Multiple sequence alignment - TraesCS3D01G031800

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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 TraesCS3D01G031800 chr3D 100.000 3109 0 0 1 3109 11730964 11734072 0.000000e+00 5742.0
1 TraesCS3D01G031800 chr3D 82.097 391 63 7 2722 3108 464341606 464341219 8.310000e-86 327.0
2 TraesCS3D01G031800 chr3D 90.868 219 11 5 581 795 11704208 11704421 5.070000e-73 285.0
3 TraesCS3D01G031800 chr3B 92.480 1915 88 17 1230 3109 16404113 16406006 0.000000e+00 2687.0
4 TraesCS3D01G031800 chr3B 95.833 672 17 5 583 1244 16403382 16404052 0.000000e+00 1075.0
5 TraesCS3D01G031800 chr3B 90.411 219 12 3 581 795 16400608 16400821 2.360000e-71 279.0
6 TraesCS3D01G031800 chr3B 90.909 55 3 2 1265 1319 598447516 598447464 4.300000e-09 73.1
7 TraesCS3D01G031800 chr3B 89.091 55 4 2 1265 1319 474402086 474402034 2.000000e-07 67.6
8 TraesCS3D01G031800 chr2D 95.034 584 27 2 1 583 24573488 24574070 0.000000e+00 917.0
9 TraesCS3D01G031800 chr2D 93.299 582 36 2 1 582 606736048 606735470 0.000000e+00 856.0
10 TraesCS3D01G031800 chr2D 87.671 146 16 2 2574 2718 543823620 543823764 5.330000e-38 169.0
11 TraesCS3D01G031800 chr2D 88.043 92 7 4 509 598 255810698 255810787 4.240000e-19 106.0
12 TraesCS3D01G031800 chr2D 91.667 48 4 0 1654 1701 643954197 643954244 2.000000e-07 67.6
13 TraesCS3D01G031800 chr6D 91.910 581 46 1 1 581 397624960 397625539 0.000000e+00 811.0
14 TraesCS3D01G031800 chr6D 82.051 390 67 3 2722 3109 223731169 223730781 2.310000e-86 329.0
15 TraesCS3D01G031800 chr6D 81.980 394 65 6 2719 3108 238029589 238029980 2.310000e-86 329.0
16 TraesCS3D01G031800 chr2B 93.726 526 31 2 57 582 190057970 190058493 0.000000e+00 787.0
17 TraesCS3D01G031800 chr1B 87.458 598 70 5 1 596 149530845 149531439 0.000000e+00 684.0
18 TraesCS3D01G031800 chr1B 84.354 147 21 2 2574 2718 599336068 599335922 3.230000e-30 143.0
19 TraesCS3D01G031800 chr1B 89.655 58 4 2 1262 1319 125755099 125755154 4.300000e-09 73.1
20 TraesCS3D01G031800 chr1B 82.667 75 8 5 1244 1317 572646590 572646660 9.310000e-06 62.1
21 TraesCS3D01G031800 chr4A 91.958 286 21 2 83 367 616272765 616272481 1.740000e-107 399.0
22 TraesCS3D01G031800 chr2A 84.062 389 61 1 2722 3109 683625605 683625217 1.050000e-99 374.0
23 TraesCS3D01G031800 chr2A 87.273 55 5 1 894 946 769020260 769020314 9.310000e-06 62.1
24 TraesCS3D01G031800 chr3A 78.173 591 116 11 1 584 476290802 476290218 6.340000e-97 364.0
25 TraesCS3D01G031800 chr3A 87.597 129 15 1 2574 2702 79392889 79392762 6.950000e-32 148.0
26 TraesCS3D01G031800 chr7A 83.290 389 64 1 2722 3109 85972597 85972209 1.060000e-94 357.0
27 TraesCS3D01G031800 chr4D 82.776 389 63 4 2722 3107 85431915 85431528 8.250000e-91 344.0
28 TraesCS3D01G031800 chr4B 82.474 388 64 4 2722 3107 589753918 589753533 1.380000e-88 337.0
29 TraesCS3D01G031800 chr5D 81.888 392 67 4 2719 3107 253171243 253171633 8.310000e-86 327.0
30 TraesCS3D01G031800 chr5D 89.286 56 4 2 1264 1319 188826620 188826567 5.560000e-08 69.4
31 TraesCS3D01G031800 chr7D 90.698 129 12 0 2574 2702 543335980 543336108 4.120000e-39 172.0
32 TraesCS3D01G031800 chr7D 85.906 149 20 1 433 581 271501836 271501689 1.150000e-34 158.0
33 TraesCS3D01G031800 chr7D 82.639 144 25 0 2575 2718 631320485 631320342 9.050000e-26 128.0
34 TraesCS3D01G031800 chr5B 87.597 129 16 0 2574 2702 110129157 110129285 1.930000e-32 150.0
35 TraesCS3D01G031800 chr5B 89.286 56 4 2 1264 1319 217907768 217907715 5.560000e-08 69.4
36 TraesCS3D01G031800 chr6B 95.522 67 3 0 517 583 629461492 629461558 1.180000e-19 108.0
37 TraesCS3D01G031800 chr6B 95.238 42 2 0 1259 1300 439065967 439066008 2.000000e-07 67.6
38 TraesCS3D01G031800 chr5A 93.750 48 0 2 1250 1297 453762841 453762797 5.560000e-08 69.4


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 TraesCS3D01G031800 chr3D 11730964 11734072 3108 False 5742 5742 100.000 1 3109 1 chr3D.!!$F2 3108
1 TraesCS3D01G031800 chr3B 16400608 16406006 5398 False 1347 2687 92.908 581 3109 3 chr3B.!!$F1 2528
2 TraesCS3D01G031800 chr2D 24573488 24574070 582 False 917 917 95.034 1 583 1 chr2D.!!$F1 582
3 TraesCS3D01G031800 chr2D 606735470 606736048 578 True 856 856 93.299 1 582 1 chr2D.!!$R1 581
4 TraesCS3D01G031800 chr6D 397624960 397625539 579 False 811 811 91.910 1 581 1 chr6D.!!$F2 580
5 TraesCS3D01G031800 chr2B 190057970 190058493 523 False 787 787 93.726 57 582 1 chr2B.!!$F1 525
6 TraesCS3D01G031800 chr1B 149530845 149531439 594 False 684 684 87.458 1 596 1 chr1B.!!$F2 595
7 TraesCS3D01G031800 chr3A 476290218 476290802 584 True 364 364 78.173 1 584 1 chr3A.!!$R2 583


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
784 2978 1.176527 CATGCCTGATGTTCCCGTTT 58.823 50.0 0.0 0.0 0.0 3.6 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2707 5019 0.608308 TGTGTCGTCGGAGGTCATCT 60.608 55.0 1.36 0.0 0.0 2.9 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
459 460 4.076394 GGATAGTGAGTAGTCAGCTAGGG 58.924 52.174 0.00 0.00 31.53 3.53
634 2827 5.943416 TCCATGGTTAAGTACATCCAACTTG 59.057 40.000 12.58 0.00 37.71 3.16
665 2859 2.507452 TGCCGCAGCTAGCATGAT 59.493 55.556 18.83 0.00 46.13 2.45
699 2893 6.236017 TGCCGAATCAAGTTAAACAAGTAG 57.764 37.500 0.00 0.00 0.00 2.57
700 2894 5.180492 TGCCGAATCAAGTTAAACAAGTAGG 59.820 40.000 0.00 0.00 0.00 3.18
718 2912 5.622180 AGTAGGTAGAATCTATCGTGCAGA 58.378 41.667 0.00 0.00 0.00 4.26
752 2946 4.829064 TTGAATTTTCAGACCTTGGTCG 57.171 40.909 13.41 9.12 38.61 4.79
784 2978 1.176527 CATGCCTGATGTTCCCGTTT 58.823 50.000 0.00 0.00 0.00 3.60
785 2979 1.545582 CATGCCTGATGTTCCCGTTTT 59.454 47.619 0.00 0.00 0.00 2.43
829 3027 3.584733 AATAAATCTCTCCACCCTGCC 57.415 47.619 0.00 0.00 0.00 4.85
923 3126 9.598517 CCGTGTATAAATAACAAGGGTTTAGTA 57.401 33.333 0.90 0.00 41.20 1.82
1120 3323 0.108615 CTACAAGACGACCTGCCCAG 60.109 60.000 0.00 0.00 0.00 4.45
1167 3370 0.462225 TGACGGCGACCTTCAACAAA 60.462 50.000 16.62 0.00 28.72 2.83
1258 3536 7.443272 TCTGCATTACATGGATGAGAAATACTG 59.557 37.037 13.60 1.62 0.00 2.74
1274 3552 2.713863 ACTGTCTACTACTCCCTCCG 57.286 55.000 0.00 0.00 0.00 4.63
1357 3635 4.481112 CATCAAAGGCCGCGGCAC 62.481 66.667 46.88 35.51 44.11 5.01
1580 3858 0.600255 CGGCGCCAGATAGGGTTAAG 60.600 60.000 28.98 0.12 38.09 1.85
1761 4039 1.812922 CTCGCCAAGCAGCTACAGG 60.813 63.158 0.00 0.00 0.00 4.00
1765 4043 0.036010 GCCAAGCAGCTACAGGAGAA 60.036 55.000 11.64 0.00 0.00 2.87
1766 4044 1.611673 GCCAAGCAGCTACAGGAGAAA 60.612 52.381 11.64 0.00 0.00 2.52
1842 4120 3.596982 CGTCTTCGACAACAAGTACTACG 59.403 47.826 0.00 0.00 39.71 3.51
1843 4121 4.531332 GTCTTCGACAACAAGTACTACGT 58.469 43.478 0.00 0.00 32.09 3.57
1923 4201 2.125512 CCAAGAACCTCGCCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
1934 4212 2.124942 GCCCTCGCCTTCTCCAAG 60.125 66.667 0.00 0.00 0.00 3.61
1963 4241 1.134965 AGCCTTCTTCATCGAGTTCGG 60.135 52.381 1.26 0.00 40.29 4.30
2189 4468 2.100216 GCGCGGTGGCTTATGTTG 59.900 61.111 8.83 0.00 36.88 3.33
2318 4603 3.203487 AGTTTTGGGACACCCTTGTAAGA 59.797 43.478 8.34 0.00 45.70 2.10
2395 4680 6.812879 TCAAGATAGTACTGTCTTCGACAA 57.187 37.500 26.63 11.17 42.26 3.18
2406 4691 0.870393 CTTCGACAAGCTGTGCATGT 59.130 50.000 0.00 0.00 43.19 3.21
2411 4696 0.179009 ACAAGCTGTGCATGTCACCT 60.179 50.000 14.85 5.81 45.03 4.00
2412 4697 0.520404 CAAGCTGTGCATGTCACCTC 59.480 55.000 14.85 8.45 45.03 3.85
2413 4698 0.399454 AAGCTGTGCATGTCACCTCT 59.601 50.000 14.85 10.05 45.03 3.69
2414 4699 0.321387 AGCTGTGCATGTCACCTCTG 60.321 55.000 14.85 6.58 45.03 3.35
2438 4741 0.839946 GGAGGGTGGTGCTGTATGAT 59.160 55.000 0.00 0.00 0.00 2.45
2442 4745 1.668419 GGTGGTGCTGTATGATGGTC 58.332 55.000 0.00 0.00 0.00 4.02
2460 4763 2.939022 GTCAACGCAGACAGCACC 59.061 61.111 3.23 0.00 46.13 5.01
2470 4773 0.969894 AGACAGCACCAGACCAGTAC 59.030 55.000 0.00 0.00 0.00 2.73
2486 4789 3.119849 CCAGTACTGCTACCAAAACATGC 60.120 47.826 17.86 0.00 0.00 4.06
2502 4809 4.060038 ACATGCCATCTTAACTACTCCG 57.940 45.455 0.00 0.00 0.00 4.63
2529 4841 6.150976 AGTTAATTGCAAGAAATCATCACGGA 59.849 34.615 4.94 0.00 0.00 4.69
2590 4902 4.222124 ACAGAATTGACATACACCTCCC 57.778 45.455 0.00 0.00 0.00 4.30
2607 4919 2.744202 CTCCCTGGATTTCACAAAGACG 59.256 50.000 0.00 0.00 0.00 4.18
2608 4920 2.105821 TCCCTGGATTTCACAAAGACGT 59.894 45.455 0.00 0.00 0.00 4.34
2618 4930 5.917541 TTCACAAAGACGTCCTTATTCAC 57.082 39.130 13.01 0.00 34.00 3.18
2624 4936 8.286800 CACAAAGACGTCCTTATTCACAAAATA 58.713 33.333 13.01 0.00 34.00 1.40
2649 4961 2.045926 AATCAGCCCACCTCGCAC 60.046 61.111 0.00 0.00 0.00 5.34
2672 4984 1.299468 GTCGCATGCCTCCTACGAG 60.299 63.158 13.15 0.00 32.76 4.18
2673 4985 2.659897 CGCATGCCTCCTACGAGC 60.660 66.667 13.15 0.00 34.49 5.03
2674 4986 2.818132 GCATGCCTCCTACGAGCT 59.182 61.111 6.36 0.00 34.49 4.09
2675 4987 1.593750 GCATGCCTCCTACGAGCTG 60.594 63.158 6.36 0.00 34.49 4.24
2676 4988 1.068753 CATGCCTCCTACGAGCTGG 59.931 63.158 0.00 0.00 34.49 4.85
2677 4989 1.381872 ATGCCTCCTACGAGCTGGT 60.382 57.895 6.61 6.61 34.49 4.00
2678 4990 1.680522 ATGCCTCCTACGAGCTGGTG 61.681 60.000 12.14 1.70 34.49 4.17
2679 4991 3.082579 GCCTCCTACGAGCTGGTGG 62.083 68.421 12.14 8.57 39.32 4.61
2680 4992 2.496817 CTCCTACGAGCTGGTGGC 59.503 66.667 12.14 0.00 42.19 5.01
2710 5022 2.841988 GGCGGCCTCTGGAGAGAT 60.842 66.667 12.87 0.00 44.74 2.75
2724 5036 0.035343 AGAGATGACCTCCGACGACA 60.035 55.000 0.00 0.00 42.97 4.35
2766 5078 9.722056 TTAATCGTAGTCCTTTCGATAAGTAAC 57.278 33.333 0.00 0.00 42.22 2.50
2781 5093 2.830104 AGTAACAGTGTCGAACCCAAC 58.170 47.619 0.00 0.00 0.00 3.77
2830 5143 5.571784 TTCCAGCAAGATATTCTTTGCAG 57.428 39.130 17.35 11.84 33.78 4.41
2834 5147 3.129988 AGCAAGATATTCTTTGCAGGTGC 59.870 43.478 17.35 0.00 33.78 5.01
2839 5152 5.500234 AGATATTCTTTGCAGGTGCTGTAA 58.500 37.500 3.18 0.00 42.66 2.41
2865 5178 8.848182 AGTAACAGTGGTAGATAGTATTGTAGC 58.152 37.037 0.00 0.00 0.00 3.58
2868 5181 8.251383 ACAGTGGTAGATAGTATTGTAGCAAT 57.749 34.615 0.00 0.00 0.00 3.56
2889 5202 6.853872 GCAATGTAATTCGTAACAAGTGACAA 59.146 34.615 0.00 0.00 31.22 3.18
2926 5239 0.625316 TGTGCAACAGGATAGCCCAT 59.375 50.000 0.00 0.00 45.67 4.00
2940 5253 1.818674 AGCCCATTCCTTTTTGTAGCG 59.181 47.619 0.00 0.00 0.00 4.26
2996 5309 2.187946 GCTCCCGAGGACACATGG 59.812 66.667 0.00 0.00 0.00 3.66
2997 5310 2.359169 GCTCCCGAGGACACATGGA 61.359 63.158 0.00 0.00 0.00 3.41
3037 5350 5.930405 TGTTCATCATGTTGAGTTGATTCG 58.070 37.500 6.57 0.00 30.24 3.34
3075 5388 3.507162 ATTTGATATGCGGATGGACCA 57.493 42.857 0.00 0.00 38.90 4.02
3076 5389 2.549064 TTGATATGCGGATGGACCAG 57.451 50.000 0.00 0.00 38.90 4.00
3100 5413 5.526111 GTGCTAAGGTGTTGTTCTTACTTGA 59.474 40.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
421 422 1.270907 ATCCGTTTGCACTCCTCTCT 58.729 50.000 0.00 0.00 0.00 3.10
459 460 0.035725 CCCACCCCTACTCCGAAAAC 60.036 60.000 0.00 0.00 0.00 2.43
634 2827 0.166814 GCGGCATCGATCCAATTAGC 59.833 55.000 0.00 0.00 39.00 3.09
665 2859 3.186702 TGATTCGGCATCATTTACGGA 57.813 42.857 0.00 0.00 36.94 4.69
699 2893 5.127693 ACATCTGCACGATAGATTCTACC 57.872 43.478 0.00 0.00 41.38 3.18
700 2894 5.797934 GCTACATCTGCACGATAGATTCTAC 59.202 44.000 0.00 0.00 41.38 2.59
718 2912 8.391106 GTCTGAAAATTCAAAGATACGCTACAT 58.609 33.333 0.00 0.00 36.64 2.29
770 2964 3.074412 AGCTACAAAACGGGAACATCAG 58.926 45.455 0.00 0.00 0.00 2.90
841 3039 2.868583 CCTAAGCTCAATGTGATCCACG 59.131 50.000 0.00 0.00 37.14 4.94
954 3157 5.951204 GTACCTAGTAGTACAAGAGGGGAT 58.049 45.833 16.17 3.28 41.87 3.85
998 3201 3.515286 CTGCTCTGGGCGCCATTG 61.515 66.667 30.85 17.30 45.43 2.82
1086 3289 0.116342 TGTAGAAGCCAGGGGACAGA 59.884 55.000 0.00 0.00 0.00 3.41
1120 3323 0.960364 TTCACGATTTGCTCCAGCCC 60.960 55.000 0.00 0.00 41.18 5.19
1167 3370 2.584391 GGGAGCGACACCTTGGTCT 61.584 63.158 0.00 0.00 35.63 3.85
1198 3401 0.318762 AAGCAGTCGTGGAAGAGGAC 59.681 55.000 0.00 0.00 39.38 3.85
1258 3536 1.476652 GGGACGGAGGGAGTAGTAGAC 60.477 61.905 0.00 0.00 0.00 2.59
1274 3552 7.699566 TGCAAAAACGTCTTATATTATGGGAC 58.300 34.615 0.00 0.00 0.00 4.46
1449 3727 2.125106 GCATGAGACCACCCGACC 60.125 66.667 0.00 0.00 0.00 4.79
1450 3728 2.509336 CGCATGAGACCACCCGAC 60.509 66.667 0.00 0.00 0.00 4.79
1647 3925 3.905249 GGAAACCAGGTCATCGGC 58.095 61.111 0.00 0.00 0.00 5.54
1726 4004 0.776176 GAGCTGGGGATCCATGGAAT 59.224 55.000 20.67 7.49 43.11 3.01
1727 4005 1.699054 CGAGCTGGGGATCCATGGAA 61.699 60.000 20.67 0.00 43.11 3.53
1749 4027 2.290514 TGCATTTCTCCTGTAGCTGCTT 60.291 45.455 7.79 0.00 0.00 3.91
1752 4030 2.012673 GGTGCATTTCTCCTGTAGCTG 58.987 52.381 0.00 0.00 0.00 4.24
1759 4037 1.133199 TGGGTTTGGTGCATTTCTCCT 60.133 47.619 0.00 0.00 0.00 3.69
1761 4039 1.335872 CGTGGGTTTGGTGCATTTCTC 60.336 52.381 0.00 0.00 0.00 2.87
1765 4043 2.866726 GCCGTGGGTTTGGTGCATT 61.867 57.895 0.00 0.00 0.00 3.56
1766 4044 3.302344 GCCGTGGGTTTGGTGCAT 61.302 61.111 0.00 0.00 0.00 3.96
1923 4201 1.072331 TGTCTGGTTCTTGGAGAAGGC 59.928 52.381 0.00 0.00 34.42 4.35
1934 4212 2.550830 TGAAGAAGGCTGTCTGGTTC 57.449 50.000 0.00 0.00 0.00 3.62
1963 4241 2.349886 GTCATCTTGGTCATCGACTTGC 59.650 50.000 0.00 0.00 32.47 4.01
2168 4446 3.192922 ATAAGCCACCGCGCGTTC 61.193 61.111 29.95 13.97 41.18 3.95
2169 4447 3.496131 CATAAGCCACCGCGCGTT 61.496 61.111 29.95 18.17 41.18 4.84
2189 4468 1.714899 AAGCACAAGACGCACACACC 61.715 55.000 0.00 0.00 0.00 4.16
2318 4603 7.678947 AATCTGAAAAAGACATGACGAAGAT 57.321 32.000 0.00 0.00 37.88 2.40
2367 4652 8.051901 TCGAAGACAGTACTATCTTGAAATGA 57.948 34.615 20.85 7.92 35.29 2.57
2387 4672 0.870393 ACATGCACAGCTTGTCGAAG 59.130 50.000 4.89 0.00 41.89 3.79
2406 4691 4.874521 CCTCCCAGACAGAGGTGA 57.125 61.111 0.00 0.00 45.05 4.02
2411 4696 1.536418 CACCACCCTCCCAGACAGA 60.536 63.158 0.00 0.00 0.00 3.41
2412 4697 3.072476 CACCACCCTCCCAGACAG 58.928 66.667 0.00 0.00 0.00 3.51
2413 4698 3.249189 GCACCACCCTCCCAGACA 61.249 66.667 0.00 0.00 0.00 3.41
2414 4699 2.930562 AGCACCACCCTCCCAGAC 60.931 66.667 0.00 0.00 0.00 3.51
2438 4741 1.299850 CTGTCTGCGTTGACGACCA 60.300 57.895 7.85 0.00 43.02 4.02
2442 4745 2.546321 GTGCTGTCTGCGTTGACG 59.454 61.111 0.00 0.00 46.63 4.35
2460 4763 3.678056 TTTGGTAGCAGTACTGGTCTG 57.322 47.619 29.64 2.51 41.96 3.51
2470 4773 2.756760 AGATGGCATGTTTTGGTAGCAG 59.243 45.455 3.81 0.00 0.00 4.24
2486 4789 6.461110 TTAACTCCGGAGTAGTTAAGATGG 57.539 41.667 36.42 7.27 42.52 3.51
2502 4809 6.470235 CGTGATGATTTCTTGCAATTAACTCC 59.530 38.462 0.00 0.00 0.00 3.85
2590 4902 3.403038 AGGACGTCTTTGTGAAATCCAG 58.597 45.455 16.46 0.00 34.84 3.86
2659 4971 1.381872 ACCAGCTCGTAGGAGGCAT 60.382 57.895 14.00 0.00 40.80 4.40
2677 4989 3.390521 CCTCGTGGTGGCTAGCCA 61.391 66.667 32.88 32.88 45.02 4.75
2678 4990 4.840005 GCCTCGTGGTGGCTAGCC 62.840 72.222 27.71 27.71 46.38 3.93
2707 5019 0.608308 TGTGTCGTCGGAGGTCATCT 60.608 55.000 1.36 0.00 0.00 2.90
2710 5022 1.385756 TTGTGTGTCGTCGGAGGTCA 61.386 55.000 0.00 0.00 0.00 4.02
2717 5029 2.479049 CCCCTATACTTGTGTGTCGTCG 60.479 54.545 0.00 0.00 0.00 5.12
2720 5032 4.402056 AATCCCCTATACTTGTGTGTCG 57.598 45.455 0.00 0.00 0.00 4.35
2724 5036 6.742559 ACGATTAATCCCCTATACTTGTGT 57.257 37.500 9.87 0.00 0.00 3.72
2766 5078 0.944311 CCTCGTTGGGTTCGACACTG 60.944 60.000 0.00 0.00 33.71 3.66
2805 5118 5.243507 TGCAAAGAATATCTTGCTGGAAACA 59.756 36.000 14.60 0.00 36.71 2.83
2806 5119 5.713025 TGCAAAGAATATCTTGCTGGAAAC 58.287 37.500 14.60 0.00 36.71 2.78
2818 5131 5.256474 ACTTACAGCACCTGCAAAGAATAT 58.744 37.500 12.22 0.00 45.16 1.28
2839 5152 8.848182 GCTACAATACTATCTACCACTGTTACT 58.152 37.037 0.00 0.00 0.00 2.24
2858 5171 8.726988 ACTTGTTACGAATTACATTGCTACAAT 58.273 29.630 0.00 0.00 0.00 2.71
2862 5175 7.385478 TGTCACTTGTTACGAATTACATTGCTA 59.615 33.333 0.00 0.00 0.00 3.49
2865 5178 8.067784 ACTTGTCACTTGTTACGAATTACATTG 58.932 33.333 0.00 0.00 0.00 2.82
2868 5181 8.542132 GTTACTTGTCACTTGTTACGAATTACA 58.458 33.333 0.00 0.00 0.00 2.41
2889 5202 5.169836 GCACACTTGCTACTTTTGTTACT 57.830 39.130 0.00 0.00 46.17 2.24
2916 5229 4.038042 GCTACAAAAAGGAATGGGCTATCC 59.962 45.833 0.00 0.00 35.88 2.59
2940 5253 2.239907 AGTACTTTCAGGCCCATCCTTC 59.760 50.000 0.00 0.00 44.75 3.46
2953 5266 9.851043 CGCTTTGCTTTATATAAGAGTACTTTC 57.149 33.333 0.00 0.00 37.53 2.62
2982 5295 2.128771 AATTTCCATGTGTCCTCGGG 57.871 50.000 0.00 0.00 0.00 5.14
2983 5296 2.423538 GGAAATTTCCATGTGTCCTCGG 59.576 50.000 28.76 0.00 46.76 4.63
2996 5309 6.721571 TGAACATGACTAGACGGAAATTTC 57.278 37.500 9.83 9.83 0.00 2.17
2997 5310 6.878923 TGATGAACATGACTAGACGGAAATTT 59.121 34.615 0.00 0.00 0.00 1.82
3035 5348 8.523523 TCAAATTATCAAAGTAACGAACTCGA 57.476 30.769 6.05 0.00 43.02 4.04
3075 5388 5.291905 AGTAAGAACAACACCTTAGCACT 57.708 39.130 0.00 0.00 0.00 4.40
3076 5389 5.526111 TCAAGTAAGAACAACACCTTAGCAC 59.474 40.000 0.00 0.00 0.00 4.40



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

AutoCloner maintained by Alex Coulton.