Multiple sequence alignment - TraesCS7B01G157300

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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 TraesCS7B01G157300 chr7B 100.000 4203 0 0 1 4203 212480051 212475849 0.000000e+00 7762.0
1 TraesCS7B01G157300 chr7B 77.580 281 62 1 392 672 227298421 227298142 7.230000e-38 169.0
2 TraesCS7B01G157300 chr7A 92.399 3697 183 32 38 3649 251286987 251283304 0.000000e+00 5180.0
3 TraesCS7B01G157300 chr7A 86.667 300 20 10 3908 4203 251283075 251282792 8.770000e-82 315.0
4 TraesCS7B01G157300 chr7A 76.829 246 57 0 427 672 667920991 667920746 5.670000e-29 139.0
5 TraesCS7B01G157300 chr7A 94.595 37 2 0 3552 3588 105168444 105168408 1.630000e-04 58.4
6 TraesCS7B01G157300 chr7D 93.446 2960 114 27 833 3725 236185059 236182113 0.000000e+00 4318.0
7 TraesCS7B01G157300 chr7D 86.517 623 57 13 2 599 236187870 236187250 0.000000e+00 660.0
8 TraesCS7B01G157300 chr7D 86.709 316 24 7 3851 4157 236181984 236181678 6.730000e-88 335.0
9 TraesCS7B01G157300 chr7D 97.778 90 2 0 4114 4203 236181678 236181589 5.630000e-34 156.0
10 TraesCS7B01G157300 chr5D 76.705 601 112 20 98 672 283013229 283013827 4.080000e-80 309.0
11 TraesCS7B01G157300 chr5D 85.393 89 5 4 3503 3590 450670051 450670132 7.490000e-13 86.1
12 TraesCS7B01G157300 chr5D 83.721 86 6 6 3503 3587 450670129 450670051 1.620000e-09 75.0
13 TraesCS7B01G157300 chr6D 76.949 590 101 18 114 672 337846677 337847262 1.900000e-78 303.0
14 TraesCS7B01G157300 chr6D 73.350 409 82 13 154 538 34190182 34189777 4.410000e-25 126.0
15 TraesCS7B01G157300 chr5B 76.106 565 101 19 136 672 512940305 512940863 8.960000e-67 265.0
16 TraesCS7B01G157300 chr3B 75.559 581 102 28 121 672 650809051 650808482 2.510000e-62 250.0
17 TraesCS7B01G157300 chr3B 83.019 106 17 1 3488 3593 689513558 689513454 1.240000e-15 95.3
18 TraesCS7B01G157300 chr3B 91.111 45 4 0 408 452 752036073 752036029 1.260000e-05 62.1
19 TraesCS7B01G157300 chr3A 73.264 576 125 23 114 672 69961564 69962127 2.580000e-42 183.0
20 TraesCS7B01G157300 chr4A 73.310 577 116 18 108 650 634872975 634873547 1.200000e-40 178.0
21 TraesCS7B01G157300 chr4A 71.799 578 126 21 127 672 687629332 687629904 3.410000e-26 130.0
22 TraesCS7B01G157300 chr1D 72.899 583 116 27 121 670 340539752 340539179 3.360000e-36 163.0
23 TraesCS7B01G157300 chr1D 82.514 183 27 4 493 672 221084009 221084189 5.630000e-34 156.0
24 TraesCS7B01G157300 chr4B 77.055 292 53 13 386 672 172520159 172519877 5.630000e-34 156.0
25 TraesCS7B01G157300 chr6A 83.673 147 23 1 526 672 617556544 617556689 2.040000e-28 137.0
26 TraesCS7B01G157300 chr6A 75.862 290 51 16 93 370 594945066 594944784 3.410000e-26 130.0
27 TraesCS7B01G157300 chr3D 85.047 107 15 1 3488 3594 523157484 523157379 1.600000e-19 108.0
28 TraesCS7B01G157300 chr5A 93.478 46 2 1 3546 3590 109277578 109277533 2.710000e-07 67.6
29 TraesCS7B01G157300 chr5A 95.000 40 2 0 3552 3591 132095767 132095728 3.510000e-06 63.9
30 TraesCS7B01G157300 chr2A 87.234 47 6 0 408 454 711519774 711519728 2.000000e-03 54.7


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 TraesCS7B01G157300 chr7B 212475849 212480051 4202 True 7762.00 7762 100.0000 1 4203 1 chr7B.!!$R1 4202
1 TraesCS7B01G157300 chr7A 251282792 251286987 4195 True 2747.50 5180 89.5330 38 4203 2 chr7A.!!$R3 4165
2 TraesCS7B01G157300 chr7D 236181589 236187870 6281 True 1367.25 4318 91.1125 2 4203 4 chr7D.!!$R1 4201
3 TraesCS7B01G157300 chr5D 283013229 283013827 598 False 309.00 309 76.7050 98 672 1 chr5D.!!$F1 574
4 TraesCS7B01G157300 chr6D 337846677 337847262 585 False 303.00 303 76.9490 114 672 1 chr6D.!!$F1 558
5 TraesCS7B01G157300 chr5B 512940305 512940863 558 False 265.00 265 76.1060 136 672 1 chr5B.!!$F1 536
6 TraesCS7B01G157300 chr3B 650808482 650809051 569 True 250.00 250 75.5590 121 672 1 chr3B.!!$R1 551

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
356 363 0.446616 CGACTTCGTCCATCTCGACA 59.553 55.0 0.0 0.00 37.05 4.35 F
1363 3382 0.246635 TCCCAGACTAGCGTTCTTGC 59.753 55.0 0.0 0.00 0.00 4.01 F
1569 3588 0.109781 GGCAATGCGAACGTGACATT 60.110 50.0 0.0 5.41 34.42 2.71 F
2653 4700 0.105593 GCTGAGGTATGCTGCTGCTA 59.894 55.0 17.0 3.79 40.48 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1465 3484 1.068055 GGGAACTGTGCATGCAAAGAG 60.068 52.381 38.53 27.03 34.97 2.85 R
2591 4632 0.110486 AATCCAACACGAACTGGGCT 59.890 50.000 0.00 0.00 33.19 5.19 R
2898 4960 0.447801 GTTGGACATGTAAGCTGCCG 59.552 55.000 0.00 0.00 0.00 5.69 R
3800 5932 0.671163 TTAACGGTTTGATCGCGCCT 60.671 50.000 0.00 0.00 0.00 5.52 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
36 37 2.627945 TGGTTTACTCACGGATGATGC 58.372 47.619 0.00 0.00 33.22 3.91
49 50 3.303329 CGGATGATGCAATACTTTCACCG 60.303 47.826 0.00 1.60 31.58 4.94
324 331 1.597663 CTTTGAGTTTGTCTTCGCGGT 59.402 47.619 6.13 0.00 0.00 5.68
356 363 0.446616 CGACTTCGTCCATCTCGACA 59.553 55.000 0.00 0.00 37.05 4.35
382 413 1.941294 GACAGAGCTCTCATGCAATGG 59.059 52.381 14.96 1.42 46.73 3.16
396 427 4.059773 TGCAATGGGATTAGGGTTTCTT 57.940 40.909 0.00 0.00 0.00 2.52
406 437 2.525105 AGGGTTTCTTGTTGTGTGGT 57.475 45.000 0.00 0.00 0.00 4.16
460 492 1.227321 GGTTCAACGACGTCCACCA 60.227 57.895 10.58 0.00 0.00 4.17
544 576 3.570212 AAGCCGGTTCCAGCAGGT 61.570 61.111 1.90 0.00 35.89 4.00
835 2851 1.122019 GGCCTGTCCCCATAGACGAT 61.122 60.000 0.00 0.00 39.77 3.73
863 2879 0.815615 CCGTAAGCCCATGAAGAGCC 60.816 60.000 0.00 0.00 0.00 4.70
1017 3036 1.146263 CATGGTAAGCCTCGTCCCC 59.854 63.158 0.00 0.00 35.27 4.81
1156 3175 1.571457 CTCTCTTCCCTCTGTCCCCTA 59.429 57.143 0.00 0.00 0.00 3.53
1157 3176 1.571457 TCTCTTCCCTCTGTCCCCTAG 59.429 57.143 0.00 0.00 0.00 3.02
1162 3181 2.156425 TCCCTCTGTCCCCTAGATGAT 58.844 52.381 0.00 0.00 0.00 2.45
1224 3243 3.187637 GGTTTTGATCCGATGTTTCGTGA 59.812 43.478 0.00 0.00 43.97 4.35
1285 3304 1.021968 GTCCACTTCAAGGTGCGTTT 58.978 50.000 0.00 0.00 36.03 3.60
1291 3310 0.934496 TTCAAGGTGCGTTTCGTGAG 59.066 50.000 0.00 0.00 0.00 3.51
1300 3319 1.621301 CGTTTCGTGAGCCTGCTCTG 61.621 60.000 19.07 12.00 43.12 3.35
1309 3328 2.657944 CCTGCTCTGCGCGAGATC 60.658 66.667 26.02 15.48 42.62 2.75
1322 3341 2.417719 GCGAGATCTTTTGTCTGTGGT 58.582 47.619 0.00 0.00 0.00 4.16
1363 3382 0.246635 TCCCAGACTAGCGTTCTTGC 59.753 55.000 0.00 0.00 0.00 4.01
1403 3422 5.431179 TGTTGATTTAGGGTTAGGGAGTC 57.569 43.478 0.00 0.00 0.00 3.36
1465 3484 6.536941 CCTAAAGAGTAAAGGTTCTGATCTGC 59.463 42.308 0.00 0.00 0.00 4.26
1569 3588 0.109781 GGCAATGCGAACGTGACATT 60.110 50.000 0.00 5.41 34.42 2.71
1605 3624 8.783093 CATGTCTTGTTTTGAGGAAGTACATAA 58.217 33.333 0.00 0.00 0.00 1.90
1635 3654 4.095632 TCCGCATTTAATCGAAAATCTGCA 59.904 37.500 11.50 0.00 32.40 4.41
1878 3911 4.081198 CCTAAGTCTCAGTGATCTTTGCCT 60.081 45.833 13.40 0.00 0.00 4.75
1882 3915 1.558756 CTCAGTGATCTTTGCCTCCCT 59.441 52.381 0.00 0.00 0.00 4.20
1925 3958 2.160721 TTAGAAGATCCTGGCTCCGT 57.839 50.000 0.00 0.00 0.00 4.69
1977 4010 8.733092 AGAAGATTCTTGGTCTGATATATCCA 57.267 34.615 10.25 0.00 32.55 3.41
1995 4028 9.944376 ATATATCCATATAGTTTCGTTTGTGCT 57.056 29.630 0.00 0.00 0.00 4.40
1996 4029 5.794687 TCCATATAGTTTCGTTTGTGCTG 57.205 39.130 0.00 0.00 0.00 4.41
2158 4191 6.795399 TCAATCTCTGAACTTGGTGAAAAAC 58.205 36.000 0.67 0.00 0.00 2.43
2221 4254 4.463050 TGTGTAAGGGAAGGAAATGGTT 57.537 40.909 0.00 0.00 0.00 3.67
2236 4269 2.685106 TGGTTTGTTGGCCTGGAATA 57.315 45.000 3.32 0.00 0.00 1.75
2263 4296 3.503363 TCTGCCAGTTTTTGCATCTGTAG 59.497 43.478 0.00 0.00 36.79 2.74
2278 4311 6.646653 TGCATCTGTAGAACTAAGTTCAGTTG 59.353 38.462 0.00 6.19 44.11 3.16
2337 4373 7.288810 TCCTTGTTTTTGTGCTAGATTGATT 57.711 32.000 0.00 0.00 0.00 2.57
2591 4632 2.979676 CGCTGGCCTGCAAAGTCA 60.980 61.111 30.94 0.00 0.00 3.41
2653 4700 0.105593 GCTGAGGTATGCTGCTGCTA 59.894 55.000 17.00 3.79 40.48 3.49
2667 4717 4.387256 GCTGCTGCTACTATTTTATCCTCG 59.613 45.833 8.53 0.00 36.03 4.63
2672 4722 6.702282 GCTGCTACTATTTTATCCTCGTTCTT 59.298 38.462 0.00 0.00 0.00 2.52
2709 4759 7.490079 GCATCATATTCTGAGCATTTGTTTTGA 59.510 33.333 0.00 0.00 37.28 2.69
2712 4762 9.361315 TCATATTCTGAGCATTTGTTTTGATTG 57.639 29.630 0.00 0.00 0.00 2.67
2852 4914 8.970020 TCGTAAGTTCTCAAGGGTGTTATATTA 58.030 33.333 0.00 0.00 39.48 0.98
2893 4955 5.589855 TCAGTGGACATGGTGCTAATATTTG 59.410 40.000 0.00 0.00 0.00 2.32
2898 4960 7.700656 GTGGACATGGTGCTAATATTTGTTTAC 59.299 37.037 0.00 0.00 0.00 2.01
2959 5021 2.015456 TGTCAGAGAAGGAAGAGCCA 57.985 50.000 0.00 0.00 40.02 4.75
2985 5047 3.863041 AGAAGGAGGTATGCTCGTTTTC 58.137 45.455 0.00 0.00 0.00 2.29
3080 5143 8.558973 AAAGATTCACCTTCTAATCAGTCTTG 57.441 34.615 0.00 0.00 35.07 3.02
3088 5151 7.496920 CACCTTCTAATCAGTCTTGCATCAATA 59.503 37.037 0.00 0.00 0.00 1.90
3109 5184 2.794103 ACATTGCCATGCTGTCTGTTA 58.206 42.857 0.00 0.00 33.05 2.41
3333 5408 7.393515 GGAGTAAGGATTTGTTAAGGTTGATGT 59.606 37.037 0.00 0.00 0.00 3.06
3357 5432 0.798776 CTTGTGATTGCGAGTGGTCC 59.201 55.000 0.00 0.00 0.00 4.46
3426 5501 5.946942 ACTTATTTCTCAGAGATGCTGGA 57.053 39.130 0.00 0.00 44.98 3.86
3433 5508 1.556911 TCAGAGATGCTGGACCTTTCC 59.443 52.381 0.00 0.00 44.98 3.13
3601 5683 7.453752 ACAGAGGTAGTACTTTCTATTGGTCAA 59.546 37.037 0.00 0.00 0.00 3.18
3666 5748 1.069049 GTTGCACATCCTTGGTTTGCT 59.931 47.619 0.00 0.00 34.18 3.91
3669 5751 0.037975 CACATCCTTGGTTTGCTGCC 60.038 55.000 0.00 0.00 0.00 4.85
3706 5799 6.719370 TCCTGCCACTCATTAAAGTTGTTATT 59.281 34.615 0.00 0.00 0.00 1.40
3730 5823 4.688413 TGCCGAACATTTTCTTTAATTGCC 59.312 37.500 0.00 0.00 0.00 4.52
3736 5868 3.311486 TTTTCTTTAATTGCCGGCAGG 57.689 42.857 30.75 15.80 41.62 4.85
3784 5916 3.687102 CGGGTACTGCGTGGTGGA 61.687 66.667 0.00 0.00 0.00 4.02
3800 5932 1.691434 GTGGAAAAGGCAACCATCCAA 59.309 47.619 7.21 0.00 41.54 3.53
3807 5939 2.745884 CAACCATCCAAGGCGCGA 60.746 61.111 12.10 0.00 0.00 5.87
3833 5965 3.396560 ACCGTTAAAGCGCCTATATTCC 58.603 45.455 2.29 0.00 0.00 3.01
3834 5966 3.070590 ACCGTTAAAGCGCCTATATTCCT 59.929 43.478 2.29 0.00 0.00 3.36
3835 5967 4.062991 CCGTTAAAGCGCCTATATTCCTT 58.937 43.478 2.29 0.00 0.00 3.36
3836 5968 4.514066 CCGTTAAAGCGCCTATATTCCTTT 59.486 41.667 2.29 0.00 0.00 3.11
3837 5969 5.008316 CCGTTAAAGCGCCTATATTCCTTTT 59.992 40.000 2.29 0.00 0.00 2.27
3838 5970 6.459161 CCGTTAAAGCGCCTATATTCCTTTTT 60.459 38.462 2.29 0.00 0.00 1.94
3855 5987 4.719997 TTTTTGCGGGTGAAAGCG 57.280 50.000 0.00 0.00 35.87 4.68
3856 5988 1.590259 TTTTTGCGGGTGAAAGCGC 60.590 52.632 0.00 0.00 35.87 5.92
3857 5989 2.284798 TTTTTGCGGGTGAAAGCGCA 62.285 50.000 11.47 0.00 40.72 6.09
3858 5990 2.081425 TTTTGCGGGTGAAAGCGCAT 62.081 50.000 11.47 0.00 41.63 4.73
3859 5991 1.237954 TTTGCGGGTGAAAGCGCATA 61.238 50.000 11.47 0.00 41.63 3.14
3860 5992 1.029408 TTGCGGGTGAAAGCGCATAT 61.029 50.000 11.47 0.00 41.63 1.78
3861 5993 0.179070 TGCGGGTGAAAGCGCATATA 60.179 50.000 11.47 0.00 38.48 0.86
3862 5994 1.156736 GCGGGTGAAAGCGCATATAT 58.843 50.000 11.47 0.00 34.84 0.86
3863 5995 1.535462 GCGGGTGAAAGCGCATATATT 59.465 47.619 11.47 0.00 34.84 1.28
3864 5996 2.412847 GCGGGTGAAAGCGCATATATTC 60.413 50.000 11.47 6.56 34.84 1.75
3874 6006 2.143122 CGCATATATTCCGTGGCTGTT 58.857 47.619 0.00 0.00 0.00 3.16
3893 6025 5.342259 GCTGTTTACGGTCAAATCAAATCAC 59.658 40.000 0.00 0.00 0.00 3.06
3895 6027 5.158494 GTTTACGGTCAAATCAAATCACCC 58.842 41.667 0.00 0.00 0.00 4.61
3897 6029 3.226777 ACGGTCAAATCAAATCACCCAA 58.773 40.909 0.00 0.00 0.00 4.12
3898 6030 3.255642 ACGGTCAAATCAAATCACCCAAG 59.744 43.478 0.00 0.00 0.00 3.61
3899 6031 3.255642 CGGTCAAATCAAATCACCCAAGT 59.744 43.478 0.00 0.00 0.00 3.16
3900 6032 4.559153 GGTCAAATCAAATCACCCAAGTG 58.441 43.478 0.00 0.00 46.00 3.16
3952 6084 4.553351 GCGTCCCAAGTTGTACTAACAAAC 60.553 45.833 1.45 0.00 46.84 2.93
3957 6089 5.277154 CCCAAGTTGTACTAACAAACTGTCG 60.277 44.000 1.45 0.00 46.84 4.35
3977 6111 3.044986 CGGCAAAATGACAGACAAGTTG 58.955 45.455 0.00 0.00 32.82 3.16
3988 6122 3.221771 CAGACAAGTTGGGGATGAACAA 58.778 45.455 7.96 0.00 0.00 2.83
3995 6129 7.744733 ACAAGTTGGGGATGAACAATAAAATT 58.255 30.769 7.96 0.00 0.00 1.82
4184 6365 5.182760 TGATTTTGTTTATTTTGCCATGGCC 59.817 36.000 33.44 15.82 41.09 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.571984 TGAAAGTATTGCATCATCCGTGAG 59.428 41.667 0.00 0.00 37.87 3.51
36 37 8.664798 TGACTTTATTGATCGGTGAAAGTATTG 58.335 33.333 12.23 0.00 39.73 1.90
106 107 2.373502 GCCTAGCCACCAAGGAATAGAT 59.626 50.000 0.00 0.00 41.22 1.98
200 205 1.700042 GGGATTCCTCTCACCGCCAT 61.700 60.000 2.01 0.00 0.00 4.40
280 287 3.845259 TACTGCCATCCGCCCGAC 61.845 66.667 0.00 0.00 36.24 4.79
296 303 6.018994 GCGAAGACAAACTCAAAGAAGAAGTA 60.019 38.462 0.00 0.00 0.00 2.24
382 413 4.022329 CCACACAACAAGAAACCCTAATCC 60.022 45.833 0.00 0.00 0.00 3.01
384 415 4.340950 CACCACACAACAAGAAACCCTAAT 59.659 41.667 0.00 0.00 0.00 1.73
396 427 2.687425 CACCAAATCTCACCACACAACA 59.313 45.455 0.00 0.00 0.00 3.33
406 437 0.605319 GCACCGGACACCAAATCTCA 60.605 55.000 9.46 0.00 0.00 3.27
460 492 2.443016 CCAGAGCCCTAGAGCCGT 60.443 66.667 0.00 0.00 0.00 5.68
544 576 2.202479 CGACGCTGTCATCGCTCA 60.202 61.111 8.91 0.00 32.09 4.26
710 2697 1.570803 TTTGGGGAAAGCCATCATGG 58.429 50.000 0.00 0.00 41.55 3.66
781 2768 4.027572 TCTTGTTTTCCTCTTTGCGTTG 57.972 40.909 0.00 0.00 0.00 4.10
826 2813 2.288825 ACGGCCCAATGTATCGTCTATG 60.289 50.000 0.00 0.00 0.00 2.23
863 2879 1.993370 CGAGAAACCCTAAGCTTCACG 59.007 52.381 0.00 0.00 0.00 4.35
919 2937 1.070134 CACGAACTCTTCCAACAGGGA 59.930 52.381 0.00 0.00 46.61 4.20
1017 3036 4.099266 CAGAGGATTGTACCTGAGAAGAGG 59.901 50.000 0.00 0.00 40.73 3.69
1285 3304 4.426112 CGCAGAGCAGGCTCACGA 62.426 66.667 23.69 0.00 44.99 4.35
1300 3319 1.071605 ACAGACAAAAGATCTCGCGC 58.928 50.000 0.00 0.00 0.00 6.86
1309 3328 1.826327 CGCAACACCACAGACAAAAG 58.174 50.000 0.00 0.00 0.00 2.27
1322 3341 1.535028 CAATCAACCAGTAGCGCAACA 59.465 47.619 11.47 0.00 0.00 3.33
1363 3382 5.162794 TCAACAAGATCGCATGAAAATTGG 58.837 37.500 0.00 0.00 0.00 3.16
1403 3422 4.880886 TCATTCATGACGCCATTTGTAG 57.119 40.909 0.00 0.00 0.00 2.74
1465 3484 1.068055 GGGAACTGTGCATGCAAAGAG 60.068 52.381 38.53 27.03 34.97 2.85
1569 3588 6.946340 TCAAAACAAGACATGGCTAGAGATA 58.054 36.000 0.00 0.00 0.00 1.98
1605 3624 6.671614 TTTCGATTAAATGCGGACATTAGT 57.328 33.333 0.00 0.00 45.90 2.24
1635 3654 5.994887 TTAGCAAATACAACACGAACTGT 57.005 34.783 0.00 0.00 32.89 3.55
1781 3814 5.097529 CGAGCAATGAACACAGCAATATTT 58.902 37.500 0.00 0.00 0.00 1.40
1878 3911 7.996758 ATTAATCCTGACTTTTAGAGAGGGA 57.003 36.000 0.00 0.00 0.00 4.20
1977 4010 5.468746 ACACACAGCACAAACGAAACTATAT 59.531 36.000 0.00 0.00 0.00 0.86
1991 4024 2.160417 GGAAAGCTATCACACACAGCAC 59.840 50.000 0.00 0.00 37.78 4.40
1994 4027 2.668457 GACGGAAAGCTATCACACACAG 59.332 50.000 0.00 0.00 0.00 3.66
1995 4028 2.683968 GACGGAAAGCTATCACACACA 58.316 47.619 0.00 0.00 0.00 3.72
1996 4029 1.654105 CGACGGAAAGCTATCACACAC 59.346 52.381 0.00 0.00 0.00 3.82
2050 4083 4.098044 TGGCGTCTTCAGAACTAAGGATAG 59.902 45.833 0.00 0.00 35.14 2.08
2062 4095 4.954238 GACAAAAATTTGGCGTCTTCAG 57.046 40.909 10.38 0.00 42.34 3.02
2137 4170 6.015940 GGATGTTTTTCACCAAGTTCAGAGAT 60.016 38.462 0.00 0.00 0.00 2.75
2158 4191 8.049117 AGCAATGGTACTATATTACATGGGATG 58.951 37.037 0.00 0.00 0.00 3.51
2221 4254 5.792741 CAGAAAAATATTCCAGGCCAACAA 58.207 37.500 5.01 0.00 0.00 2.83
2236 4269 5.237779 CAGATGCAAAAACTGGCAGAAAAAT 59.762 36.000 23.66 5.07 44.24 1.82
2278 4311 4.816925 GGCACCAGAGTCCTATGATAAAAC 59.183 45.833 0.00 0.00 0.00 2.43
2337 4373 5.415221 TGACAATGATGCGACTACAACATA 58.585 37.500 0.00 0.00 32.51 2.29
2591 4632 0.110486 AATCCAACACGAACTGGGCT 59.890 50.000 0.00 0.00 33.19 5.19
2679 4729 5.852738 AATGCTCAGAATATGATGCGTAC 57.147 39.130 0.00 0.00 37.28 3.67
2682 4732 5.104562 ACAAATGCTCAGAATATGATGCG 57.895 39.130 0.00 0.00 37.28 4.73
2709 4759 5.238650 GCCTTTAACCTATGTACGCATCAAT 59.761 40.000 0.00 0.00 36.58 2.57
2712 4762 4.377897 AGCCTTTAACCTATGTACGCATC 58.622 43.478 0.00 0.00 36.58 3.91
2852 4914 7.147976 GTCCACTGAAAGCAAATAGACATTTT 58.852 34.615 0.00 0.00 37.60 1.82
2872 4934 5.835113 ACAAATATTAGCACCATGTCCAC 57.165 39.130 0.00 0.00 0.00 4.02
2893 4955 2.095372 GGACATGTAAGCTGCCGTAAAC 59.905 50.000 0.00 0.00 0.00 2.01
2898 4960 0.447801 GTTGGACATGTAAGCTGCCG 59.552 55.000 0.00 0.00 0.00 5.69
2959 5021 2.428890 CGAGCATACCTCCTTCTTCACT 59.571 50.000 0.00 0.00 37.27 3.41
2985 5047 8.931385 ATAGGCAATAACTAAAACAAATGCAG 57.069 30.769 0.00 0.00 34.37 4.41
3055 5117 7.120432 GCAAGACTGATTAGAAGGTGAATCTTT 59.880 37.037 0.00 0.00 33.92 2.52
3080 5143 3.493129 CAGCATGGCAATGTTATTGATGC 59.507 43.478 15.04 15.04 36.08 3.91
3109 5184 5.243730 ACAGCTAACCAAAACAGCACATAAT 59.756 36.000 0.00 0.00 37.78 1.28
3333 5408 3.270027 CCACTCGCAATCACAAGGATAA 58.730 45.455 0.00 0.00 34.28 1.75
3426 5501 1.004918 CTCGAACAGCCGGAAAGGT 60.005 57.895 5.05 0.00 43.70 3.50
3433 5508 4.857588 GTGGATATAATACTCGAACAGCCG 59.142 45.833 0.00 0.00 0.00 5.52
3462 5542 2.996631 AGTGGATCATTCAGAGCAACC 58.003 47.619 0.00 0.00 37.28 3.77
3532 5612 3.837213 CAGTTGAAATCGAACTGCCAT 57.163 42.857 1.49 0.00 42.78 4.40
3617 5699 6.727215 CAACCAAAAATTGCAAAGCAGTATT 58.273 32.000 1.71 0.00 40.61 1.89
3618 5700 6.303021 CAACCAAAAATTGCAAAGCAGTAT 57.697 33.333 1.71 0.00 40.61 2.12
3651 5733 1.526575 CGGCAGCAAACCAAGGATGT 61.527 55.000 0.00 0.00 0.00 3.06
3652 5734 1.213537 CGGCAGCAAACCAAGGATG 59.786 57.895 0.00 0.00 0.00 3.51
3653 5735 0.962356 CTCGGCAGCAAACCAAGGAT 60.962 55.000 0.00 0.00 0.00 3.24
3654 5736 1.600636 CTCGGCAGCAAACCAAGGA 60.601 57.895 0.00 0.00 0.00 3.36
3666 5748 1.593196 CAGGAACAGAAAACTCGGCA 58.407 50.000 0.00 0.00 0.00 5.69
3669 5751 1.264288 GTGGCAGGAACAGAAAACTCG 59.736 52.381 0.00 0.00 0.00 4.18
3706 5799 5.178438 GGCAATTAAAGAAAATGTTCGGCAA 59.822 36.000 0.00 0.00 38.90 4.52
3769 5901 0.872388 CTTTTCCACCACGCAGTACC 59.128 55.000 0.00 0.00 41.61 3.34
3784 5916 0.686789 GCCTTGGATGGTTGCCTTTT 59.313 50.000 0.00 0.00 0.00 2.27
3800 5932 0.671163 TTAACGGTTTGATCGCGCCT 60.671 50.000 0.00 0.00 0.00 5.52
3807 5939 1.530323 AGGCGCTTTAACGGTTTGAT 58.470 45.000 7.64 0.00 0.00 2.57
3838 5970 4.719997 CGCTTTCACCCGCAAAAA 57.280 50.000 0.00 0.00 0.00 1.94
3844 5976 2.159627 GGAATATATGCGCTTTCACCCG 59.840 50.000 9.73 0.00 0.00 5.28
3845 5977 2.159627 CGGAATATATGCGCTTTCACCC 59.840 50.000 9.73 0.91 35.60 4.61
3846 5978 3.455619 CGGAATATATGCGCTTTCACC 57.544 47.619 9.73 2.82 35.60 4.02
3855 5987 4.377022 CGTAAACAGCCACGGAATATATGC 60.377 45.833 0.00 0.00 34.57 3.14
3856 5988 5.264060 CGTAAACAGCCACGGAATATATG 57.736 43.478 0.00 0.00 34.57 1.78
3874 6006 4.399219 TGGGTGATTTGATTTGACCGTAA 58.601 39.130 0.00 0.00 0.00 3.18
3893 6025 4.513692 TCGTTGTTTGTTCTATCACTTGGG 59.486 41.667 0.00 0.00 0.00 4.12
3895 6027 6.715464 ACTTCGTTGTTTGTTCTATCACTTG 58.285 36.000 0.00 0.00 0.00 3.16
3897 6029 6.920569 AACTTCGTTGTTTGTTCTATCACT 57.079 33.333 0.00 0.00 0.00 3.41
3898 6030 7.363589 CAAACTTCGTTGTTTGTTCTATCAC 57.636 36.000 19.78 0.00 46.73 3.06
3957 6089 3.383761 CCAACTTGTCTGTCATTTTGCC 58.616 45.455 0.00 0.00 0.00 4.52
4032 6171 8.594881 AAACTGTTGTCAATGTTTGTAACAAA 57.405 26.923 14.66 0.00 45.86 2.83
4085 6224 2.554032 CCACCACTTCCAAGAATGTCAC 59.446 50.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.