Multiple sequence alignment - TraesCS4D01G182300

Loading Multiple Alignment...

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 TraesCS4D01G182300 chr4D 100.000 4227 0 0 1 4227 318497448 318493222 0.000000e+00 7806
1 TraesCS4D01G182300 chr4A 95.222 1758 46 12 798 2530 155833927 155832183 0.000000e+00 2747
2 TraesCS4D01G182300 chr4A 94.975 1572 46 12 2519 4074 155830513 155828959 0.000000e+00 2435
3 TraesCS4D01G182300 chr4A 87.943 1410 109 31 1389 2782 402711380 402710016 0.000000e+00 1605
4 TraesCS4D01G182300 chr4A 90.231 737 48 13 1331 2056 12731841 12731118 0.000000e+00 941
5 TraesCS4D01G182300 chr4A 90.571 700 50 8 2088 2782 12695018 12694330 0.000000e+00 913
6 TraesCS4D01G182300 chr4A 92.086 139 5 2 4089 4227 155827889 155827757 1.550000e-44 191
7 TraesCS4D01G182300 chr4B 97.947 1559 27 4 2405 3960 395819219 395817663 0.000000e+00 2697
8 TraesCS4D01G182300 chr4B 94.821 1680 51 16 756 2410 395821044 395819376 0.000000e+00 2588
9 TraesCS4D01G182300 chr4B 91.852 540 30 8 1355 1891 223382329 223382857 0.000000e+00 741
10 TraesCS4D01G182300 chr1D 84.791 2058 228 51 1207 3233 403065966 403063963 0.000000e+00 1988
11 TraesCS4D01G182300 chr1D 81.579 418 61 14 306 718 58982174 58981768 8.760000e-87 331
12 TraesCS4D01G182300 chr1D 83.249 197 20 9 991 1176 403066149 403065955 7.270000e-38 169
13 TraesCS4D01G182300 chr2B 90.588 935 59 18 1355 2273 758095721 758096642 0.000000e+00 1212
14 TraesCS4D01G182300 chr2B 90.481 935 59 17 1355 2273 175749404 175750324 0.000000e+00 1206
15 TraesCS4D01G182300 chr6B 90.374 935 61 18 1355 2273 579221453 579220532 0.000000e+00 1201
16 TraesCS4D01G182300 chr6B 92.030 527 28 8 1331 1853 264137 263621 0.000000e+00 728
17 TraesCS4D01G182300 chr7D 92.744 758 42 10 1 749 589284659 589283906 0.000000e+00 1083
18 TraesCS4D01G182300 chr7D 91.887 530 36 2 1 529 609908932 609908409 0.000000e+00 734
19 TraesCS4D01G182300 chr7D 92.593 81 4 2 656 735 609908057 609907978 9.600000e-22 115
20 TraesCS4D01G182300 chr1B 86.704 895 84 21 1990 2872 541018491 541017620 0.000000e+00 961
21 TraesCS4D01G182300 chr1B 86.707 331 31 5 2914 3231 541017613 541017283 5.200000e-94 355
22 TraesCS4D01G182300 chr1B 82.412 199 23 7 989 1176 541019399 541019202 3.380000e-36 163
23 TraesCS4D01G182300 chr1A 94.595 407 22 0 2002 2408 498179125 498178719 7.710000e-177 630
24 TraesCS4D01G182300 chr1A 85.928 334 31 8 2914 3231 498178139 498177806 4.050000e-90 342
25 TraesCS4D01G182300 chr1A 78.135 311 51 11 1 296 253377103 253377411 9.340000e-42 182
26 TraesCS4D01G182300 chr1A 92.308 117 5 4 989 1104 498180270 498180157 3.380000e-36 163
27 TraesCS4D01G182300 chr7B 83.306 611 78 12 1 607 688072182 688072772 3.720000e-150 542
28 TraesCS4D01G182300 chr2D 82.272 581 69 20 1 562 60061614 60062179 4.950000e-129 472


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 TraesCS4D01G182300 chr4D 318493222 318497448 4226 True 7806.000000 7806 100.000000 1 4227 1 chr4D.!!$R1 4226
1 TraesCS4D01G182300 chr4A 155827757 155833927 6170 True 1791.000000 2747 94.094333 798 4227 3 chr4A.!!$R4 3429
2 TraesCS4D01G182300 chr4A 402710016 402711380 1364 True 1605.000000 1605 87.943000 1389 2782 1 chr4A.!!$R3 1393
3 TraesCS4D01G182300 chr4A 12731118 12731841 723 True 941.000000 941 90.231000 1331 2056 1 chr4A.!!$R2 725
4 TraesCS4D01G182300 chr4A 12694330 12695018 688 True 913.000000 913 90.571000 2088 2782 1 chr4A.!!$R1 694
5 TraesCS4D01G182300 chr4B 395817663 395821044 3381 True 2642.500000 2697 96.384000 756 3960 2 chr4B.!!$R1 3204
6 TraesCS4D01G182300 chr4B 223382329 223382857 528 False 741.000000 741 91.852000 1355 1891 1 chr4B.!!$F1 536
7 TraesCS4D01G182300 chr1D 403063963 403066149 2186 True 1078.500000 1988 84.020000 991 3233 2 chr1D.!!$R2 2242
8 TraesCS4D01G182300 chr2B 758095721 758096642 921 False 1212.000000 1212 90.588000 1355 2273 1 chr2B.!!$F2 918
9 TraesCS4D01G182300 chr2B 175749404 175750324 920 False 1206.000000 1206 90.481000 1355 2273 1 chr2B.!!$F1 918
10 TraesCS4D01G182300 chr6B 579220532 579221453 921 True 1201.000000 1201 90.374000 1355 2273 1 chr6B.!!$R2 918
11 TraesCS4D01G182300 chr6B 263621 264137 516 True 728.000000 728 92.030000 1331 1853 1 chr6B.!!$R1 522
12 TraesCS4D01G182300 chr7D 589283906 589284659 753 True 1083.000000 1083 92.744000 1 749 1 chr7D.!!$R1 748
13 TraesCS4D01G182300 chr7D 609907978 609908932 954 True 424.500000 734 92.240000 1 735 2 chr7D.!!$R2 734
14 TraesCS4D01G182300 chr1B 541017283 541019399 2116 True 493.000000 961 85.274333 989 3231 3 chr1B.!!$R1 2242
15 TraesCS4D01G182300 chr1A 498177806 498180270 2464 True 378.333333 630 90.943667 989 3231 3 chr1A.!!$R1 2242
16 TraesCS4D01G182300 chr7B 688072182 688072772 590 False 542.000000 542 83.306000 1 607 1 chr7B.!!$F1 606
17 TraesCS4D01G182300 chr2D 60061614 60062179 565 False 472.000000 472 82.272000 1 562 1 chr2D.!!$F1 561

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
738 752 0.036306 GGTGGAAACATGGACGGAGT 59.964 55.000 0.0 0.0 46.47 3.85 F
875 902 1.007387 GCAAGTCCAAAGCCCAACG 60.007 57.895 0.0 0.0 0.00 4.10 F
1302 1367 1.069204 CCGGTGATCATCCTCGTCATT 59.931 52.381 0.0 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1771 1852 1.588674 CTGGTTTGACTGCGTGGTTA 58.411 50.000 0.0 0.0 0.00 2.85 R
2116 2421 2.125350 GCTCCTGAAGCCGACCAG 60.125 66.667 0.0 0.0 45.92 4.00 R
3254 6025 1.040646 ACGAGAACACCTTCAGAGCA 58.959 50.000 0.0 0.0 0.00 4.26 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
81 84 5.183331 ACTCTGCTCTAACGTCAGATTTGTA 59.817 40.000 4.56 0.00 36.41 2.41
110 119 4.042187 AGCTTAAGAACACACCCAGAGAAT 59.958 41.667 6.67 0.00 0.00 2.40
111 120 4.154918 GCTTAAGAACACACCCAGAGAATG 59.845 45.833 6.67 0.00 0.00 2.67
128 137 2.859165 ATGTGAGGGAACATTCACGT 57.141 45.000 0.84 0.00 43.99 4.49
150 160 3.013921 ACCACACGAAAAAGTGATGTGT 58.986 40.909 4.00 0.00 44.43 3.72
256 268 1.760613 CGCTTCTACACCCAATCCCTA 59.239 52.381 0.00 0.00 0.00 3.53
258 270 3.181454 CGCTTCTACACCCAATCCCTAAT 60.181 47.826 0.00 0.00 0.00 1.73
369 381 4.973055 CGCCCCCGACAACAACGA 62.973 66.667 0.00 0.00 36.29 3.85
406 419 1.066143 TCGGCTTCAAATCCCTCACTC 60.066 52.381 0.00 0.00 0.00 3.51
515 528 2.674220 GGGAGCAACTGGAGAGGGG 61.674 68.421 0.00 0.00 0.00 4.79
574 587 1.007336 GTGTACGACAACTGCTCGGG 61.007 60.000 0.00 0.00 35.37 5.14
575 588 2.092882 GTACGACAACTGCTCGGGC 61.093 63.158 0.00 0.00 35.37 6.13
614 628 4.078516 GTGGGGGAGTTCGGACCG 62.079 72.222 7.84 7.84 0.00 4.79
620 634 1.227002 GGAGTTCGGACCGAGATGC 60.227 63.158 17.51 11.14 37.14 3.91
622 636 2.582498 GTTCGGACCGAGATGCCG 60.582 66.667 17.51 0.00 46.08 5.69
684 698 3.218398 CGAGTCAAGATTCGTGCAAAAC 58.782 45.455 6.79 0.00 36.09 2.43
685 699 3.303066 CGAGTCAAGATTCGTGCAAAACA 60.303 43.478 6.79 0.00 36.09 2.83
686 700 4.597079 GAGTCAAGATTCGTGCAAAACAA 58.403 39.130 0.00 0.00 0.00 2.83
687 701 4.992688 AGTCAAGATTCGTGCAAAACAAA 58.007 34.783 0.00 0.00 0.00 2.83
688 702 5.406649 AGTCAAGATTCGTGCAAAACAAAA 58.593 33.333 0.00 0.00 0.00 2.44
689 703 5.288472 AGTCAAGATTCGTGCAAAACAAAAC 59.712 36.000 0.00 0.00 0.00 2.43
690 704 4.264145 TCAAGATTCGTGCAAAACAAAACG 59.736 37.500 0.00 0.00 37.38 3.60
691 705 3.765026 AGATTCGTGCAAAACAAAACGT 58.235 36.364 0.00 0.00 37.32 3.99
692 706 3.545873 AGATTCGTGCAAAACAAAACGTG 59.454 39.130 0.00 0.00 37.32 4.49
693 707 0.985549 TCGTGCAAAACAAAACGTGC 59.014 45.000 0.00 0.00 37.32 5.34
694 708 0.313077 CGTGCAAAACAAAACGTGCG 60.313 50.000 0.00 0.00 39.92 5.34
695 709 0.711118 GTGCAAAACAAAACGTGCGT 59.289 45.000 0.00 0.00 39.92 5.24
696 710 0.985549 TGCAAAACAAAACGTGCGTC 59.014 45.000 0.00 0.00 39.92 5.19
697 711 0.045419 GCAAAACAAAACGTGCGTCG 60.045 50.000 0.00 0.00 46.00 5.12
698 712 1.525596 CAAAACAAAACGTGCGTCGA 58.474 45.000 8.04 0.00 42.86 4.20
699 713 2.105659 CAAAACAAAACGTGCGTCGAT 58.894 42.857 8.04 0.00 42.86 3.59
700 714 2.013286 AAACAAAACGTGCGTCGATC 57.987 45.000 8.04 0.00 42.86 3.69
701 715 0.931702 AACAAAACGTGCGTCGATCA 59.068 45.000 8.04 0.00 42.86 2.92
702 716 0.506932 ACAAAACGTGCGTCGATCAG 59.493 50.000 8.04 0.00 42.86 2.90
703 717 0.785708 CAAAACGTGCGTCGATCAGC 60.786 55.000 8.04 0.00 42.86 4.26
704 718 2.210524 AAAACGTGCGTCGATCAGCG 62.211 55.000 8.04 0.00 42.86 5.18
709 723 4.253273 GCGTCGATCAGCGCGTTC 62.253 66.667 8.43 0.00 44.13 3.95
710 724 3.949348 CGTCGATCAGCGCGTTCG 61.949 66.667 19.10 19.10 40.61 3.95
711 725 3.607987 GTCGATCAGCGCGTTCGG 61.608 66.667 22.80 7.07 40.61 4.30
712 726 3.806422 TCGATCAGCGCGTTCGGA 61.806 61.111 22.80 9.09 40.61 4.55
713 727 3.607987 CGATCAGCGCGTTCGGAC 61.608 66.667 17.92 0.00 33.96 4.79
714 728 3.255379 GATCAGCGCGTTCGGACC 61.255 66.667 8.43 0.00 35.95 4.46
730 744 4.319133 CCGAGGGGTGGAAACATG 57.681 61.111 0.00 0.00 46.14 3.21
731 745 1.378514 CCGAGGGGTGGAAACATGG 60.379 63.158 0.00 0.00 46.14 3.66
732 746 1.682849 CGAGGGGTGGAAACATGGA 59.317 57.895 0.00 0.00 46.14 3.41
733 747 0.676782 CGAGGGGTGGAAACATGGAC 60.677 60.000 0.00 0.00 46.14 4.02
734 748 0.676782 GAGGGGTGGAAACATGGACG 60.677 60.000 0.00 0.00 46.14 4.79
735 749 1.677633 GGGGTGGAAACATGGACGG 60.678 63.158 0.00 0.00 46.14 4.79
736 750 1.377229 GGGTGGAAACATGGACGGA 59.623 57.895 0.00 0.00 46.14 4.69
737 751 0.676782 GGGTGGAAACATGGACGGAG 60.677 60.000 0.00 0.00 46.14 4.63
738 752 0.036306 GGTGGAAACATGGACGGAGT 59.964 55.000 0.00 0.00 46.47 3.85
739 753 1.544759 GGTGGAAACATGGACGGAGTT 60.545 52.381 0.00 0.00 43.75 3.01
740 754 2.289819 GGTGGAAACATGGACGGAGTTA 60.290 50.000 0.00 0.00 43.75 2.24
741 755 3.606687 GTGGAAACATGGACGGAGTTAT 58.393 45.455 0.00 0.00 43.75 1.89
742 756 3.621715 GTGGAAACATGGACGGAGTTATC 59.378 47.826 0.00 0.00 43.75 1.75
743 757 3.262151 TGGAAACATGGACGGAGTTATCA 59.738 43.478 0.00 0.00 36.19 2.15
744 758 4.263112 TGGAAACATGGACGGAGTTATCAA 60.263 41.667 0.00 0.00 36.19 2.57
745 759 5.572680 TGGAAACATGGACGGAGTTATCAAT 60.573 40.000 0.00 0.00 36.19 2.57
746 760 6.352308 TGGAAACATGGACGGAGTTATCAATA 60.352 38.462 0.00 0.00 36.19 1.90
747 761 8.327412 TGGAAACATGGACGGAGTTATCAATAC 61.327 40.741 0.00 0.00 36.19 1.89
786 801 9.397280 AGGGAATAAAGTTTTAACTAGAGATGC 57.603 33.333 0.00 0.00 38.57 3.91
791 806 6.976636 AAGTTTTAACTAGAGATGCTCTGC 57.023 37.500 7.19 0.00 41.37 4.26
792 807 6.293004 AGTTTTAACTAGAGATGCTCTGCT 57.707 37.500 7.19 0.00 41.37 4.24
793 808 6.337356 AGTTTTAACTAGAGATGCTCTGCTC 58.663 40.000 7.19 0.00 41.37 4.26
794 809 6.154363 AGTTTTAACTAGAGATGCTCTGCTCT 59.846 38.462 7.19 0.00 41.37 4.09
801 816 4.393834 AGAGATGCTCTGCTCTACGATTA 58.606 43.478 0.00 0.00 39.62 1.75
875 902 1.007387 GCAAGTCCAAAGCCCAACG 60.007 57.895 0.00 0.00 0.00 4.10
936 964 1.440362 TTTCTCCCCCTTTCCCCACC 61.440 60.000 0.00 0.00 0.00 4.61
969 997 2.353011 CGCCGTCAAGTCTAGGGTTTAA 60.353 50.000 0.00 0.00 0.00 1.52
1200 1265 1.210722 GCGGAGGAGGAGAAAGGAAAT 59.789 52.381 0.00 0.00 0.00 2.17
1203 1268 2.846827 GGAGGAGGAGAAAGGAAATGGA 59.153 50.000 0.00 0.00 0.00 3.41
1302 1367 1.069204 CCGGTGATCATCCTCGTCATT 59.931 52.381 0.00 0.00 0.00 2.57
1333 1399 1.511254 GCGTCGATTTCGTTTGCCC 60.511 57.895 0.00 0.00 40.80 5.36
1334 1400 1.908066 GCGTCGATTTCGTTTGCCCT 61.908 55.000 0.00 0.00 40.80 5.19
1399 1475 5.333339 CGGTGATATGTCGAGCTTTTATTGG 60.333 44.000 0.00 0.00 0.00 3.16
1406 1482 4.876107 TGTCGAGCTTTTATTGGGAGATTC 59.124 41.667 0.00 0.00 0.00 2.52
1789 1870 2.264005 ATAACCACGCAGTCAAACCA 57.736 45.000 0.00 0.00 41.61 3.67
1941 2023 7.467267 GCTCTGAATAGTGACAACTTTTTGTGA 60.467 37.037 0.00 0.00 46.43 3.58
2116 2421 4.098501 CCAGGGCAGATTGAAATCTTTACC 59.901 45.833 2.74 6.17 42.96 2.85
3111 5842 2.452600 ACTCCTCCCTCAGAGATGAC 57.547 55.000 0.00 0.00 46.50 3.06
3412 6183 5.684704 TGCTGTTTTCTCAAGGGATATAGG 58.315 41.667 0.00 0.00 0.00 2.57
3588 6359 4.312443 TCCTGTCAATGTAAAGGTTCGTC 58.688 43.478 0.00 0.00 0.00 4.20
3604 6375 4.112634 GTTCGTCGATTCCATTCTGATCA 58.887 43.478 0.00 0.00 0.00 2.92
3725 6497 5.798125 TTACAGTGGAAATGAAATGCCAA 57.202 34.783 0.00 0.00 34.00 4.52
3836 6608 0.245539 TTCACTGGCTACGCTGTACC 59.754 55.000 0.00 0.00 0.00 3.34
3856 6628 4.137543 ACCAATTGTCTCCTTGACTTGTC 58.862 43.478 4.43 0.00 45.54 3.18
4021 6799 5.450826 GGTTACGTCATCCACCAAAACTTTT 60.451 40.000 0.00 0.00 0.00 2.27
4034 6812 8.608317 CCACCAAAACTTTTACAATAAAACCTG 58.392 33.333 0.00 0.00 0.00 4.00
4035 6813 8.608317 CACCAAAACTTTTACAATAAAACCTGG 58.392 33.333 0.00 0.00 0.00 4.45
4036 6814 7.771361 ACCAAAACTTTTACAATAAAACCTGGG 59.229 33.333 0.00 0.00 0.00 4.45
4037 6815 7.227711 CCAAAACTTTTACAATAAAACCTGGGG 59.772 37.037 0.00 0.00 0.00 4.96
4038 6816 6.428083 AACTTTTACAATAAAACCTGGGGG 57.572 37.500 0.00 0.00 38.88 5.40
4040 6818 5.305902 ACTTTTACAATAAAACCTGGGGGTG 59.694 40.000 0.00 0.00 46.67 4.61
4041 6819 2.319025 ACAATAAAACCTGGGGGTGG 57.681 50.000 0.00 0.00 46.67 4.61
4042 6820 1.203250 ACAATAAAACCTGGGGGTGGG 60.203 52.381 0.00 0.00 46.67 4.61
4096 7929 1.914764 CCCTTGGCCAGGCAATGTT 60.915 57.895 15.19 0.00 42.29 2.71
4194 8027 1.072806 ACCTGATGCTGCAAGACTTCA 59.927 47.619 6.36 4.44 34.07 3.02
4203 8036 1.230635 GCAAGACTTCAGCTCGGCAA 61.231 55.000 0.00 0.00 0.00 4.52
4212 8045 1.078759 CAGCTCGGCAAGTTAGGACG 61.079 60.000 0.00 0.00 38.38 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 84 4.777896 TGGGTGTGTTCTTAAGCTAGATCT 59.222 41.667 0.00 0.00 0.00 2.75
110 119 2.289195 GGTACGTGAATGTTCCCTCACA 60.289 50.000 0.00 0.00 41.71 3.58
111 120 2.289195 TGGTACGTGAATGTTCCCTCAC 60.289 50.000 0.00 0.00 38.87 3.51
128 137 4.193090 ACACATCACTTTTTCGTGTGGTA 58.807 39.130 8.44 0.00 43.23 3.25
150 160 1.300931 GTGAGGTCAGTTCGCAGCA 60.301 57.895 0.00 0.00 0.00 4.41
190 202 1.677637 GGATTTCCTCTCCGGCGACT 61.678 60.000 9.30 0.00 0.00 4.18
256 268 0.808755 GGTGGCGACGAATTTCCATT 59.191 50.000 0.00 0.00 0.00 3.16
258 270 0.672401 GAGGTGGCGACGAATTTCCA 60.672 55.000 0.00 0.00 0.00 3.53
515 528 2.038975 GCCCCCTTTTCCCCTTCC 59.961 66.667 0.00 0.00 0.00 3.46
562 575 4.379243 CTCCGCCCGAGCAGTTGT 62.379 66.667 0.00 0.00 39.83 3.32
614 628 0.808847 GTTCGGGGTAACGGCATCTC 60.809 60.000 0.00 0.00 37.60 2.75
622 636 1.668793 CACCACCGTTCGGGGTAAC 60.669 63.158 18.55 0.00 38.56 2.50
684 698 0.785708 GCTGATCGACGCACGTTTTG 60.786 55.000 0.00 0.00 43.13 2.44
685 699 1.491563 GCTGATCGACGCACGTTTT 59.508 52.632 0.00 0.00 43.13 2.43
686 700 2.716828 CGCTGATCGACGCACGTTT 61.717 57.895 0.00 0.00 43.13 3.60
687 701 3.172575 CGCTGATCGACGCACGTT 61.173 61.111 0.00 0.00 43.13 3.99
693 707 3.949348 CGAACGCGCTGATCGACG 61.949 66.667 20.61 3.02 44.78 5.12
694 708 3.607987 CCGAACGCGCTGATCGAC 61.608 66.667 24.56 3.40 44.78 4.20
695 709 3.806422 TCCGAACGCGCTGATCGA 61.806 61.111 24.56 13.13 44.78 3.59
696 710 3.607987 GTCCGAACGCGCTGATCG 61.608 66.667 19.13 19.13 41.99 3.69
697 711 3.255379 GGTCCGAACGCGCTGATC 61.255 66.667 5.73 2.55 35.83 2.92
705 719 4.430765 CACCCCTCGGTCCGAACG 62.431 72.222 16.23 8.19 42.04 3.95
706 720 4.078516 CCACCCCTCGGTCCGAAC 62.079 72.222 16.23 0.00 42.04 3.95
707 721 3.831727 TTCCACCCCTCGGTCCGAA 62.832 63.158 16.23 0.00 42.04 4.30
708 722 3.831727 TTTCCACCCCTCGGTCCGA 62.832 63.158 14.54 14.54 42.04 4.55
709 723 3.315949 TTTCCACCCCTCGGTCCG 61.316 66.667 4.39 4.39 42.04 4.79
710 724 1.848886 ATGTTTCCACCCCTCGGTCC 61.849 60.000 0.00 0.00 42.04 4.46
711 725 0.676782 CATGTTTCCACCCCTCGGTC 60.677 60.000 0.00 0.00 42.04 4.79
712 726 1.378762 CATGTTTCCACCCCTCGGT 59.621 57.895 0.00 0.00 46.31 4.69
713 727 1.378514 CCATGTTTCCACCCCTCGG 60.379 63.158 0.00 0.00 0.00 4.63
714 728 0.676782 GTCCATGTTTCCACCCCTCG 60.677 60.000 0.00 0.00 0.00 4.63
715 729 0.676782 CGTCCATGTTTCCACCCCTC 60.677 60.000 0.00 0.00 0.00 4.30
716 730 1.378762 CGTCCATGTTTCCACCCCT 59.621 57.895 0.00 0.00 0.00 4.79
717 731 1.677633 CCGTCCATGTTTCCACCCC 60.678 63.158 0.00 0.00 0.00 4.95
718 732 0.676782 CTCCGTCCATGTTTCCACCC 60.677 60.000 0.00 0.00 0.00 4.61
719 733 0.036306 ACTCCGTCCATGTTTCCACC 59.964 55.000 0.00 0.00 0.00 4.61
720 734 1.892209 AACTCCGTCCATGTTTCCAC 58.108 50.000 0.00 0.00 0.00 4.02
721 735 3.262151 TGATAACTCCGTCCATGTTTCCA 59.738 43.478 0.00 0.00 0.00 3.53
722 736 3.869065 TGATAACTCCGTCCATGTTTCC 58.131 45.455 0.00 0.00 0.00 3.13
723 737 6.018180 GGTATTGATAACTCCGTCCATGTTTC 60.018 42.308 0.00 0.00 0.00 2.78
724 738 5.820947 GGTATTGATAACTCCGTCCATGTTT 59.179 40.000 0.00 0.00 0.00 2.83
725 739 5.365619 GGTATTGATAACTCCGTCCATGTT 58.634 41.667 0.00 0.00 0.00 2.71
726 740 4.202326 GGGTATTGATAACTCCGTCCATGT 60.202 45.833 0.00 0.00 0.00 3.21
727 741 4.040461 AGGGTATTGATAACTCCGTCCATG 59.960 45.833 0.00 0.00 0.00 3.66
728 742 4.232091 AGGGTATTGATAACTCCGTCCAT 58.768 43.478 0.00 0.00 0.00 3.41
729 743 3.649843 AGGGTATTGATAACTCCGTCCA 58.350 45.455 0.00 0.00 0.00 4.02
730 744 4.684484 AAGGGTATTGATAACTCCGTCC 57.316 45.455 0.00 0.00 0.00 4.79
731 745 6.997239 AAAAAGGGTATTGATAACTCCGTC 57.003 37.500 0.00 0.00 0.00 4.79
761 775 9.397280 AGCATCTCTAGTTAAAACTTTATTCCC 57.603 33.333 0.00 0.00 40.37 3.97
786 801 4.295051 GGCTTCTTAATCGTAGAGCAGAG 58.705 47.826 0.00 0.00 43.63 3.35
788 803 3.046390 CGGCTTCTTAATCGTAGAGCAG 58.954 50.000 0.00 0.00 43.63 4.24
789 804 2.686405 TCGGCTTCTTAATCGTAGAGCA 59.314 45.455 0.00 0.00 43.63 4.26
790 805 3.351020 TCGGCTTCTTAATCGTAGAGC 57.649 47.619 0.00 0.00 43.63 4.09
791 806 6.074249 GGAAAATCGGCTTCTTAATCGTAGAG 60.074 42.308 0.00 0.00 43.63 2.43
792 807 5.751990 GGAAAATCGGCTTCTTAATCGTAGA 59.248 40.000 0.00 0.00 45.75 2.59
793 808 5.050295 GGGAAAATCGGCTTCTTAATCGTAG 60.050 44.000 0.00 0.00 0.00 3.51
794 809 4.812626 GGGAAAATCGGCTTCTTAATCGTA 59.187 41.667 0.00 0.00 0.00 3.43
801 816 0.326927 TCCGGGAAAATCGGCTTCTT 59.673 50.000 0.00 0.00 46.43 2.52
875 902 0.951040 CAACAGTGGTCTTCGCCCTC 60.951 60.000 0.00 0.00 0.00 4.30
1200 1265 2.530661 TCGCCCTTCCCCTTTCCA 60.531 61.111 0.00 0.00 0.00 3.53
1203 1268 2.522367 TTCGTCGCCCTTCCCCTTT 61.522 57.895 0.00 0.00 0.00 3.11
1333 1399 6.698766 GTCCTGCTAAAATGGCAATTGAATAG 59.301 38.462 10.34 2.95 39.30 1.73
1334 1400 6.572519 GTCCTGCTAAAATGGCAATTGAATA 58.427 36.000 10.34 0.00 39.30 1.75
1399 1475 2.174424 AGCTTCCAATCCCAGAATCTCC 59.826 50.000 0.00 0.00 0.00 3.71
1406 1482 3.054802 ACAGAGTAAGCTTCCAATCCCAG 60.055 47.826 0.00 0.00 0.00 4.45
1771 1852 1.588674 CTGGTTTGACTGCGTGGTTA 58.411 50.000 0.00 0.00 0.00 2.85
1834 1915 6.979465 TGCAACAGTTTACATTGAATGATGA 58.021 32.000 12.80 0.00 0.00 2.92
2116 2421 2.125350 GCTCCTGAAGCCGACCAG 60.125 66.667 0.00 0.00 45.92 4.00
2439 3024 9.143155 ACAAAAGTATACCAAAAAGAGAACCAT 57.857 29.630 0.00 0.00 0.00 3.55
3126 5857 1.681486 CGCCTCCTCTTCTTCCTCCC 61.681 65.000 0.00 0.00 0.00 4.30
3248 6019 5.171339 AGAACACCTTCAGAGCACATTAT 57.829 39.130 0.00 0.00 0.00 1.28
3249 6020 4.569943 GAGAACACCTTCAGAGCACATTA 58.430 43.478 0.00 0.00 0.00 1.90
3250 6021 3.406764 GAGAACACCTTCAGAGCACATT 58.593 45.455 0.00 0.00 0.00 2.71
3251 6022 2.611473 CGAGAACACCTTCAGAGCACAT 60.611 50.000 0.00 0.00 0.00 3.21
3252 6023 1.269778 CGAGAACACCTTCAGAGCACA 60.270 52.381 0.00 0.00 0.00 4.57
3253 6024 1.269831 ACGAGAACACCTTCAGAGCAC 60.270 52.381 0.00 0.00 0.00 4.40
3254 6025 1.040646 ACGAGAACACCTTCAGAGCA 58.959 50.000 0.00 0.00 0.00 4.26
3485 6256 4.513692 TCCGGTAATATAACAGCAATGCAC 59.486 41.667 8.35 0.00 0.00 4.57
3588 6359 8.489990 AGCTTAATATGATCAGAATGGAATCG 57.510 34.615 0.09 0.00 36.16 3.34
3604 6375 7.168219 TCAACCTGTCAAGACAAGCTTAATAT 58.832 34.615 0.00 0.00 41.33 1.28
3725 6497 4.520874 CAGTCATCCACCTAGTGATATCGT 59.479 45.833 0.00 0.00 35.23 3.73
4042 6820 0.392595 GTCGGTTTGATGAGACCCCC 60.393 60.000 0.00 0.00 32.14 5.40
4096 7929 9.992910 CGATTGAATTTGTAAGATCATCTTTGA 57.007 29.630 4.90 0.00 37.89 2.69
4146 7979 4.275810 TCCTACGGAATAGCTACAACAGT 58.724 43.478 0.00 0.35 0.00 3.55
4147 7980 4.913335 TCCTACGGAATAGCTACAACAG 57.087 45.455 0.00 0.00 0.00 3.16
4148 7981 4.891168 TGATCCTACGGAATAGCTACAACA 59.109 41.667 0.00 0.00 34.34 3.33
4149 7982 5.221130 GTGATCCTACGGAATAGCTACAAC 58.779 45.833 0.00 0.00 34.34 3.32
4150 7983 4.280174 GGTGATCCTACGGAATAGCTACAA 59.720 45.833 0.00 0.00 34.34 2.41
4174 8007 1.072806 TGAAGTCTTGCAGCATCAGGT 59.927 47.619 0.00 0.00 0.00 4.00
4194 8027 1.215647 CGTCCTAACTTGCCGAGCT 59.784 57.895 0.00 0.00 0.00 4.09
4203 8036 0.685097 TGCCTTGCTTCGTCCTAACT 59.315 50.000 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.