Multiple sequence alignment - TraesCS4B01G279800

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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 TraesCS4B01G279800 chr4B 100.000 4403 0 0 302 4704 562704200 562708602 0.000000e+00 8131.0
1 TraesCS4B01G279800 chr4B 100.000 143 0 0 1 143 562703899 562704041 1.000000e-66 265.0
2 TraesCS4B01G279800 chr4D 93.607 2268 81 23 2462 4701 449979574 449981805 0.000000e+00 3326.0
3 TraesCS4B01G279800 chr4D 95.639 1697 38 8 752 2431 449977902 449979579 0.000000e+00 2691.0
4 TraesCS4B01G279800 chr4D 92.944 411 28 1 302 711 449977493 449977903 8.710000e-167 597.0
5 TraesCS4B01G279800 chr4D 87.195 328 35 6 2913 3236 20872392 20872068 2.670000e-97 366.0
6 TraesCS4B01G279800 chr4D 91.034 145 10 2 1 143 449977331 449977474 4.800000e-45 193.0
7 TraesCS4B01G279800 chr4D 86.620 142 18 1 4094 4235 393641770 393641630 6.300000e-34 156.0
8 TraesCS4B01G279800 chr4A 91.257 2379 136 28 1680 4005 16971505 16969146 0.000000e+00 3175.0
9 TraesCS4B01G279800 chr4A 83.385 650 69 16 313 959 16973277 16972664 2.460000e-157 566.0
10 TraesCS4B01G279800 chr4A 93.093 333 21 1 4374 4704 16968986 16968654 1.970000e-133 486.0
11 TraesCS4B01G279800 chr4A 85.809 451 37 17 1074 1520 16972158 16971731 2.000000e-123 453.0
12 TraesCS4B01G279800 chr4A 89.726 146 10 3 1 143 16973654 16973511 1.040000e-41 182.0
13 TraesCS4B01G279800 chr4A 96.296 54 2 0 4254 4307 16969143 16969090 6.480000e-14 89.8
14 TraesCS4B01G279800 chr3A 84.069 634 65 14 2674 3278 562943808 562944434 3.160000e-161 579.0
15 TraesCS4B01G279800 chr5D 93.243 148 10 0 4092 4239 469406939 469407086 7.930000e-53 219.0
16 TraesCS4B01G279800 chr2A 90.909 154 14 0 4084 4237 618282657 618282810 1.720000e-49 207.0
17 TraesCS4B01G279800 chr6D 91.241 137 12 0 4098 4234 365723290 365723154 2.230000e-43 187.0
18 TraesCS4B01G279800 chr7A 88.028 142 16 1 4094 4235 66252522 66252382 2.910000e-37 167.0


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 TraesCS4B01G279800 chr4B 562703899 562708602 4703 False 4198.00 8131 100.000000 1 4704 2 chr4B.!!$F1 4703
1 TraesCS4B01G279800 chr4D 449977331 449981805 4474 False 1701.75 3326 93.306000 1 4701 4 chr4D.!!$F1 4700
2 TraesCS4B01G279800 chr4A 16968654 16973654 5000 True 825.30 3175 89.927667 1 4704 6 chr4A.!!$R1 4703
3 TraesCS4B01G279800 chr3A 562943808 562944434 626 False 579.00 579 84.069000 2674 3278 1 chr3A.!!$F1 604

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
877 976 0.031314 ATTCGCACGATCGCATCTCT 59.969 50.000 16.60 0.0 0.0 3.10 F
881 980 0.248825 GCACGATCGCATCTCTCTGT 60.249 55.000 16.60 0.0 0.0 3.41 F
1492 1988 1.208535 TCGTTAGAAATGGCATCGGGT 59.791 47.619 0.00 0.0 0.0 5.28 F
2724 3318 1.135199 TCGTACGTTCCAGATGCCTTC 60.135 52.381 16.05 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2531 3125 1.544724 TATGAAGGCAGCCAAACCAC 58.455 50.000 15.80 0.0 0.00 4.16 R
2724 3318 1.939934 TGGAAGAGTGTGAACGCAAAG 59.060 47.619 0.00 0.0 0.00 2.77 R
3075 3698 1.607801 GCCCTGCCTGAATTGGGTTC 61.608 60.000 0.00 0.0 41.59 3.62 R
4580 5269 0.031043 TGCATGCTTCTGTGTTGCAC 59.969 50.000 20.33 0.0 38.32 4.57 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
76 80 0.601057 ACACACATCCACGTCATCGA 59.399 50.000 0.00 0.00 40.62 3.59
89 93 2.531206 GTCATCGACTCAGCAAGGTAC 58.469 52.381 0.00 0.00 0.00 3.34
94 98 0.685097 GACTCAGCAAGGTACCACCA 59.315 55.000 15.94 0.00 41.95 4.17
102 107 2.938838 CAAGGTACCACCACCAAGAAA 58.061 47.619 15.94 0.00 41.95 2.52
350 419 1.544691 AGTATTGTCGCAACGAGGACT 59.455 47.619 0.00 0.00 36.23 3.85
461 531 7.801547 AAATTTATCACTGAAACGAAGCATG 57.198 32.000 0.00 0.00 0.00 4.06
493 563 0.754217 CCCCATCCTTCGACGTCCTA 60.754 60.000 10.58 0.00 0.00 2.94
499 569 1.808945 TCCTTCGACGTCCTAACAGAC 59.191 52.381 10.58 0.00 0.00 3.51
506 576 2.200052 GTCCTAACAGACGGAGGGG 58.800 63.158 0.00 0.00 0.00 4.79
640 710 8.855330 GTGTGTCTTCATACGTTTACAAATAC 57.145 34.615 0.00 0.00 0.00 1.89
645 715 7.638683 GTCTTCATACGTTTACAAATACCATGC 59.361 37.037 0.00 0.00 0.00 4.06
653 723 6.419413 CGTTTACAAATACCATGCACTTTTGT 59.581 34.615 14.60 14.60 41.76 2.83
679 749 7.494625 TGATTCTTCGCCTTATTCGTAAATCTT 59.505 33.333 0.00 0.00 0.00 2.40
680 750 6.583912 TCTTCGCCTTATTCGTAAATCTTG 57.416 37.500 0.00 0.00 0.00 3.02
684 754 4.025145 CGCCTTATTCGTAAATCTTGGTCC 60.025 45.833 0.00 0.00 0.00 4.46
695 765 4.989279 AATCTTGGTCCGAATTTCATGG 57.011 40.909 0.00 0.00 0.00 3.66
696 766 2.091541 TCTTGGTCCGAATTTCATGGC 58.908 47.619 0.00 0.00 0.00 4.40
711 807 3.296854 TCATGGCCTTCACTCGTACTAT 58.703 45.455 3.32 0.00 0.00 2.12
712 808 4.466827 TCATGGCCTTCACTCGTACTATA 58.533 43.478 3.32 0.00 0.00 1.31
713 809 4.277672 TCATGGCCTTCACTCGTACTATAC 59.722 45.833 3.32 0.00 0.00 1.47
714 810 3.623703 TGGCCTTCACTCGTACTATACA 58.376 45.455 3.32 0.00 0.00 2.29
715 811 4.018490 TGGCCTTCACTCGTACTATACAA 58.982 43.478 3.32 0.00 0.00 2.41
716 812 4.647853 TGGCCTTCACTCGTACTATACAAT 59.352 41.667 3.32 0.00 0.00 2.71
717 813 5.829391 TGGCCTTCACTCGTACTATACAATA 59.171 40.000 3.32 0.00 0.00 1.90
718 814 6.492429 TGGCCTTCACTCGTACTATACAATAT 59.508 38.462 3.32 0.00 0.00 1.28
719 815 7.014905 TGGCCTTCACTCGTACTATACAATATT 59.985 37.037 3.32 0.00 0.00 1.28
720 816 7.871463 GGCCTTCACTCGTACTATACAATATTT 59.129 37.037 0.00 0.00 0.00 1.40
721 817 9.903682 GCCTTCACTCGTACTATACAATATTTA 57.096 33.333 0.00 0.00 0.00 1.40
767 863 8.329203 AGATTTCCATACAAGTTTTCTGAGTC 57.671 34.615 0.00 0.00 0.00 3.36
768 864 7.939039 AGATTTCCATACAAGTTTTCTGAGTCA 59.061 33.333 0.00 0.00 0.00 3.41
845 944 3.256631 AGAATTTCCACACTGATGCAACC 59.743 43.478 0.00 0.00 0.00 3.77
875 974 1.217585 CCATTCGCACGATCGCATCT 61.218 55.000 16.60 0.00 0.00 2.90
876 975 0.160392 CATTCGCACGATCGCATCTC 59.840 55.000 16.60 0.00 0.00 2.75
877 976 0.031314 ATTCGCACGATCGCATCTCT 59.969 50.000 16.60 0.00 0.00 3.10
878 977 0.592500 TTCGCACGATCGCATCTCTC 60.593 55.000 16.60 0.00 0.00 3.20
879 978 1.009108 CGCACGATCGCATCTCTCT 60.009 57.895 16.60 0.00 0.00 3.10
880 979 1.267449 CGCACGATCGCATCTCTCTG 61.267 60.000 16.60 4.27 0.00 3.35
881 980 0.248825 GCACGATCGCATCTCTCTGT 60.249 55.000 16.60 0.00 0.00 3.41
882 981 1.752753 CACGATCGCATCTCTCTGTC 58.247 55.000 16.60 0.00 0.00 3.51
883 982 1.333308 CACGATCGCATCTCTCTGTCT 59.667 52.381 16.60 0.00 0.00 3.41
884 983 1.601903 ACGATCGCATCTCTCTGTCTC 59.398 52.381 16.60 0.00 0.00 3.36
885 984 1.872952 CGATCGCATCTCTCTGTCTCT 59.127 52.381 0.26 0.00 0.00 3.10
886 985 2.096268 CGATCGCATCTCTCTGTCTCTC 60.096 54.545 0.26 0.00 0.00 3.20
887 986 2.708216 TCGCATCTCTCTGTCTCTCT 57.292 50.000 0.00 0.00 0.00 3.10
888 987 2.560504 TCGCATCTCTCTGTCTCTCTC 58.439 52.381 0.00 0.00 0.00 3.20
889 988 2.170397 TCGCATCTCTCTGTCTCTCTCT 59.830 50.000 0.00 0.00 0.00 3.10
890 989 2.545526 CGCATCTCTCTGTCTCTCTCTC 59.454 54.545 0.00 0.00 0.00 3.20
891 990 3.742327 CGCATCTCTCTGTCTCTCTCTCT 60.742 52.174 0.00 0.00 0.00 3.10
892 991 3.562973 GCATCTCTCTGTCTCTCTCTCTG 59.437 52.174 0.00 0.00 0.00 3.35
974 1073 4.465446 CTCCTCCCTCCCTCCGCA 62.465 72.222 0.00 0.00 0.00 5.69
975 1074 4.779733 TCCTCCCTCCCTCCGCAC 62.780 72.222 0.00 0.00 0.00 5.34
1311 1801 2.589540 CGCCTGGCCTACATGGAA 59.410 61.111 14.12 0.00 38.35 3.53
1432 1924 5.202640 GTTCTGCCGCCGTTTATAATTTAG 58.797 41.667 0.00 0.00 0.00 1.85
1433 1925 3.810941 TCTGCCGCCGTTTATAATTTAGG 59.189 43.478 0.00 0.00 0.00 2.69
1435 1927 2.351060 GCCGCCGTTTATAATTTAGGGC 60.351 50.000 8.63 8.63 38.96 5.19
1466 1962 4.321304 GCTCTCTGCTGCCTAATCGTTATA 60.321 45.833 0.00 0.00 38.95 0.98
1492 1988 1.208535 TCGTTAGAAATGGCATCGGGT 59.791 47.619 0.00 0.00 0.00 5.28
1517 2013 1.517257 CGTCAGGGCTGTAGCTTCG 60.517 63.158 3.63 0.00 41.70 3.79
1542 2038 5.129634 TCTTTTTGTGTGGTTCTAGATGCA 58.870 37.500 0.00 0.00 0.00 3.96
1661 2214 7.095940 CCAGAAATGTGAACATGTGATGAAAAC 60.096 37.037 0.00 0.00 36.56 2.43
1840 2417 3.107601 CTGGGACATGTAGGAGAGGAAA 58.892 50.000 0.00 0.00 38.20 3.13
1869 2446 5.360714 TGGAAAGTTTCTTCTTGATGTGCTT 59.639 36.000 15.05 0.00 0.00 3.91
2022 2599 5.011533 AGTTCTCATGCACTCCCTATCATAC 59.988 44.000 0.00 0.00 0.00 2.39
2440 3034 4.858850 TGGATGAGTTTGCAGGATTATGT 58.141 39.130 0.00 0.00 0.00 2.29
2531 3125 9.695526 TTTTATTCAAGTTCTGTGATGATTTGG 57.304 29.630 0.00 0.00 0.00 3.28
2534 3128 4.520111 TCAAGTTCTGTGATGATTTGGTGG 59.480 41.667 0.00 0.00 0.00 4.61
2603 3197 4.642885 CCTTCCTGAAAGTTTGGTGTTACA 59.357 41.667 0.00 0.00 32.69 2.41
2614 3208 7.817418 AGTTTGGTGTTACATCTGTTTACAT 57.183 32.000 0.00 0.00 0.00 2.29
2625 3219 9.678941 TTACATCTGTTTACATAAGAGCTATCG 57.321 33.333 0.00 0.00 0.00 2.92
2678 3272 3.833650 TCACATTCATTTGCTTGATGGGT 59.166 39.130 0.00 0.00 0.00 4.51
2694 3288 4.517453 TGATGGGTTTCTCTGGTAAAAACG 59.483 41.667 0.00 0.00 34.47 3.60
2706 3300 8.600625 TCTCTGGTAAAAACGAATCAAATATCG 58.399 33.333 0.00 0.00 44.33 2.92
2724 3318 1.135199 TCGTACGTTCCAGATGCCTTC 60.135 52.381 16.05 0.00 0.00 3.46
2758 3353 6.314896 CACACTCTTCCAGATTTCTTCATACC 59.685 42.308 0.00 0.00 0.00 2.73
2839 3461 5.632347 GGCACATTGAACTTTTCTCTGAATG 59.368 40.000 0.00 0.00 0.00 2.67
2858 3480 8.292448 TCTGAATGTTTGCTTTCTTCTGATAAC 58.708 33.333 0.00 0.00 32.11 1.89
2896 3518 6.426937 TGCTAACACTTGTCCTGAAATAAGAC 59.573 38.462 0.00 0.00 0.00 3.01
3019 3641 3.266510 TCTAGCATTTTGTCGCCTCAT 57.733 42.857 0.00 0.00 0.00 2.90
3075 3698 0.909623 AGTCCCTAACCAACATCGGG 59.090 55.000 0.00 0.00 36.21 5.14
3095 3718 3.142838 CCCAATTCAGGCAGGGCG 61.143 66.667 0.00 0.00 33.91 6.13
3156 3779 4.023291 TCATCAAAATGGGTTCTAAGGGC 58.977 43.478 0.00 0.00 33.42 5.19
3322 3946 3.909430 TGTATTTCCATAGATCCGCGTC 58.091 45.455 4.92 0.00 0.00 5.19
3556 4180 3.529533 CGAGTTGATTGAAGGATGCTCT 58.470 45.455 0.00 0.00 0.00 4.09
3733 4359 9.102757 CATGCTGAGTAGTAGATTGTTGTATTT 57.897 33.333 0.00 0.00 0.00 1.40
3803 4429 2.234661 TGCTCTCAGGTGATGAACGATT 59.765 45.455 0.00 0.00 37.52 3.34
3890 4517 0.037326 TGGTGCGAGTCATCTTCCAC 60.037 55.000 0.00 0.00 0.00 4.02
4007 4642 4.243270 ACTACGGTTATGTCTCAGTTTGC 58.757 43.478 0.00 0.00 0.00 3.68
4093 4728 0.751643 AAGCGGGTCAAGCAAACACT 60.752 50.000 0.00 0.00 37.01 3.55
4112 4747 0.177141 TAAGGGCCTGTTCGGATTCG 59.823 55.000 6.92 0.00 37.82 3.34
4129 4764 2.286523 CGCTCCCCTCCACAACTCT 61.287 63.158 0.00 0.00 0.00 3.24
4134 4769 1.298014 CCCTCCACAACTCTGCTCC 59.702 63.158 0.00 0.00 0.00 4.70
4135 4770 1.197430 CCCTCCACAACTCTGCTCCT 61.197 60.000 0.00 0.00 0.00 3.69
4157 4792 2.743928 CTGGTGGAGCGGCAGTTC 60.744 66.667 1.45 0.00 0.00 3.01
4158 4793 4.680237 TGGTGGAGCGGCAGTTCG 62.680 66.667 1.45 0.00 0.00 3.95
4167 4802 2.441378 CGGCAGTTCGAAATCGCGA 61.441 57.895 13.09 13.09 39.60 5.87
4242 4877 5.915744 TGCCTAACAGCCCCTAAAATATA 57.084 39.130 0.00 0.00 0.00 0.86
4243 4878 5.627135 TGCCTAACAGCCCCTAAAATATAC 58.373 41.667 0.00 0.00 0.00 1.47
4251 4887 4.525487 AGCCCCTAAAATATACGTGATCGA 59.475 41.667 0.00 0.00 40.62 3.59
4346 4982 2.638480 ATGTAGTGTGTGTTGCCTGT 57.362 45.000 0.00 0.00 0.00 4.00
4361 4997 1.444553 CTGTGCGGTCGACTCTTCC 60.445 63.158 16.46 0.00 0.00 3.46
4371 5007 0.097325 CGACTCTTCCGAAGTCTCCG 59.903 60.000 8.01 4.77 0.00 4.63
4387 5074 0.687757 TCCGCATTACCTCAGCTCCT 60.688 55.000 0.00 0.00 0.00 3.69
4513 5200 2.160417 GCTCGTGCTATTTTCTGCTTGT 59.840 45.455 1.41 0.00 36.03 3.16
4580 5269 2.172483 CTGTTCCCCAGTCACCTCGG 62.172 65.000 0.00 0.00 36.37 4.63
4581 5270 2.203182 TTCCCCAGTCACCTCGGT 59.797 61.111 0.00 0.00 0.00 4.69
4584 5273 3.625897 CCCAGTCACCTCGGTGCA 61.626 66.667 11.21 0.00 45.04 4.57
4590 5284 1.227527 TCACCTCGGTGCAACACAG 60.228 57.895 11.21 0.00 45.04 3.66
4686 5380 2.093625 GCATCATGAAGTTCGCGTGTTA 59.906 45.455 5.77 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 62 0.992072 GTCGATGACGTGGATGTGTG 59.008 55.000 0.00 0.00 40.69 3.82
76 80 0.396811 GTGGTGGTACCTTGCTGAGT 59.603 55.000 14.36 0.00 39.58 3.41
89 93 3.624777 AGCAGATATTTCTTGGTGGTGG 58.375 45.455 0.00 0.00 0.00 4.61
94 98 7.170965 TCTCTTTTGAGCAGATATTTCTTGGT 58.829 34.615 0.00 0.00 45.83 3.67
102 107 5.798125 TCCGATCTCTTTTGAGCAGATAT 57.202 39.130 0.00 0.00 45.83 1.63
301 306 1.094785 CATTAGAAGGCAACGGGGTG 58.905 55.000 0.00 0.00 46.39 4.61
302 307 0.988832 TCATTAGAAGGCAACGGGGT 59.011 50.000 0.00 0.00 46.39 4.95
303 308 1.339631 TGTCATTAGAAGGCAACGGGG 60.340 52.381 0.00 0.00 46.39 5.73
304 309 2.107950 TGTCATTAGAAGGCAACGGG 57.892 50.000 0.00 0.00 46.39 5.28
305 310 3.074412 AGTTGTCATTAGAAGGCAACGG 58.926 45.455 5.19 0.00 42.72 4.44
306 311 4.213270 TCAAGTTGTCATTAGAAGGCAACG 59.787 41.667 2.11 0.00 42.72 4.10
307 312 5.689383 TCAAGTTGTCATTAGAAGGCAAC 57.311 39.130 2.11 2.70 39.52 4.17
308 313 5.827797 ACTTCAAGTTGTCATTAGAAGGCAA 59.172 36.000 2.11 0.00 37.41 4.52
309 314 5.376625 ACTTCAAGTTGTCATTAGAAGGCA 58.623 37.500 2.11 0.00 37.41 4.75
350 419 0.902531 GAACGGATCTTGTCCTCCCA 59.097 55.000 0.00 0.00 45.46 4.37
382 451 2.033424 TCGATGGTGAGATGATGACGTC 59.967 50.000 9.11 9.11 0.00 4.34
493 563 2.284699 CCTCCCCCTCCGTCTGTT 60.285 66.667 0.00 0.00 0.00 3.16
506 576 2.997897 AGACCACGTGCCTCCTCC 60.998 66.667 10.91 0.00 0.00 4.30
537 607 1.073923 CACAGGGGCTTTGTTCTACCT 59.926 52.381 0.00 0.00 0.00 3.08
562 632 2.435938 TTCCCATGCTTCGGCGAC 60.436 61.111 10.16 0.00 45.37 5.19
640 710 3.916172 CGAAGAATCACAAAAGTGCATGG 59.084 43.478 0.00 0.00 0.00 3.66
645 715 3.904136 AGGCGAAGAATCACAAAAGTG 57.096 42.857 0.00 0.00 0.00 3.16
653 723 6.984474 AGATTTACGAATAAGGCGAAGAATCA 59.016 34.615 0.00 0.00 32.80 2.57
664 734 6.897259 TTCGGACCAAGATTTACGAATAAG 57.103 37.500 0.00 0.00 35.71 1.73
679 749 0.331278 AGGCCATGAAATTCGGACCA 59.669 50.000 5.01 0.00 0.00 4.02
680 750 1.405463 GAAGGCCATGAAATTCGGACC 59.595 52.381 5.01 0.00 0.00 4.46
684 754 2.223112 CGAGTGAAGGCCATGAAATTCG 60.223 50.000 5.01 1.34 0.00 3.34
695 765 8.813643 AAATATTGTATAGTACGAGTGAAGGC 57.186 34.615 0.00 0.00 0.00 4.35
739 835 9.658799 CTCAGAAAACTTGTATGGAAATCTAGA 57.341 33.333 0.00 0.00 0.00 2.43
740 836 9.442047 ACTCAGAAAACTTGTATGGAAATCTAG 57.558 33.333 0.00 0.00 0.00 2.43
741 837 9.436957 GACTCAGAAAACTTGTATGGAAATCTA 57.563 33.333 0.00 0.00 0.00 1.98
742 838 7.939039 TGACTCAGAAAACTTGTATGGAAATCT 59.061 33.333 0.00 0.00 0.00 2.40
743 839 8.099364 TGACTCAGAAAACTTGTATGGAAATC 57.901 34.615 0.00 0.00 0.00 2.17
744 840 7.721399 ACTGACTCAGAAAACTTGTATGGAAAT 59.279 33.333 13.25 0.00 35.18 2.17
745 841 7.012327 CACTGACTCAGAAAACTTGTATGGAAA 59.988 37.037 13.25 0.00 35.18 3.13
746 842 6.483307 CACTGACTCAGAAAACTTGTATGGAA 59.517 38.462 13.25 0.00 35.18 3.53
747 843 5.991606 CACTGACTCAGAAAACTTGTATGGA 59.008 40.000 13.25 0.00 35.18 3.41
748 844 5.991606 TCACTGACTCAGAAAACTTGTATGG 59.008 40.000 13.25 0.00 35.18 2.74
749 845 6.146837 CCTCACTGACTCAGAAAACTTGTATG 59.853 42.308 13.25 0.00 35.18 2.39
750 846 6.226787 CCTCACTGACTCAGAAAACTTGTAT 58.773 40.000 13.25 0.00 35.18 2.29
751 847 5.601662 CCTCACTGACTCAGAAAACTTGTA 58.398 41.667 13.25 0.00 35.18 2.41
752 848 4.446371 CCTCACTGACTCAGAAAACTTGT 58.554 43.478 13.25 0.00 35.18 3.16
767 863 1.064505 CGGTTGCAATATGCCTCACTG 59.935 52.381 0.59 0.00 44.23 3.66
768 864 1.382522 CGGTTGCAATATGCCTCACT 58.617 50.000 0.59 0.00 44.23 3.41
845 944 1.298157 TGCGAATGGAACGGCTCAAG 61.298 55.000 0.00 0.00 0.00 3.02
875 974 4.096681 AGAGACAGAGAGAGAGACAGAGA 58.903 47.826 0.00 0.00 0.00 3.10
876 975 4.161189 AGAGAGACAGAGAGAGAGACAGAG 59.839 50.000 0.00 0.00 0.00 3.35
877 976 4.096681 AGAGAGACAGAGAGAGAGACAGA 58.903 47.826 0.00 0.00 0.00 3.41
878 977 4.081476 TGAGAGAGACAGAGAGAGAGACAG 60.081 50.000 0.00 0.00 0.00 3.51
879 978 3.837731 TGAGAGAGACAGAGAGAGAGACA 59.162 47.826 0.00 0.00 0.00 3.41
880 979 4.437239 CTGAGAGAGACAGAGAGAGAGAC 58.563 52.174 0.00 0.00 37.54 3.36
881 980 3.118629 GCTGAGAGAGACAGAGAGAGAGA 60.119 52.174 0.00 0.00 37.54 3.10
882 981 3.118482 AGCTGAGAGAGACAGAGAGAGAG 60.118 52.174 0.00 0.00 37.54 3.20
883 982 2.840038 AGCTGAGAGAGACAGAGAGAGA 59.160 50.000 0.00 0.00 37.54 3.10
884 983 3.201290 GAGCTGAGAGAGACAGAGAGAG 58.799 54.545 0.00 0.00 37.54 3.20
885 984 2.571202 TGAGCTGAGAGAGACAGAGAGA 59.429 50.000 0.00 0.00 37.54 3.10
886 985 2.679837 GTGAGCTGAGAGAGACAGAGAG 59.320 54.545 0.00 0.00 37.54 3.20
887 986 2.617788 GGTGAGCTGAGAGAGACAGAGA 60.618 54.545 0.00 0.00 37.54 3.10
888 987 1.745087 GGTGAGCTGAGAGAGACAGAG 59.255 57.143 0.00 0.00 37.54 3.35
889 988 1.354031 AGGTGAGCTGAGAGAGACAGA 59.646 52.381 0.00 0.00 37.54 3.41
890 989 1.838112 AGGTGAGCTGAGAGAGACAG 58.162 55.000 0.00 0.00 38.27 3.51
891 990 2.166829 GAAGGTGAGCTGAGAGAGACA 58.833 52.381 0.00 0.00 0.00 3.41
892 991 1.476488 GGAAGGTGAGCTGAGAGAGAC 59.524 57.143 0.00 0.00 0.00 3.36
1290 1780 2.765807 ATGTAGGCCAGGCGCTCT 60.766 61.111 7.64 0.00 37.74 4.09
1432 1924 3.859414 AGAGAGCCGCAGATGCCC 61.859 66.667 0.00 0.00 37.91 5.36
1433 1925 2.588314 CAGAGAGCCGCAGATGCC 60.588 66.667 0.00 0.00 37.91 4.40
1466 1962 5.331902 CGATGCCATTTCTAACGACAAATT 58.668 37.500 0.00 0.00 0.00 1.82
1492 1988 1.751351 CTACAGCCCTGACGATTCTCA 59.249 52.381 1.69 0.00 0.00 3.27
1517 2013 5.915196 GCATCTAGAACCACACAAAAAGAAC 59.085 40.000 0.00 0.00 0.00 3.01
1661 2214 2.114616 ACTCAGTTCTGATGCCTAGGG 58.885 52.381 11.72 0.00 0.00 3.53
1840 2417 9.918630 CACATCAAGAAGAAACTTTCCATAAAT 57.081 29.630 0.00 0.00 0.00 1.40
1881 2458 1.745087 AGCATCCCAACAACGCTAATG 59.255 47.619 0.00 0.00 0.00 1.90
2531 3125 1.544724 TATGAAGGCAGCCAAACCAC 58.455 50.000 15.80 0.00 0.00 4.16
2534 3128 2.562738 AGGTTTATGAAGGCAGCCAAAC 59.437 45.455 15.80 14.44 0.00 2.93
2614 3208 7.773690 TGCACTGGATATATACGATAGCTCTTA 59.226 37.037 0.00 0.00 42.67 2.10
2694 3288 7.502339 CATCTGGAACGTACGATATTTGATTC 58.498 38.462 24.41 12.04 0.00 2.52
2706 3300 2.674796 AGAAGGCATCTGGAACGTAC 57.325 50.000 0.00 0.00 36.88 3.67
2724 3318 1.939934 TGGAAGAGTGTGAACGCAAAG 59.060 47.619 0.00 0.00 0.00 2.77
2758 3353 4.996758 TGACAGTTACACATGGAATCACAG 59.003 41.667 0.00 0.00 0.00 3.66
2874 3496 7.732025 TCAGTCTTATTTCAGGACAAGTGTTA 58.268 34.615 0.00 0.00 32.98 2.41
3019 3641 8.579850 AGCAATAAACAGGAATATGTGAGAAA 57.420 30.769 0.00 0.00 32.52 2.52
3075 3698 1.607801 GCCCTGCCTGAATTGGGTTC 61.608 60.000 0.00 0.00 41.59 3.62
3095 3718 4.878971 GGGTTCCTCTTCTTAGCAATTCTC 59.121 45.833 0.00 0.00 0.00 2.87
3509 4133 4.218417 CCATGTTTTTCCTTCCTCGTTGAT 59.782 41.667 0.00 0.00 0.00 2.57
4007 4642 2.891391 CACGACACACTTCAACAATCG 58.109 47.619 0.00 0.00 0.00 3.34
4063 4698 5.065988 TGCTTGACCCGCTTTAATCTATTTC 59.934 40.000 0.00 0.00 0.00 2.17
4077 4712 1.535462 CCTTAGTGTTTGCTTGACCCG 59.465 52.381 0.00 0.00 0.00 5.28
4093 4728 0.177141 CGAATCCGAACAGGCCCTTA 59.823 55.000 0.00 0.00 40.77 2.69
4112 4747 1.298014 CAGAGTTGTGGAGGGGAGC 59.702 63.158 0.00 0.00 0.00 4.70
4157 4792 1.017177 TTCCCCACTTCGCGATTTCG 61.017 55.000 10.88 1.26 43.27 3.46
4158 4793 0.727398 CTTCCCCACTTCGCGATTTC 59.273 55.000 10.88 0.00 0.00 2.17
4167 4802 1.464198 AGCACCTCCTTCCCCACTT 60.464 57.895 0.00 0.00 0.00 3.16
4189 4824 3.715495 CTCCGTGAAATCTCAGGATCTG 58.285 50.000 0.00 0.00 39.36 2.90
4224 4859 6.482898 TCACGTATATTTTAGGGGCTGTTA 57.517 37.500 0.00 0.00 0.00 2.41
4242 4877 1.476488 TGGTGTCATCATCGATCACGT 59.524 47.619 0.00 0.00 40.69 4.49
4243 4878 2.208326 TGGTGTCATCATCGATCACG 57.792 50.000 0.00 0.00 41.26 4.35
4251 4887 3.109928 TCTCAGACCATGGTGTCATCAT 58.890 45.455 25.52 0.00 37.73 2.45
4346 4982 2.196382 CTTCGGAAGAGTCGACCGCA 62.196 60.000 20.53 12.59 45.25 5.69
4361 4997 1.134367 TGAGGTAATGCGGAGACTTCG 59.866 52.381 0.00 0.00 0.00 3.79
4371 5007 2.320781 TCCTAGGAGCTGAGGTAATGC 58.679 52.381 7.62 0.00 34.20 3.56
4387 5074 4.100279 TGTAGAGAAGATCGCCATCCTA 57.900 45.455 0.00 0.00 0.00 2.94
4513 5200 3.452627 GCTGGAGGAGAAGTGGAATTCTA 59.547 47.826 5.23 0.00 39.63 2.10
4580 5269 0.031043 TGCATGCTTCTGTGTTGCAC 59.969 50.000 20.33 0.00 38.32 4.57
4581 5270 0.963225 ATGCATGCTTCTGTGTTGCA 59.037 45.000 20.33 0.00 46.22 4.08
4584 5273 1.527034 ACGATGCATGCTTCTGTGTT 58.473 45.000 25.72 7.17 0.00 3.32
4590 5284 1.802960 CTGGGATACGATGCATGCTTC 59.197 52.381 20.33 20.52 37.60 3.86
4656 5350 1.380246 TTCATGATGCCCAGTGCCC 60.380 57.895 0.00 0.00 40.16 5.36


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

AutoCloner maintained by Alex Coulton.