Multiple sequence alignment - TraesCS2A01G161200

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 TraesCS2A01G161200 chr2A 100.000 4574 0 0 1 4574 113312967 113308394 0.000000e+00 8447.0
1 TraesCS2A01G161200 chr2A 95.031 2878 97 20 558 3409 112744386 112747243 0.000000e+00 4481.0
2 TraesCS2A01G161200 chr2A 85.658 1520 159 36 532 2039 111921480 111922952 0.000000e+00 1544.0
3 TraesCS2A01G161200 chr2A 87.995 858 66 21 2125 2971 111923016 111923847 0.000000e+00 979.0
4 TraesCS2A01G161200 chr2A 86.431 538 42 15 3456 3968 111924876 111925407 1.110000e-155 560.0
5 TraesCS2A01G161200 chr2A 86.340 388 36 10 3453 3828 112747466 112747848 1.530000e-109 407.0
6 TraesCS2A01G161200 chr2A 88.321 137 15 1 423 558 112744013 112744149 3.660000e-36 163.0
7 TraesCS2A01G161200 chr2A 81.481 162 29 1 2764 2924 113197558 113197397 1.030000e-26 132.0
8 TraesCS2A01G161200 chr2A 80.357 112 15 6 3960 4068 104779120 104779013 1.360000e-10 78.7
9 TraesCS2A01G161200 chr2D 88.514 1454 106 22 588 2039 112098917 112100311 0.000000e+00 1703.0
10 TraesCS2A01G161200 chr2D 93.794 999 52 3 702 1698 112181369 112180379 0.000000e+00 1493.0
11 TraesCS2A01G161200 chr2D 84.469 1526 159 47 532 2041 111588211 111589674 0.000000e+00 1434.0
12 TraesCS2A01G161200 chr2D 93.013 873 31 13 2138 2984 112100375 112101243 0.000000e+00 1247.0
13 TraesCS2A01G161200 chr2D 90.057 875 52 19 2125 2980 112180031 112179173 0.000000e+00 1101.0
14 TraesCS2A01G161200 chr2D 95.517 580 21 3 3437 4011 112178137 112177558 0.000000e+00 922.0
15 TraesCS2A01G161200 chr2D 92.593 432 26 3 2982 3409 112101268 112101697 2.340000e-172 616.0
16 TraesCS2A01G161200 chr2D 94.859 389 14 5 322 710 112181998 112181616 1.820000e-168 603.0
17 TraesCS2A01G161200 chr2D 96.508 315 11 0 4 318 112182487 112182173 5.240000e-144 521.0
18 TraesCS2A01G161200 chr2D 87.336 458 41 8 3513 3954 112102073 112102529 4.080000e-140 508.0
19 TraesCS2A01G161200 chr2D 89.125 377 32 5 3456 3828 111591568 111591939 1.160000e-125 460.0
20 TraesCS2A01G161200 chr2D 82.207 444 48 23 3020 3450 112178836 112178411 2.020000e-93 353.0
21 TraesCS2A01G161200 chr2D 86.262 313 42 1 2668 2980 111590280 111590591 5.670000e-89 339.0
22 TraesCS2A01G161200 chr2D 87.291 299 14 12 1760 2039 112180360 112180067 2.050000e-83 320.0
23 TraesCS2A01G161200 chr2D 85.714 301 32 7 2363 2656 111589931 111590227 1.600000e-79 307.0
24 TraesCS2A01G161200 chr2D 81.551 374 44 17 3047 3409 111590939 111591298 7.490000e-73 285.0
25 TraesCS2A01G161200 chr2D 94.545 165 4 1 2148 2307 111589752 111589916 2.730000e-62 250.0
26 TraesCS2A01G161200 chr2D 92.405 79 3 2 480 558 112098576 112098651 4.840000e-20 110.0
27 TraesCS2A01G161200 chr2B 88.563 1329 64 40 740 2039 162449041 162447772 0.000000e+00 1531.0
28 TraesCS2A01G161200 chr2B 90.751 1092 87 9 721 1803 162007423 162008509 0.000000e+00 1445.0
29 TraesCS2A01G161200 chr2B 91.015 857 27 27 2167 2984 162008837 162009682 0.000000e+00 1110.0
30 TraesCS2A01G161200 chr2B 84.258 1207 117 35 532 1732 161721968 161723107 0.000000e+00 1109.0
31 TraesCS2A01G161200 chr2B 88.821 823 35 30 2167 2967 162447668 162446881 0.000000e+00 957.0
32 TraesCS2A01G161200 chr2B 86.803 879 84 20 2125 2980 161723407 161724276 0.000000e+00 952.0
33 TraesCS2A01G161200 chr2B 96.200 579 18 2 3437 4011 162445892 162445314 0.000000e+00 944.0
34 TraesCS2A01G161200 chr2B 88.337 523 45 8 3456 3968 161725249 161725765 8.410000e-172 614.0
35 TraesCS2A01G161200 chr2B 86.879 503 42 13 3455 3945 162010631 162011121 4.030000e-150 542.0
36 TraesCS2A01G161200 chr2B 87.324 426 36 6 50 465 162449813 162449396 5.360000e-129 472.0
37 TraesCS2A01G161200 chr2B 91.329 346 19 6 3072 3409 162009901 162010243 3.220000e-126 462.0
38 TraesCS2A01G161200 chr2B 91.860 258 19 2 481 738 162449410 162449155 4.350000e-95 359.0
39 TraesCS2A01G161200 chr2B 84.326 319 38 9 3120 3429 162446470 162446155 7.440000e-78 302.0
40 TraesCS2A01G161200 chr2B 82.086 374 44 12 3047 3409 161724624 161724985 9.620000e-77 298.0
41 TraesCS2A01G161200 chr2B 96.183 131 4 1 1802 1932 162008543 162008672 3.580000e-51 213.0
42 TraesCS2A01G161200 chr2B 100.000 41 0 0 1940 1980 161723226 161723266 4.910000e-10 76.8
43 TraesCS2A01G161200 chr2B 100.000 28 0 0 63 90 162449880 162449853 8.000000e-03 52.8
44 TraesCS2A01G161200 chr4A 82.904 427 62 4 4 419 722088806 722089232 1.550000e-99 374.0
45 TraesCS2A01G161200 chr4A 83.801 321 39 6 10 319 721954296 721954614 4.480000e-75 292.0
46 TraesCS2A01G161200 chr5B 82.057 418 61 5 12 418 58637059 58636645 1.220000e-90 344.0
47 TraesCS2A01G161200 chr5B 77.376 221 34 10 6 212 81786068 81786286 2.890000e-22 117.0
48 TraesCS2A01G161200 chr6B 79.510 449 84 7 3969 4414 54765621 54766064 3.440000e-81 313.0
49 TraesCS2A01G161200 chr6B 79.058 382 73 5 4131 4511 117524758 117524383 5.870000e-64 255.0
50 TraesCS2A01G161200 chr1D 76.266 632 105 33 3959 4574 407613345 407613947 1.240000e-75 294.0
51 TraesCS2A01G161200 chr1D 77.436 195 41 3 3963 4156 365969740 365969932 3.740000e-21 113.0
52 TraesCS2A01G161200 chr1D 75.658 152 31 5 3964 4113 486311999 486311852 2.280000e-08 71.3
53 TraesCS2A01G161200 chr3D 77.649 519 84 13 4030 4536 477242962 477243460 2.080000e-73 287.0
54 TraesCS2A01G161200 chr3B 75.606 578 115 20 3965 4532 58857898 58857337 3.510000e-66 263.0
55 TraesCS2A01G161200 chr3B 86.747 83 11 0 276 358 733355805 733355887 4.870000e-15 93.5
56 TraesCS2A01G161200 chr3B 80.583 103 19 1 4035 4136 440682934 440683036 1.360000e-10 78.7
57 TraesCS2A01G161200 chr3B 90.476 42 4 0 328 369 662442153 662442194 6.390000e-04 56.5
58 TraesCS2A01G161200 chr7A 76.048 501 97 16 4083 4573 100198744 100199231 5.910000e-59 239.0
59 TraesCS2A01G161200 chr5A 77.349 415 83 8 4137 4550 275048070 275048474 7.650000e-58 235.0
60 TraesCS2A01G161200 chr4B 78.706 371 62 10 4148 4516 667508496 667508851 9.900000e-57 231.0
61 TraesCS2A01G161200 chr6D 80.130 307 57 4 4267 4572 155245254 155244951 4.600000e-55 226.0
62 TraesCS2A01G161200 chr1A 80.000 305 60 1 4267 4571 89598159 89598462 1.660000e-54 224.0
63 TraesCS2A01G161200 chr6A 74.415 598 116 24 3991 4574 49727207 49726633 5.960000e-54 222.0
64 TraesCS2A01G161200 chr6A 83.654 104 15 2 1392 1494 535154205 535154103 3.770000e-16 97.1
65 TraesCS2A01G161200 chr4D 82.051 117 19 2 3965 4080 29168893 29168778 1.050000e-16 99.0
66 TraesCS2A01G161200 chr1B 78.431 153 28 4 3963 4113 310393558 310393409 1.350000e-15 95.3
67 TraesCS2A01G161200 chr1B 100.000 30 0 0 341 370 638925732 638925703 6.390000e-04 56.5
68 TraesCS2A01G161200 chr1B 100.000 28 0 0 341 368 16654030 16654003 8.000000e-03 52.8
69 TraesCS2A01G161200 chr5D 85.882 85 10 1 3967 4051 463039763 463039845 6.300000e-14 89.8


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 TraesCS2A01G161200 chr2A 113308394 113312967 4573 True 8447.000000 8447 100.000000 1 4574 1 chr2A.!!$R3 4573
1 TraesCS2A01G161200 chr2A 112744013 112747848 3835 False 1683.666667 4481 89.897333 423 3828 3 chr2A.!!$F2 3405
2 TraesCS2A01G161200 chr2A 111921480 111925407 3927 False 1027.666667 1544 86.694667 532 3968 3 chr2A.!!$F1 3436
3 TraesCS2A01G161200 chr2D 112098576 112102529 3953 False 836.800000 1703 90.772200 480 3954 5 chr2D.!!$F2 3474
4 TraesCS2A01G161200 chr2D 112177558 112182487 4929 True 759.000000 1493 91.461857 4 4011 7 chr2D.!!$R1 4007
5 TraesCS2A01G161200 chr2D 111588211 111591939 3728 False 512.500000 1434 86.944333 532 3828 6 chr2D.!!$F1 3296
6 TraesCS2A01G161200 chr2B 162007423 162011121 3698 False 754.400000 1445 91.231400 721 3945 5 chr2B.!!$F2 3224
7 TraesCS2A01G161200 chr2B 162445314 162449880 4566 True 659.685714 1531 91.013429 50 4011 7 chr2B.!!$R1 3961
8 TraesCS2A01G161200 chr2B 161721968 161725765 3797 False 609.960000 1109 88.296800 532 3968 5 chr2B.!!$F1 3436
9 TraesCS2A01G161200 chr1D 407613345 407613947 602 False 294.000000 294 76.266000 3959 4574 1 chr1D.!!$F2 615
10 TraesCS2A01G161200 chr3B 58857337 58857898 561 True 263.000000 263 75.606000 3965 4532 1 chr3B.!!$R1 567
11 TraesCS2A01G161200 chr6A 49726633 49727207 574 True 222.000000 222 74.415000 3991 4574 1 chr6A.!!$R1 583

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
849 1669 0.038343 CGCCCAAACCATCAAACCAG 60.038 55.000 0.00 0.00 0.00 4.00 F
1032 1856 2.037136 CACCTTTGCTGCCGAGGAG 61.037 63.158 20.88 11.89 34.61 3.69 F
1312 2141 2.329399 ACCCTCCCTCCCTCTCTCC 61.329 68.421 0.00 0.00 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3189 4740 3.430790 CCTTGAATGCATCCTCGTCTGTA 60.431 47.826 0.00 0.0 0.00 2.74 R
3372 4952 0.597118 GCAGAGAGTAGGATGCGCTG 60.597 60.000 9.73 0.0 27.19 5.18 R
3606 5676 0.532417 AGCCTGCTCGATCTTCATGC 60.532 55.000 0.00 0.0 0.00 4.06 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
49 50 1.337728 ACAATGTGACGCTTCGATCCA 60.338 47.619 0.00 0.00 0.00 3.41
50 51 1.325640 CAATGTGACGCTTCGATCCAG 59.674 52.381 0.00 0.00 0.00 3.86
51 52 0.179100 ATGTGACGCTTCGATCCAGG 60.179 55.000 0.00 0.00 0.00 4.45
52 53 1.215647 GTGACGCTTCGATCCAGGT 59.784 57.895 0.00 0.00 0.00 4.00
53 54 1.078759 GTGACGCTTCGATCCAGGTG 61.079 60.000 0.00 0.00 0.00 4.00
154 183 0.117140 TCCCTCTCTCCTTTGAGCCA 59.883 55.000 0.00 0.00 38.58 4.75
225 254 6.369065 CGTCTATGGCTTCATCCTAAATTACC 59.631 42.308 0.00 0.00 32.59 2.85
238 267 9.788960 CATCCTAAATTACCTTTCTTTAGTTGC 57.211 33.333 0.00 0.00 32.88 4.17
273 302 6.321181 TGAGGCTTAGTTTCATGTTGTTCTTT 59.679 34.615 0.00 0.00 0.00 2.52
300 329 3.401182 TGTACCTTTCGCGGTGTATTTT 58.599 40.909 6.13 0.00 37.93 1.82
313 342 4.684242 CGGTGTATTTTCTTTTCTTTGCCC 59.316 41.667 0.00 0.00 0.00 5.36
319 519 0.476771 TCTTTTCTTTGCCCGAGGGT 59.523 50.000 10.26 0.00 37.65 4.34
320 520 1.700739 TCTTTTCTTTGCCCGAGGGTA 59.299 47.619 10.26 1.75 37.65 3.69
335 535 3.554324 CGAGGGTATGTGTTTGTAATCCG 59.446 47.826 0.00 0.00 0.00 4.18
336 536 4.678574 CGAGGGTATGTGTTTGTAATCCGA 60.679 45.833 0.00 0.00 0.00 4.55
506 709 4.018779 TGCATAGTAACTTACCCAAGCCTT 60.019 41.667 0.00 0.00 34.94 4.35
612 1062 5.122554 TGTGGTCACGCGATATTTGTATTTT 59.877 36.000 15.93 0.00 0.00 1.82
700 1150 2.159043 TGAGGCGCAAAATGTTTGGAAA 60.159 40.909 10.83 0.00 0.00 3.13
707 1157 5.315195 CGCAAAATGTTTGGAAATATGTGC 58.685 37.500 3.12 0.00 32.71 4.57
727 1432 5.766670 TGTGCACATCTCATTTCTTCTTCTT 59.233 36.000 17.42 0.00 0.00 2.52
738 1555 0.881796 CTTCTTCTTTTGTCCCCGGC 59.118 55.000 0.00 0.00 0.00 6.13
744 1561 1.203001 TCTTTTGTCCCCGGCATTTCT 60.203 47.619 0.00 0.00 0.00 2.52
793 1610 4.806286 CGTAAGAAATTCCAAGAGGTGGGT 60.806 45.833 0.00 0.00 45.07 4.51
849 1669 0.038343 CGCCCAAACCATCAAACCAG 60.038 55.000 0.00 0.00 0.00 4.00
863 1684 2.037385 AACCAGCTTCCTCTCCTTCT 57.963 50.000 0.00 0.00 0.00 2.85
888 1709 2.590092 CCCCCGAACCATCCTCAC 59.410 66.667 0.00 0.00 0.00 3.51
968 1792 2.994995 TCCCGGCGCTTCTTCAGA 60.995 61.111 7.64 0.00 0.00 3.27
1032 1856 2.037136 CACCTTTGCTGCCGAGGAG 61.037 63.158 20.88 11.89 34.61 3.69
1256 2080 4.674475 GAGGAGTGGATCGTAAGTTTCTC 58.326 47.826 0.00 0.00 39.48 2.87
1263 2091 5.517054 GTGGATCGTAAGTTTCTCTCACATC 59.483 44.000 0.00 0.00 39.48 3.06
1312 2141 2.329399 ACCCTCCCTCCCTCTCTCC 61.329 68.421 0.00 0.00 0.00 3.71
3372 4952 2.361119 GACCAAGTTTCCAAAGGACACC 59.639 50.000 0.00 0.00 33.28 4.16
3468 5535 4.862371 TGTAGTCAGGGGTTTTGAGTTTT 58.138 39.130 0.00 0.00 31.09 2.43
3606 5676 2.685897 ACAGCCTTCTAGCTCTAACTCG 59.314 50.000 0.00 0.00 42.61 4.18
4020 6122 4.444838 CATCCGTCCGCGTTGGGA 62.445 66.667 4.92 8.64 38.76 4.37
4031 6133 1.833787 GCGTTGGGAAGGGACCAGTA 61.834 60.000 0.00 0.00 39.57 2.74
4047 6149 1.153823 GTACGCGGACACTGATGCT 60.154 57.895 18.68 0.00 0.00 3.79
4051 6153 2.103042 GCGGACACTGATGCTGGAC 61.103 63.158 0.00 0.00 0.00 4.02
4089 6191 2.544903 GCCCGCACACATTTAAACAACT 60.545 45.455 0.00 0.00 0.00 3.16
4094 6196 6.146216 CCGCACACATTTAAACAACTATTCA 58.854 36.000 0.00 0.00 0.00 2.57
4098 6200 9.030301 GCACACATTTAAACAACTATTCAAACT 57.970 29.630 0.00 0.00 0.00 2.66
4143 6247 3.811083 ACGGCGGATTTCATATAAACCA 58.189 40.909 13.24 0.00 0.00 3.67
4159 6263 0.667487 ACCAGACGACGTTCATGCAG 60.667 55.000 0.13 0.00 0.00 4.41
4165 6269 1.275471 CGACGTTCATGCAGACACGT 61.275 55.000 17.07 17.07 42.41 4.49
4170 6274 0.246360 TTCATGCAGACACGTCGGAT 59.754 50.000 1.28 0.00 34.09 4.18
4179 6283 4.034048 GCAGACACGTCGGATTTTCATTAT 59.966 41.667 1.28 0.00 34.09 1.28
4185 6289 7.636326 ACACGTCGGATTTTCATTATATTTCC 58.364 34.615 0.00 0.00 0.00 3.13
4222 6347 1.477553 ACAAACCTATCCTACGGCGA 58.522 50.000 16.62 0.00 0.00 5.54
4256 6384 0.178961 GCCCTTGTTGTTCCCTTCCT 60.179 55.000 0.00 0.00 0.00 3.36
4258 6386 1.620822 CCTTGTTGTTCCCTTCCTGG 58.379 55.000 0.00 0.00 0.00 4.45
4284 6412 0.105760 ATCCTCCATCTGCGGTCTCT 60.106 55.000 0.00 0.00 0.00 3.10
4294 6422 0.970427 TGCGGTCTCTATGAGCACCA 60.970 55.000 12.82 0.00 42.88 4.17
4352 6480 3.368531 GCGAGAAAGAGTAGAACATGGGT 60.369 47.826 0.00 0.00 0.00 4.51
4353 6481 4.142227 GCGAGAAAGAGTAGAACATGGGTA 60.142 45.833 0.00 0.00 0.00 3.69
4412 6540 1.427809 CCATGCCCTACTCATCCTCA 58.572 55.000 0.00 0.00 0.00 3.86
4414 6542 1.347050 CATGCCCTACTCATCCTCAGG 59.653 57.143 0.00 0.00 0.00 3.86
4476 6604 1.905894 TGATGGAAATGGAGGTGTCGA 59.094 47.619 0.00 0.00 0.00 4.20
4494 6622 0.526662 GACACTCTCGTCGTCCCATT 59.473 55.000 0.00 0.00 0.00 3.16
4521 6649 2.241171 CGAAAGTTTGTCGGGGGTC 58.759 57.895 0.00 0.00 34.85 4.46
4523 6651 0.179012 GAAAGTTTGTCGGGGGTCCA 60.179 55.000 0.00 0.00 0.00 4.02
4550 6678 0.091344 CGTTGCTAGCGTTGTTCTCG 59.909 55.000 10.77 2.23 0.00 4.04
4553 6681 0.596577 TGCTAGCGTTGTTCTCGTCT 59.403 50.000 10.77 0.00 0.00 4.18
4554 6682 1.808343 TGCTAGCGTTGTTCTCGTCTA 59.192 47.619 10.77 0.00 0.00 2.59
4555 6683 2.422479 TGCTAGCGTTGTTCTCGTCTAT 59.578 45.455 10.77 0.00 0.00 1.98
4559 6687 4.895224 AGCGTTGTTCTCGTCTATGATA 57.105 40.909 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.451927 GATGGATGCCGCCAGACAA 60.452 57.895 1.00 0.00 42.15 3.18
49 50 1.306226 GGCCACTACCTCCTCACCT 60.306 63.158 0.00 0.00 0.00 4.00
50 51 1.306226 AGGCCACTACCTCCTCACC 60.306 63.158 5.01 0.00 33.62 4.02
51 52 4.463043 AGGCCACTACCTCCTCAC 57.537 61.111 5.01 0.00 33.62 3.51
154 183 1.002888 CACCAGGAGCAAGATCACACT 59.997 52.381 0.00 0.00 0.00 3.55
225 254 4.510340 ACACACTACGGCAACTAAAGAAAG 59.490 41.667 0.00 0.00 0.00 2.62
238 267 1.544691 ACTAAGCCTCACACACTACGG 59.455 52.381 0.00 0.00 0.00 4.02
273 302 1.202557 ACCGCGAAAGGTACAAGAACA 60.203 47.619 8.23 0.00 43.89 3.18
300 329 0.476771 ACCCTCGGGCAAAGAAAAGA 59.523 50.000 0.82 0.00 39.32 2.52
313 342 3.554324 CGGATTACAAACACATACCCTCG 59.446 47.826 0.00 0.00 0.00 4.63
319 519 6.534475 ACCTACTCGGATTACAAACACATA 57.466 37.500 0.00 0.00 36.31 2.29
320 520 5.416271 ACCTACTCGGATTACAAACACAT 57.584 39.130 0.00 0.00 36.31 3.21
335 535 6.569179 TTTAACAAAGCCATCAACCTACTC 57.431 37.500 0.00 0.00 0.00 2.59
336 536 6.719370 TGATTTAACAAAGCCATCAACCTACT 59.281 34.615 0.00 0.00 0.00 2.57
421 621 6.212187 ACCTTTAACGTATAGTGGAACCTTCT 59.788 38.462 0.00 0.00 37.80 2.85
473 673 5.824243 AAGTTACTATGCATATTCGACGC 57.176 39.130 6.92 0.00 0.00 5.19
612 1062 8.173542 TGTAGTGAGGCGATATGTTTATCTTA 57.826 34.615 0.00 0.00 33.39 2.10
682 1132 4.391523 ACATATTTCCAAACATTTTGCGCC 59.608 37.500 4.18 0.00 0.00 6.53
700 1150 7.774157 AGAAGAAGAAATGAGATGTGCACATAT 59.226 33.333 31.45 28.80 36.57 1.78
707 1157 7.806960 GGACAAAAGAAGAAGAAATGAGATGTG 59.193 37.037 0.00 0.00 0.00 3.21
727 1432 0.111446 TGAGAAATGCCGGGGACAAA 59.889 50.000 2.18 0.00 0.00 2.83
738 1555 8.644619 GTGACACATTTTGATGATTGAGAAATG 58.355 33.333 0.00 0.00 41.23 2.32
744 1561 6.264970 TGGAAGTGACACATTTTGATGATTGA 59.735 34.615 8.59 0.00 0.00 2.57
793 1610 6.420638 TCTATATATAGCGTGTAAGGGCTGA 58.579 40.000 14.03 0.00 40.32 4.26
849 1669 1.905894 AGTGGAAGAAGGAGAGGAAGC 59.094 52.381 0.00 0.00 0.00 3.86
888 1709 1.206849 GAAGAGAAGGAGAGGCTGTGG 59.793 57.143 0.00 0.00 0.00 4.17
968 1792 0.680061 GACCGACACAGGGAGAAAGT 59.320 55.000 0.00 0.00 35.02 2.66
1163 1987 3.363844 GAGTCCAGCAGAGACCCGC 62.364 68.421 0.00 0.00 34.67 6.13
1231 2055 2.444421 ACTTACGATCCACTCCTCGTT 58.556 47.619 2.75 0.00 45.15 3.85
1312 2141 3.722780 GCAAAGATTCTTCAATCATCGCG 59.277 43.478 0.00 0.00 41.03 5.87
1499 2329 0.250513 AAGACATGGAACGAGGGAGC 59.749 55.000 0.00 0.00 0.00 4.70
3189 4740 3.430790 CCTTGAATGCATCCTCGTCTGTA 60.431 47.826 0.00 0.00 0.00 2.74
3300 4880 6.208402 TGTTCTGCAGCACCTATTTTGATTTA 59.792 34.615 14.08 0.00 0.00 1.40
3372 4952 0.597118 GCAGAGAGTAGGATGCGCTG 60.597 60.000 9.73 0.00 27.19 5.18
3420 5000 9.454859 AACTTATAGTCCCTCTGAAAAGAAATG 57.545 33.333 0.00 0.00 0.00 2.32
3606 5676 0.532417 AGCCTGCTCGATCTTCATGC 60.532 55.000 0.00 0.00 0.00 4.06
4016 6117 2.288025 GCGTACTGGTCCCTTCCCA 61.288 63.158 0.00 0.00 0.00 4.37
4020 6122 2.283388 TCCGCGTACTGGTCCCTT 60.283 61.111 4.92 0.00 0.00 3.95
4031 6133 2.433145 CAGCATCAGTGTCCGCGT 60.433 61.111 4.92 0.00 0.00 6.01
4089 6191 6.183360 CGAATTTCGTCCGGTTAGTTTGAATA 60.183 38.462 10.61 0.00 34.72 1.75
4118 6220 6.148150 TGGTTTATATGAAATCCGCCGTATTC 59.852 38.462 0.00 0.00 0.00 1.75
4143 6247 0.313987 TGTCTGCATGAACGTCGTCT 59.686 50.000 0.00 0.00 0.00 4.18
4159 6263 7.797123 GGAAATATAATGAAAATCCGACGTGTC 59.203 37.037 0.00 0.00 0.00 3.67
4231 6359 1.560505 GGAACAACAAGGGCATGGAT 58.439 50.000 0.00 0.00 0.00 3.41
4258 6386 0.534652 GCAGATGGAGGATGCAGTCC 60.535 60.000 5.73 5.73 42.42 3.85
4260 6388 1.145598 CGCAGATGGAGGATGCAGT 59.854 57.895 0.00 0.00 42.42 4.40
4262 6390 2.315781 GACCGCAGATGGAGGATGCA 62.316 60.000 0.00 0.00 44.23 3.96
4264 6392 0.033228 GAGACCGCAGATGGAGGATG 59.967 60.000 0.00 0.00 39.08 3.51
4266 6394 0.551396 TAGAGACCGCAGATGGAGGA 59.449 55.000 0.00 0.00 39.08 3.71
4284 6412 3.449377 TGGTCTTATCGTTGGTGCTCATA 59.551 43.478 0.00 0.00 0.00 2.15
4294 6422 5.643777 CCTTCACTTCATTGGTCTTATCGTT 59.356 40.000 0.00 0.00 0.00 3.85
4352 6480 0.037017 CCATGTGGGTTGGTCCGTTA 59.963 55.000 0.00 0.00 37.00 3.18
4353 6481 1.228429 CCATGTGGGTTGGTCCGTT 60.228 57.895 0.00 0.00 37.00 4.44
4390 6518 1.140312 GGATGAGTAGGGCATGGGAA 58.860 55.000 0.00 0.00 0.00 3.97
4412 6540 1.462238 ACAAGGCACAGACTCCCCT 60.462 57.895 0.00 0.00 0.00 4.79
4414 6542 1.003233 GGACAAGGCACAGACTCCC 60.003 63.158 0.00 0.00 0.00 4.30
4421 6549 4.980805 GGCGACGGACAAGGCACA 62.981 66.667 0.00 0.00 0.00 4.57
4476 6604 3.094224 CCAATGGGACGACGAGAGTGT 62.094 57.143 0.00 0.00 40.46 3.55
4494 6622 4.589675 AAACTTTCGGGCCGCCCA 62.590 61.111 28.33 12.59 45.83 5.36
4507 6635 0.909623 CTATGGACCCCCGACAAACT 59.090 55.000 0.00 0.00 34.29 2.66
4521 6649 1.215655 GCTAGCAACGCGTCCTATGG 61.216 60.000 14.44 6.96 0.00 2.74
4523 6651 1.299165 CGCTAGCAACGCGTCCTAT 60.299 57.895 14.44 1.27 45.13 2.57
4533 6661 1.000607 AGACGAGAACAACGCTAGCAA 60.001 47.619 16.45 0.00 0.00 3.91
4534 6662 0.596577 AGACGAGAACAACGCTAGCA 59.403 50.000 16.45 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.