Multiple sequence alignment - TraesCS6B01G263100

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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 TraesCS6B01G263100 chr6B 100.000 5036 0 0 1 5036 474172211 474177246 0.000000e+00 9300
1 TraesCS6B01G263100 chr6A 94.134 5080 191 44 1 5036 442392086 442397102 0.000000e+00 7631
2 TraesCS6B01G263100 chr6D 90.427 2789 155 50 1 2746 306703098 306705817 0.000000e+00 3568
3 TraesCS6B01G263100 chr6D 93.277 1547 88 11 3494 5032 306707971 306709509 0.000000e+00 2266
4 TraesCS6B01G263100 chr6D 95.277 487 18 2 3016 3501 306707254 306707736 0.000000e+00 767
5 TraesCS6B01G263100 chr3D 90.909 165 15 0 3476 3640 479627066 479626902 6.560000e-54 222
6 TraesCS6B01G263100 chrUn 90.303 165 16 0 3479 3643 96474145 96473981 3.050000e-52 217
7 TraesCS6B01G263100 chr7B 90.361 166 15 1 3478 3643 428829536 428829372 3.050000e-52 217
8 TraesCS6B01G263100 chr7B 89.017 173 18 1 3471 3642 682239962 682239790 3.950000e-51 213
9 TraesCS6B01G263100 chr5D 90.741 162 15 0 3479 3640 529218327 529218166 3.050000e-52 217
10 TraesCS6B01G263100 chr2D 90.741 162 15 0 3479 3640 498473158 498472997 3.050000e-52 217
11 TraesCS6B01G263100 chr3A 90.123 162 16 0 3479 3640 500525141 500524980 1.420000e-50 211


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 TraesCS6B01G263100 chr6B 474172211 474177246 5035 False 9300.000000 9300 100.000000 1 5036 1 chr6B.!!$F1 5035
1 TraesCS6B01G263100 chr6A 442392086 442397102 5016 False 7631.000000 7631 94.134000 1 5036 1 chr6A.!!$F1 5035
2 TraesCS6B01G263100 chr6D 306703098 306709509 6411 False 2200.333333 3568 92.993667 1 5032 3 chr6D.!!$F1 5031


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
364 381 0.033504 TTTCAGCTCCTCGGTGTGTC 59.966 55.000 0.00 0.00 41.76 3.67 F
1275 1323 0.321564 TGTTGACGGGATCCTGCTTG 60.322 55.000 21.17 3.88 0.00 4.01 F
1741 1800 1.676967 CTTCCTGCAGGCCAACTCC 60.677 63.158 28.91 0.00 34.44 3.85 F
2828 4196 0.244450 ATTGCTTGCGACCAATGGTG 59.756 50.000 10.84 3.38 35.25 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1345 1395 0.322008 GTGCCAGACCCTCCTGAAAG 60.322 60.0 0.00 0.0 36.29 2.62 R
2827 4195 0.965866 CTCACGTAGCTCCACCTCCA 60.966 60.0 0.00 0.0 0.00 3.86 R
3428 4798 0.035317 ATCTTGTGACGCAGAGGCAA 59.965 50.0 0.00 0.0 41.33 4.52 R
4444 6060 0.397957 GTTGTGGGTCCCCTTTTGGT 60.398 55.0 5.13 0.0 38.10 3.67 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
87 90 2.221799 CGTAGCACGTTGCCTTTAAC 57.778 50.000 6.39 0.00 46.52 2.01
101 104 5.165676 TGCCTTTAACTATACACGTCACAG 58.834 41.667 0.00 0.00 0.00 3.66
177 181 0.615331 TCAGCTCATCACCTCCAACC 59.385 55.000 0.00 0.00 0.00 3.77
194 198 1.229658 CCCCAAGACCAGGAGGACT 60.230 63.158 0.00 0.00 41.82 3.85
239 249 8.434589 TCTACTTCCCCAAATCAAATCAAATT 57.565 30.769 0.00 0.00 0.00 1.82
244 254 6.237154 TCCCCAAATCAAATCAAATTCCAAC 58.763 36.000 0.00 0.00 0.00 3.77
268 282 2.020720 CGAGAGCTCCTTCTAGAAGCA 58.979 52.381 24.58 11.45 37.11 3.91
293 310 2.766313 ACGTATCTTTGCTGCAAGACA 58.234 42.857 15.39 3.95 34.07 3.41
301 318 0.308684 TGCTGCAAGACAAAGAAGCG 59.691 50.000 0.00 0.00 34.07 4.68
340 357 9.150028 AGATTAAGGTACCTCTTATTTCTCTCC 57.850 37.037 16.64 0.00 0.00 3.71
364 381 0.033504 TTTCAGCTCCTCGGTGTGTC 59.966 55.000 0.00 0.00 41.76 3.67
370 401 1.248486 CTCCTCGGTGTGTCTTCAGA 58.752 55.000 0.00 0.00 0.00 3.27
389 420 2.558359 AGAAAACCCTTCCATTGCTTCG 59.442 45.455 0.00 0.00 0.00 3.79
459 493 3.045601 TGAGACCTAGCACTGCTTTTC 57.954 47.619 9.30 3.68 40.44 2.29
537 571 1.995376 ACCCCAACTTGACACCATTC 58.005 50.000 0.00 0.00 0.00 2.67
664 701 2.749621 CAGGAACAAGCGAGGCTAATTT 59.250 45.455 0.00 0.00 38.25 1.82
665 702 3.191371 CAGGAACAAGCGAGGCTAATTTT 59.809 43.478 0.00 0.00 38.25 1.82
698 735 3.819564 TCCGGTTCAGATTATCAGTGG 57.180 47.619 0.00 0.00 0.00 4.00
701 738 2.170607 CGGTTCAGATTATCAGTGGGGT 59.829 50.000 0.00 0.00 0.00 4.95
833 873 2.652590 GATCTCCATGCTTGCTTCCTT 58.347 47.619 0.00 0.00 0.00 3.36
844 884 0.884704 TGCTTCCTTGCCACTTCGTC 60.885 55.000 0.00 0.00 0.00 4.20
856 896 1.134901 CTTCGTCTCCTGGTCGTCG 59.865 63.158 0.00 0.00 0.00 5.12
924 964 5.515886 CCACAGGTTCCTTGGGATAAACTTA 60.516 44.000 10.23 0.00 0.00 2.24
933 973 7.475299 TCCTTGGGATAAACTTATTTCCTTGT 58.525 34.615 0.00 0.00 0.00 3.16
937 984 8.950007 TGGGATAAACTTATTTCCTTGTTCTT 57.050 30.769 0.00 0.00 0.00 2.52
998 1046 0.949397 CGTGCAGATAGGGTAGCGTA 59.051 55.000 0.00 0.00 0.00 4.42
1025 1073 2.106683 GTGGGGCGTCGAAATGGAG 61.107 63.158 0.00 0.00 0.00 3.86
1028 1076 2.513897 GGCGTCGAAATGGAGGGG 60.514 66.667 0.00 0.00 0.00 4.79
1062 1110 3.330720 CGGGGGAGGCCAAGAAGT 61.331 66.667 5.01 0.00 0.00 3.01
1089 1137 2.572284 GTGGTCGTCTTCCTCCCG 59.428 66.667 0.00 0.00 0.00 5.14
1095 1143 3.471806 GTCTTCCTCCCGGGGCTC 61.472 72.222 23.50 0.70 35.33 4.70
1096 1144 4.798682 TCTTCCTCCCGGGGCTCC 62.799 72.222 23.50 0.00 35.33 4.70
1134 1182 0.606944 ACTTCTCGCAGTCTCTCGGT 60.607 55.000 0.00 0.00 0.00 4.69
1170 1218 2.118513 ACGGTGGAGAGGCTGTCT 59.881 61.111 11.79 0.00 38.71 3.41
1171 1219 1.534235 ACGGTGGAGAGGCTGTCTT 60.534 57.895 11.79 0.00 34.71 3.01
1189 1237 3.057456 GTCTTCTCTAAGAGCAACGGTCA 60.057 47.826 0.00 0.00 42.40 4.02
1275 1323 0.321564 TGTTGACGGGATCCTGCTTG 60.322 55.000 21.17 3.88 0.00 4.01
1300 1348 3.006217 TGCTAGCCTGCTACATATGTGAG 59.994 47.826 18.81 12.12 0.00 3.51
1500 1550 7.446319 TGTTTTCTGACTGATTCATCATGAGTT 59.554 33.333 0.09 0.00 36.02 3.01
1514 1564 2.857186 TGAGTTATGTTGCAGGCAGA 57.143 45.000 0.00 0.00 0.00 4.26
1515 1565 3.138884 TGAGTTATGTTGCAGGCAGAA 57.861 42.857 0.00 0.00 0.00 3.02
1516 1566 2.813754 TGAGTTATGTTGCAGGCAGAAC 59.186 45.455 17.48 17.48 38.06 3.01
1517 1567 3.077359 GAGTTATGTTGCAGGCAGAACT 58.923 45.455 23.82 23.82 46.77 3.01
1518 1568 2.816087 AGTTATGTTGCAGGCAGAACTG 59.184 45.455 23.31 0.00 43.82 3.16
1519 1569 1.825090 TATGTTGCAGGCAGAACTGG 58.175 50.000 3.99 0.00 38.90 4.00
1625 1684 6.387192 TCAGAGATGATCCCTTGGTAAAAA 57.613 37.500 0.00 0.00 0.00 1.94
1741 1800 1.676967 CTTCCTGCAGGCCAACTCC 60.677 63.158 28.91 0.00 34.44 3.85
1750 1809 1.676967 GGCCAACTCCCTGCTTCTG 60.677 63.158 0.00 0.00 0.00 3.02
1768 1827 2.331805 CCGAGGTCATACGGCGAG 59.668 66.667 16.62 2.72 42.55 5.03
1797 1856 1.884067 GCCAAGGGTCTCTGAAGGTTG 60.884 57.143 0.00 0.00 0.00 3.77
1827 1886 6.570692 TCGGTACTTACATCTTGGATTCTTC 58.429 40.000 0.00 0.00 0.00 2.87
1887 1946 2.800544 ACTGCTAAGTGCTAACAACACG 59.199 45.455 0.00 0.00 42.94 4.49
2120 2181 3.566322 CACTCCCGGTAGATCTAGTTGAG 59.434 52.174 0.00 9.33 0.00 3.02
2170 2231 2.038557 GACTTGGCCAGGTACTCTTCAA 59.961 50.000 22.06 0.00 34.60 2.69
2249 2324 7.693969 ATTCTTAACCTCATCCAAAACTGAG 57.306 36.000 0.00 0.00 38.88 3.35
2498 2573 7.275920 TCTCAGATCTATTTTCAAGGGCTTAC 58.724 38.462 0.00 0.00 0.00 2.34
2547 2622 7.182361 TCTTTCGCATCATACTTCATCATTC 57.818 36.000 0.00 0.00 0.00 2.67
2549 2624 8.143835 TCTTTCGCATCATACTTCATCATTCTA 58.856 33.333 0.00 0.00 0.00 2.10
2572 2647 5.594724 TTTTTGCATTCAACAGCTATTGC 57.405 34.783 0.00 0.00 33.69 3.56
2576 2651 3.129113 TGCATTCAACAGCTATTGCGAAT 59.871 39.130 0.00 0.00 45.42 3.34
2679 2755 4.502645 GCGAAAAAGCACACACTATTTGTT 59.497 37.500 0.00 0.00 34.75 2.83
2731 2807 6.540914 GTGCATACCAGCTTACCACTATTTTA 59.459 38.462 0.00 0.00 34.99 1.52
2827 4195 1.832883 TATTGCTTGCGACCAATGGT 58.167 45.000 3.74 3.74 39.44 3.55
2828 4196 0.244450 ATTGCTTGCGACCAATGGTG 59.756 50.000 10.84 3.38 35.25 4.17
2903 4271 0.611714 GAACTAGGGCGTGAGGGAAA 59.388 55.000 0.00 0.00 0.00 3.13
2963 4332 1.279496 TTGTGCCTCTGCCACTAGAT 58.721 50.000 0.00 0.00 36.33 1.98
2988 4357 7.777095 TGCAACCTTACATATCCCATTTAAAC 58.223 34.615 0.00 0.00 0.00 2.01
3388 4758 2.952310 GGCGCAAGGAGGAAATAATTCT 59.048 45.455 10.83 0.00 34.96 2.40
3427 4797 9.956720 ATTTGAAAGCTATTGTTGCATAGTATC 57.043 29.630 0.00 0.00 0.00 2.24
3428 4798 8.737168 TTGAAAGCTATTGTTGCATAGTATCT 57.263 30.769 0.00 0.00 0.00 1.98
3429 4799 8.737168 TGAAAGCTATTGTTGCATAGTATCTT 57.263 30.769 0.00 0.00 0.00 2.40
3437 4807 3.117491 TGCATAGTATCTTGCCTCTGC 57.883 47.619 0.00 0.00 38.08 4.26
3550 5162 2.420022 ACATACGGAGCAAAATGAGTGC 59.580 45.455 0.00 0.00 42.55 4.40
3608 5220 8.135529 TGTATGTAGTCCGTATTGAAATCTCTG 58.864 37.037 0.00 0.00 0.00 3.35
3614 5227 7.386851 AGTCCGTATTGAAATCTCTGAAAAGA 58.613 34.615 0.00 0.00 0.00 2.52
3756 5369 4.524328 GGAACAACCAAACATCTCTTGGAT 59.476 41.667 8.54 0.00 45.31 3.41
3786 5399 5.415701 CCCAAAAGAGACATTAAGCAAGCTA 59.584 40.000 0.00 0.00 0.00 3.32
4004 5618 5.012893 GGAATATGAGCTTCCCCAATTAGG 58.987 45.833 0.00 0.00 36.89 2.69
4008 5622 1.828224 GCTTCCCCAATTAGGCCCG 60.828 63.158 0.00 0.00 35.39 6.13
4037 5651 7.490657 TGAAGAAGGAAGCTAACCACTAATA 57.509 36.000 11.59 0.95 0.00 0.98
4066 5680 2.185004 TACCAAGCTCAGGCAAGAAC 57.815 50.000 5.13 0.00 41.70 3.01
4116 5730 1.333619 TCCGCAGCTGAAAAAGAACAC 59.666 47.619 20.43 0.00 0.00 3.32
4375 5991 1.145598 CTCATCCGGTGCTGCTCAT 59.854 57.895 0.00 0.00 0.00 2.90
4678 6297 2.993545 TGAAGTGCACGCAAATAACAC 58.006 42.857 12.01 0.00 0.00 3.32
4721 6340 6.049955 AGAATTCTTCACGAAGGACCATAA 57.950 37.500 0.88 0.00 38.88 1.90
4722 6341 6.653989 AGAATTCTTCACGAAGGACCATAAT 58.346 36.000 0.88 0.00 38.88 1.28
4993 6614 8.547967 TGATTTGTAATCTCCTCAACAACTAC 57.452 34.615 0.00 0.00 31.92 2.73
4995 6616 9.167311 GATTTGTAATCTCCTCAACAACTACAT 57.833 33.333 0.00 0.00 31.92 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 90 8.912787 AAAATCTAGAACTGTGACGTGTATAG 57.087 34.615 0.00 0.00 0.00 1.31
101 104 7.387122 AGGGAAACGAGTTGTAAAATCTAGAAC 59.613 37.037 0.00 0.00 39.08 3.01
177 181 1.068121 AAAGTCCTCCTGGTCTTGGG 58.932 55.000 0.00 0.00 40.02 4.12
194 198 3.134081 AGAACTGGAGGAGAACGAACAAA 59.866 43.478 0.00 0.00 0.00 2.83
239 249 0.827925 AGGAGCTCTCGTGTGTTGGA 60.828 55.000 14.64 0.00 0.00 3.53
244 254 2.360844 TCTAGAAGGAGCTCTCGTGTG 58.639 52.381 14.64 1.04 0.00 3.82
268 282 5.749109 GTCTTGCAGCAAAGATACGTACTAT 59.251 40.000 9.65 0.00 38.41 2.12
293 310 1.965930 TCGCATGTGCCGCTTCTTT 60.966 52.632 0.00 0.00 37.91 2.52
301 318 2.223340 CCTTAATCTTGTCGCATGTGCC 60.223 50.000 0.00 0.00 37.91 5.01
340 357 1.470098 CACCGAGGAGCTGAAAATTGG 59.530 52.381 0.00 0.00 0.00 3.16
364 381 3.575687 AGCAATGGAAGGGTTTTCTGAAG 59.424 43.478 0.00 0.00 0.00 3.02
370 401 2.558359 CTCGAAGCAATGGAAGGGTTTT 59.442 45.455 0.00 0.00 0.00 2.43
389 420 1.518792 GCCCCGCTAGTTTCGTCTC 60.519 63.158 0.00 0.00 0.00 3.36
423 454 3.129502 CATGGTGCACGGAGCTGG 61.130 66.667 11.45 0.00 45.94 4.85
459 493 0.727970 AGTACTCGTACTGCTGCTCG 59.272 55.000 8.82 1.22 44.11 5.03
537 571 2.945008 ACAAAGCATATGACATGACGGG 59.055 45.455 6.97 0.00 0.00 5.28
785 822 2.315925 ACACGCACCCTGATTGATAG 57.684 50.000 0.00 0.00 0.00 2.08
786 823 2.779755 AACACGCACCCTGATTGATA 57.220 45.000 0.00 0.00 0.00 2.15
788 825 1.234821 GAAACACGCACCCTGATTGA 58.765 50.000 0.00 0.00 0.00 2.57
789 826 0.240945 GGAAACACGCACCCTGATTG 59.759 55.000 0.00 0.00 0.00 2.67
844 884 1.524863 AAGACACCGACGACCAGGAG 61.525 60.000 0.00 0.00 0.00 3.69
924 964 6.122277 TGTGAAGACTGAAGAACAAGGAAAT 58.878 36.000 0.00 0.00 0.00 2.17
933 973 3.118261 AGCTGGTTGTGAAGACTGAAGAA 60.118 43.478 0.00 0.00 0.00 2.52
937 984 1.762370 TCAGCTGGTTGTGAAGACTGA 59.238 47.619 15.13 0.00 0.00 3.41
998 1046 3.860930 GACGCCCCACAACCCATGT 62.861 63.158 0.00 0.00 45.34 3.21
1062 1110 4.608774 ACGACCACCTCCCCGACA 62.609 66.667 0.00 0.00 0.00 4.35
1089 1137 2.523657 CTAGGTACCCGGAGCCCC 60.524 72.222 8.74 0.00 0.00 5.80
1095 1143 0.536006 CTACGGTCCTAGGTACCCGG 60.536 65.000 28.28 10.00 44.57 5.73
1096 1144 0.469917 TCTACGGTCCTAGGTACCCG 59.530 60.000 25.41 25.41 45.72 5.28
1104 1152 1.065926 TGCGAGAAGTCTACGGTCCTA 60.066 52.381 0.00 0.00 0.00 2.94
1107 1155 0.803740 ACTGCGAGAAGTCTACGGTC 59.196 55.000 0.00 0.00 0.00 4.79
1134 1182 1.067565 GTGCTCTTGTCGAGGTGATCA 60.068 52.381 0.00 0.00 40.25 2.92
1170 1218 3.509967 TCATGACCGTTGCTCTTAGAGAA 59.490 43.478 14.14 0.00 0.00 2.87
1171 1219 3.089284 TCATGACCGTTGCTCTTAGAGA 58.911 45.455 14.14 0.00 0.00 3.10
1189 1237 1.855295 TCCTGCATTGCCATTGTCAT 58.145 45.000 6.12 0.00 0.00 3.06
1259 1307 2.989639 CCAAGCAGGATCCCGTCA 59.010 61.111 8.55 0.00 41.22 4.35
1262 1310 2.515523 CAGCCAAGCAGGATCCCG 60.516 66.667 8.55 0.00 41.22 5.14
1345 1395 0.322008 GTGCCAGACCCTCCTGAAAG 60.322 60.000 0.00 0.00 36.29 2.62
1392 1442 1.137872 CCTAGCAGAACTGGCAGGTAG 59.862 57.143 20.34 9.81 33.22 3.18
1456 1506 9.097257 CAGAAAACACCATCATAAAAACAAAGT 57.903 29.630 0.00 0.00 0.00 2.66
1500 1550 1.825090 CCAGTTCTGCCTGCAACATA 58.175 50.000 0.00 0.00 0.00 2.29
1514 1564 4.494484 GTTTCTCAAACAAACTGCCAGTT 58.506 39.130 3.74 3.74 40.80 3.16
1515 1565 4.110036 GTTTCTCAAACAAACTGCCAGT 57.890 40.909 0.00 0.00 41.04 4.00
1528 1578 5.132897 ACAAACTGCACTTTGTTTCTCAA 57.867 34.783 15.98 0.00 40.72 3.02
1640 1699 1.542915 CTCCTGCAACCAAACCATGAG 59.457 52.381 0.00 0.00 0.00 2.90
1672 1731 1.561076 AGCACCTCATACCAAGCATCA 59.439 47.619 0.00 0.00 0.00 3.07
1741 1800 2.125350 GACCTCGGCAGAAGCAGG 60.125 66.667 0.00 0.00 44.61 4.85
1780 1839 1.700186 GACCAACCTTCAGAGACCCTT 59.300 52.381 0.00 0.00 0.00 3.95
1786 1845 2.289694 ACCGAATGACCAACCTTCAGAG 60.290 50.000 0.00 0.00 0.00 3.35
1797 1856 4.809426 CCAAGATGTAAGTACCGAATGACC 59.191 45.833 0.00 0.00 0.00 4.02
2012 2073 9.553064 AGCTTCATAAACTGATATAACCAAGAG 57.447 33.333 0.00 0.00 32.72 2.85
2186 2247 8.816640 ATTTGTCCTTATACTTTGCAAAACAG 57.183 30.769 13.84 4.09 0.00 3.16
2249 2324 4.153117 CCAATGTGACAGAGTTGAAGTAGC 59.847 45.833 0.00 0.00 0.00 3.58
2498 2573 3.062763 GACCCATATGCTCATGACTTCG 58.937 50.000 0.00 0.00 0.00 3.79
2547 2622 7.396419 GCAATAGCTGTTGAATGCAAAAATAG 58.604 34.615 25.48 0.00 35.03 1.73
2549 2624 5.163933 CGCAATAGCTGTTGAATGCAAAAAT 60.164 36.000 25.48 0.00 39.10 1.82
2817 4184 1.377202 CCACCTCCACCATTGGTCG 60.377 63.158 5.04 0.00 44.35 4.79
2827 4195 0.965866 CTCACGTAGCTCCACCTCCA 60.966 60.000 0.00 0.00 0.00 3.86
2828 4196 1.668101 CCTCACGTAGCTCCACCTCC 61.668 65.000 0.00 0.00 0.00 4.30
2829 4197 1.668101 CCCTCACGTAGCTCCACCTC 61.668 65.000 0.00 0.00 0.00 3.85
2830 4198 1.682684 CCCTCACGTAGCTCCACCT 60.683 63.158 0.00 0.00 0.00 4.00
2831 4199 2.893398 CCCTCACGTAGCTCCACC 59.107 66.667 0.00 0.00 0.00 4.61
2832 4200 2.167398 TTGCCCTCACGTAGCTCCAC 62.167 60.000 0.00 0.00 0.00 4.02
2903 4271 3.897505 AGGCTAAGGTGAGCACAAATTTT 59.102 39.130 2.75 0.00 44.76 1.82
2906 4274 2.440409 CAGGCTAAGGTGAGCACAAAT 58.560 47.619 2.75 0.00 44.76 2.32
2963 4332 7.617723 AGTTTAAATGGGATATGTAAGGTTGCA 59.382 33.333 0.00 0.00 0.00 4.08
2988 4357 3.993081 GTGTGATCTGGTGAAGACTTCAG 59.007 47.826 18.24 7.31 41.01 3.02
3388 4758 3.614092 CTTTCAAATAGCAGGCTCCTCA 58.386 45.455 0.00 0.00 0.00 3.86
3426 4796 0.601046 CTTGTGACGCAGAGGCAAGA 60.601 55.000 0.00 0.00 41.33 3.02
3427 4797 0.601046 TCTTGTGACGCAGAGGCAAG 60.601 55.000 0.00 0.00 41.33 4.01
3428 4798 0.035317 ATCTTGTGACGCAGAGGCAA 59.965 50.000 0.00 0.00 41.33 4.52
3429 4799 0.671472 CATCTTGTGACGCAGAGGCA 60.671 55.000 0.00 0.00 41.24 4.75
3437 4807 0.110509 GCTGTGTGCATCTTGTGACG 60.111 55.000 0.00 0.00 42.31 4.35
3756 5369 7.345691 TGCTTAATGTCTCTTTTGGGATCATA 58.654 34.615 0.00 0.00 0.00 2.15
3786 5399 5.514310 GGTGTTAAGGTCCTGGTTATTCTGT 60.514 44.000 0.00 0.00 0.00 3.41
3835 5448 7.935405 AGGTAAATAATTGTCACCCCTTCTAA 58.065 34.615 3.25 0.00 0.00 2.10
3909 5523 4.732106 CGGCTGACTCCGGTATTC 57.268 61.111 0.00 0.00 45.38 1.75
4004 5618 0.889186 TTCCTTCTTCAACAGCGGGC 60.889 55.000 0.00 0.00 0.00 6.13
4008 5622 3.189495 GGTTAGCTTCCTTCTTCAACAGC 59.811 47.826 0.00 0.00 0.00 4.40
4037 5651 3.564225 CCTGAGCTTGGTAACGAAACTTT 59.436 43.478 0.00 0.00 42.51 2.66
4116 5730 6.145535 GTCCTCTAAAGTGTTGCAGAATTTG 58.854 40.000 4.12 0.00 0.00 2.32
4345 5961 4.336280 CACCGGATGAGAGGATATACTGA 58.664 47.826 9.46 0.00 0.00 3.41
4375 5991 7.122650 GGACTGAAATCCATCCTGTGATTTTAA 59.877 37.037 0.00 0.00 38.77 1.52
4444 6060 0.397957 GTTGTGGGTCCCCTTTTGGT 60.398 55.000 5.13 0.00 38.10 3.67
4575 6191 6.251163 CACCATGTTTCAAAATATGTACTGCG 59.749 38.462 10.18 0.00 36.23 5.18
4663 6282 2.376956 GAAACGTGTTATTTGCGTGCA 58.623 42.857 0.00 0.00 38.92 4.57
4928 6549 3.314307 TTCCTCATATGTCCGACCTCT 57.686 47.619 1.90 0.00 0.00 3.69



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

AutoCloner maintained by Alex Coulton.