Multiple sequence alignment - TraesCS1D01G413000

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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 TraesCS1D01G413000 chr1D 100.000 2267 0 0 1 2267 473960230 473962496 0.000000e+00 4187.0
1 TraesCS1D01G413000 chr1D 84.547 673 54 17 975 1610 473879802 473880461 2.470000e-174 621.0
2 TraesCS1D01G413000 chr1D 81.832 655 53 29 1664 2263 473993105 473993748 7.280000e-135 490.0
3 TraesCS1D01G413000 chr1D 83.466 502 56 15 790 1287 473996844 473997322 2.070000e-120 442.0
4 TraesCS1D01G413000 chr1D 81.157 536 53 22 1760 2264 473998118 473998636 9.820000e-104 387.0
5 TraesCS1D01G413000 chr1D 88.115 244 17 5 1664 1906 473997879 473998111 1.710000e-71 279.0
6 TraesCS1D01G413000 chr1D 87.500 224 16 7 1379 1600 473987712 473987925 4.840000e-62 248.0
7 TraesCS1D01G413000 chr1D 100.000 28 0 0 114 141 473871440 473871467 4.000000e-03 52.8
8 TraesCS1D01G413000 chr1B 86.443 1940 110 57 424 2265 659033229 659035113 0.000000e+00 1984.0
9 TraesCS1D01G413000 chr1B 85.251 1973 117 68 268 2151 659072897 659074784 0.000000e+00 1871.0
10 TraesCS1D01G413000 chr1B 87.172 1676 62 45 689 2263 659294395 659296018 0.000000e+00 1762.0
11 TraesCS1D01G413000 chr1B 86.800 1500 79 57 851 2264 659002555 659004021 0.000000e+00 1563.0
12 TraesCS1D01G413000 chr1B 87.701 1366 63 39 851 2158 659285896 659287214 0.000000e+00 1495.0
13 TraesCS1D01G413000 chr1B 87.846 1119 72 25 243 1324 658968414 658969505 0.000000e+00 1254.0
14 TraesCS1D01G413000 chr1B 86.881 869 41 27 1438 2264 658969601 658970438 0.000000e+00 905.0
15 TraesCS1D01G413000 chr1B 89.613 491 32 10 851 1324 659182353 659182841 6.930000e-170 606.0
16 TraesCS1D01G413000 chr1B 85.204 588 54 18 760 1324 659316613 659317190 7.020000e-160 573.0
17 TraesCS1D01G413000 chr1B 80.759 790 84 31 58 814 659285141 659285895 2.540000e-154 555.0
18 TraesCS1D01G413000 chr1B 80.633 790 83 31 58 814 659181600 659182352 4.260000e-152 547.0
19 TraesCS1D01G413000 chr1B 82.677 635 59 25 1664 2264 659327172 659327789 1.200000e-142 516.0
20 TraesCS1D01G413000 chr1B 89.734 263 11 9 2007 2264 659190872 659191123 2.810000e-84 322.0
21 TraesCS1D01G413000 chr1B 83.721 172 17 5 767 937 659326119 659326280 3.900000e-33 152.0
22 TraesCS1D01G413000 chr1B 87.234 94 5 2 1320 1413 658969524 658969610 1.430000e-17 100.0
23 TraesCS1D01G413000 chr1A 90.108 1567 59 26 51 1573 568265141 568266655 0.000000e+00 1947.0
24 TraesCS1D01G413000 chr1A 89.422 709 38 14 603 1287 568327609 568328304 0.000000e+00 859.0
25 TraesCS1D01G413000 chr1A 81.404 1054 108 29 975 1958 568388967 568390002 0.000000e+00 780.0
26 TraesCS1D01G413000 chr1A 87.671 511 28 10 1570 2054 568266869 568267370 1.520000e-156 562.0
27 TraesCS1D01G413000 chr1A 83.123 634 55 18 1666 2264 568399455 568400071 4.290000e-147 531.0
28 TraesCS1D01G413000 chr1A 79.708 616 72 26 70 664 568327020 568327603 1.630000e-106 396.0
29 TraesCS1D01G413000 chr1A 94.924 197 10 0 1978 2174 568378227 568378423 2.190000e-80 309.0
30 TraesCS1D01G413000 chr1A 88.688 221 20 2 1389 1608 568383827 568384043 4.800000e-67 265.0
31 TraesCS1D01G413000 chr1A 92.941 170 10 1 2095 2264 568267372 568267539 1.740000e-61 246.0
32 TraesCS1D01G413000 chr1A 80.063 316 41 5 1664 1962 568377871 568378181 4.900000e-52 215.0
33 TraesCS1D01G413000 chr1A 81.879 149 21 4 790 937 568398423 568398566 1.100000e-23 121.0
34 TraesCS1D01G413000 chr7B 88.288 222 17 6 1389 1609 65395670 65395883 8.030000e-65 257.0


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 TraesCS1D01G413000 chr1D 473960230 473962496 2266 False 4187.000000 4187 100.000000 1 2267 1 chr1D.!!$F3 2266
1 TraesCS1D01G413000 chr1D 473879802 473880461 659 False 621.000000 621 84.547000 975 1610 1 chr1D.!!$F2 635
2 TraesCS1D01G413000 chr1D 473993105 473998636 5531 False 399.500000 490 83.642500 790 2264 4 chr1D.!!$F5 1474
3 TraesCS1D01G413000 chr1B 659033229 659035113 1884 False 1984.000000 1984 86.443000 424 2265 1 chr1B.!!$F2 1841
4 TraesCS1D01G413000 chr1B 659072897 659074784 1887 False 1871.000000 1871 85.251000 268 2151 1 chr1B.!!$F3 1883
5 TraesCS1D01G413000 chr1B 659294395 659296018 1623 False 1762.000000 1762 87.172000 689 2263 1 chr1B.!!$F5 1574
6 TraesCS1D01G413000 chr1B 659002555 659004021 1466 False 1563.000000 1563 86.800000 851 2264 1 chr1B.!!$F1 1413
7 TraesCS1D01G413000 chr1B 659285141 659287214 2073 False 1025.000000 1495 84.230000 58 2158 2 chr1B.!!$F9 2100
8 TraesCS1D01G413000 chr1B 658968414 658970438 2024 False 753.000000 1254 87.320333 243 2264 3 chr1B.!!$F7 2021
9 TraesCS1D01G413000 chr1B 659181600 659182841 1241 False 576.500000 606 85.123000 58 1324 2 chr1B.!!$F8 1266
10 TraesCS1D01G413000 chr1B 659316613 659317190 577 False 573.000000 573 85.204000 760 1324 1 chr1B.!!$F6 564
11 TraesCS1D01G413000 chr1B 659326119 659327789 1670 False 334.000000 516 83.199000 767 2264 2 chr1B.!!$F10 1497
12 TraesCS1D01G413000 chr1A 568265141 568267539 2398 False 918.333333 1947 90.240000 51 2264 3 chr1A.!!$F3 2213
13 TraesCS1D01G413000 chr1A 568388967 568390002 1035 False 780.000000 780 81.404000 975 1958 1 chr1A.!!$F2 983
14 TraesCS1D01G413000 chr1A 568327020 568328304 1284 False 627.500000 859 84.565000 70 1287 2 chr1A.!!$F4 1217
15 TraesCS1D01G413000 chr1A 568398423 568400071 1648 False 326.000000 531 82.501000 790 2264 2 chr1A.!!$F6 1474
16 TraesCS1D01G413000 chr1A 568377871 568378423 552 False 262.000000 309 87.493500 1664 2174 2 chr1A.!!$F5 510

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
100 101 0.030773 TATCATCGCGAGTGAGTGGC 59.969 55.0 16.66 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2061 5810 0.534203 TCGGTGTGCTTTCTGAACCC 60.534 55.0 0.0 0.0 0.0 4.11 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
19 20 0.734889 AACGGCTAGATGTGCAATGC 59.265 50.000 0.00 0.00 0.00 3.56
22 23 1.528586 CGGCTAGATGTGCAATGCTAC 59.471 52.381 6.82 3.84 0.00 3.58
23 24 2.564771 GGCTAGATGTGCAATGCTACA 58.435 47.619 6.82 9.71 0.00 2.74
24 25 2.945008 GGCTAGATGTGCAATGCTACAA 59.055 45.455 6.82 0.00 0.00 2.41
25 26 3.378112 GGCTAGATGTGCAATGCTACAAA 59.622 43.478 6.82 0.02 0.00 2.83
26 27 4.346129 GCTAGATGTGCAATGCTACAAAC 58.654 43.478 6.82 8.11 0.00 2.93
27 28 3.476295 AGATGTGCAATGCTACAAACG 57.524 42.857 6.82 0.00 0.00 3.60
28 29 2.162208 AGATGTGCAATGCTACAAACGG 59.838 45.455 6.82 0.00 0.00 4.44
29 30 0.039617 TGTGCAATGCTACAAACGGC 60.040 50.000 6.82 0.00 0.00 5.68
30 31 0.240945 GTGCAATGCTACAAACGGCT 59.759 50.000 6.82 0.00 0.00 5.52
31 32 1.466950 GTGCAATGCTACAAACGGCTA 59.533 47.619 6.82 0.00 0.00 3.93
34 35 2.009774 CAATGCTACAAACGGCTAGCT 58.990 47.619 15.72 0.00 36.98 3.32
35 36 1.656652 ATGCTACAAACGGCTAGCTG 58.343 50.000 22.26 22.26 36.98 4.24
40 41 0.682852 ACAAACGGCTAGCTGGTGTA 59.317 50.000 26.90 0.00 0.00 2.90
41 42 1.337823 ACAAACGGCTAGCTGGTGTAG 60.338 52.381 26.90 16.38 0.00 2.74
43 44 1.843368 AACGGCTAGCTGGTGTAGTA 58.157 50.000 26.90 0.00 0.00 1.82
44 45 1.390565 ACGGCTAGCTGGTGTAGTAG 58.609 55.000 26.90 3.29 0.00 2.57
45 46 1.340795 ACGGCTAGCTGGTGTAGTAGT 60.341 52.381 26.90 0.00 0.00 2.73
100 101 0.030773 TATCATCGCGAGTGAGTGGC 59.969 55.000 16.66 0.00 0.00 5.01
173 182 0.321996 GGGAGAAGAGGTCACACCAC 59.678 60.000 0.00 0.00 41.95 4.16
174 183 0.321996 GGAGAAGAGGTCACACCACC 59.678 60.000 0.00 0.00 41.95 4.61
176 185 1.625818 GAGAAGAGGTCACACCACCAT 59.374 52.381 0.00 0.00 41.95 3.55
266 293 3.593442 ACCTCCATCTACCTGAGAGAG 57.407 52.381 0.00 0.00 37.70 3.20
388 427 9.599866 CAGTACAGATTCATTTACAAGGTATGA 57.400 33.333 0.00 0.00 0.00 2.15
457 505 6.956299 GCAAGAATATGCACACAGAAAAAT 57.044 33.333 0.00 0.00 45.70 1.82
491 545 9.153479 TCAAAAGAAGGATTTCATTTCCCTTTA 57.847 29.630 0.00 0.00 38.97 1.85
585 656 7.908827 TTACATCAAACCGAAGCACTAATTA 57.091 32.000 0.00 0.00 0.00 1.40
786 937 1.801178 CTCAGAAAACCTGCGAGAACC 59.199 52.381 0.00 0.00 42.62 3.62
787 938 1.416401 TCAGAAAACCTGCGAGAACCT 59.584 47.619 0.00 0.00 42.62 3.50
788 939 2.158813 TCAGAAAACCTGCGAGAACCTT 60.159 45.455 0.00 0.00 42.62 3.50
791 942 4.065789 AGAAAACCTGCGAGAACCTTAAG 58.934 43.478 0.00 0.00 0.00 1.85
834 3785 2.247358 CCTTTTAACCCACAGCCACAT 58.753 47.619 0.00 0.00 0.00 3.21
877 3848 2.879103 GGCCTATAAATAGCAGCCCA 57.121 50.000 0.00 0.00 33.94 5.36
878 3849 3.372440 GGCCTATAAATAGCAGCCCAT 57.628 47.619 0.00 0.00 33.94 4.00
1015 4015 0.806492 GAAGATGTCTTCCGGGTCGC 60.806 60.000 10.91 0.00 44.93 5.19
1363 4431 1.585006 CTGGGACTGCGTCGTTACT 59.415 57.895 0.00 0.00 32.65 2.24
1364 4432 0.456312 CTGGGACTGCGTCGTTACTC 60.456 60.000 0.00 0.00 32.65 2.59
1365 4433 1.513586 GGGACTGCGTCGTTACTCG 60.514 63.158 0.00 0.00 41.41 4.18
1366 4434 1.208614 GGACTGCGTCGTTACTCGT 59.791 57.895 0.00 0.00 40.80 4.18
1367 4435 0.386478 GGACTGCGTCGTTACTCGTT 60.386 55.000 0.00 0.00 40.80 3.85
1368 4436 1.135972 GGACTGCGTCGTTACTCGTTA 60.136 52.381 0.00 0.00 40.80 3.18
1369 4437 2.164427 GACTGCGTCGTTACTCGTTAG 58.836 52.381 0.00 0.00 40.80 2.34
1374 4442 3.242837 TGCGTCGTTACTCGTTAGCATAT 60.243 43.478 0.00 0.00 38.41 1.78
1415 4492 5.581126 CACAACATGCAGGGTATTTATGT 57.419 39.130 2.31 0.00 33.73 2.29
1416 4493 6.691754 CACAACATGCAGGGTATTTATGTA 57.308 37.500 2.31 0.00 32.18 2.29
1417 4494 6.494842 CACAACATGCAGGGTATTTATGTAC 58.505 40.000 2.31 0.00 32.18 2.90
1536 4696 2.689983 CTGGCCCAATTTATCAGTGGTC 59.310 50.000 0.00 0.00 0.00 4.02
1594 4979 2.699846 TCCAAAGCAAAAGCTTGGATGT 59.300 40.909 0.00 0.00 32.76 3.06
1610 4995 5.164620 TGGATGTATCTTGCAGTCTTTCA 57.835 39.130 0.00 0.00 0.00 2.69
1962 5678 2.729028 ATTATCCCGTGGAACCAAGG 57.271 50.000 16.71 16.71 43.58 3.61
1963 5679 1.364269 TTATCCCGTGGAACCAAGGT 58.636 50.000 20.58 8.96 42.66 3.50
1964 5680 1.364269 TATCCCGTGGAACCAAGGTT 58.636 50.000 20.58 3.73 42.66 3.50
1965 5681 1.364269 ATCCCGTGGAACCAAGGTTA 58.636 50.000 20.58 11.29 42.66 2.85
1966 5682 1.138568 TCCCGTGGAACCAAGGTTAA 58.861 50.000 20.58 6.81 42.66 2.01
1967 5683 1.706305 TCCCGTGGAACCAAGGTTAAT 59.294 47.619 20.58 0.00 42.66 1.40
1968 5684 2.108601 TCCCGTGGAACCAAGGTTAATT 59.891 45.455 20.58 0.00 42.66 1.40
1971 5687 4.337274 CCCGTGGAACCAAGGTTAATTATC 59.663 45.833 20.58 0.00 42.66 1.75
1972 5688 4.337274 CCGTGGAACCAAGGTTAATTATCC 59.663 45.833 15.70 4.61 40.02 2.59
1973 5689 4.337274 CGTGGAACCAAGGTTAATTATCCC 59.663 45.833 4.14 0.82 38.60 3.85
1974 5690 4.337274 GTGGAACCAAGGTTAATTATCCCG 59.663 45.833 4.14 1.83 38.60 5.14
1978 5694 4.925836 ACCAAGGTTAATTATCCCGTGTT 58.074 39.130 8.67 0.00 0.00 3.32
1981 5697 7.120716 ACCAAGGTTAATTATCCCGTGTTATT 58.879 34.615 8.67 0.00 0.00 1.40
1984 5700 8.463607 CAAGGTTAATTATCCCGTGTTATTTGT 58.536 33.333 8.67 0.00 0.00 2.83
1986 5702 9.683870 AGGTTAATTATCCCGTGTTATTTGTAA 57.316 29.630 8.67 0.00 0.00 2.41
1991 5707 9.457436 AATTATCCCGTGTTATTTGTAAGAAGT 57.543 29.630 0.00 0.00 0.00 3.01
2061 5810 1.948104 TGTTCAGTTTGGACTCCACG 58.052 50.000 0.00 0.00 32.54 4.94
2213 5980 7.646526 CACCAATATTCACTGTTAAGCATCATG 59.353 37.037 0.00 0.00 0.00 3.07
2219 5986 5.499313 TCACTGTTAAGCATCATGGAATCA 58.501 37.500 0.00 0.00 0.00 2.57
2220 5987 5.587443 TCACTGTTAAGCATCATGGAATCAG 59.413 40.000 0.00 0.00 0.00 2.90
2265 6040 1.366319 ACAGTCCTTGAGATTGGCCT 58.634 50.000 3.32 0.00 36.55 5.19
2266 6041 2.551270 ACAGTCCTTGAGATTGGCCTA 58.449 47.619 3.32 0.00 36.55 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.734889 GCATTGCACATCTAGCCGTT 59.265 50.000 3.15 0.00 0.00 4.44
1 2 0.107508 AGCATTGCACATCTAGCCGT 60.108 50.000 11.91 0.00 0.00 5.68
2 3 1.528586 GTAGCATTGCACATCTAGCCG 59.471 52.381 11.91 0.00 0.00 5.52
3 4 2.564771 TGTAGCATTGCACATCTAGCC 58.435 47.619 11.91 0.00 0.00 3.93
4 5 4.346129 GTTTGTAGCATTGCACATCTAGC 58.654 43.478 11.91 0.00 0.00 3.42
5 6 4.494690 CCGTTTGTAGCATTGCACATCTAG 60.495 45.833 11.91 5.77 0.00 2.43
6 7 3.373748 CCGTTTGTAGCATTGCACATCTA 59.626 43.478 11.91 0.00 0.00 1.98
8 9 2.518949 CCGTTTGTAGCATTGCACATC 58.481 47.619 11.91 8.46 0.00 3.06
9 10 1.402720 GCCGTTTGTAGCATTGCACAT 60.403 47.619 11.91 0.00 0.00 3.21
11 12 0.240945 AGCCGTTTGTAGCATTGCAC 59.759 50.000 11.91 7.73 0.00 4.57
12 13 1.737236 CTAGCCGTTTGTAGCATTGCA 59.263 47.619 11.91 0.00 0.00 4.08
14 15 2.009774 AGCTAGCCGTTTGTAGCATTG 58.990 47.619 12.13 0.00 43.55 2.82
15 16 2.009774 CAGCTAGCCGTTTGTAGCATT 58.990 47.619 12.13 0.00 43.55 3.56
16 17 1.656652 CAGCTAGCCGTTTGTAGCAT 58.343 50.000 12.13 0.00 43.55 3.79
17 18 0.391130 CCAGCTAGCCGTTTGTAGCA 60.391 55.000 12.13 0.00 43.55 3.49
19 20 1.337823 ACACCAGCTAGCCGTTTGTAG 60.338 52.381 12.13 0.45 0.00 2.74
22 23 1.337823 ACTACACCAGCTAGCCGTTTG 60.338 52.381 12.13 6.39 0.00 2.93
23 24 0.974383 ACTACACCAGCTAGCCGTTT 59.026 50.000 12.13 3.74 0.00 3.60
24 25 1.749634 CTACTACACCAGCTAGCCGTT 59.250 52.381 12.13 2.39 0.00 4.44
25 26 1.340795 ACTACTACACCAGCTAGCCGT 60.341 52.381 12.13 5.02 0.00 5.68
26 27 1.390565 ACTACTACACCAGCTAGCCG 58.609 55.000 12.13 0.00 0.00 5.52
27 28 3.952967 AGTTACTACTACACCAGCTAGCC 59.047 47.826 12.13 0.00 31.21 3.93
28 29 4.639310 TCAGTTACTACTACACCAGCTAGC 59.361 45.833 6.62 6.62 31.96 3.42
29 30 6.945938 ATCAGTTACTACTACACCAGCTAG 57.054 41.667 0.00 0.00 31.96 3.42
30 31 6.320672 GGAATCAGTTACTACTACACCAGCTA 59.679 42.308 0.00 0.00 31.96 3.32
31 32 5.127356 GGAATCAGTTACTACTACACCAGCT 59.873 44.000 0.00 0.00 31.96 4.24
34 35 6.250711 TCTGGAATCAGTTACTACTACACCA 58.749 40.000 0.00 0.00 41.59 4.17
35 36 6.680872 GCTCTGGAATCAGTTACTACTACACC 60.681 46.154 0.00 0.00 41.59 4.16
40 41 5.020132 AGTGCTCTGGAATCAGTTACTACT 58.980 41.667 0.00 0.00 41.59 2.57
41 42 5.331876 AGTGCTCTGGAATCAGTTACTAC 57.668 43.478 0.00 0.00 41.59 2.73
43 44 3.119316 CGAGTGCTCTGGAATCAGTTACT 60.119 47.826 0.00 0.00 41.59 2.24
44 45 3.182967 CGAGTGCTCTGGAATCAGTTAC 58.817 50.000 0.00 0.00 41.59 2.50
45 46 2.417379 GCGAGTGCTCTGGAATCAGTTA 60.417 50.000 1.65 0.00 41.59 2.24
100 101 0.607217 TCATCACCAGGCAGCAGTTG 60.607 55.000 0.00 0.00 0.00 3.16
266 293 7.973944 AGAACTTGTCAAAACTCCAAAACATAC 59.026 33.333 0.00 0.00 0.00 2.39
302 330 6.835174 ACCATCTCTTCAACATGCTATACAT 58.165 36.000 0.00 0.00 40.66 2.29
303 331 6.239217 ACCATCTCTTCAACATGCTATACA 57.761 37.500 0.00 0.00 0.00 2.29
304 332 7.559590 AAACCATCTCTTCAACATGCTATAC 57.440 36.000 0.00 0.00 0.00 1.47
351 390 8.764524 AATGAATCTGTACTGTGTTCTAACTC 57.235 34.615 15.61 0.00 0.00 3.01
463 512 7.012607 AGGGAAATGAAATCCTTCTTTTGAGA 58.987 34.615 4.13 0.00 38.41 3.27
471 525 7.708322 GCATCTTAAAGGGAAATGAAATCCTTC 59.292 37.037 0.00 0.00 38.53 3.46
491 545 0.914644 TCCTGGCTAAGCTGCATCTT 59.085 50.000 8.06 8.06 34.04 2.40
585 656 7.318141 TCTTGAATCCGTCGTAACTAAATCTT 58.682 34.615 0.00 0.00 0.00 2.40
786 937 4.249661 GAGGAGAGGACAACAAGCTTAAG 58.750 47.826 0.00 0.00 0.00 1.85
787 938 3.646162 TGAGGAGAGGACAACAAGCTTAA 59.354 43.478 0.00 0.00 0.00 1.85
788 939 3.239449 TGAGGAGAGGACAACAAGCTTA 58.761 45.455 0.00 0.00 0.00 3.09
791 942 1.943507 GCTGAGGAGAGGACAACAAGC 60.944 57.143 0.00 0.00 0.00 4.01
834 3785 0.741326 GAGCGTGCCATGTCTCTCTA 59.259 55.000 0.00 0.00 0.00 2.43
877 3848 5.189736 TGGTTTGGTGTCTCTCTTGCTATAT 59.810 40.000 0.00 0.00 0.00 0.86
878 3849 4.530553 TGGTTTGGTGTCTCTCTTGCTATA 59.469 41.667 0.00 0.00 0.00 1.31
1271 4275 7.658261 TCCTATGTCTGTTGAGAATTATACCG 58.342 38.462 0.00 0.00 0.00 4.02
1374 4442 6.183360 TGTTGTGCCTTTTGAGTTAAAGCATA 60.183 34.615 0.00 0.00 34.51 3.14
1546 4713 6.484364 AGGGAATTTGTTTGTCTGATTGTT 57.516 33.333 0.00 0.00 0.00 2.83
1630 5132 7.336931 AGAAGAGACTTGTTTTGTTCTAGCAAA 59.663 33.333 0.00 0.00 36.67 3.68
1632 5134 6.258727 CAGAAGAGACTTGTTTTGTTCTAGCA 59.741 38.462 0.00 0.00 0.00 3.49
1702 5234 3.511699 TCGATCCTGAAAACATGAGACG 58.488 45.455 0.00 0.00 0.00 4.18
1703 5235 5.111989 TCATCGATCCTGAAAACATGAGAC 58.888 41.667 0.00 0.00 0.00 3.36
1769 5311 4.281182 TCGGCCCATTCTTAAGAGATCTAC 59.719 45.833 5.12 0.00 0.00 2.59
1871 5574 2.504175 TGGACAGGGCCTAACAATACTC 59.496 50.000 5.28 0.00 0.00 2.59
1965 5681 9.457436 ACTTCTTACAAATAACACGGGATAATT 57.543 29.630 0.00 0.00 0.00 1.40
1966 5682 9.457436 AACTTCTTACAAATAACACGGGATAAT 57.543 29.630 0.00 0.00 0.00 1.28
1967 5683 8.723311 CAACTTCTTACAAATAACACGGGATAA 58.277 33.333 0.00 0.00 0.00 1.75
1968 5684 7.879160 ACAACTTCTTACAAATAACACGGGATA 59.121 33.333 0.00 0.00 0.00 2.59
1971 5687 6.308371 ACAACTTCTTACAAATAACACGGG 57.692 37.500 0.00 0.00 0.00 5.28
1972 5688 7.172019 AGGTACAACTTCTTACAAATAACACGG 59.828 37.037 0.00 0.00 0.00 4.94
1973 5689 8.007716 CAGGTACAACTTCTTACAAATAACACG 58.992 37.037 0.00 0.00 0.00 4.49
1974 5690 8.833493 ACAGGTACAACTTCTTACAAATAACAC 58.167 33.333 0.00 0.00 0.00 3.32
1978 5694 8.369424 TGCTACAGGTACAACTTCTTACAAATA 58.631 33.333 0.00 0.00 0.00 1.40
1981 5697 6.164417 TGCTACAGGTACAACTTCTTACAA 57.836 37.500 0.00 0.00 0.00 2.41
1984 5700 7.717875 ACAAATTGCTACAGGTACAACTTCTTA 59.282 33.333 0.00 0.00 0.00 2.10
1986 5702 6.062095 ACAAATTGCTACAGGTACAACTTCT 58.938 36.000 0.00 0.00 0.00 2.85
1988 5704 5.049680 CGACAAATTGCTACAGGTACAACTT 60.050 40.000 0.00 0.00 0.00 2.66
1990 5706 4.212636 ACGACAAATTGCTACAGGTACAAC 59.787 41.667 0.00 0.00 0.00 3.32
1991 5707 4.382291 ACGACAAATTGCTACAGGTACAA 58.618 39.130 0.00 0.00 0.00 2.41
2061 5810 0.534203 TCGGTGTGCTTTCTGAACCC 60.534 55.000 0.00 0.00 0.00 4.11
2213 5980 3.387050 ACCGTAATACCACTCCTGATTCC 59.613 47.826 0.00 0.00 0.00 3.01
2219 5986 5.452255 TGATTCTACCGTAATACCACTCCT 58.548 41.667 0.00 0.00 0.00 3.69
2220 5987 5.779529 TGATTCTACCGTAATACCACTCC 57.220 43.478 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.