Multiple sequence alignment - TraesCS5D01G078600

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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 TraesCS5D01G078600 chr5D 100.000 3379 0 0 1 3379 78603645 78600267 0.000000e+00 6240.0
1 TraesCS5D01G078600 chr5D 97.710 2052 42 4 709 2758 555413533 555415581 0.000000e+00 3524.0
2 TraesCS5D01G078600 chr5D 86.832 524 50 11 189 711 78505111 78504606 4.890000e-158 568.0
3 TraesCS5D01G078600 chr5D 88.537 410 42 5 306 711 78372006 78371598 3.030000e-135 492.0
4 TraesCS5D01G078600 chr4D 98.878 2674 23 3 712 3379 491381490 491384162 0.000000e+00 4765.0
5 TraesCS5D01G078600 chr3D 97.607 2674 57 3 712 3379 334133 336805 0.000000e+00 4577.0
6 TraesCS5D01G078600 chr3D 96.859 2674 65 7 712 3379 468955024 468957684 0.000000e+00 4455.0
7 TraesCS5D01G078600 chr1D 97.607 2674 56 3 712 3379 316243968 316241297 0.000000e+00 4577.0
8 TraesCS5D01G078600 chr2D 97.238 2679 60 5 712 3379 130079133 130076458 0.000000e+00 4525.0
9 TraesCS5D01G078600 chr2D 97.234 2675 66 4 711 3379 617340744 617343416 0.000000e+00 4523.0
10 TraesCS5D01G078600 chr6D 97.080 2671 66 5 712 3376 420171217 420173881 0.000000e+00 4490.0
11 TraesCS5D01G078600 chr4A 95.339 2682 94 14 712 3379 731637348 731634684 0.000000e+00 4231.0
12 TraesCS5D01G078600 chr4A 94.361 2678 100 12 712 3379 478227133 478229769 0.000000e+00 4061.0
13 TraesCS5D01G078600 chr5A 89.715 632 48 5 95 711 74864425 74863796 0.000000e+00 791.0
14 TraesCS5D01G078600 chr5A 97.115 104 2 1 195 297 74864283 74864180 1.250000e-39 174.0
15 TraesCS5D01G078600 chr5B 95.012 401 20 0 311 711 88341290 88340890 6.150000e-177 630.0
16 TraesCS5D01G078600 chr5B 90.789 380 33 2 333 711 88212232 88211854 1.080000e-139 507.0
17 TraesCS5D01G078600 chr5B 87.745 408 48 2 305 711 123218837 123219243 3.050000e-130 475.0
18 TraesCS5D01G078600 chr5B 87.745 408 48 2 305 711 123436885 123437291 3.050000e-130 475.0
19 TraesCS5D01G078600 chr5B 87.224 407 50 2 306 711 123013419 123013824 2.380000e-126 462.0
20 TraesCS5D01G078600 chr5B 96.026 151 5 1 90 239 88341517 88341367 9.370000e-61 244.0
21 TraesCS5D01G078600 chr5B 95.062 81 1 2 218 295 88341356 88341276 1.270000e-24 124.0
22 TraesCS5D01G078600 chr6B 94.595 37 2 0 656 692 671658613 671658577 1.310000e-04 58.4


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 TraesCS5D01G078600 chr5D 78600267 78603645 3378 True 6240.000000 6240 100.000000 1 3379 1 chr5D.!!$R3 3378
1 TraesCS5D01G078600 chr5D 555413533 555415581 2048 False 3524.000000 3524 97.710000 709 2758 1 chr5D.!!$F1 2049
2 TraesCS5D01G078600 chr5D 78504606 78505111 505 True 568.000000 568 86.832000 189 711 1 chr5D.!!$R2 522
3 TraesCS5D01G078600 chr4D 491381490 491384162 2672 False 4765.000000 4765 98.878000 712 3379 1 chr4D.!!$F1 2667
4 TraesCS5D01G078600 chr3D 334133 336805 2672 False 4577.000000 4577 97.607000 712 3379 1 chr3D.!!$F1 2667
5 TraesCS5D01G078600 chr3D 468955024 468957684 2660 False 4455.000000 4455 96.859000 712 3379 1 chr3D.!!$F2 2667
6 TraesCS5D01G078600 chr1D 316241297 316243968 2671 True 4577.000000 4577 97.607000 712 3379 1 chr1D.!!$R1 2667
7 TraesCS5D01G078600 chr2D 130076458 130079133 2675 True 4525.000000 4525 97.238000 712 3379 1 chr2D.!!$R1 2667
8 TraesCS5D01G078600 chr2D 617340744 617343416 2672 False 4523.000000 4523 97.234000 711 3379 1 chr2D.!!$F1 2668
9 TraesCS5D01G078600 chr6D 420171217 420173881 2664 False 4490.000000 4490 97.080000 712 3376 1 chr6D.!!$F1 2664
10 TraesCS5D01G078600 chr4A 731634684 731637348 2664 True 4231.000000 4231 95.339000 712 3379 1 chr4A.!!$R1 2667
11 TraesCS5D01G078600 chr4A 478227133 478229769 2636 False 4061.000000 4061 94.361000 712 3379 1 chr4A.!!$F1 2667
12 TraesCS5D01G078600 chr5A 74863796 74864425 629 True 482.500000 791 93.415000 95 711 2 chr5A.!!$R1 616
13 TraesCS5D01G078600 chr5B 88340890 88341517 627 True 332.666667 630 95.366667 90 711 3 chr5B.!!$R2 621

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
63 64 0.032678 GATGAGGTGATGCGATCGGT 59.967 55.0 18.3 0.0 0.00 4.69 F
86 87 0.244450 CCGACCAACGCCTTAGTACA 59.756 55.0 0.0 0.0 41.07 2.90 F
1129 1185 0.933047 CGAACAGCAACGAGACGTCA 60.933 55.0 19.5 0.0 39.99 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1129 1185 1.718396 TGTACTCGTCATCGTCGTCT 58.282 50.000 0.0 0.0 38.33 4.18 R
2064 2127 3.144657 TGAAGCTCAATCTTTGCCTGA 57.855 42.857 0.0 0.0 0.00 3.86 R
2937 3008 0.968393 GGAGACGAAGAGGAGGTGCT 60.968 60.000 0.0 0.0 0.00 4.40 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
21 22 4.546829 ACTTACAATGCGAAGGGTCTAA 57.453 40.909 0.00 0.00 0.00 2.10
22 23 5.099042 ACTTACAATGCGAAGGGTCTAAT 57.901 39.130 0.00 0.00 0.00 1.73
23 24 5.116882 ACTTACAATGCGAAGGGTCTAATC 58.883 41.667 0.00 0.00 0.00 1.75
24 25 2.919228 ACAATGCGAAGGGTCTAATCC 58.081 47.619 0.00 0.00 0.00 3.01
25 26 2.238646 ACAATGCGAAGGGTCTAATCCA 59.761 45.455 0.00 0.00 0.00 3.41
26 27 3.278574 CAATGCGAAGGGTCTAATCCAA 58.721 45.455 0.00 0.00 0.00 3.53
27 28 3.864789 ATGCGAAGGGTCTAATCCAAT 57.135 42.857 0.00 0.00 0.00 3.16
28 29 2.917933 TGCGAAGGGTCTAATCCAATG 58.082 47.619 0.00 0.00 0.00 2.82
29 30 2.503765 TGCGAAGGGTCTAATCCAATGA 59.496 45.455 0.00 0.00 0.00 2.57
30 31 2.872858 GCGAAGGGTCTAATCCAATGAC 59.127 50.000 0.00 0.00 0.00 3.06
31 32 3.681594 GCGAAGGGTCTAATCCAATGACA 60.682 47.826 0.00 0.00 32.84 3.58
32 33 3.871594 CGAAGGGTCTAATCCAATGACAC 59.128 47.826 0.00 0.00 34.61 3.67
33 34 3.543680 AGGGTCTAATCCAATGACACG 57.456 47.619 0.00 0.00 38.96 4.49
34 35 1.940613 GGGTCTAATCCAATGACACGC 59.059 52.381 0.00 0.00 32.84 5.34
35 36 1.593006 GGTCTAATCCAATGACACGCG 59.407 52.381 3.53 3.53 32.84 6.01
36 37 2.268298 GTCTAATCCAATGACACGCGT 58.732 47.619 5.58 5.58 0.00 6.01
37 38 2.029244 GTCTAATCCAATGACACGCGTG 59.971 50.000 35.99 35.99 0.00 5.34
38 39 1.327460 CTAATCCAATGACACGCGTGG 59.673 52.381 39.21 23.04 34.19 4.94
39 40 0.605319 AATCCAATGACACGCGTGGT 60.605 50.000 39.21 25.96 34.19 4.16
48 49 3.676605 ACGCGTGGTGACCGATGA 61.677 61.111 12.93 0.00 0.00 2.92
49 50 2.880879 CGCGTGGTGACCGATGAG 60.881 66.667 0.00 0.00 0.00 2.90
60 61 2.819667 CCGATGAGGTGATGCGATC 58.180 57.895 0.00 0.00 34.51 3.69
61 62 1.005804 CCGATGAGGTGATGCGATCG 61.006 60.000 11.69 11.69 36.52 3.69
62 63 1.005804 CGATGAGGTGATGCGATCGG 61.006 60.000 18.30 0.00 33.82 4.18
63 64 0.032678 GATGAGGTGATGCGATCGGT 59.967 55.000 18.30 0.00 0.00 4.69
64 65 0.032678 ATGAGGTGATGCGATCGGTC 59.967 55.000 18.30 0.98 0.00 4.79
79 80 4.353437 GTCGACCGACCAACGCCT 62.353 66.667 11.13 0.00 39.08 5.52
80 81 3.608662 TCGACCGACCAACGCCTT 61.609 61.111 0.00 0.00 41.07 4.35
81 82 2.259204 CGACCGACCAACGCCTTA 59.741 61.111 0.00 0.00 41.07 2.69
82 83 1.804326 CGACCGACCAACGCCTTAG 60.804 63.158 0.00 0.00 41.07 2.18
83 84 1.291272 GACCGACCAACGCCTTAGT 59.709 57.895 0.00 0.00 41.07 2.24
84 85 0.527565 GACCGACCAACGCCTTAGTA 59.472 55.000 0.00 0.00 41.07 1.82
85 86 0.244721 ACCGACCAACGCCTTAGTAC 59.755 55.000 0.00 0.00 41.07 2.73
86 87 0.244450 CCGACCAACGCCTTAGTACA 59.756 55.000 0.00 0.00 41.07 2.90
87 88 1.343506 CGACCAACGCCTTAGTACAC 58.656 55.000 0.00 0.00 34.51 2.90
88 89 1.343506 GACCAACGCCTTAGTACACG 58.656 55.000 0.00 0.00 0.00 4.49
296 342 7.259088 AGATGGGTAAAGAACATAGACAACT 57.741 36.000 0.00 0.00 0.00 3.16
297 343 7.331791 AGATGGGTAAAGAACATAGACAACTC 58.668 38.462 0.00 0.00 0.00 3.01
298 344 5.801380 TGGGTAAAGAACATAGACAACTCC 58.199 41.667 0.00 0.00 0.00 3.85
299 345 5.546499 TGGGTAAAGAACATAGACAACTCCT 59.454 40.000 0.00 0.00 0.00 3.69
300 346 6.043938 TGGGTAAAGAACATAGACAACTCCTT 59.956 38.462 0.00 0.00 0.00 3.36
301 347 6.940867 GGGTAAAGAACATAGACAACTCCTTT 59.059 38.462 0.00 0.00 0.00 3.11
302 348 7.447545 GGGTAAAGAACATAGACAACTCCTTTT 59.552 37.037 0.00 0.00 0.00 2.27
303 349 8.504815 GGTAAAGAACATAGACAACTCCTTTTC 58.495 37.037 0.00 0.00 0.00 2.29
304 350 6.787085 AAGAACATAGACAACTCCTTTTCG 57.213 37.500 0.00 0.00 0.00 3.46
305 351 6.097915 AGAACATAGACAACTCCTTTTCGA 57.902 37.500 0.00 0.00 0.00 3.71
306 352 6.522054 AGAACATAGACAACTCCTTTTCGAA 58.478 36.000 0.00 0.00 0.00 3.71
307 353 6.990349 AGAACATAGACAACTCCTTTTCGAAA 59.010 34.615 6.47 6.47 0.00 3.46
308 354 7.497909 AGAACATAGACAACTCCTTTTCGAAAA 59.502 33.333 21.35 21.35 0.00 2.29
309 355 7.562454 ACATAGACAACTCCTTTTCGAAAAA 57.438 32.000 22.67 9.49 0.00 1.94
670 716 1.718280 AGGGGATATGGACGAGGAAC 58.282 55.000 0.00 0.00 0.00 3.62
693 739 0.965866 TCGTTGCAGGACTCGAGGAT 60.966 55.000 18.41 0.00 0.00 3.24
721 767 1.136336 GCCGTAAAGCGAGTGTTTGAG 60.136 52.381 0.00 0.00 44.77 3.02
1129 1185 0.933047 CGAACAGCAACGAGACGTCA 60.933 55.000 19.50 0.00 39.99 4.35
1210 1266 2.782925 TCAGCTCAGTCTATCCTCTCCT 59.217 50.000 0.00 0.00 0.00 3.69
1395 1458 3.262660 TGAATCTGACAGAAGGTGCATCT 59.737 43.478 9.70 0.00 0.00 2.90
1735 1798 3.968649 TCTGAATTTGCTTGTTCACTGC 58.031 40.909 0.00 0.00 31.55 4.40
2064 2127 5.240013 AGAAGAAGAAGCAACTTGAGGAT 57.760 39.130 0.34 0.00 0.00 3.24
2118 2181 6.729187 GCTTAAGCTCAAGAAAGAACAAAGA 58.271 36.000 20.38 0.00 38.21 2.52
2256 2319 2.303022 TGAGCTCCTTAAGGTTGGTCAG 59.697 50.000 29.65 18.79 39.80 3.51
2540 2603 7.656542 ACTGGTGCTAAGTTAAGTTAAGAACTC 59.343 37.037 4.37 0.85 41.91 3.01
2594 2659 8.621532 ATGTGTGTTGTATCATAAGTTCTTGT 57.378 30.769 0.00 0.00 0.00 3.16
2937 3008 0.041238 AGTGGTAGGTGGCAGCTCTA 59.959 55.000 24.23 10.04 0.00 2.43
3038 3109 1.285023 CAGGTCCTCGTCGTCGTTT 59.715 57.895 1.33 0.00 38.33 3.60
3039 3110 0.318445 CAGGTCCTCGTCGTCGTTTT 60.318 55.000 1.33 0.00 38.33 2.43
3267 3338 2.202236 ATCCACGAGCCCTTGTGCAT 62.202 55.000 9.68 0.00 42.30 3.96
3324 3395 2.181021 GGTCTTCGTCACCGCGAT 59.819 61.111 8.23 0.00 40.76 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.546829 TTAGACCCTTCGCATTGTAAGT 57.453 40.909 0.00 0.00 0.00 2.24
1 2 4.511826 GGATTAGACCCTTCGCATTGTAAG 59.488 45.833 0.00 0.00 0.00 2.34
2 3 4.080807 TGGATTAGACCCTTCGCATTGTAA 60.081 41.667 0.00 0.00 0.00 2.41
3 4 3.452990 TGGATTAGACCCTTCGCATTGTA 59.547 43.478 0.00 0.00 0.00 2.41
4 5 2.238646 TGGATTAGACCCTTCGCATTGT 59.761 45.455 0.00 0.00 0.00 2.71
5 6 2.917933 TGGATTAGACCCTTCGCATTG 58.082 47.619 0.00 0.00 0.00 2.82
6 7 3.644966 TTGGATTAGACCCTTCGCATT 57.355 42.857 0.00 0.00 0.00 3.56
7 8 3.136443 TCATTGGATTAGACCCTTCGCAT 59.864 43.478 0.00 0.00 0.00 4.73
8 9 2.503765 TCATTGGATTAGACCCTTCGCA 59.496 45.455 0.00 0.00 0.00 5.10
9 10 2.872858 GTCATTGGATTAGACCCTTCGC 59.127 50.000 0.00 0.00 0.00 4.70
10 11 3.871594 GTGTCATTGGATTAGACCCTTCG 59.128 47.826 0.00 0.00 0.00 3.79
11 12 3.871594 CGTGTCATTGGATTAGACCCTTC 59.128 47.826 0.00 0.00 0.00 3.46
12 13 3.873910 CGTGTCATTGGATTAGACCCTT 58.126 45.455 0.00 0.00 0.00 3.95
13 14 2.420129 GCGTGTCATTGGATTAGACCCT 60.420 50.000 0.00 0.00 0.00 4.34
14 15 1.940613 GCGTGTCATTGGATTAGACCC 59.059 52.381 0.00 0.00 0.00 4.46
15 16 1.593006 CGCGTGTCATTGGATTAGACC 59.407 52.381 0.00 0.00 0.00 3.85
16 17 2.029244 CACGCGTGTCATTGGATTAGAC 59.971 50.000 30.50 0.00 0.00 2.59
17 18 2.267426 CACGCGTGTCATTGGATTAGA 58.733 47.619 30.50 0.00 0.00 2.10
18 19 1.327460 CCACGCGTGTCATTGGATTAG 59.673 52.381 34.81 13.34 0.00 1.73
19 20 1.338294 ACCACGCGTGTCATTGGATTA 60.338 47.619 34.81 0.00 33.02 1.75
20 21 0.605319 ACCACGCGTGTCATTGGATT 60.605 50.000 34.81 3.54 33.02 3.01
21 22 1.003839 ACCACGCGTGTCATTGGAT 60.004 52.632 34.81 9.08 33.02 3.41
22 23 1.958715 CACCACGCGTGTCATTGGA 60.959 57.895 34.81 0.00 37.73 3.53
23 24 1.958715 TCACCACGCGTGTCATTGG 60.959 57.895 34.81 22.40 43.51 3.16
24 25 1.204062 GTCACCACGCGTGTCATTG 59.796 57.895 34.81 24.75 43.51 2.82
25 26 1.959226 GGTCACCACGCGTGTCATT 60.959 57.895 34.81 15.39 43.51 2.57
26 27 2.357034 GGTCACCACGCGTGTCAT 60.357 61.111 34.81 19.02 43.51 3.06
27 28 4.934942 CGGTCACCACGCGTGTCA 62.935 66.667 34.81 17.22 43.51 3.58
28 29 3.909258 ATCGGTCACCACGCGTGTC 62.909 63.158 34.81 21.56 43.51 3.67
29 30 3.986006 ATCGGTCACCACGCGTGT 61.986 61.111 34.81 21.36 43.51 4.49
30 31 3.478394 CATCGGTCACCACGCGTG 61.478 66.667 31.77 31.77 44.50 5.34
31 32 3.626680 CTCATCGGTCACCACGCGT 62.627 63.158 5.58 5.58 0.00 6.01
32 33 2.880879 CTCATCGGTCACCACGCG 60.881 66.667 3.53 3.53 0.00 6.01
33 34 2.509336 CCTCATCGGTCACCACGC 60.509 66.667 0.00 0.00 0.00 5.34
34 35 1.446099 CACCTCATCGGTCACCACG 60.446 63.158 0.00 0.00 44.93 4.94
35 36 0.537188 ATCACCTCATCGGTCACCAC 59.463 55.000 0.00 0.00 44.93 4.16
36 37 0.536724 CATCACCTCATCGGTCACCA 59.463 55.000 0.00 0.00 44.93 4.17
37 38 0.811616 GCATCACCTCATCGGTCACC 60.812 60.000 0.00 0.00 44.93 4.02
38 39 1.148157 CGCATCACCTCATCGGTCAC 61.148 60.000 0.00 0.00 44.93 3.67
39 40 1.141665 CGCATCACCTCATCGGTCA 59.858 57.895 0.00 0.00 44.93 4.02
40 41 0.032678 ATCGCATCACCTCATCGGTC 59.967 55.000 0.00 0.00 44.93 4.79
42 43 1.005804 CGATCGCATCACCTCATCGG 61.006 60.000 0.26 0.00 34.12 4.18
43 44 1.005804 CCGATCGCATCACCTCATCG 61.006 60.000 10.32 0.00 36.85 3.84
44 45 0.032678 ACCGATCGCATCACCTCATC 59.967 55.000 10.32 0.00 0.00 2.92
45 46 0.032678 GACCGATCGCATCACCTCAT 59.967 55.000 10.32 0.00 0.00 2.90
46 47 1.437573 GACCGATCGCATCACCTCA 59.562 57.895 10.32 0.00 0.00 3.86
47 48 1.658717 CGACCGATCGCATCACCTC 60.659 63.158 10.32 0.00 42.43 3.85
48 49 2.413351 CGACCGATCGCATCACCT 59.587 61.111 10.32 0.00 42.43 4.00
62 63 2.476534 TAAGGCGTTGGTCGGTCGAC 62.477 60.000 14.33 14.33 43.87 4.20
63 64 2.203972 CTAAGGCGTTGGTCGGTCGA 62.204 60.000 0.97 0.00 40.26 4.20
64 65 1.804326 CTAAGGCGTTGGTCGGTCG 60.804 63.158 0.97 0.00 40.26 4.79
65 66 0.527565 TACTAAGGCGTTGGTCGGTC 59.472 55.000 11.62 0.00 40.26 4.79
66 67 0.244721 GTACTAAGGCGTTGGTCGGT 59.755 55.000 11.62 1.10 40.26 4.69
67 68 0.244450 TGTACTAAGGCGTTGGTCGG 59.756 55.000 11.62 0.00 40.26 4.79
68 69 1.343506 GTGTACTAAGGCGTTGGTCG 58.656 55.000 11.62 0.00 43.12 4.79
69 70 1.343506 CGTGTACTAAGGCGTTGGTC 58.656 55.000 11.62 5.06 0.00 4.02
70 71 0.668401 GCGTGTACTAAGGCGTTGGT 60.668 55.000 12.84 12.84 0.00 3.67
71 72 1.680105 CGCGTGTACTAAGGCGTTGG 61.680 60.000 10.96 0.73 46.31 3.77
72 73 1.700029 CGCGTGTACTAAGGCGTTG 59.300 57.895 10.96 0.00 46.31 4.10
73 74 4.157817 CGCGTGTACTAAGGCGTT 57.842 55.556 10.96 0.00 46.31 4.84
76 77 2.165301 CAGGCGCGTGTACTAAGGC 61.165 63.158 21.45 0.00 0.00 4.35
77 78 0.102481 ATCAGGCGCGTGTACTAAGG 59.898 55.000 27.39 1.71 0.00 2.69
78 79 1.200483 CATCAGGCGCGTGTACTAAG 58.800 55.000 27.39 10.06 0.00 2.18
79 80 0.528924 ACATCAGGCGCGTGTACTAA 59.471 50.000 27.39 10.27 0.00 2.24
80 81 1.381522 TACATCAGGCGCGTGTACTA 58.618 50.000 27.39 10.65 0.00 1.82
81 82 0.744874 ATACATCAGGCGCGTGTACT 59.255 50.000 27.39 13.97 31.79 2.73
82 83 0.852777 CATACATCAGGCGCGTGTAC 59.147 55.000 27.39 0.69 31.79 2.90
83 84 0.741915 TCATACATCAGGCGCGTGTA 59.258 50.000 27.39 19.64 33.35 2.90
84 85 0.806102 GTCATACATCAGGCGCGTGT 60.806 55.000 27.39 18.25 0.00 4.49
85 86 0.805711 TGTCATACATCAGGCGCGTG 60.806 55.000 23.52 23.52 0.00 5.34
86 87 0.528466 CTGTCATACATCAGGCGCGT 60.528 55.000 8.43 0.00 0.00 6.01
87 88 1.217585 CCTGTCATACATCAGGCGCG 61.218 60.000 0.00 0.00 43.45 6.86
88 89 2.609825 CCTGTCATACATCAGGCGC 58.390 57.895 0.00 0.00 43.45 6.53
308 354 4.469586 ACCCCAGTTGTCAATGTTCTTTTT 59.530 37.500 0.00 0.00 0.00 1.94
309 355 4.030216 ACCCCAGTTGTCAATGTTCTTTT 58.970 39.130 0.00 0.00 0.00 2.27
310 356 3.384467 CACCCCAGTTGTCAATGTTCTTT 59.616 43.478 0.00 0.00 0.00 2.52
311 357 2.958355 CACCCCAGTTGTCAATGTTCTT 59.042 45.455 0.00 0.00 0.00 2.52
312 358 2.174639 TCACCCCAGTTGTCAATGTTCT 59.825 45.455 0.00 0.00 0.00 3.01
313 359 2.293399 GTCACCCCAGTTGTCAATGTTC 59.707 50.000 0.00 0.00 0.00 3.18
314 360 2.091885 AGTCACCCCAGTTGTCAATGTT 60.092 45.455 0.00 0.00 0.00 2.71
315 361 1.494721 AGTCACCCCAGTTGTCAATGT 59.505 47.619 0.00 0.00 0.00 2.71
316 362 2.276732 AGTCACCCCAGTTGTCAATG 57.723 50.000 0.00 0.00 0.00 2.82
317 363 3.873801 GCATAGTCACCCCAGTTGTCAAT 60.874 47.826 0.00 0.00 0.00 2.57
318 364 2.552155 GCATAGTCACCCCAGTTGTCAA 60.552 50.000 0.00 0.00 0.00 3.18
319 365 1.003118 GCATAGTCACCCCAGTTGTCA 59.997 52.381 0.00 0.00 0.00 3.58
320 366 1.003118 TGCATAGTCACCCCAGTTGTC 59.997 52.381 0.00 0.00 0.00 3.18
321 367 1.064003 TGCATAGTCACCCCAGTTGT 58.936 50.000 0.00 0.00 0.00 3.32
322 368 2.292267 GATGCATAGTCACCCCAGTTG 58.708 52.381 0.00 0.00 0.00 3.16
323 369 1.915489 TGATGCATAGTCACCCCAGTT 59.085 47.619 0.00 0.00 0.00 3.16
324 370 1.583556 TGATGCATAGTCACCCCAGT 58.416 50.000 0.00 0.00 0.00 4.00
325 371 2.292267 GTTGATGCATAGTCACCCCAG 58.708 52.381 0.00 0.00 0.00 4.45
592 638 3.057174 GCGTCTATCGGATGGATTTCTCT 60.057 47.826 7.34 0.00 40.26 3.10
618 664 1.911766 GTCGACCAACCAGGGGAGA 60.912 63.158 3.51 0.00 43.89 3.71
670 716 1.734477 CGAGTCCTGCAACGACCTG 60.734 63.158 9.42 0.57 0.00 4.00
1129 1185 1.718396 TGTACTCGTCATCGTCGTCT 58.282 50.000 0.00 0.00 38.33 4.18
1210 1266 4.524714 CCTAGAACAGAACAGACAGGAGAA 59.475 45.833 0.00 0.00 0.00 2.87
2064 2127 3.144657 TGAAGCTCAATCTTTGCCTGA 57.855 42.857 0.00 0.00 0.00 3.86
2118 2181 2.239150 AGCTTGACTCTGAAGGATGCAT 59.761 45.455 0.00 0.00 0.00 3.96
2256 2319 1.667722 CAGCTTTTCCTTGCACCCC 59.332 57.895 0.00 0.00 0.00 4.95
2594 2659 8.721478 GCAACTTATGAAGTAAACAGATCTCAA 58.279 33.333 0.00 0.00 41.91 3.02
2937 3008 0.968393 GGAGACGAAGAGGAGGTGCT 60.968 60.000 0.00 0.00 0.00 4.40
3038 3109 5.720041 AGCTACAACTCCAACTACTATGGAA 59.280 40.000 0.00 0.00 45.96 3.53
3039 3110 5.269991 AGCTACAACTCCAACTACTATGGA 58.730 41.667 0.00 0.00 44.58 3.41
3267 3338 4.160642 AGATTGCCATGAGATACAGCAA 57.839 40.909 5.88 5.88 41.47 3.91
3324 3395 1.531739 GCCATGCTTTTTGGGTCGGA 61.532 55.000 0.00 0.00 34.66 4.55


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

AutoCloner maintained by Alex Coulton.