 0.535102 GGACGCCATTGGGTAGGATG 60.535 60.000 4.53 0.00 37.85 3.51
3947 4395 2.787473 TGGGTAGGATGTTCAAGCTG 57.213 50.000 0.00 0.00 0.00 4.24
3959 4407 1.996292 TCAAGCTGGATCGAAACTCG 58.004 50.000 0.00 0.00 42.10 4.18
3962 4410 1.471119 AGCTGGATCGAAACTCGGTA 58.529 50.000 0.00 0.00 40.88 4.02
3995 4443 3.244582 TGGTAGCCCTTTAGTGAAGACA 58.755 45.455 0.00 0.00 37.57 3.41
4000 4448 2.354805 GCCCTTTAGTGAAGACATCCGT 60.355 50.000 0.00 0.00 37.57 4.69
4004 4452 4.389077 CCTTTAGTGAAGACATCCGTGAAC 59.611 45.833 0.00 0.00 37.57 3.18
4070 4518 2.251075 CGGTCGCGCACAAAATGT 59.749 55.556 8.75 0.00 0.00 2.71
4085 4533 7.165318 CGCACAAAATGTAGATCAATCTCAATG 59.835 37.037 0.00 0.93 38.32 2.82
4103 4551 1.554392 TGTGTTTTGTGCGTTGATGC 58.446 45.000 0.00 0.00 0.00 3.91
4138 4586 1.438651 GCAAGGTATGACGCACTGAA 58.561 50.000 0.00 0.00 0.00 3.02
4148 4596 1.258982 GACGCACTGAAGTTGTCACAG 59.741 52.381 7.42 0.00 37.62 3.66
4151 4599 2.472861 CGCACTGAAGTTGTCACAGTAG 59.527 50.000 0.00 0.00 41.93 2.57
4156 4604 6.162079 CACTGAAGTTGTCACAGTAGATGAT 58.838 40.000 0.00 0.00 41.93 2.45
4162 4610 4.553756 TGTCACAGTAGATGATAGTCGC 57.446 45.455 0.00 0.00 0.00 5.19
4163 4611 3.002348 TGTCACAGTAGATGATAGTCGCG 59.998 47.826 0.00 0.00 0.00 5.87
4164 4612 2.031944 TCACAGTAGATGATAGTCGCGC 60.032 50.000 0.00 0.00 0.00 6.86
4165 4613 1.069838 ACAGTAGATGATAGTCGCGCG 60.070 52.381 26.76 26.76 0.00 6.86
4166 4614 1.069838 CAGTAGATGATAGTCGCGCGT 60.070 52.381 30.98 14.61 0.00 6.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 4.526970 ACAAGTCATCCAACAAAGACAGT 58.473 39.130 0.00 0.00 33.56 3.55
490 491 0.895100 ATCTGGCACGCCACATTGTT 60.895 50.000 6.67 0.00 41.89 2.83
548 549 4.646492 AGGTCAGCTGATTGTCAACTTTTT 59.354 37.500 21.47 0.00 0.00 1.94
584 585 9.794719 ACTTAACTATAAGCTTTCCAGAAGTTT 57.205 29.630 3.20 0.00 41.92 2.66
586 587 9.794719 AAACTTAACTATAAGCTTTCCAGAAGT 57.205 29.630 3.20 5.47 41.92 3.01
950 1080 7.038302 ACTCAGTCTAGTTCATTATGGACCAAA 60.038 37.037 0.00 0.00 0.00 3.28
1543 1674 2.044252 CAGCCTGCCCAATGAGCT 60.044 61.111 0.00 0.00 0.00 4.09
1607 1738 4.017877 GCAAACGCGAGCAGCTGT 62.018 61.111 15.93 1.59 45.59 4.40
1679 1810 1.003355 AGCAAGCACCATGTACGCT 60.003 52.632 0.00 0.00 37.68 5.07
1703 1834 4.478206 TGAGATGAAGATGTGGAAGACC 57.522 45.455 0.00 0.00 0.00 3.85
1724 1855 2.029288 CACGAACACAGCGAGCCAT 61.029 57.895 0.00 0.00 0.00 4.40
1763 1894 3.282271 CTCAGAGTCAGAGCCGCA 58.718 61.111 0.00 0.00 0.00 5.69
1811 1942 0.752658 TCCAGATGATGTACGCCCAG 59.247 55.000 0.00 0.00 0.00 4.45
1997 2128 3.192422 CCAACCTGACAAAGAACACAACA 59.808 43.478 0.00 0.00 0.00 3.33
2009 2140 0.764369 ACCAGAGCTCCAACCTGACA 60.764 55.000 10.93 0.00 0.00 3.58
2010 2141 1.066787 GTACCAGAGCTCCAACCTGAC 60.067 57.143 10.93 0.00 0.00 3.51
2022 2153 2.386661 AATCCTTGCACGTACCAGAG 57.613 50.000 0.00 0.00 0.00 3.35
2298 2467 0.527113 TGATCAGCACGGGCAAAATG 59.473 50.000 14.57 0.00 44.61 2.32
2332 2501 0.096802 CGCGAATGCTGCACAATACA 59.903 50.000 3.57 0.00 39.65 2.29
2593 2762 8.543774 AGGTACTGTATGATCTCTGACAAAATT 58.456 33.333 0.00 0.00 37.18 1.82
2598 2767 6.901300 ACTAGGTACTGTATGATCTCTGACA 58.099 40.000 0.00 0.00 41.52 3.58
3041 3229 2.161012 GTGTCATTGTCATGAGCACAGG 59.839 50.000 0.00 0.00 40.28 4.00
3157 3345 0.038618 CAACCGGTCATCAGACGTCA 60.039 55.000 19.50 0.00 45.92 4.35
3190 3391 1.608590 CTCCTTGCAAACAATGGTCGT 59.391 47.619 0.00 0.00 34.61 4.34
3205 3406 0.472734 ACTCCTGGACAGTGCTCCTT 60.473 55.000 11.48 0.00 0.00 3.36
3215 3421 3.215975 CACCTAGCTACTACTCCTGGAC 58.784 54.545 0.00 0.00 0.00 4.02
3328 3548 2.853542 TTGTCCAGCAGCCAGGGA 60.854 61.111 1.80 0.00 0.00 4.20
3364 3584 4.633126 GCATCATCAAAGTGTAAGAGCTCA 59.367 41.667 17.77 0.00 0.00 4.26
3497 3718 4.398044 TCAAGAAAAATGTAGCGGATTCCC 59.602 41.667 0.00 0.00 0.00 3.97
3585 3807 7.862512 TCATGCAGATTTTTCTTTTGGTTTT 57.137 28.000 0.00 0.00 0.00 2.43
3597 3820 9.146984 CAAACACTATTCATTCATGCAGATTTT 57.853 29.630 0.00 0.00 0.00 1.82
3694 3920 0.179000 GGTTGCCCAGATCAGACGAT 59.821 55.000 0.00 0.00 33.31 3.73
3727 3953 5.419155 AGAATCAATCCACTGTTCTACTCGA 59.581 40.000 0.00 0.00 0.00 4.04
3728 3954 5.655488 AGAATCAATCCACTGTTCTACTCG 58.345 41.667 0.00 0.00 0.00 4.18
3737 3963 6.990341 TTGTGTGATAGAATCAATCCACTG 57.010 37.500 9.27 0.00 41.69 3.66
3750 3976 8.262715 TGTACCATGTTGTAATTGTGTGATAG 57.737 34.615 0.00 0.00 0.00 2.08
3752 3978 6.349280 GCTGTACCATGTTGTAATTGTGTGAT 60.349 38.462 0.00 0.00 0.00 3.06
3766 3993 2.038033 ACGTAAACCTGCTGTACCATGT 59.962 45.455 0.00 0.00 0.00 3.21
3786 4013 0.683504 TCTCCGGGCTTCTCCACTAC 60.684 60.000 0.00 0.00 36.21 2.73
3790 4017 1.870941 TACCTCTCCGGGCTTCTCCA 61.871 60.000 0.00 0.00 36.97 3.86
3828 4055 5.509332 CCCTAGTTTCTAGGATCTTAACCGC 60.509 48.000 20.43 0.00 36.85 5.68
3834 4061 3.970640 CCAGCCCTAGTTTCTAGGATCTT 59.029 47.826 20.43 0.00 36.85 2.40
3867 4094 3.809905 TGTGTTGTAACAGTATGGCACA 58.190 40.909 0.00 0.00 43.62 4.57
3872 4099 8.360325 TGTAACTCTTGTGTTGTAACAGTATG 57.640 34.615 0.00 0.00 40.05 2.39
3874 4101 7.982919 ACATGTAACTCTTGTGTTGTAACAGTA 59.017 33.333 0.00 0.00 40.05 2.74
3892 4119 4.901868 TGAGGAGGGTGTTAACATGTAAC 58.098 43.478 12.26 5.10 0.00 2.50
3899 4126 2.552373 CCCAGTTGAGGAGGGTGTTAAC 60.552 54.545 0.00 0.00 37.81 2.01
3900 4127 1.702957 CCCAGTTGAGGAGGGTGTTAA 59.297 52.381 0.00 0.00 37.81 2.01
3901 4128 1.132657 TCCCAGTTGAGGAGGGTGTTA 60.133 52.381 0.00 0.00 43.31 2.41
3902 4129 0.401395 TCCCAGTTGAGGAGGGTGTT 60.401 55.000 0.00 0.00 43.31 3.32
3903 4130 1.128188 GTCCCAGTTGAGGAGGGTGT 61.128 60.000 0.00 0.00 43.31 4.16
3904 4131 1.679898 GTCCCAGTTGAGGAGGGTG 59.320 63.158 0.00 0.00 43.31 4.61
3905 4132 1.913762 CGTCCCAGTTGAGGAGGGT 60.914 63.158 0.00 0.00 43.31 4.34
3906 4133 2.982130 CGTCCCAGTTGAGGAGGG 59.018 66.667 0.00 0.00 44.22 4.30
3907 4134 2.266055 GCGTCCCAGTTGAGGAGG 59.734 66.667 0.00 0.00 41.28 4.30
3908 4135 1.903877 ATGGCGTCCCAGTTGAGGAG 61.904 60.000 0.00 0.00 46.24 3.69
3909 4136 1.488705 AATGGCGTCCCAGTTGAGGA 61.489 55.000 0.00 0.00 46.24 3.71
3910 4137 1.002134 AATGGCGTCCCAGTTGAGG 60.002 57.895 0.00 0.00 46.24 3.86
3911 4138 1.308069 CCAATGGCGTCCCAGTTGAG 61.308 60.000 0.00 0.00 46.24 3.02
3912 4139 1.303236 CCAATGGCGTCCCAGTTGA 60.303 57.895 0.00 0.00 46.24 3.18
3913 4140 2.342650 CCCAATGGCGTCCCAGTTG 61.343 63.158 0.00 0.00 46.24 3.16
3914 4141 1.493854 TACCCAATGGCGTCCCAGTT 61.494 55.000 0.00 0.00 46.24 3.16
3915 4142 1.910580 CTACCCAATGGCGTCCCAGT 61.911 60.000 0.00 0.00 46.24 4.00
3916 4143 1.153168 CTACCCAATGGCGTCCCAG 60.153 63.158 0.00 0.00 46.24 4.45
3918 4145 1.705997 ATCCTACCCAATGGCGTCCC 61.706 60.000 0.00 0.00 33.59 4.46
3919 4146 0.535102 CATCCTACCCAATGGCGTCC 60.535 60.000 0.00 0.00 33.59 4.79
3920 4147 0.180406 ACATCCTACCCAATGGCGTC 59.820 55.000 0.00 0.00 33.59 5.19
3921 4148 0.623723 AACATCCTACCCAATGGCGT 59.376 50.000 0.00 0.00 33.59 5.68
3922 4149 1.308998 GAACATCCTACCCAATGGCG 58.691 55.000 0.00 0.00 33.59 5.69
3923 4150 2.435372 TGAACATCCTACCCAATGGC 57.565 50.000 0.00 0.00 33.59 4.40
3924 4151 2.689983 GCTTGAACATCCTACCCAATGG 59.310 50.000 0.00 0.00 37.80 3.16
3925 4152 3.379372 CAGCTTGAACATCCTACCCAATG 59.621 47.826 0.00 0.00 0.00 2.82
3926 4153 3.624777 CAGCTTGAACATCCTACCCAAT 58.375 45.455 0.00 0.00 0.00 3.16
3927 4154 2.290896 CCAGCTTGAACATCCTACCCAA 60.291 50.000 0.00 0.00 0.00 4.12
3928 4155 1.281867 CCAGCTTGAACATCCTACCCA 59.718 52.381 0.00 0.00 0.00 4.51
3929 4156 1.559682 TCCAGCTTGAACATCCTACCC 59.440 52.381 0.00 0.00 0.00 3.69
3930 4157 3.471680 GATCCAGCTTGAACATCCTACC 58.528 50.000 0.00 0.00 0.00 3.18
3931 4158 3.126831 CGATCCAGCTTGAACATCCTAC 58.873 50.000 0.00 0.00 0.00 3.18
3932 4159 3.031013 TCGATCCAGCTTGAACATCCTA 58.969 45.455 0.00 0.00 0.00 2.94
3933 4160 1.833630 TCGATCCAGCTTGAACATCCT 59.166 47.619 0.00 0.00 0.00 3.24
3934 4161 2.315925 TCGATCCAGCTTGAACATCC 57.684 50.000 0.00 0.00 0.00 3.51
3935 4162 3.686726 AGTTTCGATCCAGCTTGAACATC 59.313 43.478 0.00 0.00 0.00 3.06
3936 4163 3.679389 AGTTTCGATCCAGCTTGAACAT 58.321 40.909 0.00 0.00 0.00 2.71
3937 4164 3.067106 GAGTTTCGATCCAGCTTGAACA 58.933 45.455 0.00 0.00 0.00 3.18
3938 4165 2.092838 CGAGTTTCGATCCAGCTTGAAC 59.907 50.000 0.00 0.00 43.74 3.18
3947 4395 2.669924 GGTGTTTACCGAGTTTCGATCC 59.330 50.000 0.00 0.00 43.74 3.36
3977 4425 3.132289 CGGATGTCTTCACTAAAGGGCTA 59.868 47.826 0.00 0.00 35.54 3.93
3995 4443 0.036952 CCAGCTCACAGTTCACGGAT 60.037 55.000 0.00 0.00 0.00 4.18
4000 4448 1.059098 ACCATCCAGCTCACAGTTCA 58.941 50.000 0.00 0.00 0.00 3.18
4004 4452 0.532573 ACGTACCATCCAGCTCACAG 59.467 55.000 0.00 0.00 0.00 3.66
4058 4506 4.913376 AGATTGATCTACATTTTGTGCGC 58.087 39.130 0.00 0.00 34.85 6.09
4059 4507 6.110543 TGAGATTGATCTACATTTTGTGCG 57.889 37.500 0.00 0.00 37.25 5.34
4070 4518 7.307694 GCACAAAACACATTGAGATTGATCTA 58.692 34.615 0.00 0.00 37.25 1.98
4085 4533 1.518102 CAGCATCAACGCACAAAACAC 59.482 47.619 0.00 0.00 0.00 3.32
4103 4551 0.251916 TTGCCTCCAATCCGGTACAG 59.748 55.000 0.00 0.00 35.57 2.74
4138 4586 5.449314 GCGACTATCATCTACTGTGACAACT 60.449 44.000 0.00 0.00 0.00 3.16
4148 4596 3.749936 ACGCGCGACTATCATCTAC 57.250 52.632 39.36 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.