Multiple sequence alignment - TraesCS6B01G137800

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 TraesCS6B01G137800 chr6B 100.000 2581 0 0 1 2581 135311127 135313707 0.000000e+00 4767.0
1 TraesCS6B01G137800 chr6B 91.681 577 47 1 23 598 57716466 57715890 0.000000e+00 798.0
2 TraesCS6B01G137800 chr6D 90.614 1172 48 25 594 1715 61345119 61346278 0.000000e+00 1498.0
3 TraesCS6B01G137800 chr6D 90.290 587 52 4 20 603 30533981 30534565 0.000000e+00 763.0
4 TraesCS6B01G137800 chr6D 85.124 484 26 17 1767 2205 61346278 61346760 1.090000e-123 453.0
5 TraesCS6B01G137800 chr6D 90.955 199 14 2 2385 2581 61346841 61347037 5.480000e-67 265.0
6 TraesCS6B01G137800 chr6A 92.671 805 35 10 729 1510 78478119 78478922 0.000000e+00 1138.0
7 TraesCS6B01G137800 chr6A 86.272 845 49 24 1711 2495 78479119 78479956 0.000000e+00 856.0
8 TraesCS6B01G137800 chr6A 78.500 600 82 32 2010 2581 77988370 77988950 1.470000e-92 350.0
9 TraesCS6B01G137800 chr6A 91.515 165 7 3 1555 1715 78478932 78479093 1.200000e-53 220.0
10 TraesCS6B01G137800 chr6A 77.285 361 52 20 2237 2579 77894630 77894978 4.390000e-43 185.0
11 TraesCS6B01G137800 chr6A 76.796 362 55 20 2237 2581 78029039 78029388 2.640000e-40 176.0
12 TraesCS6B01G137800 chr6A 100.000 35 0 0 2547 2581 78137990 78138024 5.960000e-07 65.8
13 TraesCS6B01G137800 chr5A 90.801 587 52 2 19 604 685991487 685990902 0.000000e+00 784.0
14 TraesCS6B01G137800 chr7A 90.925 584 48 4 19 599 13341430 13340849 0.000000e+00 780.0
15 TraesCS6B01G137800 chr7A 90.136 588 56 2 20 605 682327376 682327963 0.000000e+00 763.0
16 TraesCS6B01G137800 chr3B 91.243 571 49 1 20 589 764782832 764783402 0.000000e+00 776.0
17 TraesCS6B01G137800 chr7B 90.846 579 52 1 20 597 634288003 634288581 0.000000e+00 774.0
18 TraesCS6B01G137800 chr7B 100.000 29 0 0 1615 1643 86175972 86176000 1.000000e-03 54.7
19 TraesCS6B01G137800 chr2D 90.878 581 43 4 23 601 623912742 623912170 0.000000e+00 771.0
20 TraesCS6B01G137800 chr1A 89.899 594 53 4 23 614 557125290 557124702 0.000000e+00 758.0
21 TraesCS6B01G137800 chr3D 90.476 42 3 1 1603 1643 611018361 611018402 1.000000e-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 TraesCS6B01G137800 chr6B 135311127 135313707 2580 False 4767.000000 4767 100.000000 1 2581 1 chr6B.!!$F1 2580
1 TraesCS6B01G137800 chr6B 57715890 57716466 576 True 798.000000 798 91.681000 23 598 1 chr6B.!!$R1 575
2 TraesCS6B01G137800 chr6D 30533981 30534565 584 False 763.000000 763 90.290000 20 603 1 chr6D.!!$F1 583
3 TraesCS6B01G137800 chr6D 61345119 61347037 1918 False 738.666667 1498 88.897667 594 2581 3 chr6D.!!$F2 1987
4 TraesCS6B01G137800 chr6A 78478119 78479956 1837 False 738.000000 1138 90.152667 729 2495 3 chr6A.!!$F5 1766
5 TraesCS6B01G137800 chr6A 77988370 77988950 580 False 350.000000 350 78.500000 2010 2581 1 chr6A.!!$F2 571
6 TraesCS6B01G137800 chr5A 685990902 685991487 585 True 784.000000 784 90.801000 19 604 1 chr5A.!!$R1 585
7 TraesCS6B01G137800 chr7A 13340849 13341430 581 True 780.000000 780 90.925000 19 599 1 chr7A.!!$R1 580
8 TraesCS6B01G137800 chr7A 682327376 682327963 587 False 763.000000 763 90.136000 20 605 1 chr7A.!!$F1 585
9 TraesCS6B01G137800 chr3B 764782832 764783402 570 False 776.000000 776 91.243000 20 589 1 chr3B.!!$F1 569
10 TraesCS6B01G137800 chr7B 634288003 634288581 578 False 774.000000 774 90.846000 20 597 1 chr7B.!!$F2 577
11 TraesCS6B01G137800 chr2D 623912170 623912742 572 True 771.000000 771 90.878000 23 601 1 chr2D.!!$R1 578
12 TraesCS6B01G137800 chr1A 557124702 557125290 588 True 758.000000 758 89.899000 23 614 1 chr1A.!!$R1 591

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
683 687 0.603975 AAGAGAGCGGTTGGAGTTGC 60.604 55.0 0.0 0.0 0.00 4.17 F
1371 1424 0.613853 ACCAGCGAGGCTACAACCTA 60.614 55.0 0.0 0.0 41.32 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1529 1582 0.655733 GATCCAACGTTACATGGCGG 59.344 55.0 0.0 0.0 36.62 6.13 R
2287 2459 1.212455 CGTGTACAGTTGCGTGCTCA 61.212 55.0 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
27 28 3.998341 GGAAACTAGGTAAACGCACATGA 59.002 43.478 0.00 0.00 0.00 3.07
40 41 5.607119 ACGCACATGAAAACTAGGTAAAG 57.393 39.130 0.00 0.00 0.00 1.85
41 42 4.083484 ACGCACATGAAAACTAGGTAAAGC 60.083 41.667 0.00 0.00 0.00 3.51
42 43 4.083537 CGCACATGAAAACTAGGTAAAGCA 60.084 41.667 0.00 0.00 0.00 3.91
43 44 5.154222 GCACATGAAAACTAGGTAAAGCAC 58.846 41.667 0.00 0.00 0.00 4.40
45 46 6.570378 GCACATGAAAACTAGGTAAAGCACAT 60.570 38.462 0.00 0.00 0.00 3.21
46 47 6.803320 CACATGAAAACTAGGTAAAGCACATG 59.197 38.462 0.00 0.00 37.81 3.21
48 49 5.626142 TGAAAACTAGGTAAAGCACATGGA 58.374 37.500 0.00 0.00 0.00 3.41
49 50 6.245408 TGAAAACTAGGTAAAGCACATGGAT 58.755 36.000 0.00 0.00 0.00 3.41
130 132 7.408756 AACATACATGGCAACTGTGATTAAT 57.591 32.000 4.03 0.00 37.61 1.40
131 133 8.518430 AACATACATGGCAACTGTGATTAATA 57.482 30.769 4.03 0.00 37.61 0.98
176 180 6.318648 ACACACATGACAACTATTGTTTGACT 59.681 34.615 0.00 0.00 45.52 3.41
184 188 9.936759 TGACAACTATTGTTTGACTATATGTGA 57.063 29.630 0.00 0.00 45.52 3.58
251 255 6.238648 GCGGCAACTACCATAAATTAGACATT 60.239 38.462 0.00 0.00 0.00 2.71
307 311 7.003402 ACCATGCTTTTACAACCATATTTGT 57.997 32.000 0.00 0.00 42.46 2.83
336 340 3.327757 GGATAACTACATCTGCCATCCCA 59.672 47.826 0.00 0.00 0.00 4.37
383 387 3.821421 GGTACCTATTGTAGCTGTGCT 57.179 47.619 4.06 0.00 43.18 4.40
483 487 2.513666 CTGCACCCACACGTGTGT 60.514 61.111 38.40 23.93 46.17 3.72
500 504 3.247648 GTGTGTGCAATTCTACTGTTCGT 59.752 43.478 0.00 0.00 0.00 3.85
533 537 2.160171 TGTAGGTTGCCCCCTGCTT 61.160 57.895 8.05 0.00 42.00 3.91
626 630 9.817809 AAAAACAGATTTTAGGGAAAGAAGTTC 57.182 29.630 0.00 0.00 39.44 3.01
638 642 6.836007 AGGGAAAGAAGTTCACAAGAGATTTT 59.164 34.615 5.50 0.00 42.70 1.82
639 643 7.998964 AGGGAAAGAAGTTCACAAGAGATTTTA 59.001 33.333 5.50 0.00 42.70 1.52
640 644 8.797438 GGGAAAGAAGTTCACAAGAGATTTTAT 58.203 33.333 5.50 0.00 39.69 1.40
679 683 2.231478 TGTTCTAAGAGAGCGGTTGGAG 59.769 50.000 0.00 0.00 0.00 3.86
683 687 0.603975 AAGAGAGCGGTTGGAGTTGC 60.604 55.000 0.00 0.00 0.00 4.17
687 691 2.362242 AGCGGTTGGAGTTGCTCTA 58.638 52.632 0.00 0.00 30.37 2.43
711 715 1.720694 CCCACGTTGCTTTGTCCGTT 61.721 55.000 0.00 0.00 0.00 4.44
846 851 5.345202 CGTCTCGGGCATCTGTATAATTAAC 59.655 44.000 0.00 0.00 0.00 2.01
871 893 4.277476 TCAATGAATCAACCATACCACCC 58.723 43.478 0.00 0.00 0.00 4.61
927 949 7.268586 TCGAGATTTCCTTCCTAAGAATTGAG 58.731 38.462 0.00 0.00 0.00 3.02
978 1025 4.620803 CGCTAGTGCCCCCTATATAAACAG 60.621 50.000 0.00 0.00 35.36 3.16
1034 1082 7.400052 AGAAAAACCATAGGATTAACCAAGCAT 59.600 33.333 0.00 0.00 42.04 3.79
1124 1172 1.135915 GCCATGTCGTCTCTCATGTCT 59.864 52.381 0.00 0.00 39.53 3.41
1254 1304 1.037493 TCTCGTGCACAGGTACAACT 58.963 50.000 18.64 0.00 0.00 3.16
1366 1419 1.667154 CTGCTACCAGCGAGGCTACA 61.667 60.000 0.00 0.00 46.26 2.74
1371 1424 0.613853 ACCAGCGAGGCTACAACCTA 60.614 55.000 0.00 0.00 41.32 3.08
1380 1433 4.935808 CGAGGCTACAACCTATTGAAAAGT 59.064 41.667 0.00 0.00 41.32 2.66
1392 1445 6.014669 ACCTATTGAAAAGTTATTGCAAGCCA 60.015 34.615 4.94 0.00 0.00 4.75
1435 1488 1.779569 CGTGAAGGCGTGAAGTAACT 58.220 50.000 0.00 0.00 0.00 2.24
1491 1544 5.527582 ACATGTTGGATTCTTAATACGGCTC 59.472 40.000 0.00 0.00 0.00 4.70
1529 1582 4.848757 GACGATAGGTCATTGATTTTGCC 58.151 43.478 0.00 0.00 45.36 4.52
1530 1583 3.632145 ACGATAGGTCATTGATTTTGCCC 59.368 43.478 0.00 0.00 43.77 5.36
1643 1698 4.627611 ATGATTTGAAGATTGCTCACCG 57.372 40.909 0.00 0.00 0.00 4.94
1644 1699 3.673902 TGATTTGAAGATTGCTCACCGA 58.326 40.909 0.00 0.00 0.00 4.69
1959 2078 7.816995 TCATTTTTATTGTTTATCTGGGTGCAC 59.183 33.333 8.80 8.80 0.00 4.57
1960 2079 6.656632 TTTTATTGTTTATCTGGGTGCACA 57.343 33.333 20.43 0.00 0.00 4.57
1961 2080 5.637006 TTATTGTTTATCTGGGTGCACAC 57.363 39.130 20.43 17.25 0.00 3.82
1962 2081 2.647683 TGTTTATCTGGGTGCACACA 57.352 45.000 22.84 22.84 0.00 3.72
1963 2082 3.153369 TGTTTATCTGGGTGCACACAT 57.847 42.857 24.62 11.81 0.00 3.21
1964 2083 2.819019 TGTTTATCTGGGTGCACACATG 59.181 45.455 24.62 16.60 0.00 3.21
1965 2084 2.819608 GTTTATCTGGGTGCACACATGT 59.180 45.455 24.62 16.48 0.00 3.21
1966 2085 2.877097 TATCTGGGTGCACACATGTT 57.123 45.000 24.62 12.77 0.00 2.71
1968 2087 0.884259 TCTGGGTGCACACATGTTCG 60.884 55.000 24.62 10.87 0.00 3.95
1987 2113 7.490962 TGTTCGAAAATCTACATTGTTGACT 57.509 32.000 0.00 0.00 0.00 3.41
2004 2130 7.793927 TGTTGACTGAAATTATGTACACACA 57.206 32.000 0.00 0.00 39.52 3.72
2021 2147 4.330894 ACACACACATCGCTCTATTTCATG 59.669 41.667 0.00 0.00 0.00 3.07
2037 2163 8.166061 TCTATTTCATGCAAAGCCCTATCTATT 58.834 33.333 0.00 0.00 0.00 1.73
2038 2164 9.453572 CTATTTCATGCAAAGCCCTATCTATTA 57.546 33.333 0.00 0.00 0.00 0.98
2039 2165 7.510549 TTTCATGCAAAGCCCTATCTATTAC 57.489 36.000 0.00 0.00 0.00 1.89
2040 2166 6.186420 TCATGCAAAGCCCTATCTATTACA 57.814 37.500 0.00 0.00 0.00 2.41
2087 2217 2.489329 CTGAACCGTTGGATCTGCAAAT 59.511 45.455 0.00 0.00 0.00 2.32
2088 2218 2.228582 TGAACCGTTGGATCTGCAAATG 59.771 45.455 0.00 0.00 0.00 2.32
2107 2237 7.355332 CAAATGAGGATTTGTGTGGATTTTC 57.645 36.000 0.00 0.00 42.43 2.29
2136 2266 6.749923 TTGGGGTTTCACTTTTCATTTTTG 57.250 33.333 0.00 0.00 0.00 2.44
2207 2370 1.069296 GCGCTCAATTACAGTTGCACA 60.069 47.619 0.00 0.00 0.00 4.57
2218 2381 2.123554 TTGCACACCCACATGCCA 60.124 55.556 0.00 0.00 41.33 4.92
2268 2431 3.268965 GACACACTCGCGGCTGAGA 62.269 63.158 22.23 0.00 39.35 3.27
2287 2459 3.886505 GAGAGCACTATAGCTACACAGGT 59.113 47.826 0.00 0.00 46.75 4.00
2317 2489 1.305201 CTGTACACGTTTGTTGGCCT 58.695 50.000 3.32 0.00 37.15 5.19
2337 2515 3.181479 CCTGGCGCAACTATAGTCTACAA 60.181 47.826 10.83 0.00 0.00 2.41
2365 2572 2.039974 TGCTGCCCGCATACAACTG 61.040 57.895 0.00 0.00 45.47 3.16
2461 2673 2.416972 CCTAGTAAGGTGCTCCACGAAC 60.417 54.545 7.70 0.00 38.19 3.95
2464 2676 1.045407 TAAGGTGCTCCACGAACTGT 58.955 50.000 7.70 0.00 34.83 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.931002 GTGCGTTTACCTAGTTTCCATGTA 59.069 41.667 0.00 0.00 0.00 2.29
1 2 3.749609 GTGCGTTTACCTAGTTTCCATGT 59.250 43.478 0.00 0.00 0.00 3.21
3 4 4.010667 TGTGCGTTTACCTAGTTTCCAT 57.989 40.909 0.00 0.00 0.00 3.41
5 6 3.998341 TCATGTGCGTTTACCTAGTTTCC 59.002 43.478 0.00 0.00 0.00 3.13
6 7 5.600908 TTCATGTGCGTTTACCTAGTTTC 57.399 39.130 0.00 0.00 0.00 2.78
7 8 6.038936 AGTTTTCATGTGCGTTTACCTAGTTT 59.961 34.615 0.00 0.00 0.00 2.66
8 9 5.529800 AGTTTTCATGTGCGTTTACCTAGTT 59.470 36.000 0.00 0.00 0.00 2.24
9 10 5.061179 AGTTTTCATGTGCGTTTACCTAGT 58.939 37.500 0.00 0.00 0.00 2.57
10 11 5.607119 AGTTTTCATGTGCGTTTACCTAG 57.393 39.130 0.00 0.00 0.00 3.02
11 12 5.640357 CCTAGTTTTCATGTGCGTTTACCTA 59.360 40.000 0.00 0.00 0.00 3.08
12 13 4.454504 CCTAGTTTTCATGTGCGTTTACCT 59.545 41.667 0.00 0.00 0.00 3.08
13 14 4.214758 ACCTAGTTTTCATGTGCGTTTACC 59.785 41.667 0.00 0.00 0.00 2.85
14 15 5.352643 ACCTAGTTTTCATGTGCGTTTAC 57.647 39.130 0.00 0.00 0.00 2.01
15 16 7.493743 TTTACCTAGTTTTCATGTGCGTTTA 57.506 32.000 0.00 0.00 0.00 2.01
16 17 6.380095 TTTACCTAGTTTTCATGTGCGTTT 57.620 33.333 0.00 0.00 0.00 3.60
17 18 5.562113 GCTTTACCTAGTTTTCATGTGCGTT 60.562 40.000 0.00 0.00 0.00 4.84
21 22 6.312399 TGTGCTTTACCTAGTTTTCATGTG 57.688 37.500 0.00 0.00 0.00 3.21
27 28 7.402862 AGTATCCATGTGCTTTACCTAGTTTT 58.597 34.615 0.00 0.00 0.00 2.43
40 41 6.365839 CAAACGAATCATAGTATCCATGTGC 58.634 40.000 0.00 0.00 0.00 4.57
41 42 6.203530 AGCAAACGAATCATAGTATCCATGTG 59.796 38.462 0.00 0.00 0.00 3.21
42 43 6.291377 AGCAAACGAATCATAGTATCCATGT 58.709 36.000 0.00 0.00 0.00 3.21
43 44 6.791887 AGCAAACGAATCATAGTATCCATG 57.208 37.500 0.00 0.00 0.00 3.66
45 46 7.145985 GTCTAGCAAACGAATCATAGTATCCA 58.854 38.462 0.00 0.00 0.00 3.41
46 47 6.305877 CGTCTAGCAAACGAATCATAGTATCC 59.694 42.308 0.00 0.00 42.62 2.59
48 49 6.150318 CCGTCTAGCAAACGAATCATAGTAT 58.850 40.000 4.17 0.00 42.62 2.12
49 50 5.516996 CCGTCTAGCAAACGAATCATAGTA 58.483 41.667 4.17 0.00 42.62 1.82
88 90 3.945346 TGTTTACCTGATTGCCACGTAT 58.055 40.909 0.00 0.00 0.00 3.06
130 132 4.057432 GTTTACCTAGTTGCCACGTGTTA 58.943 43.478 15.65 0.00 0.00 2.41
131 133 2.874086 GTTTACCTAGTTGCCACGTGTT 59.126 45.455 15.65 0.00 0.00 3.32
204 208 5.797934 CGCGTGTAATCAAACCATAATTGTT 59.202 36.000 0.00 0.00 0.00 2.83
209 213 2.096174 GCCGCGTGTAATCAAACCATAA 59.904 45.455 4.92 0.00 0.00 1.90
251 255 9.719355 TCTCTGTTTTGATTAACTATAGTTGCA 57.281 29.630 25.27 17.51 38.90 4.08
283 287 7.003402 ACAAATATGGTTGTAAAAGCATGGT 57.997 32.000 18.61 9.57 39.94 3.55
307 311 3.258372 GCAGATGTAGTTATCCGGGATGA 59.742 47.826 19.82 8.74 0.00 2.92
336 340 4.130118 GGATGACGATTTAGTTGCCATCT 58.870 43.478 0.00 0.00 32.10 2.90
383 387 2.912771 CAAATATGCCCACACGTCCTA 58.087 47.619 0.00 0.00 0.00 2.94
483 487 3.064207 GTGGACGAACAGTAGAATTGCA 58.936 45.455 0.00 0.00 0.00 4.08
643 647 5.847817 TCTTAGAACACCTCTCCCCTAAAAA 59.152 40.000 0.00 0.00 35.41 1.94
647 651 3.856813 TCTCTTAGAACACCTCTCCCCTA 59.143 47.826 0.00 0.00 35.41 3.53
659 663 2.231721 ACTCCAACCGCTCTCTTAGAAC 59.768 50.000 0.00 0.00 0.00 3.01
679 683 1.745489 CGTGGGGGCTTAGAGCAAC 60.745 63.158 2.04 0.00 44.75 4.17
683 687 1.745489 GCAACGTGGGGGCTTAGAG 60.745 63.158 0.00 0.00 0.00 2.43
711 715 3.328357 TGGGGGATTTGATACGGGATTA 58.672 45.455 0.00 0.00 0.00 1.75
796 800 9.127277 GATCTCCTACTCTATCTAGTGTTTGTT 57.873 37.037 0.00 0.00 32.83 2.83
798 802 7.442969 ACGATCTCCTACTCTATCTAGTGTTTG 59.557 40.741 0.00 0.00 32.83 2.93
800 804 7.015877 AGACGATCTCCTACTCTATCTAGTGTT 59.984 40.741 0.00 0.00 32.83 3.32
802 806 6.931838 AGACGATCTCCTACTCTATCTAGTG 58.068 44.000 0.00 0.00 0.00 2.74
805 809 5.125900 CCGAGACGATCTCCTACTCTATCTA 59.874 48.000 8.73 0.00 40.34 1.98
806 810 4.081862 CCGAGACGATCTCCTACTCTATCT 60.082 50.000 8.73 0.00 40.34 1.98
807 811 4.178540 CCGAGACGATCTCCTACTCTATC 58.821 52.174 8.73 0.00 40.34 2.08
846 851 5.163622 GGTGGTATGGTTGATTCATTGAGTG 60.164 44.000 0.00 0.00 0.00 3.51
871 893 7.432350 TGATTTTCATTTTCATTTTTCGGGG 57.568 32.000 0.00 0.00 0.00 5.73
899 921 8.897752 CAATTCTTAGGAAGGAAATCTCGAATT 58.102 33.333 0.00 0.00 34.70 2.17
978 1025 0.802222 TTATCTCTCACGCGTGCTGC 60.802 55.000 33.63 0.00 41.47 5.25
1034 1082 0.621571 CCATGAGGGTTGAGGAGGGA 60.622 60.000 0.00 0.00 0.00 4.20
1124 1172 4.697756 CTTCCGGCCGCCTGACAA 62.698 66.667 22.85 3.68 0.00 3.18
1212 1261 1.068474 CCACACTCCGTTAGCTTTCG 58.932 55.000 0.00 0.00 0.00 3.46
1366 1419 6.873605 GGCTTGCAATAACTTTTCAATAGGTT 59.126 34.615 0.00 0.00 0.00 3.50
1371 1424 5.928264 GTCTGGCTTGCAATAACTTTTCAAT 59.072 36.000 0.00 0.00 0.00 2.57
1407 1460 3.437795 GCCTTCACGCAGCAGCAT 61.438 61.111 0.82 0.00 42.27 3.79
1423 1476 2.597305 CCGTGTCATAGTTACTTCACGC 59.403 50.000 18.32 8.23 44.32 5.34
1435 1488 2.224281 GCTCAATCATCCCCGTGTCATA 60.224 50.000 0.00 0.00 0.00 2.15
1491 1544 8.287439 ACCTATCGTCATATCAAAGGAGATAG 57.713 38.462 0.00 0.00 37.26 2.08
1529 1582 0.655733 GATCCAACGTTACATGGCGG 59.344 55.000 0.00 0.00 36.62 6.13
1530 1583 1.651987 AGATCCAACGTTACATGGCG 58.348 50.000 0.00 1.08 36.62 5.69
1643 1698 3.119849 AGCACACAATAATCGGCAAGTTC 60.120 43.478 0.00 0.00 0.00 3.01
1644 1699 2.819608 AGCACACAATAATCGGCAAGTT 59.180 40.909 0.00 0.00 0.00 2.66
1754 1840 6.173191 TCGCGAAATACAGTCGATCATATA 57.827 37.500 6.20 0.00 41.02 0.86
1755 1841 5.043189 TCGCGAAATACAGTCGATCATAT 57.957 39.130 6.20 0.00 41.02 1.78
1810 1897 5.813513 ATTTGAAGCAATTTGGAGGTTCT 57.186 34.783 0.00 0.00 41.46 3.01
1892 1982 2.325583 TCGAGGTGCAAAGTTTCACT 57.674 45.000 13.98 0.00 33.91 3.41
1959 2078 7.802720 TCAACAATGTAGATTTTCGAACATGTG 59.197 33.333 0.60 4.48 31.44 3.21
1960 2079 7.803189 GTCAACAATGTAGATTTTCGAACATGT 59.197 33.333 0.60 0.00 31.44 3.21
1961 2080 8.017373 AGTCAACAATGTAGATTTTCGAACATG 58.983 33.333 0.60 0.00 31.44 3.21
1962 2081 8.017373 CAGTCAACAATGTAGATTTTCGAACAT 58.983 33.333 0.00 0.00 32.03 2.71
1963 2082 7.225734 TCAGTCAACAATGTAGATTTTCGAACA 59.774 33.333 0.00 0.00 0.00 3.18
1964 2083 7.572759 TCAGTCAACAATGTAGATTTTCGAAC 58.427 34.615 0.00 0.00 0.00 3.95
1965 2084 7.722795 TCAGTCAACAATGTAGATTTTCGAA 57.277 32.000 0.00 0.00 0.00 3.71
1966 2085 7.722795 TTCAGTCAACAATGTAGATTTTCGA 57.277 32.000 0.00 0.00 0.00 3.71
1987 2113 5.641636 AGCGATGTGTGTGTACATAATTTCA 59.358 36.000 0.00 0.00 41.15 2.69
2004 2130 4.497006 GCTTTGCATGAAATAGAGCGATGT 60.497 41.667 0.00 0.00 0.00 3.06
2037 2163 6.855763 AATTGAGAAATTGCAATCCCTGTA 57.144 33.333 13.38 3.80 33.87 2.74
2038 2164 5.750352 AATTGAGAAATTGCAATCCCTGT 57.250 34.783 13.38 0.00 33.87 4.00
2039 2165 5.751990 GCTAATTGAGAAATTGCAATCCCTG 59.248 40.000 13.38 1.72 33.87 4.45
2040 2166 5.659971 AGCTAATTGAGAAATTGCAATCCCT 59.340 36.000 13.38 12.45 33.87 4.20
2087 2217 3.831911 GGGAAAATCCACACAAATCCTCA 59.168 43.478 0.00 0.00 38.64 3.86
2088 2218 4.089361 AGGGAAAATCCACACAAATCCTC 58.911 43.478 0.00 0.00 38.64 3.71
2218 2381 6.406370 TGCACACATAACTATACTTGCTCTT 58.594 36.000 0.00 0.00 0.00 2.85
2226 2389 3.489785 GCCGTCTGCACACATAACTATAC 59.510 47.826 0.00 0.00 40.77 1.47
2268 2431 3.632333 TCACCTGTGTAGCTATAGTGCT 58.368 45.455 0.00 0.00 46.11 4.40
2287 2459 1.212455 CGTGTACAGTTGCGTGCTCA 61.212 55.000 0.00 0.00 0.00 4.26
2317 2489 4.665833 ATTGTAGACTATAGTTGCGCCA 57.334 40.909 6.88 0.00 0.00 5.69
2365 2572 2.346244 CCAATGACGAATGTGCAATTGC 59.654 45.455 23.69 23.69 42.50 3.56
2415 2625 1.534729 GGTGACTGATGGGGAAACAC 58.465 55.000 0.00 0.00 0.00 3.32
2452 2664 2.486636 TAGCCGCACAGTTCGTGGAG 62.487 60.000 0.00 0.00 46.45 3.86
2461 2673 4.946784 ACTTAAAAATCTAGCCGCACAG 57.053 40.909 0.00 0.00 0.00 3.66
2464 2676 5.163794 GCTACAACTTAAAAATCTAGCCGCA 60.164 40.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.