Multiple sequence alignment - TraesCS7B01G118800

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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 TraesCS7B01G118800 chr7B 100.000 2467 0 0 1 2467 138249595 138252061 0.000000e+00 4556
1 TraesCS7B01G118800 chr7B 100.000 1663 0 0 2680 4342 138252274 138253936 0.000000e+00 3072
2 TraesCS7B01G118800 chr7D 92.147 2496 104 34 1 2467 172252427 172254859 0.000000e+00 3439
3 TraesCS7B01G118800 chr7D 91.494 1011 67 10 3090 4095 172255439 172256435 0.000000e+00 1373
4 TraesCS7B01G118800 chr7D 96.742 399 13 0 2681 3079 172254873 172255271 0.000000e+00 665
5 TraesCS7B01G118800 chr7D 84.914 232 21 10 4106 4333 172256498 172256719 5.650000e-54 222
6 TraesCS7B01G118800 chr7A 92.291 2309 83 30 207 2467 174912618 174914879 0.000000e+00 3190
7 TraesCS7B01G118800 chr7A 92.626 1424 75 10 2681 4097 174914893 174916293 0.000000e+00 2021
8 TraesCS7B01G118800 chr7A 85.185 243 20 11 4105 4342 174916353 174916584 7.260000e-58 235
9 TraesCS7B01G118800 chr7A 88.182 110 12 1 5 114 174911959 174912067 3.520000e-26 130


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 TraesCS7B01G118800 chr7B 138249595 138253936 4341 False 3814.00 4556 100.00000 1 4342 2 chr7B.!!$F1 4341
1 TraesCS7B01G118800 chr7D 172252427 172256719 4292 False 1424.75 3439 91.32425 1 4333 4 chr7D.!!$F1 4332
2 TraesCS7B01G118800 chr7A 174911959 174916584 4625 False 1394.00 3190 89.57100 5 4342 4 chr7A.!!$F1 4337

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
951 1438 0.039074 GCGCCGCATCTCATACTAGT 60.039 55.000 3.15 0.0 0.00 2.57 F
1227 1715 0.095245 CCAACACGAACGCTATGCTG 59.905 55.000 0.00 0.0 0.00 4.41 F
1314 1802 0.394352 AGTCGGGGTTCATGGATTGC 60.394 55.000 0.00 0.0 0.00 3.56 F
1710 2200 0.902531 GAAGGATCGTGGGGTGAAGA 59.097 55.000 0.00 0.0 0.00 2.87 F
1823 2313 1.420138 ACATCCAGAAAGTCCAACGGT 59.580 47.619 0.00 0.0 0.00 4.83 F
3083 3622 2.095853 GTGTGGTAGTACATGCACATGC 59.904 50.000 10.50 0.0 42.39 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2241 2779 2.016318 TCATCCAGCATAACGGCTTTG 58.984 47.619 0.0 0.0 42.71 2.77 R
2429 2968 2.792116 GCGCTCTATGTTGAAGTCTAGC 59.208 50.000 0.0 0.0 0.00 3.42 R
3287 3989 1.569072 AGGGTAAAAGGCATCCCGATT 59.431 47.619 0.0 0.0 44.13 3.34 R
3290 3992 1.847328 AAAGGGTAAAAGGCATCCCG 58.153 50.000 0.0 0.0 44.13 5.14 R
3338 4040 2.880890 GGTTGCGGAATCTATTGCTCAT 59.119 45.455 0.0 0.0 0.00 2.90 R
4013 4725 0.316522 AGATGAGGCGATCACGATGG 59.683 55.000 0.0 0.0 41.91 3.51 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
20 21 2.689785 ATGTGGCACATGGCGTTCG 61.690 57.895 30.96 0.00 44.52 3.95
31 32 2.423898 GGCGTTCGAGGAGGGATCA 61.424 63.158 0.00 0.00 0.00 2.92
33 34 1.668101 GCGTTCGAGGAGGGATCAGT 61.668 60.000 0.00 0.00 0.00 3.41
56 57 3.092511 ATCATGCGGCCAGGAGGT 61.093 61.111 2.24 0.00 34.96 3.85
67 68 2.524394 AGGAGGTGCGTGTGGTCT 60.524 61.111 0.00 0.00 0.00 3.85
130 338 8.006298 CCAGCATTTGGGTACTTATCATTTTA 57.994 34.615 0.00 0.00 43.75 1.52
132 347 7.643764 CAGCATTTGGGTACTTATCATTTTACG 59.356 37.037 0.00 0.00 0.00 3.18
151 366 7.909777 TTTACGAAATAAACATCGCAAACAA 57.090 28.000 0.00 0.00 0.00 2.83
155 370 6.795114 ACGAAATAAACATCGCAAACAAGTAG 59.205 34.615 0.00 0.00 0.00 2.57
156 371 6.795114 CGAAATAAACATCGCAAACAAGTAGT 59.205 34.615 0.00 0.00 0.00 2.73
278 747 0.527385 GAGCGTGAGATCTCTGCACC 60.527 60.000 29.61 21.04 44.58 5.01
309 778 8.851960 TGCTGTCTACTCGTATTTATTTACAG 57.148 34.615 0.00 0.00 35.02 2.74
321 791 9.221775 CGTATTTATTTACAGGCAAAAGATCAC 57.778 33.333 0.00 0.00 0.00 3.06
331 801 6.206634 ACAGGCAAAAGATCACGATTTCTTAA 59.793 34.615 0.00 0.00 32.05 1.85
373 843 7.499321 AAAGTATACGTGTTCACCAAAATCA 57.501 32.000 0.00 0.00 0.00 2.57
506 990 1.469940 CGATGCGCCTCTGAAGTAGTT 60.470 52.381 4.18 0.00 0.00 2.24
722 1206 0.455410 GAGGTATGCGCATTTTGCCA 59.545 50.000 30.42 6.13 41.12 4.92
734 1218 2.747396 TTTTGCCATCCAGTGATTGC 57.253 45.000 0.00 0.00 39.48 3.56
735 1219 1.927487 TTTGCCATCCAGTGATTGCT 58.073 45.000 0.00 0.00 39.68 3.91
868 1355 1.144936 CGGCTCACTGGATTCCCTC 59.855 63.158 0.00 0.00 0.00 4.30
927 1414 0.680061 GTCGAGGGTTTGAGGTCTGT 59.320 55.000 0.00 0.00 0.00 3.41
951 1438 0.039074 GCGCCGCATCTCATACTAGT 60.039 55.000 3.15 0.00 0.00 2.57
1152 1640 4.528039 CTGGCCGCCATGGGGAAT 62.528 66.667 29.29 0.00 37.91 3.01
1227 1715 0.095245 CCAACACGAACGCTATGCTG 59.905 55.000 0.00 0.00 0.00 4.41
1251 1739 1.070289 GGACACCAGTTCTCCTCGTTT 59.930 52.381 0.00 0.00 0.00 3.60
1314 1802 0.394352 AGTCGGGGTTCATGGATTGC 60.394 55.000 0.00 0.00 0.00 3.56
1489 1977 2.492012 GTGATAGGCAGCAAGGAGATG 58.508 52.381 0.00 0.00 36.50 2.90
1551 2039 3.241530 AAGCCGGAGTGCAGTGGA 61.242 61.111 5.05 0.00 0.00 4.02
1554 2042 3.314331 CCGGAGTGCAGTGGAGGT 61.314 66.667 0.00 0.00 0.00 3.85
1681 2171 7.598869 TCGATTTCGATGGAACTTAGAATATGG 59.401 37.037 0.00 0.00 44.22 2.74
1690 2180 8.561738 TGGAACTTAGAATATGGTTTTCTCAC 57.438 34.615 0.00 0.00 35.19 3.51
1710 2200 0.902531 GAAGGATCGTGGGGTGAAGA 59.097 55.000 0.00 0.00 0.00 2.87
1823 2313 1.420138 ACATCCAGAAAGTCCAACGGT 59.580 47.619 0.00 0.00 0.00 4.83
1963 2453 7.848128 TCTTCCCTGAACTACTTTTATCGAAT 58.152 34.615 0.00 0.00 0.00 3.34
1964 2454 7.764443 TCTTCCCTGAACTACTTTTATCGAATG 59.236 37.037 0.00 0.00 0.00 2.67
1965 2455 6.942976 TCCCTGAACTACTTTTATCGAATGT 58.057 36.000 0.00 0.00 0.00 2.71
1966 2456 6.816640 TCCCTGAACTACTTTTATCGAATGTG 59.183 38.462 0.00 0.00 0.00 3.21
1967 2457 6.037172 CCCTGAACTACTTTTATCGAATGTGG 59.963 42.308 0.00 0.00 32.40 4.17
1968 2458 6.594159 CCTGAACTACTTTTATCGAATGTGGT 59.406 38.462 0.00 0.00 38.28 4.16
1969 2459 7.762615 CCTGAACTACTTTTATCGAATGTGGTA 59.237 37.037 0.00 0.00 36.52 3.25
1970 2460 8.697846 TGAACTACTTTTATCGAATGTGGTAG 57.302 34.615 13.06 13.06 36.52 3.18
2116 2654 9.331282 ACTTCTTAACTATCTCCACATTATTGC 57.669 33.333 0.00 0.00 0.00 3.56
2117 2655 8.677148 TTCTTAACTATCTCCACATTATTGCC 57.323 34.615 0.00 0.00 0.00 4.52
2118 2656 7.801104 TCTTAACTATCTCCACATTATTGCCA 58.199 34.615 0.00 0.00 0.00 4.92
2119 2657 8.439971 TCTTAACTATCTCCACATTATTGCCAT 58.560 33.333 0.00 0.00 0.00 4.40
2120 2658 9.725019 CTTAACTATCTCCACATTATTGCCATA 57.275 33.333 0.00 0.00 0.00 2.74
2121 2659 9.725019 TTAACTATCTCCACATTATTGCCATAG 57.275 33.333 0.00 0.00 0.00 2.23
2122 2660 7.559335 ACTATCTCCACATTATTGCCATAGA 57.441 36.000 0.00 0.00 0.00 1.98
2123 2661 7.977818 ACTATCTCCACATTATTGCCATAGAA 58.022 34.615 0.00 0.00 0.00 2.10
2124 2662 8.439971 ACTATCTCCACATTATTGCCATAGAAA 58.560 33.333 0.00 0.00 0.00 2.52
2125 2663 9.288576 CTATCTCCACATTATTGCCATAGAAAA 57.711 33.333 0.00 0.00 0.00 2.29
2126 2664 7.953005 TCTCCACATTATTGCCATAGAAAAA 57.047 32.000 0.00 0.00 0.00 1.94
2127 2665 7.771183 TCTCCACATTATTGCCATAGAAAAAC 58.229 34.615 0.00 0.00 0.00 2.43
2128 2666 7.615365 TCTCCACATTATTGCCATAGAAAAACT 59.385 33.333 0.00 0.00 0.00 2.66
2129 2667 8.133024 TCCACATTATTGCCATAGAAAAACTT 57.867 30.769 0.00 0.00 0.00 2.66
2130 2668 9.249053 TCCACATTATTGCCATAGAAAAACTTA 57.751 29.630 0.00 0.00 0.00 2.24
2131 2669 9.301153 CCACATTATTGCCATAGAAAAACTTAC 57.699 33.333 0.00 0.00 0.00 2.34
2241 2779 5.852282 AAATTGTATACCAGGTCATTGGC 57.148 39.130 0.00 0.00 42.18 4.52
2864 3403 2.401583 TGCACAGCATCGTAAATCCT 57.598 45.000 0.00 0.00 31.71 3.24
2882 3421 3.262911 TGCCGATGCATTTGGAAGA 57.737 47.368 19.84 3.24 44.23 2.87
2978 3517 7.484140 CCTATGTTTCTCATTTTAAGCCCTTC 58.516 38.462 0.00 0.00 37.91 3.46
3054 3593 5.836024 TTTCCAATAGACCTACCACAGTT 57.164 39.130 0.00 0.00 0.00 3.16
3079 3618 4.932799 TGTATTGTGTGGTAGTACATGCAC 59.067 41.667 2.06 8.12 32.43 4.57
3080 3619 3.477210 TTGTGTGGTAGTACATGCACA 57.523 42.857 15.25 15.25 35.43 4.57
3081 3620 3.694043 TGTGTGGTAGTACATGCACAT 57.306 42.857 15.25 0.00 32.79 3.21
3082 3621 3.333804 TGTGTGGTAGTACATGCACATG 58.666 45.455 15.25 9.06 44.15 3.21
3083 3622 2.095853 GTGTGGTAGTACATGCACATGC 59.904 50.000 10.50 0.00 42.39 4.06
3364 4066 2.936498 CAATAGATTCCGCAACCGAAGT 59.064 45.455 0.00 0.00 36.29 3.01
3457 4160 4.568359 CGCATTTGAGCACTGAAGTATAGT 59.432 41.667 0.00 0.00 0.00 2.12
3509 4214 5.220989 CCAATACTGGAATCAGCACTTGATG 60.221 44.000 0.00 0.00 46.92 3.07
3575 4280 2.415608 GCTGGAGATCCGACCGTCA 61.416 63.158 0.00 0.00 39.43 4.35
3609 4314 5.967674 CGTGGAGATTTCAAGCATTACATTC 59.032 40.000 0.00 0.00 0.00 2.67
3610 4315 6.183360 CGTGGAGATTTCAAGCATTACATTCT 60.183 38.462 0.00 0.00 0.00 2.40
3611 4316 7.192232 GTGGAGATTTCAAGCATTACATTCTC 58.808 38.462 0.00 0.00 0.00 2.87
3781 4493 4.461781 ACTCCGCGGTATAATATAACAGCT 59.538 41.667 27.15 0.00 35.09 4.24
3785 4497 5.636121 CCGCGGTATAATATAACAGCTTTCA 59.364 40.000 19.50 0.00 35.09 2.69
3808 4520 9.891828 TTCAATTTGTTAGTTGCTAGTATTGTG 57.108 29.630 0.00 0.00 0.00 3.33
3809 4521 9.278978 TCAATTTGTTAGTTGCTAGTATTGTGA 57.721 29.630 0.00 0.00 0.00 3.58
3810 4522 9.329913 CAATTTGTTAGTTGCTAGTATTGTGAC 57.670 33.333 0.00 0.00 0.00 3.67
3852 4564 6.058833 TCTTTGTTGTACTTCTATGGTTGCA 58.941 36.000 0.00 0.00 0.00 4.08
3853 4565 6.714810 TCTTTGTTGTACTTCTATGGTTGCAT 59.285 34.615 0.00 0.00 0.00 3.96
3957 4669 5.393962 GTGATTATGTGTGGAAGAAACAGC 58.606 41.667 0.00 0.00 0.00 4.40
3968 4680 3.369451 GGAAGAAACAGCGAAGACATCTC 59.631 47.826 0.00 0.00 0.00 2.75
3969 4681 3.951775 AGAAACAGCGAAGACATCTCT 57.048 42.857 0.00 0.00 0.00 3.10
3988 4700 9.447157 ACATCTCTTCTTCTAGAATTCCAAAAG 57.553 33.333 5.44 3.64 33.13 2.27
4001 4713 4.911514 TTCCAAAAGAAACTGTAGGCAC 57.088 40.909 0.00 0.00 0.00 5.01
4002 4714 4.164843 TCCAAAAGAAACTGTAGGCACT 57.835 40.909 0.00 0.00 46.37 4.40
4007 4719 3.560636 AGAAACTGTAGGCACTTGTGT 57.439 42.857 2.61 0.00 41.75 3.72
4008 4720 3.206150 AGAAACTGTAGGCACTTGTGTG 58.794 45.455 2.61 0.00 46.37 3.82
4013 4725 3.815401 ACTGTAGGCACTTGTGTGATTTC 59.185 43.478 2.61 0.00 46.55 2.17
4036 4748 1.476488 TCGTGATCGCCTCATCTGAAA 59.524 47.619 0.00 0.00 35.97 2.69
4047 4759 5.371526 GCCTCATCTGAAATTGGATAGTCA 58.628 41.667 0.00 0.00 0.00 3.41
4058 4770 7.977293 TGAAATTGGATAGTCAATGAAAGCATG 59.023 33.333 0.00 0.00 37.42 4.06
4061 4773 4.337274 TGGATAGTCAATGAAAGCATGCAG 59.663 41.667 21.98 0.41 34.26 4.41
4091 4803 5.351928 CGAATCTCGTTTCGTCGAATTTA 57.648 39.130 8.78 0.00 42.63 1.40
4097 4809 5.116074 TCTCGTTTCGTCGAATTTACTCAAC 59.884 40.000 8.78 0.42 39.34 3.18
4098 4810 4.739228 TCGTTTCGTCGAATTTACTCAACA 59.261 37.500 8.78 0.00 36.89 3.33
4099 4811 5.231779 TCGTTTCGTCGAATTTACTCAACAA 59.768 36.000 8.78 0.00 36.89 2.83
4100 4812 5.555191 CGTTTCGTCGAATTTACTCAACAAG 59.445 40.000 8.78 0.00 0.00 3.16
4101 4813 5.585500 TTCGTCGAATTTACTCAACAAGG 57.415 39.130 2.90 0.00 0.00 3.61
4117 4881 3.243724 ACAAGGGAGTAGTTCTGAAGCT 58.756 45.455 0.00 0.00 0.00 3.74
4123 4887 5.186215 AGGGAGTAGTTCTGAAGCTAGTTTC 59.814 44.000 12.05 12.05 0.00 2.78
4141 4905 6.734104 AGTTTCAAGTGAGCACAATATCTC 57.266 37.500 3.19 0.00 0.00 2.75
4147 4911 3.935203 AGTGAGCACAATATCTCAAACCG 59.065 43.478 3.19 0.00 40.57 4.44
4148 4912 2.677836 TGAGCACAATATCTCAAACCGC 59.322 45.455 0.00 0.00 36.50 5.68
4150 4914 3.282021 AGCACAATATCTCAAACCGCAT 58.718 40.909 0.00 0.00 0.00 4.73
4151 4915 3.313526 AGCACAATATCTCAAACCGCATC 59.686 43.478 0.00 0.00 0.00 3.91
4152 4916 3.313526 GCACAATATCTCAAACCGCATCT 59.686 43.478 0.00 0.00 0.00 2.90
4153 4917 4.511454 GCACAATATCTCAAACCGCATCTA 59.489 41.667 0.00 0.00 0.00 1.98
4154 4918 5.180117 GCACAATATCTCAAACCGCATCTAT 59.820 40.000 0.00 0.00 0.00 1.98
4155 4919 6.619446 GCACAATATCTCAAACCGCATCTATC 60.619 42.308 0.00 0.00 0.00 2.08
4156 4920 6.648310 CACAATATCTCAAACCGCATCTATCT 59.352 38.462 0.00 0.00 0.00 1.98
4157 4921 6.648310 ACAATATCTCAAACCGCATCTATCTG 59.352 38.462 0.00 0.00 0.00 2.90
4158 4922 4.944619 ATCTCAAACCGCATCTATCTGA 57.055 40.909 0.00 0.00 0.00 3.27
4159 4923 4.736126 TCTCAAACCGCATCTATCTGAA 57.264 40.909 0.00 0.00 0.00 3.02
4160 4924 5.084818 TCTCAAACCGCATCTATCTGAAA 57.915 39.130 0.00 0.00 0.00 2.69
4161 4925 5.487433 TCTCAAACCGCATCTATCTGAAAA 58.513 37.500 0.00 0.00 0.00 2.29
4162 4926 5.937540 TCTCAAACCGCATCTATCTGAAAAA 59.062 36.000 0.00 0.00 0.00 1.94
4163 4927 6.599244 TCTCAAACCGCATCTATCTGAAAAAT 59.401 34.615 0.00 0.00 0.00 1.82
4179 4943 8.511604 TCTGAAAAATATCTCAAATGAGTCCC 57.488 34.615 10.06 0.00 42.60 4.46
4185 4949 1.347707 TCTCAAATGAGTCCCGCAACT 59.652 47.619 10.06 0.00 42.60 3.16
4186 4950 2.154462 CTCAAATGAGTCCCGCAACTT 58.846 47.619 2.18 0.00 37.40 2.66
4187 4951 1.879380 TCAAATGAGTCCCGCAACTTG 59.121 47.619 0.00 0.00 0.00 3.16
4188 4952 1.608590 CAAATGAGTCCCGCAACTTGT 59.391 47.619 0.00 0.00 0.00 3.16
4189 4953 1.238439 AATGAGTCCCGCAACTTGTG 58.762 50.000 0.00 0.00 0.00 3.33
4223 4998 9.409312 CATACAATTTTGCAGTACATCTTTTCA 57.591 29.630 0.00 0.00 0.00 2.69
4308 5084 9.292195 CCTTAATTACACCCTAAGAAGACAAAA 57.708 33.333 0.00 0.00 0.00 2.44
4315 5091 6.318900 ACACCCTAAGAAGACAAAACAAGAAG 59.681 38.462 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.353029 CGAACGCCATGTGCCACA 61.353 61.111 0.00 0.00 36.24 4.17
20 21 4.219115 TGATCTTGTACTGATCCCTCCTC 58.781 47.826 19.35 3.48 39.48 3.71
31 32 0.541392 TGGCCGCATGATCTTGTACT 59.459 50.000 10.05 0.00 0.00 2.73
33 34 0.179048 CCTGGCCGCATGATCTTGTA 60.179 55.000 10.05 0.00 0.00 2.41
56 57 0.240145 CGAGTTCTAGACCACACGCA 59.760 55.000 0.00 0.00 0.00 5.24
67 68 3.374220 TTTTTGCCGTCTCGAGTTCTA 57.626 42.857 13.13 0.00 0.00 2.10
124 332 8.420945 TGTTTGCGATGTTTATTTCGTAAAATG 58.579 29.630 9.49 0.00 46.26 2.32
130 338 5.516090 ACTTGTTTGCGATGTTTATTTCGT 58.484 33.333 0.00 0.00 37.66 3.85
132 347 9.262472 CTACTACTTGTTTGCGATGTTTATTTC 57.738 33.333 0.00 0.00 0.00 2.17
151 366 4.833478 TTGAGACGGAGGTACTACTACT 57.167 45.455 0.00 0.00 41.55 2.57
220 689 2.805671 CAACAGTGTTGCTCCGTGATAA 59.194 45.455 22.33 0.00 0.00 1.75
222 691 1.229428 CAACAGTGTTGCTCCGTGAT 58.771 50.000 22.33 0.00 0.00 3.06
223 692 0.107897 ACAACAGTGTTGCTCCGTGA 60.108 50.000 31.20 0.00 32.58 4.35
225 694 1.095228 CCACAACAGTGTTGCTCCGT 61.095 55.000 31.20 12.45 35.07 4.69
226 695 1.648720 CCACAACAGTGTTGCTCCG 59.351 57.895 31.20 18.57 35.07 4.63
278 747 0.681564 ACGAGTAGACAGCAGGGAGG 60.682 60.000 0.00 0.00 0.00 4.30
309 778 8.466086 AAATTAAGAAATCGTGATCTTTTGCC 57.534 30.769 0.00 0.00 37.16 4.52
347 817 9.221933 TGATTTTGGTGAACACGTATACTTTAT 57.778 29.630 0.56 0.00 0.00 1.40
352 822 5.179742 TGGTGATTTTGGTGAACACGTATAC 59.820 40.000 0.00 0.00 33.08 1.47
357 827 3.564511 GATGGTGATTTTGGTGAACACG 58.435 45.455 0.00 0.00 33.08 4.49
358 828 3.320541 TGGATGGTGATTTTGGTGAACAC 59.679 43.478 0.00 0.00 0.00 3.32
359 829 3.570540 TGGATGGTGATTTTGGTGAACA 58.429 40.909 0.00 0.00 0.00 3.18
362 832 3.098377 CCATGGATGGTGATTTTGGTGA 58.902 45.455 5.56 0.00 43.05 4.02
363 833 3.530265 CCATGGATGGTGATTTTGGTG 57.470 47.619 5.56 0.00 43.05 4.17
506 990 1.048601 GGACACTTGACTGGAGTGGA 58.951 55.000 8.86 0.00 46.77 4.02
722 1206 2.173569 GGGGTCTAAGCAATCACTGGAT 59.826 50.000 0.00 0.00 34.43 3.41
734 1218 4.547671 TCTAGAGGTCAATGGGGTCTAAG 58.452 47.826 0.00 0.00 0.00 2.18
735 1219 4.620086 TCTAGAGGTCAATGGGGTCTAA 57.380 45.455 0.00 0.00 0.00 2.10
868 1355 1.600957 CACAGGGATGCATCGCTTAAG 59.399 52.381 35.96 27.89 46.37 1.85
927 1414 1.805428 TATGAGATGCGGCGCTGCTA 61.805 55.000 38.42 25.97 35.36 3.49
951 1438 3.383620 AATCTGCGATGCCAACAAAAA 57.616 38.095 0.00 0.00 0.00 1.94
1152 1640 0.326238 ATAAGCCAGGAGGGAACGGA 60.326 55.000 0.00 0.00 40.01 4.69
1227 1715 2.675317 CGAGGAGAACTGGTGTCCATTC 60.675 54.545 11.87 0.00 30.82 2.67
1251 1739 4.421365 GCTGACAGCATCCCCAAA 57.579 55.556 22.62 0.00 41.89 3.28
1272 1760 4.619227 CCGGGATATGCGGGCGTT 62.619 66.667 7.89 0.00 0.00 4.84
1467 1955 0.543277 CTCCTTGCTGCCTATCACCA 59.457 55.000 0.00 0.00 0.00 4.17
1489 1977 0.320771 ACACCATGTGAACTCTCGGC 60.321 55.000 0.49 0.00 36.96 5.54
1551 2039 0.617413 CTTCATCCTGACCAGCACCT 59.383 55.000 0.00 0.00 0.00 4.00
1554 2042 1.993653 CCCTTCATCCTGACCAGCA 59.006 57.895 0.00 0.00 0.00 4.41
1710 2200 3.084786 GCTGGCTTCCTTCTTGTACATT 58.915 45.455 0.00 0.00 0.00 2.71
1823 2313 7.012704 GCATCAGATTTATCCTCAGTTTGCTTA 59.987 37.037 0.00 0.00 0.00 3.09
1963 2453 7.670605 AATAGCTAGAAATACCACTACCACA 57.329 36.000 0.00 0.00 0.00 4.17
1964 2454 9.694137 CTAAATAGCTAGAAATACCACTACCAC 57.306 37.037 0.00 0.00 0.00 4.16
1965 2455 8.365647 GCTAAATAGCTAGAAATACCACTACCA 58.634 37.037 5.19 0.00 45.62 3.25
1966 2456 8.760103 GCTAAATAGCTAGAAATACCACTACC 57.240 38.462 5.19 0.00 45.62 3.18
2115 2653 5.289434 GCATGCAAGTAAGTTTTTCTATGGC 59.711 40.000 14.21 0.00 0.00 4.40
2116 2654 6.624423 AGCATGCAAGTAAGTTTTTCTATGG 58.376 36.000 21.98 0.00 0.00 2.74
2117 2655 9.624697 TTTAGCATGCAAGTAAGTTTTTCTATG 57.375 29.630 21.98 0.00 0.00 2.23
2119 2657 9.624697 CATTTAGCATGCAAGTAAGTTTTTCTA 57.375 29.630 21.98 0.00 0.00 2.10
2120 2658 8.359642 TCATTTAGCATGCAAGTAAGTTTTTCT 58.640 29.630 21.98 0.00 0.00 2.52
2121 2659 8.519492 TCATTTAGCATGCAAGTAAGTTTTTC 57.481 30.769 21.98 0.00 0.00 2.29
2122 2660 7.599998 CCTCATTTAGCATGCAAGTAAGTTTTT 59.400 33.333 21.98 0.00 0.00 1.94
2123 2661 7.039784 TCCTCATTTAGCATGCAAGTAAGTTTT 60.040 33.333 21.98 0.00 0.00 2.43
2124 2662 6.434028 TCCTCATTTAGCATGCAAGTAAGTTT 59.566 34.615 21.98 0.00 0.00 2.66
2125 2663 5.945784 TCCTCATTTAGCATGCAAGTAAGTT 59.054 36.000 21.98 0.00 0.00 2.66
2126 2664 5.500234 TCCTCATTTAGCATGCAAGTAAGT 58.500 37.500 21.98 3.92 0.00 2.24
2127 2665 6.094603 ACTTCCTCATTTAGCATGCAAGTAAG 59.905 38.462 21.98 11.99 0.00 2.34
2128 2666 5.945784 ACTTCCTCATTTAGCATGCAAGTAA 59.054 36.000 21.98 7.14 0.00 2.24
2129 2667 5.500234 ACTTCCTCATTTAGCATGCAAGTA 58.500 37.500 21.98 0.00 0.00 2.24
2130 2668 4.338879 ACTTCCTCATTTAGCATGCAAGT 58.661 39.130 21.98 13.90 0.00 3.16
2131 2669 4.397103 TGACTTCCTCATTTAGCATGCAAG 59.603 41.667 21.98 13.24 0.00 4.01
2132 2670 4.334552 TGACTTCCTCATTTAGCATGCAA 58.665 39.130 21.98 6.70 0.00 4.08
2241 2779 2.016318 TCATCCAGCATAACGGCTTTG 58.984 47.619 0.00 0.00 42.71 2.77
2429 2968 2.792116 GCGCTCTATGTTGAAGTCTAGC 59.208 50.000 0.00 0.00 0.00 3.42
2708 3247 8.584157 ACATATATCAGCACAAGGAAAACAAAA 58.416 29.630 0.00 0.00 0.00 2.44
2882 3421 2.835764 TCCTACCGGAGCATTTGTTACT 59.164 45.455 9.46 0.00 33.30 2.24
2978 3517 7.092079 TGTCCATCAATCTAGCATTTGTTTTG 58.908 34.615 0.00 0.00 0.00 2.44
3054 3593 5.046950 TGCATGTACTACCACACAATACAGA 60.047 40.000 0.00 0.00 0.00 3.41
3287 3989 1.569072 AGGGTAAAAGGCATCCCGATT 59.431 47.619 0.00 0.00 44.13 3.34
3290 3992 1.847328 AAAGGGTAAAAGGCATCCCG 58.153 50.000 0.00 0.00 44.13 5.14
3338 4040 2.880890 GGTTGCGGAATCTATTGCTCAT 59.119 45.455 0.00 0.00 0.00 2.90
3364 4066 4.832823 TCTCATGGCCGTTATGATCTCTTA 59.167 41.667 4.80 0.00 34.33 2.10
3457 4160 6.078202 TCAACAATTAAGCAATTTGGACGA 57.922 33.333 0.00 0.00 31.82 4.20
3586 4291 7.093322 AGAATGTAATGCTTGAAATCTCCAC 57.907 36.000 0.00 0.00 0.00 4.02
3609 4314 9.367444 AGTTATACACGTAAATTTTCAGAGGAG 57.633 33.333 0.00 0.00 0.00 3.69
3785 4497 9.284968 AGTCACAATACTAGCAACTAACAAATT 57.715 29.630 0.00 0.00 0.00 1.82
3807 4519 6.662865 AGAATCTTCTTTCACTCTCAGTCA 57.337 37.500 0.00 0.00 32.55 3.41
3852 4564 8.651389 AGTACACAGTTCTATATGGTTGCATAT 58.349 33.333 0.00 0.00 0.00 1.78
3853 4565 7.926018 CAGTACACAGTTCTATATGGTTGCATA 59.074 37.037 0.00 0.00 0.00 3.14
3968 4680 9.890352 CAGTTTCTTTTGGAATTCTAGAAGAAG 57.110 33.333 25.92 16.83 37.69 2.85
3969 4681 9.408648 ACAGTTTCTTTTGGAATTCTAGAAGAA 57.591 29.630 24.60 24.60 38.78 2.52
3975 4687 7.001674 TGCCTACAGTTTCTTTTGGAATTCTA 58.998 34.615 5.23 0.00 33.53 2.10
3988 4700 3.202906 TCACACAAGTGCCTACAGTTTC 58.797 45.455 0.00 0.00 45.49 2.78
3991 4703 3.492102 AATCACACAAGTGCCTACAGT 57.508 42.857 0.00 0.00 45.49 3.55
4001 4713 4.493057 CGATCACGATGGAAATCACACAAG 60.493 45.833 0.00 0.00 42.66 3.16
4002 4714 3.370672 CGATCACGATGGAAATCACACAA 59.629 43.478 0.00 0.00 42.66 3.33
4007 4719 1.138859 AGGCGATCACGATGGAAATCA 59.861 47.619 0.00 0.00 42.66 2.57
4008 4720 1.795286 GAGGCGATCACGATGGAAATC 59.205 52.381 0.00 0.00 42.66 2.17
4013 4725 0.316522 AGATGAGGCGATCACGATGG 59.683 55.000 0.00 0.00 41.91 3.51
4036 4748 5.361571 TGCATGCTTTCATTGACTATCCAAT 59.638 36.000 20.33 0.00 37.24 3.16
4047 4759 3.921677 CAGTTTCCTGCATGCTTTCATT 58.078 40.909 20.33 0.00 0.00 2.57
4061 4773 2.472397 CGAAACGAGATTCGCAGTTTCC 60.472 50.000 20.29 10.90 45.52 3.13
4083 4795 5.223449 ACTCCCTTGTTGAGTAAATTCGA 57.777 39.130 0.00 0.00 41.17 3.71
4091 4803 4.223953 TCAGAACTACTCCCTTGTTGAGT 58.776 43.478 0.00 0.00 44.85 3.41
4097 4809 3.971245 AGCTTCAGAACTACTCCCTTG 57.029 47.619 0.00 0.00 0.00 3.61
4098 4810 4.679331 ACTAGCTTCAGAACTACTCCCTT 58.321 43.478 0.00 0.00 0.00 3.95
4099 4811 4.325084 ACTAGCTTCAGAACTACTCCCT 57.675 45.455 0.00 0.00 0.00 4.20
4100 4812 5.047235 TGAAACTAGCTTCAGAACTACTCCC 60.047 44.000 4.43 0.00 31.67 4.30
4101 4813 6.026947 TGAAACTAGCTTCAGAACTACTCC 57.973 41.667 4.43 0.00 31.67 3.85
4117 4881 7.386059 TGAGATATTGTGCTCACTTGAAACTA 58.614 34.615 1.47 0.00 36.31 2.24
4123 4887 5.634896 GGTTTGAGATATTGTGCTCACTTG 58.365 41.667 0.00 0.00 40.57 3.16
4141 4905 8.562892 AGATATTTTTCAGATAGATGCGGTTTG 58.437 33.333 0.00 0.00 0.00 2.93
4153 4917 9.129532 GGGACTCATTTGAGATATTTTTCAGAT 57.870 33.333 14.29 0.00 44.74 2.90
4154 4918 7.280876 CGGGACTCATTTGAGATATTTTTCAGA 59.719 37.037 14.29 0.00 44.74 3.27
4155 4919 7.412853 CGGGACTCATTTGAGATATTTTTCAG 58.587 38.462 14.29 0.00 44.74 3.02
4156 4920 6.183360 GCGGGACTCATTTGAGATATTTTTCA 60.183 38.462 14.29 0.00 44.74 2.69
4157 4921 6.183360 TGCGGGACTCATTTGAGATATTTTTC 60.183 38.462 14.29 0.00 44.74 2.29
4158 4922 5.652014 TGCGGGACTCATTTGAGATATTTTT 59.348 36.000 14.29 0.00 44.74 1.94
4159 4923 5.192927 TGCGGGACTCATTTGAGATATTTT 58.807 37.500 14.29 0.00 44.74 1.82
4160 4924 4.780815 TGCGGGACTCATTTGAGATATTT 58.219 39.130 14.29 0.00 44.74 1.40
4161 4925 4.422073 TGCGGGACTCATTTGAGATATT 57.578 40.909 14.29 0.00 44.74 1.28
4162 4926 4.130118 GTTGCGGGACTCATTTGAGATAT 58.870 43.478 14.29 0.00 44.74 1.63
4163 4927 3.197766 AGTTGCGGGACTCATTTGAGATA 59.802 43.478 14.29 0.00 44.74 1.98
4185 4949 6.098679 GCAAAATTGTATGTATCCAGCACAA 58.901 36.000 0.00 0.00 35.29 3.33
4186 4950 5.184671 TGCAAAATTGTATGTATCCAGCACA 59.815 36.000 0.00 0.00 0.00 4.57
4187 4951 5.649557 TGCAAAATTGTATGTATCCAGCAC 58.350 37.500 0.00 0.00 0.00 4.40
4188 4952 5.418524 ACTGCAAAATTGTATGTATCCAGCA 59.581 36.000 0.00 0.00 0.00 4.41
4189 4953 5.894807 ACTGCAAAATTGTATGTATCCAGC 58.105 37.500 0.00 0.00 0.00 4.85
4223 4998 3.445987 TGGTTGGTTTGGGTTTTTCTCT 58.554 40.909 0.00 0.00 0.00 3.10
4315 5091 9.227777 GTGGGTATGGATATGTATAGTTTTTCC 57.772 37.037 0.00 0.00 0.00 3.13


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

AutoCloner maintained by Alex Coulton.