Multiple sequence alignment - TraesCS4B01G113300

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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 TraesCS4B01G113300 chr4B 100.000 3425 0 0 1 3425 128027366 128023942 0.000000e+00 6325
1 TraesCS4B01G113300 chr4A 95.081 2582 101 8 1 2571 503618848 503616282 0.000000e+00 4041
2 TraesCS4B01G113300 chr4A 94.856 661 24 1 2651 3301 503616236 503615576 0.000000e+00 1024
3 TraesCS4B01G113300 chr4D 94.723 2577 89 14 1 2557 91225856 91223307 0.000000e+00 3962
4 TraesCS4B01G113300 chr4D 96.109 771 16 4 2669 3425 91223313 91222543 0.000000e+00 1245
5 TraesCS4B01G113300 chr4D 95.122 123 0 4 2550 2672 203639919 203639803 4.510000e-44 189
6 TraesCS4B01G113300 chr3A 95.902 122 4 1 2550 2670 171206143 171206264 2.700000e-46 196
7 TraesCS4B01G113300 chr3A 95.868 121 4 1 2552 2671 693337536 693337416 9.700000e-46 195
8 TraesCS4B01G113300 chr1D 95.868 121 5 0 2551 2671 299925730 299925850 2.700000e-46 196
9 TraesCS4B01G113300 chr3D 92.366 131 9 1 2548 2677 600078321 600078191 5.840000e-43 185
10 TraesCS4B01G113300 chr3B 95.000 120 3 2 2551 2670 761883183 761883067 5.840000e-43 185
11 TraesCS4B01G113300 chr3B 95.000 120 3 1 2552 2671 761883067 761883183 5.840000e-43 185
12 TraesCS4B01G113300 chr3B 92.857 126 6 3 2545 2670 671971368 671971490 2.720000e-41 180
13 TraesCS4B01G113300 chr5D 93.600 125 5 2 2549 2670 520722807 520722683 2.100000e-42 183


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 TraesCS4B01G113300 chr4B 128023942 128027366 3424 True 6325.0 6325 100.0000 1 3425 1 chr4B.!!$R1 3424
1 TraesCS4B01G113300 chr4A 503615576 503618848 3272 True 2532.5 4041 94.9685 1 3301 2 chr4A.!!$R1 3300
2 TraesCS4B01G113300 chr4D 91222543 91225856 3313 True 2603.5 3962 95.4160 1 3425 2 chr4D.!!$R2 3424

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
542 555 1.098869 TCTTTTGTTGCCGTTCTGCA 58.901 45.000 0.0 0.0 40.07 4.41 F
1578 1598 1.520342 GCCGTTTGCCAAGTTTGCA 60.520 52.632 0.0 0.0 36.84 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 1652 0.101040 TGTTCAGGTCGACGACGTTT 59.899 50.0 19.73 6.47 40.69 3.60 R
2653 2673 0.635009 AGATACTCCCTCCGTCCCAA 59.365 55.0 0.00 0.00 0.00 4.12 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
127 128 3.423539 TCCACTTTGCAACAGCTCTAT 57.576 42.857 0.00 0.00 0.00 1.98
139 140 4.734398 ACAGCTCTATTCCTTGAGACAG 57.266 45.455 0.00 0.00 32.44 3.51
221 223 6.698008 TCTGCCAATAATTTGTATCACCTG 57.302 37.500 0.00 0.00 0.00 4.00
245 247 7.870826 TGACAATAATGGGCTTTATGAATACG 58.129 34.615 0.00 0.00 0.00 3.06
246 248 6.677913 ACAATAATGGGCTTTATGAATACGC 58.322 36.000 0.00 0.00 0.00 4.42
247 249 6.490040 ACAATAATGGGCTTTATGAATACGCT 59.510 34.615 0.00 0.00 0.00 5.07
248 250 7.014230 ACAATAATGGGCTTTATGAATACGCTT 59.986 33.333 0.00 0.00 0.00 4.68
249 251 5.852282 AATGGGCTTTATGAATACGCTTT 57.148 34.783 0.00 0.00 0.00 3.51
250 252 6.952773 AATGGGCTTTATGAATACGCTTTA 57.047 33.333 0.00 0.00 0.00 1.85
251 253 7.524717 AATGGGCTTTATGAATACGCTTTAT 57.475 32.000 0.00 0.00 0.00 1.40
252 254 6.312399 TGGGCTTTATGAATACGCTTTATG 57.688 37.500 0.00 0.00 0.00 1.90
253 255 6.058833 TGGGCTTTATGAATACGCTTTATGA 58.941 36.000 0.00 0.00 0.00 2.15
254 256 6.544197 TGGGCTTTATGAATACGCTTTATGAA 59.456 34.615 0.00 0.00 0.00 2.57
255 257 7.230510 TGGGCTTTATGAATACGCTTTATGAAT 59.769 33.333 0.00 0.00 0.00 2.57
256 258 8.726988 GGGCTTTATGAATACGCTTTATGAATA 58.273 33.333 0.00 0.00 0.00 1.75
257 259 9.543018 GGCTTTATGAATACGCTTTATGAATAC 57.457 33.333 0.00 0.00 0.00 1.89
289 291 6.317857 GTGTCAAATAAAGAATCCAGTCTGC 58.682 40.000 0.00 0.00 0.00 4.26
326 328 8.911662 GTGTCATGAATTTATTACACCACAAAC 58.088 33.333 13.87 0.00 31.94 2.93
370 372 3.818210 GCCAAAATTAACTTGGTTTGGGG 59.182 43.478 16.01 3.69 46.64 4.96
395 397 8.849168 GGTGGTCAATGATCATGAATAATGTTA 58.151 33.333 9.46 0.00 37.56 2.41
502 506 4.405116 AGCCATTTCTTGAGCACAAAAA 57.595 36.364 0.00 3.00 35.49 1.94
505 509 5.824097 AGCCATTTCTTGAGCACAAAAATTT 59.176 32.000 11.35 0.00 35.49 1.82
536 549 2.593346 TTTGCATCTTTTGTTGCCGT 57.407 40.000 0.00 0.00 42.71 5.68
542 555 1.098869 TCTTTTGTTGCCGTTCTGCA 58.901 45.000 0.00 0.00 40.07 4.41
851 865 3.244840 GCATTAGGCTCCAAGATCAGGAT 60.245 47.826 7.30 0.00 40.25 3.24
1101 1121 2.488545 TCAAGTAGCTCTCCACGAGAAC 59.511 50.000 0.00 0.00 42.62 3.01
1123 1143 2.696707 GCCACCATCCATGTTGATCATT 59.303 45.455 0.00 0.00 34.09 2.57
1179 1199 2.033049 CACTGCAGCTCAAGATTATGCC 59.967 50.000 15.27 0.00 36.04 4.40
1356 1376 3.878667 GAGGCGGGGGATCCAAGG 61.879 72.222 15.23 2.24 34.36 3.61
1389 1409 1.815003 GTGTTCTCAAGGCTTGATGGG 59.185 52.381 28.67 17.90 39.30 4.00
1578 1598 1.520342 GCCGTTTGCCAAGTTTGCA 60.520 52.632 0.00 0.00 36.84 4.08
1632 1652 1.834896 ACCAAGGGCGATACACATGTA 59.165 47.619 0.00 0.00 34.67 2.29
1633 1653 2.237643 ACCAAGGGCGATACACATGTAA 59.762 45.455 0.00 0.00 33.76 2.41
1728 1748 1.003839 GTCATTCCACCTCACGGCA 60.004 57.895 0.00 0.00 0.00 5.69
1753 1773 2.959372 CAGACGCCGACTACACCA 59.041 61.111 0.00 0.00 0.00 4.17
1757 1777 2.256158 CGCCGACTACACCAACGA 59.744 61.111 0.00 0.00 0.00 3.85
1758 1778 1.153901 CGCCGACTACACCAACGAT 60.154 57.895 0.00 0.00 0.00 3.73
1769 1789 2.150390 CACCAACGATGTTCACCATGA 58.850 47.619 0.00 0.00 32.56 3.07
1776 1796 2.032550 CGATGTTCACCATGAATCTGCC 59.967 50.000 0.00 0.00 38.79 4.85
1815 1835 1.900545 CGGACTCCTTGAACCTCCCC 61.901 65.000 0.00 0.00 0.00 4.81
1863 1883 2.937149 CAGTGATGAAGACCTGCATGAG 59.063 50.000 0.00 0.00 0.00 2.90
1868 1888 3.777106 TGAAGACCTGCATGAGTTCTT 57.223 42.857 0.00 0.73 0.00 2.52
1968 1988 2.567615 ACTCCTACCTGCCTGTGTTAAG 59.432 50.000 0.00 0.00 0.00 1.85
1995 2015 7.172342 TGTTACAGCCTAAGTTAATGGTCATT 58.828 34.615 1.65 1.65 34.93 2.57
2085 2105 0.955428 TCGAGGCATTGCACCACTTC 60.955 55.000 11.39 0.00 0.00 3.01
2088 2108 1.081242 GGCATTGCACCACTTCACG 60.081 57.895 11.39 0.00 0.00 4.35
2139 2159 2.939353 GGTGGTAACCAGGGGGCT 60.939 66.667 0.00 0.00 46.75 5.19
2148 2168 4.437587 CAGGGGGCTTGCCTGAGG 62.438 72.222 11.71 0.00 33.87 3.86
2311 2331 0.240945 GATGCTGGTTGGGTTGTTCG 59.759 55.000 0.00 0.00 0.00 3.95
2425 2445 8.517878 CAATCTTAAAAGAAAGGAGCTCATGAA 58.482 33.333 17.19 0.00 38.77 2.57
2555 2575 5.465056 GCTCTTGTTGGCTTCTCATATACTC 59.535 44.000 0.00 0.00 0.00 2.59
2557 2577 4.689612 TGTTGGCTTCTCATATACTCCC 57.310 45.455 0.00 0.00 0.00 4.30
2558 2578 4.298626 TGTTGGCTTCTCATATACTCCCT 58.701 43.478 0.00 0.00 0.00 4.20
2560 2580 3.511477 TGGCTTCTCATATACTCCCTCC 58.489 50.000 0.00 0.00 0.00 4.30
2561 2581 2.494073 GGCTTCTCATATACTCCCTCCG 59.506 54.545 0.00 0.00 0.00 4.63
2562 2582 3.158676 GCTTCTCATATACTCCCTCCGT 58.841 50.000 0.00 0.00 0.00 4.69
2563 2583 3.191791 GCTTCTCATATACTCCCTCCGTC 59.808 52.174 0.00 0.00 0.00 4.79
2565 2585 2.041350 TCTCATATACTCCCTCCGTCCC 59.959 54.545 0.00 0.00 0.00 4.46
2566 2586 1.784593 TCATATACTCCCTCCGTCCCA 59.215 52.381 0.00 0.00 0.00 4.37
2569 2589 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
2570 2590 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
2572 2592 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
2573 2593 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
2574 2594 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
2575 2595 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
2577 2597 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
2578 2598 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
2580 2600 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
2581 2601 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
2582 2602 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
2584 2604 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
2585 2605 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
2586 2606 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
2587 2607 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
2626 2646 7.976135 ATCTAGTTACGTTAGATACATCCGT 57.024 36.000 6.49 0.00 36.39 4.69
2628 2648 9.664332 ATCTAGTTACGTTAGATACATCCGTAT 57.336 33.333 6.49 0.00 41.16 3.06
2629 2649 9.494271 TCTAGTTACGTTAGATACATCCGTATT 57.506 33.333 0.00 0.00 38.48 1.89
2635 2655 8.158169 ACGTTAGATACATCCGTATTTAGACA 57.842 34.615 0.00 0.00 38.48 3.41
2636 2656 8.623903 ACGTTAGATACATCCGTATTTAGACAA 58.376 33.333 0.00 0.00 38.48 3.18
2637 2657 9.454585 CGTTAGATACATCCGTATTTAGACAAA 57.545 33.333 0.00 0.00 38.48 2.83
2645 2665 9.530633 ACATCCGTATTTAGACAAATCTAAGAC 57.469 33.333 0.00 0.83 45.93 3.01
2646 2666 9.529325 CATCCGTATTTAGACAAATCTAAGACA 57.471 33.333 9.81 0.00 45.93 3.41
2648 2668 9.582431 TCCGTATTTAGACAAATCTAAGACAAG 57.418 33.333 9.81 3.88 45.93 3.16
2649 2669 9.582431 CCGTATTTAGACAAATCTAAGACAAGA 57.418 33.333 9.81 0.00 45.93 3.02
2917 2938 4.962362 AGGTCACCCCAAAATGATTTATCC 59.038 41.667 0.00 0.00 34.66 2.59
2926 2947 7.417612 CCCAAAATGATTTATCCTAGTTGTCG 58.582 38.462 0.00 0.00 0.00 4.35
3021 3043 6.422776 AAGTGACACTCTTGTAAACACAAG 57.577 37.500 8.93 10.56 46.11 3.16
3064 3086 2.024369 GGTCCATTTGTGGGGTTAGGAT 60.024 50.000 0.00 0.00 0.00 3.24
3236 3270 4.511527 CCATATGTCTGCAGACTTTGACT 58.488 43.478 38.81 21.81 44.99 3.41
3245 3279 5.928839 TCTGCAGACTTTGACTTCATTCTAC 59.071 40.000 13.74 0.00 0.00 2.59
3287 3321 6.029346 ACTCTTTGCAAATTAACTCCCATG 57.971 37.500 13.23 0.00 0.00 3.66
3332 3366 0.375454 CGTCTCAGCTCAGTACGGAG 59.625 60.000 17.57 17.57 37.97 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 128 0.767375 AAGCTGCCTGTCTCAAGGAA 59.233 50.000 0.00 0.00 40.02 3.36
221 223 6.801862 GCGTATTCATAAAGCCCATTATTGTC 59.198 38.462 0.00 0.00 0.00 3.18
257 259 8.748412 TGGATTCTTTATTTGACACCAATAAGG 58.252 33.333 0.00 0.00 45.67 2.69
260 262 8.877864 ACTGGATTCTTTATTTGACACCAATA 57.122 30.769 0.00 0.00 31.46 1.90
289 291 1.511850 TCATGACACCAACTTGCTCG 58.488 50.000 0.00 0.00 0.00 5.03
326 328 4.327898 GCATGCTAATGTGTGTCCAAATTG 59.672 41.667 11.37 0.00 36.08 2.32
397 399 9.545611 ACGGAATTAATGTTGACGTTTTAATAC 57.454 29.630 0.00 0.00 0.00 1.89
400 402 9.757859 GATACGGAATTAATGTTGACGTTTTAA 57.242 29.630 0.00 0.00 34.69 1.52
402 404 7.808672 TGATACGGAATTAATGTTGACGTTTT 58.191 30.769 0.00 0.00 34.69 2.43
421 423 2.791560 CCGCTTCATTCAGTCTGATACG 59.208 50.000 2.68 2.16 0.00 3.06
482 486 5.678132 AATTTTTGTGCTCAAGAAATGGC 57.322 34.783 8.33 0.00 32.78 4.40
679 692 1.093159 GCTGGCCTGACAGAATGAAG 58.907 55.000 14.77 0.00 40.97 3.02
851 865 0.941542 GGCCGATGCACGCTAAATTA 59.058 50.000 0.00 0.00 40.13 1.40
888 902 7.984617 AGATTAGTAGTGGAGAAAAGAGAATGC 59.015 37.037 0.00 0.00 0.00 3.56
1101 1121 0.664761 GATCAACATGGATGGTGGCG 59.335 55.000 4.85 0.00 45.38 5.69
1123 1143 1.351076 TCAGGTTGCTGATCAGTGGA 58.649 50.000 23.38 7.56 0.00 4.02
1179 1199 5.966636 CATCTTGTTGATGCCAATCATTG 57.033 39.130 0.00 0.00 44.96 2.82
1317 1337 2.935740 CGCCTCTGCACCAGTGAGA 61.936 63.158 0.99 1.47 37.32 3.27
1389 1409 4.811364 GGGCTGCCAAGGAGGAGC 62.811 72.222 22.05 0.00 41.22 4.70
1578 1598 0.466189 CCTGGTTGGCAGTGAAGTGT 60.466 55.000 0.00 0.00 0.00 3.55
1632 1652 0.101040 TGTTCAGGTCGACGACGTTT 59.899 50.000 19.73 6.47 40.69 3.60
1633 1653 0.313043 ATGTTCAGGTCGACGACGTT 59.687 50.000 19.73 8.97 40.69 3.99
1677 1697 1.134580 CGGGCAAGATCTGACATGAGT 60.135 52.381 0.00 0.00 32.90 3.41
1753 1773 3.127548 GCAGATTCATGGTGAACATCGTT 59.872 43.478 0.00 0.00 39.45 3.85
1757 1777 2.381911 GGGCAGATTCATGGTGAACAT 58.618 47.619 0.00 0.00 39.45 2.71
1758 1778 1.838112 GGGCAGATTCATGGTGAACA 58.162 50.000 0.00 0.00 39.45 3.18
1815 1835 3.088532 ACAGAGAGAGCTGTACTGGAAG 58.911 50.000 17.37 0.00 46.67 3.46
1868 1888 2.367567 ACCGAGCCTTTACTGTTCTTGA 59.632 45.455 0.00 0.00 0.00 3.02
1876 1896 3.100671 AGAAGATCACCGAGCCTTTACT 58.899 45.455 0.00 0.00 0.00 2.24
1980 2000 9.042450 TCCTCTTCTACAATGACCATTAACTTA 57.958 33.333 0.00 0.00 0.00 2.24
1995 2015 4.317530 TCTAACCAGCTCCTCTTCTACA 57.682 45.455 0.00 0.00 0.00 2.74
2085 2105 1.009335 TGACTCGAACACCGTCGTG 60.009 57.895 0.00 0.00 46.11 4.35
2088 2108 0.663568 CCAGTGACTCGAACACCGTC 60.664 60.000 15.59 6.77 38.82 4.79
2148 2168 0.179936 CCATCTCCCTCTCCACAAGC 59.820 60.000 0.00 0.00 0.00 4.01
2234 2254 2.825457 GCCCCATACCTTTCCAAAACCT 60.825 50.000 0.00 0.00 0.00 3.50
2311 2331 2.723273 CACAACCTCAAACCCCCTATC 58.277 52.381 0.00 0.00 0.00 2.08
2425 2445 8.803799 CGCTTACAACAACAAAAATAAAGAACT 58.196 29.630 0.00 0.00 0.00 3.01
2555 2575 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
2557 2577 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
2558 2578 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
2560 2580 6.743575 ATCTAAGACAAGAATTTTGGGACG 57.256 37.500 5.68 0.00 0.00 4.79
2561 2581 8.360390 ACAAATCTAAGACAAGAATTTTGGGAC 58.640 33.333 0.00 0.00 33.04 4.46
2562 2582 8.477419 ACAAATCTAAGACAAGAATTTTGGGA 57.523 30.769 0.00 0.00 33.04 4.37
2563 2583 8.579863 AGACAAATCTAAGACAAGAATTTTGGG 58.420 33.333 0.00 0.00 33.04 4.12
2603 2623 9.494271 AATACGGATGTATCTAACGTAACTAGA 57.506 33.333 0.00 0.00 40.42 2.43
2610 2630 8.158169 TGTCTAAATACGGATGTATCTAACGT 57.842 34.615 0.00 0.00 40.42 3.99
2611 2631 9.454585 TTTGTCTAAATACGGATGTATCTAACG 57.545 33.333 0.00 0.00 40.42 3.18
2619 2639 9.530633 GTCTTAGATTTGTCTAAATACGGATGT 57.469 33.333 0.26 0.00 36.66 3.06
2620 2640 9.529325 TGTCTTAGATTTGTCTAAATACGGATG 57.471 33.333 0.26 0.00 36.66 3.51
2622 2642 9.582431 CTTGTCTTAGATTTGTCTAAATACGGA 57.418 33.333 0.26 0.00 36.66 4.69
2623 2643 9.582431 TCTTGTCTTAGATTTGTCTAAATACGG 57.418 33.333 0.26 0.99 36.66 4.02
2631 2651 8.579863 CCCAAAATTCTTGTCTTAGATTTGTCT 58.420 33.333 0.00 0.00 28.79 3.41
2632 2652 8.576442 TCCCAAAATTCTTGTCTTAGATTTGTC 58.424 33.333 0.00 0.00 28.79 3.18
2633 2653 8.360390 GTCCCAAAATTCTTGTCTTAGATTTGT 58.640 33.333 0.00 0.00 28.79 2.83
2634 2654 7.538678 CGTCCCAAAATTCTTGTCTTAGATTTG 59.461 37.037 0.00 0.00 29.84 2.32
2635 2655 7.309194 CCGTCCCAAAATTCTTGTCTTAGATTT 60.309 37.037 0.00 0.00 0.00 2.17
2636 2656 6.151144 CCGTCCCAAAATTCTTGTCTTAGATT 59.849 38.462 0.00 0.00 0.00 2.40
2637 2657 5.648092 CCGTCCCAAAATTCTTGTCTTAGAT 59.352 40.000 0.00 0.00 0.00 1.98
2638 2658 5.001232 CCGTCCCAAAATTCTTGTCTTAGA 58.999 41.667 0.00 0.00 0.00 2.10
2639 2659 5.001232 TCCGTCCCAAAATTCTTGTCTTAG 58.999 41.667 0.00 0.00 0.00 2.18
2640 2660 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
2641 2661 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
2642 2662 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
2643 2663 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
2644 2664 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
2645 2665 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
2646 2666 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
2647 2667 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
2648 2668 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
2649 2669 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
2653 2673 0.635009 AGATACTCCCTCCGTCCCAA 59.365 55.000 0.00 0.00 0.00 4.12
2871 2891 8.207545 ACCTAAAAAGCATGGTTTCATTACAAA 58.792 29.630 22.21 0.16 0.00 2.83
2877 2897 5.279456 GGTGACCTAAAAAGCATGGTTTCAT 60.279 40.000 22.21 16.27 32.30 2.57
3021 3043 3.455469 GCAATGGCCCAGGCACTC 61.455 66.667 11.50 0.00 41.84 3.51
3064 3086 9.973661 TTTAAATATGAGGAAGTCTCCAATCAA 57.026 29.630 0.00 0.00 45.24 2.57
3236 3270 5.071788 ACTGTTTCAGAGGTGGTAGAATGAA 59.928 40.000 3.70 0.00 35.18 2.57
3245 3279 4.058817 GAGTAACACTGTTTCAGAGGTGG 58.941 47.826 0.00 0.00 35.18 4.61
3287 3321 2.432510 CTCCCTGGGAGTAAGTGATCAC 59.567 54.545 30.91 18.47 44.25 3.06
3332 3366 1.129437 GCGACTGCTGAAATCAGAACC 59.871 52.381 14.43 0.00 46.59 3.62


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

AutoCloner maintained by Alex Coulton.