Multiple sequence alignment - TraesCS6B01G045700

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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 TraesCS6B01G045700 chr6B 100.000 4269 0 0 1 4269 27172393 27168125 0.000000e+00 7884.0
1 TraesCS6B01G045700 chr6B 92.746 1861 120 8 953 2800 27124591 27122733 0.000000e+00 2675.0
2 TraesCS6B01G045700 chr6B 89.732 1490 146 5 1228 2716 27181753 27180270 0.000000e+00 1897.0
3 TraesCS6B01G045700 chr6B 86.066 933 99 15 3075 3989 27122436 27121517 0.000000e+00 974.0
4 TraesCS6B01G045700 chr6B 86.364 176 18 2 2852 3022 27122635 27122461 2.030000e-43 187.0
5 TraesCS6B01G045700 chr6B 80.905 199 21 7 574 772 27125016 27124835 1.600000e-29 141.0
6 TraesCS6B01G045700 chr6B 93.333 60 2 2 4 61 678328887 678328946 2.110000e-13 87.9
7 TraesCS6B01G045700 chr6B 88.235 68 7 1 1 67 503727494 503727427 3.540000e-11 80.5
8 TraesCS6B01G045700 chr6A 94.566 2521 83 16 580 3049 16100740 16098223 0.000000e+00 3847.0
9 TraesCS6B01G045700 chr6A 93.022 1863 113 8 953 2800 15953617 15951757 0.000000e+00 2704.0
10 TraesCS6B01G045700 chr6A 94.900 1196 56 5 3075 4269 16088857 16087666 0.000000e+00 1866.0
11 TraesCS6B01G045700 chr6A 85.037 1751 240 17 943 2680 16410242 16408501 0.000000e+00 1762.0
12 TraesCS6B01G045700 chr6A 84.760 1752 253 9 943 2685 16400916 16399170 0.000000e+00 1744.0
13 TraesCS6B01G045700 chr6A 82.551 1129 106 50 2914 3989 15951566 15950476 0.000000e+00 909.0
14 TraesCS6B01G045700 chr6A 85.577 312 39 6 110 420 15954713 15954407 5.330000e-84 322.0
15 TraesCS6B01G045700 chr6A 95.364 151 6 1 51 201 16100880 16100731 5.520000e-59 239.0
16 TraesCS6B01G045700 chr6D 94.600 2426 104 10 456 2861 15420309 15417891 0.000000e+00 3729.0
17 TraesCS6B01G045700 chr6D 92.700 1863 119 8 953 2800 15385362 15383502 0.000000e+00 2671.0
18 TraesCS6B01G045700 chr6D 94.920 1378 51 11 2895 4269 15417895 15416534 0.000000e+00 2139.0
19 TraesCS6B01G045700 chr6D 85.194 1729 238 14 939 2656 15809068 15807347 0.000000e+00 1759.0
20 TraesCS6B01G045700 chr6D 96.947 393 9 3 68 459 15420990 15420600 0.000000e+00 656.0
21 TraesCS6B01G045700 chr6D 82.411 813 80 31 2905 3665 15383324 15382523 0.000000e+00 651.0
22 TraesCS6B01G045700 chr6D 82.353 357 38 9 574 922 15385696 15385357 1.940000e-73 287.0
23 TraesCS6B01G045700 chr6D 91.304 69 6 0 506 574 34988015 34987947 1.260000e-15 95.3
24 TraesCS6B01G045700 chr6D 91.304 69 6 0 506 574 34994018 34993950 1.260000e-15 95.3
25 TraesCS6B01G045700 chr2B 90.541 74 3 3 7 80 42959687 42959618 1.260000e-15 95.3
26 TraesCS6B01G045700 chr2B 93.333 60 3 1 1 60 644175987 644176045 2.110000e-13 87.9
27 TraesCS6B01G045700 chr2B 93.103 58 2 2 10 67 760893143 760893088 2.740000e-12 84.2
28 TraesCS6B01G045700 chr7D 94.915 59 2 1 1 59 454720893 454720836 1.630000e-14 91.6
29 TraesCS6B01G045700 chr5D 96.296 54 1 1 7 60 179325859 179325807 2.110000e-13 87.9
30 TraesCS6B01G045700 chr4D 93.333 60 3 1 1 60 165913306 165913364 2.110000e-13 87.9
31 TraesCS6B01G045700 chr3B 94.643 56 3 0 7 62 454613886 454613831 2.110000e-13 87.9
32 TraesCS6B01G045700 chr2A 100.000 31 0 0 506 536 37033743 37033713 1.660000e-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 TraesCS6B01G045700 chr6B 27168125 27172393 4268 True 7884.000000 7884 100.000000 1 4269 1 chr6B.!!$R1 4268
1 TraesCS6B01G045700 chr6B 27180270 27181753 1483 True 1897.000000 1897 89.732000 1228 2716 1 chr6B.!!$R2 1488
2 TraesCS6B01G045700 chr6B 27121517 27125016 3499 True 994.250000 2675 86.520250 574 3989 4 chr6B.!!$R4 3415
3 TraesCS6B01G045700 chr6A 16098223 16100880 2657 True 2043.000000 3847 94.965000 51 3049 2 chr6A.!!$R5 2998
4 TraesCS6B01G045700 chr6A 16087666 16088857 1191 True 1866.000000 1866 94.900000 3075 4269 1 chr6A.!!$R1 1194
5 TraesCS6B01G045700 chr6A 16408501 16410242 1741 True 1762.000000 1762 85.037000 943 2680 1 chr6A.!!$R3 1737
6 TraesCS6B01G045700 chr6A 16399170 16400916 1746 True 1744.000000 1744 84.760000 943 2685 1 chr6A.!!$R2 1742
7 TraesCS6B01G045700 chr6A 15950476 15954713 4237 True 1311.666667 2704 87.050000 110 3989 3 chr6A.!!$R4 3879
8 TraesCS6B01G045700 chr6D 15416534 15420990 4456 True 2174.666667 3729 95.489000 68 4269 3 chr6D.!!$R5 4201
9 TraesCS6B01G045700 chr6D 15807347 15809068 1721 True 1759.000000 1759 85.194000 939 2656 1 chr6D.!!$R1 1717
10 TraesCS6B01G045700 chr6D 15382523 15385696 3173 True 1203.000000 2671 85.821333 574 3665 3 chr6D.!!$R4 3091

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
49 50 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.0 0.0 0.00 4.30 F
1273 2101 0.482446 TCTCCTTTGGCAACCCACAT 59.518 50.000 0.0 0.0 41.97 3.21 F
2401 3229 0.385098 TCACTTCGTCGCAGTACACG 60.385 55.000 0.0 0.0 37.36 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1969 2797 0.033504 TGTTTGAGGTGAGCTCGACC 59.966 55.000 21.10 21.1 0.00 4.79 R
2537 3366 1.000771 CCTCCTCTGTCCACTCGGA 60.001 63.158 0.00 0.0 39.79 4.55 R
4023 5020 0.417437 TCTCTCACCCAAGGGATCCA 59.583 55.000 15.23 0.0 38.96 3.41 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
24 25 6.834168 ACACACCTTTTTATCCATTTCGAT 57.166 33.333 0.00 0.00 0.00 3.59
25 26 6.620678 ACACACCTTTTTATCCATTTCGATG 58.379 36.000 0.00 0.00 0.00 3.84
26 27 6.432783 ACACACCTTTTTATCCATTTCGATGA 59.567 34.615 0.00 0.00 0.00 2.92
27 28 6.747280 CACACCTTTTTATCCATTTCGATGAC 59.253 38.462 0.00 0.00 0.00 3.06
28 29 6.432783 ACACCTTTTTATCCATTTCGATGACA 59.567 34.615 0.00 0.00 0.00 3.58
29 30 7.040062 ACACCTTTTTATCCATTTCGATGACAA 60.040 33.333 0.00 0.00 0.00 3.18
30 31 7.485913 CACCTTTTTATCCATTTCGATGACAAG 59.514 37.037 0.00 0.00 0.00 3.16
31 32 7.176690 ACCTTTTTATCCATTTCGATGACAAGT 59.823 33.333 0.00 0.00 0.00 3.16
32 33 8.673711 CCTTTTTATCCATTTCGATGACAAGTA 58.326 33.333 0.00 0.00 0.00 2.24
38 39 6.771076 TCCATTTCGATGACAAGTATTTTCG 58.229 36.000 0.00 0.00 0.00 3.46
39 40 5.965334 CCATTTCGATGACAAGTATTTTCGG 59.035 40.000 0.00 0.00 0.00 4.30
40 41 6.183360 CCATTTCGATGACAAGTATTTTCGGA 60.183 38.462 0.00 0.00 0.00 4.55
41 42 5.773239 TTCGATGACAAGTATTTTCGGAC 57.227 39.130 0.00 0.00 0.00 4.79
42 43 3.855379 TCGATGACAAGTATTTTCGGACG 59.145 43.478 0.00 0.00 0.00 4.79
43 44 3.000078 CGATGACAAGTATTTTCGGACGG 60.000 47.826 0.00 0.00 0.00 4.79
44 45 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
45 46 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
46 47 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
47 48 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
48 49 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
49 50 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
61 62 3.757493 GACGGAGGGAGTATGTACATAGG 59.243 52.174 15.93 1.79 0.00 2.57
242 243 5.047377 TCACAAATAAAAGGCCACATTCTCC 60.047 40.000 5.01 0.00 0.00 3.71
353 354 3.555956 CACCACCGCATGTCTTAGTTATC 59.444 47.826 0.00 0.00 0.00 1.75
547 1257 6.018098 ACGTCGCCTAGTATCTATACATATGC 60.018 42.308 1.58 0.08 35.74 3.14
548 1258 6.566187 CGTCGCCTAGTATCTATACATATGCC 60.566 46.154 1.58 0.00 35.74 4.40
551 1261 6.439599 GCCTAGTATCTATACATATGCCGTG 58.560 44.000 1.58 0.00 35.74 4.94
610 1320 5.159399 TGATGATGTGTGAAATATGCACG 57.841 39.130 0.00 0.00 39.07 5.34
656 1368 5.486526 TCCAATTGAAAACAAGTTGTTGCT 58.513 33.333 21.53 12.08 40.14 3.91
677 1389 1.813513 ACGACAGCTCCATGGAAAAG 58.186 50.000 17.00 10.43 0.00 2.27
745 1458 4.550577 TGTTTGTATAGCATGGCATTCG 57.449 40.909 0.00 0.00 0.00 3.34
821 1633 3.153919 GGCAACCCTGATAAGTTCAACA 58.846 45.455 0.00 0.00 32.78 3.33
846 1666 3.244422 ACAGCCCTGATAAGTTCAACGAA 60.244 43.478 1.69 0.00 32.78 3.85
857 1677 3.804036 AGTTCAACGAAACAGATGGACA 58.196 40.909 0.00 0.00 0.00 4.02
866 1686 4.859798 CGAAACAGATGGACACTCTTACTC 59.140 45.833 0.00 0.00 0.00 2.59
876 1696 7.776618 TGGACACTCTTACTCATTAAGAAGA 57.223 36.000 0.00 0.00 44.66 2.87
1273 2101 0.482446 TCTCCTTTGGCAACCCACAT 59.518 50.000 0.00 0.00 41.97 3.21
1391 2219 0.617413 CCTCACCAAGGCTGACATCT 59.383 55.000 0.00 0.00 38.67 2.90
1396 2224 1.272313 ACCAAGGCTGACATCTGCAAT 60.272 47.619 12.13 0.00 41.76 3.56
1543 2371 0.891904 TGTCCGTCATCGACAGTCCA 60.892 55.000 0.00 0.00 39.71 4.02
1756 2584 3.335534 GGTGCGACGCGTTTCACT 61.336 61.111 30.03 4.71 0.00 3.41
1846 2674 1.229529 ACAGGACCTTCCCGATGGT 60.230 57.895 2.08 2.08 41.00 3.55
1912 2740 1.918800 CTCCAAGGTTCTCCGGGGT 60.919 63.158 0.00 0.00 39.05 4.95
1969 2797 2.885135 TCTATGGCTATTGCATGGGG 57.115 50.000 0.66 0.00 41.91 4.96
2026 2854 9.012161 GGGTACTACTATGATAGTTTCTACCTG 57.988 40.741 20.72 5.65 40.14 4.00
2401 3229 0.385098 TCACTTCGTCGCAGTACACG 60.385 55.000 0.00 0.00 37.36 4.49
2449 3277 0.459934 TCATGATCATCGCGTGCACA 60.460 50.000 18.64 7.83 0.00 4.57
2537 3366 0.179936 CGAGGGGGAGTACTACTCGT 59.820 60.000 21.15 13.72 45.96 4.18
2685 3514 1.155424 ACGCCACAACACGTGTAAGG 61.155 55.000 23.69 22.97 44.78 2.69
2690 3519 0.653636 ACAACACGTGTAAGGCGTTG 59.346 50.000 23.69 16.70 39.29 4.10
2850 3720 5.824904 ATCAATATGGGAATAAGCATCGC 57.175 39.130 0.00 0.00 0.00 4.58
2856 3726 3.141398 TGGGAATAAGCATCGCTTCATC 58.859 45.455 4.16 5.01 46.77 2.92
3049 3992 2.545113 GCAAACACTACTCGACTCCACA 60.545 50.000 0.00 0.00 0.00 4.17
3050 3993 3.050619 CAAACACTACTCGACTCCACAC 58.949 50.000 0.00 0.00 0.00 3.82
3051 3994 1.245732 ACACTACTCGACTCCACACC 58.754 55.000 0.00 0.00 0.00 4.16
3052 3995 1.244816 CACTACTCGACTCCACACCA 58.755 55.000 0.00 0.00 0.00 4.17
3053 3996 1.611977 CACTACTCGACTCCACACCAA 59.388 52.381 0.00 0.00 0.00 3.67
3054 3997 2.035449 CACTACTCGACTCCACACCAAA 59.965 50.000 0.00 0.00 0.00 3.28
3055 3998 2.296471 ACTACTCGACTCCACACCAAAG 59.704 50.000 0.00 0.00 0.00 2.77
3082 4049 4.174134 GCGTACGGCAGTTTACTTATTC 57.826 45.455 18.39 0.00 42.87 1.75
3409 4391 3.412879 GACCTGCGAGAGTACGGGC 62.413 68.421 0.00 0.00 0.00 6.13
3459 4441 6.761714 CGGGACTGTTTACTAGCTATTTTGAT 59.238 38.462 0.00 0.00 0.00 2.57
3469 4451 6.043411 ACTAGCTATTTTGATGACGAAGACC 58.957 40.000 0.00 0.00 0.00 3.85
3492 4474 1.544691 ACTGAATCTAACCGCAGTCGT 59.455 47.619 0.00 0.00 36.98 4.34
3562 4549 0.245539 TAGCCTTTCACCGTCCTTCG 59.754 55.000 0.00 0.00 39.52 3.79
3659 4655 0.174389 CGCTTCTCTAGGCAGCTTCA 59.826 55.000 0.00 0.00 0.00 3.02
3671 4667 7.739825 TCTAGGCAGCTTCAAAGATGTATATT 58.260 34.615 9.50 0.00 43.95 1.28
3772 4768 3.572255 GCTAACCAAGAACCATGGACAAA 59.428 43.478 21.47 0.00 40.56 2.83
4075 5072 2.312140 AGTCCCCTAGTCTACAAGCAGA 59.688 50.000 0.00 0.00 0.00 4.26
4086 5083 6.525629 AGTCTACAAGCAGATTTACAGTGTT 58.474 36.000 0.00 0.00 0.00 3.32
4107 5104 5.045942 TGTTGTGTTCCATATTAGCTGGAGA 60.046 40.000 0.00 0.00 43.46 3.71
4201 5198 7.975616 GGTTGAGGATAACAACGTGTATAACTA 59.024 37.037 0.00 0.00 32.22 2.24
4247 5244 4.823442 TCAAAAGACTGTGATCAAGCATGT 59.177 37.500 0.00 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.608376 TCATCGAAATGGATAAAAAGGTGTGTA 59.392 33.333 0.00 0.00 33.42 2.90
1 2 6.432783 TCATCGAAATGGATAAAAAGGTGTGT 59.567 34.615 0.00 0.00 33.42 3.72
2 3 6.747280 GTCATCGAAATGGATAAAAAGGTGTG 59.253 38.462 0.00 0.00 33.42 3.82
3 4 6.432783 TGTCATCGAAATGGATAAAAAGGTGT 59.567 34.615 0.00 0.00 33.42 4.16
4 5 6.851609 TGTCATCGAAATGGATAAAAAGGTG 58.148 36.000 0.00 0.00 33.42 4.00
5 6 7.176690 ACTTGTCATCGAAATGGATAAAAAGGT 59.823 33.333 0.00 0.00 33.42 3.50
6 7 7.538575 ACTTGTCATCGAAATGGATAAAAAGG 58.461 34.615 0.00 0.00 33.42 3.11
12 13 8.547894 CGAAAATACTTGTCATCGAAATGGATA 58.452 33.333 0.00 0.00 33.42 2.59
13 14 7.409697 CGAAAATACTTGTCATCGAAATGGAT 58.590 34.615 0.00 0.00 33.42 3.41
14 15 6.183360 CCGAAAATACTTGTCATCGAAATGGA 60.183 38.462 0.00 0.00 33.42 3.41
15 16 5.965334 CCGAAAATACTTGTCATCGAAATGG 59.035 40.000 0.00 0.00 33.42 3.16
16 17 6.682863 GTCCGAAAATACTTGTCATCGAAATG 59.317 38.462 0.00 0.00 32.38 2.32
17 18 6.455113 CGTCCGAAAATACTTGTCATCGAAAT 60.455 38.462 0.00 0.00 32.38 2.17
18 19 5.164031 CGTCCGAAAATACTTGTCATCGAAA 60.164 40.000 0.00 0.00 32.38 3.46
19 20 4.325204 CGTCCGAAAATACTTGTCATCGAA 59.675 41.667 0.00 0.00 32.38 3.71
20 21 3.855379 CGTCCGAAAATACTTGTCATCGA 59.145 43.478 0.00 0.00 32.38 3.59
21 22 3.000078 CCGTCCGAAAATACTTGTCATCG 60.000 47.826 0.00 0.00 0.00 3.84
22 23 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
23 24 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
24 25 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
25 26 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
26 27 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
27 28 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
28 29 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
29 30 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
30 31 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
31 32 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
32 33 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
33 34 1.479323 CATACTCCCTCCGTCCGAAAA 59.521 52.381 0.00 0.00 0.00 2.29
34 35 1.108776 CATACTCCCTCCGTCCGAAA 58.891 55.000 0.00 0.00 0.00 3.46
35 36 0.033796 ACATACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
36 37 0.839277 TACATACTCCCTCCGTCCGA 59.161 55.000 0.00 0.00 0.00 4.55
37 38 0.950116 GTACATACTCCCTCCGTCCG 59.050 60.000 0.00 0.00 0.00 4.79
38 39 2.062971 TGTACATACTCCCTCCGTCC 57.937 55.000 0.00 0.00 0.00 4.79
39 40 3.757493 CCTATGTACATACTCCCTCCGTC 59.243 52.174 11.62 0.00 0.00 4.79
40 41 3.139770 ACCTATGTACATACTCCCTCCGT 59.860 47.826 11.62 0.00 0.00 4.69
41 42 3.764218 ACCTATGTACATACTCCCTCCG 58.236 50.000 11.62 0.02 0.00 4.63
42 43 6.137104 TCTACCTATGTACATACTCCCTCC 57.863 45.833 11.62 0.00 0.00 4.30
43 44 6.181908 CCTCTACCTATGTACATACTCCCTC 58.818 48.000 11.62 0.00 0.00 4.30
44 45 5.516945 GCCTCTACCTATGTACATACTCCCT 60.517 48.000 11.62 0.00 0.00 4.20
45 46 4.705991 GCCTCTACCTATGTACATACTCCC 59.294 50.000 11.62 0.00 0.00 4.30
46 47 4.705991 GGCCTCTACCTATGTACATACTCC 59.294 50.000 11.62 1.55 0.00 3.85
47 48 4.395542 CGGCCTCTACCTATGTACATACTC 59.604 50.000 11.62 0.00 0.00 2.59
48 49 4.202545 ACGGCCTCTACCTATGTACATACT 60.203 45.833 11.62 2.91 0.00 2.12
49 50 4.077822 ACGGCCTCTACCTATGTACATAC 58.922 47.826 11.62 0.00 0.00 2.39
82 83 7.108841 TCGTTGGCTCCATATATATAGGAAC 57.891 40.000 5.98 4.99 0.00 3.62
149 150 6.843069 ATAAACAAAACCACAGTCATTTGC 57.157 33.333 0.00 0.00 36.48 3.68
242 243 4.605183 TCTCTTGAGAAAGGTAGAGGGAG 58.395 47.826 0.00 0.00 0.00 4.30
286 287 8.248945 AGAGAAGTATTTTGAATGAATGCTTGG 58.751 33.333 5.18 0.00 38.81 3.61
324 325 2.228822 AGACATGCGGTGGTGATTTTTC 59.771 45.455 0.00 0.00 0.00 2.29
329 330 1.555075 ACTAAGACATGCGGTGGTGAT 59.445 47.619 0.00 0.00 0.00 3.06
330 331 0.973632 ACTAAGACATGCGGTGGTGA 59.026 50.000 0.00 0.00 0.00 4.02
331 332 1.808411 AACTAAGACATGCGGTGGTG 58.192 50.000 0.00 0.00 0.00 4.17
332 333 3.431766 GGATAACTAAGACATGCGGTGGT 60.432 47.826 0.00 0.00 0.00 4.16
337 338 4.322080 TGGAGGATAACTAAGACATGCG 57.678 45.455 0.00 0.00 0.00 4.73
490 1200 9.750125 TTTCATGTAGTGTGATGTATGATACTC 57.250 33.333 4.03 0.45 0.00 2.59
562 1272 1.520787 GATACTGGCCGTGAACCCG 60.521 63.158 10.01 0.00 0.00 5.28
656 1368 3.334691 CTTTTCCATGGAGCTGTCGTAA 58.665 45.455 15.53 0.38 0.00 3.18
745 1458 9.076596 GTTCTAAAACAAAGTCCATTATGATGC 57.923 33.333 0.00 0.00 35.36 3.91
821 1633 4.023193 CGTTGAACTTATCAGGGCTGTTTT 60.023 41.667 0.00 0.00 39.77 2.43
846 1666 6.365970 AATGAGTAAGAGTGTCCATCTGTT 57.634 37.500 0.00 0.00 0.00 3.16
866 1686 8.383318 TGTTTGACCTCTTCTTCTTCTTAATG 57.617 34.615 0.00 0.00 0.00 1.90
876 1696 4.818546 CAGTCACATGTTTGACCTCTTCTT 59.181 41.667 11.69 0.00 46.14 2.52
1025 1848 2.380064 AATGGTTGGGTGCTCAAGAA 57.620 45.000 0.00 0.00 0.00 2.52
1142 1970 3.423539 TTCCATGTCCTCTTCTGTTGG 57.576 47.619 0.00 0.00 0.00 3.77
1273 2101 1.093972 CAAGGTGGAATGCACGCATA 58.906 50.000 4.68 0.00 35.31 3.14
1453 2281 2.282180 GGGCCAAGAAGGTCGCAA 60.282 61.111 4.39 0.00 45.54 4.85
1846 2674 0.710588 TCTGGAGGCTCCTCAGGTTA 59.289 55.000 32.28 11.04 44.40 2.85
1912 2740 1.066716 GTACGGTAGTTGGTGATGGCA 60.067 52.381 0.00 0.00 0.00 4.92
1969 2797 0.033504 TGTTTGAGGTGAGCTCGACC 59.966 55.000 21.10 21.10 0.00 4.79
2143 2971 4.115401 GAGGATCCAAATGTTCCAAAGC 57.885 45.455 15.82 0.00 31.65 3.51
2359 3187 3.070302 AGAAGAGAAGTTGTGTGAGACCC 59.930 47.826 0.00 0.00 0.00 4.46
2523 3351 1.580815 CTCGGACGAGTAGTACTCCC 58.419 60.000 21.92 17.16 42.12 4.30
2537 3366 1.000771 CCTCCTCTGTCCACTCGGA 60.001 63.158 0.00 0.00 39.79 4.55
2843 3713 5.412594 TCAAAAAGTAAGATGAAGCGATGCT 59.587 36.000 0.00 0.00 42.56 3.79
3049 3992 1.503818 CCGTACGCTTGCACTTTGGT 61.504 55.000 10.49 0.00 0.00 3.67
3050 3993 1.206578 CCGTACGCTTGCACTTTGG 59.793 57.895 10.49 0.00 0.00 3.28
3051 3994 1.440353 GCCGTACGCTTGCACTTTG 60.440 57.895 10.49 0.00 0.00 2.77
3052 3995 1.841663 CTGCCGTACGCTTGCACTTT 61.842 55.000 10.49 0.00 38.78 2.66
3053 3996 2.280524 TGCCGTACGCTTGCACTT 60.281 55.556 10.49 0.00 38.78 3.16
3054 3997 2.738521 CTGCCGTACGCTTGCACT 60.739 61.111 10.49 0.00 38.78 4.40
3055 3998 2.113131 AAACTGCCGTACGCTTGCAC 62.113 55.000 10.49 0.00 38.78 4.57
3073 4027 4.037089 TCGCATCACGCTAGGAATAAGTAA 59.963 41.667 0.00 0.00 43.23 2.24
3082 4049 2.120232 CTAACTTCGCATCACGCTAGG 58.880 52.381 0.00 0.00 43.23 3.02
3098 4065 4.612264 TGGTGTGGAAGAAGTACCTAAC 57.388 45.455 0.00 0.00 32.68 2.34
3353 4335 9.162764 GTGCTGAATGTATCTAAAGGTAGAAAA 57.837 33.333 0.00 0.00 39.81 2.29
3409 4391 0.457853 ATGAACCACGTGTCGATCGG 60.458 55.000 16.41 0.89 0.00 4.18
3459 4441 1.201647 GATTCAGTCCGGTCTTCGTCA 59.798 52.381 0.00 0.00 37.11 4.35
3469 4451 1.135083 ACTGCGGTTAGATTCAGTCCG 60.135 52.381 0.00 0.00 43.37 4.79
3492 4474 4.020573 TGCTCAAGGTTAAGAATCTCGGAA 60.021 41.667 0.00 0.00 0.00 4.30
3772 4768 5.601662 CGTATGTGTAAGAGGATCCAACAT 58.398 41.667 15.82 14.54 33.57 2.71
4023 5020 0.417437 TCTCTCACCCAAGGGATCCA 59.583 55.000 15.23 0.00 38.96 3.41
4107 5104 4.705507 AGATCTTGCACAAGCTTGAATCAT 59.294 37.500 32.50 15.12 42.74 2.45
4201 5198 7.613585 TGATGCTTCAATTACCACATGAAATT 58.386 30.769 0.00 0.00 33.08 1.82
4233 5230 5.737860 AGTTCTATCACATGCTTGATCACA 58.262 37.500 6.60 0.00 37.42 3.58
4247 5244 2.165641 ACAATGCCGACGAGTTCTATCA 59.834 45.455 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.