Multiple sequence alignment - TraesCS4B01G250600

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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 TraesCS4B01G250600 chr4B 100.000 3284 0 0 1 3284 517009571 517006288 0.000000e+00 6065.0
1 TraesCS4B01G250600 chr4B 95.208 2045 33 15 487 2524 517082187 517080201 0.000000e+00 3173.0
2 TraesCS4B01G250600 chr4B 96.580 1462 21 3 496 1954 517129712 517128277 0.000000e+00 2396.0
3 TraesCS4B01G250600 chr4B 91.886 1442 87 14 860 2289 517171408 517172831 0.000000e+00 1988.0
4 TraesCS4B01G250600 chr4B 92.201 795 20 16 1948 2737 517127231 517126474 0.000000e+00 1086.0
5 TraesCS4B01G250600 chr4B 95.045 666 23 4 4 659 517084972 517084307 0.000000e+00 1038.0
6 TraesCS4B01G250600 chr4B 80.408 245 19 12 255 482 500133160 500133392 3.390000e-35 159.0
7 TraesCS4B01G250600 chr4B 84.783 138 12 6 581 711 517171128 517171263 2.660000e-26 130.0
8 TraesCS4B01G250600 chr4D 94.113 2684 81 25 1 2667 419207572 419204949 0.000000e+00 4010.0
9 TraesCS4B01G250600 chr4D 90.746 1837 101 17 549 2355 419245918 419247715 0.000000e+00 2386.0
10 TraesCS4B01G250600 chr4D 92.012 1690 94 9 864 2547 419232843 419231189 0.000000e+00 2335.0
11 TraesCS4B01G250600 chr4D 92.857 378 10 9 2792 3153 419204956 419204580 1.730000e-147 532.0
12 TraesCS4B01G250600 chr4D 83.929 280 30 14 2725 2995 323597544 323597271 1.510000e-63 254.0
13 TraesCS4B01G250600 chr4D 83.088 272 35 9 2727 2995 455344706 455344443 1.520000e-58 237.0
14 TraesCS4B01G250600 chr4D 85.600 125 10 4 2619 2737 419214522 419214400 1.240000e-24 124.0
15 TraesCS4B01G250600 chr4D 85.593 118 8 3 603 711 419233145 419233028 7.450000e-22 115.0
16 TraesCS4B01G250600 chr4A 90.855 2526 147 43 651 3151 45735066 45737532 0.000000e+00 3308.0
17 TraesCS4B01G250600 chr4A 90.501 2316 131 48 866 3153 45469052 45466798 0.000000e+00 2976.0
18 TraesCS4B01G250600 chr4A 86.652 1341 110 42 1415 2730 45366268 45364972 0.000000e+00 1421.0
19 TraesCS4B01G250600 chr4A 83.774 530 38 18 2215 2741 45466434 45465950 2.990000e-125 459.0
20 TraesCS4B01G250600 chr4A 83.764 271 30 11 2734 2995 589470865 589471130 9.100000e-61 244.0
21 TraesCS4B01G250600 chr4A 88.095 168 16 3 494 660 45734512 45734676 2.590000e-46 196.0
22 TraesCS4B01G250600 chr4A 95.455 110 5 0 3173 3282 654061492 654061601 3.370000e-40 176.0
23 TraesCS4B01G250600 chr4A 88.971 136 11 2 580 711 45376425 45376290 7.290000e-37 165.0
24 TraesCS4B01G250600 chr4A 78.656 253 25 14 252 486 59307011 59307252 1.230000e-29 141.0
25 TraesCS4B01G250600 chr4A 78.469 209 27 12 284 486 742432201 742432397 1.600000e-23 121.0
26 TraesCS4B01G250600 chr4A 100.000 28 0 0 1 28 617121746 617121773 6.000000e-03 52.8
27 TraesCS4B01G250600 chr3B 83.273 275 35 10 2725 2995 680220086 680220353 3.270000e-60 243.0
28 TraesCS4B01G250600 chr3D 78.974 390 50 22 2725 3087 454744536 454744152 1.520000e-58 237.0
29 TraesCS4B01G250600 chr3D 83.032 277 32 10 2725 2995 517012038 517011771 1.520000e-58 237.0
30 TraesCS4B01G250600 chr3D 79.556 225 24 12 284 501 67013799 67013590 1.230000e-29 141.0
31 TraesCS4B01G250600 chr7B 96.429 112 4 0 3173 3284 707467084 707466973 5.600000e-43 185.0
32 TraesCS4B01G250600 chr6D 96.429 112 4 0 3173 3284 448655110 448654999 5.600000e-43 185.0
33 TraesCS4B01G250600 chr6D 79.245 212 28 8 284 488 215684085 215684287 2.060000e-27 134.0
34 TraesCS4B01G250600 chr6D 100.000 29 0 0 253 281 192265990 192266018 2.000000e-03 54.7
35 TraesCS4B01G250600 chr7D 95.536 112 5 0 3173 3284 423300692 423300581 2.600000e-41 180.0
36 TraesCS4B01G250600 chr7D 94.643 112 6 0 3173 3284 7528666 7528555 1.210000e-39 174.0
37 TraesCS4B01G250600 chr5B 95.536 112 5 0 3173 3284 528381117 528381006 2.600000e-41 180.0
38 TraesCS4B01G250600 chr5B 94.737 114 4 1 3173 3284 532775235 532775348 3.370000e-40 176.0
39 TraesCS4B01G250600 chr7A 81.452 248 19 11 256 486 226568685 226568448 9.360000e-41 178.0
40 TraesCS4B01G250600 chr7A 82.381 210 18 5 284 486 215130567 215130370 7.290000e-37 165.0
41 TraesCS4B01G250600 chr7A 100.000 29 0 0 253 281 300493773 300493801 2.000000e-03 54.7
42 TraesCS4B01G250600 chr3A 95.455 110 5 0 3175 3284 750305274 750305383 3.370000e-40 176.0
43 TraesCS4B01G250600 chr3A 82.199 191 18 9 298 482 634082384 634082564 2.040000e-32 150.0
44 TraesCS4B01G250600 chr3A 82.317 164 19 6 256 409 512307448 512307285 2.060000e-27 134.0
45 TraesCS4B01G250600 chr2D 94.643 112 6 0 3173 3284 444102739 444102850 1.210000e-39 174.0
46 TraesCS4B01G250600 chr2D 80.000 85 13 4 3003 3085 542196445 542196363 3.540000e-05 60.2
47 TraesCS4B01G250600 chr2A 80.913 241 26 7 254 486 562985889 562985661 4.360000e-39 172.0
48 TraesCS4B01G250600 chr5A 80.567 247 19 17 253 486 583563281 583563051 2.620000e-36 163.0
49 TraesCS4B01G250600 chr5A 78.008 241 18 17 256 486 485383439 485383224 5.760000e-23 119.0
50 TraesCS4B01G250600 chr6A 79.200 250 24 13 255 486 583130243 583130482 7.340000e-32 148.0
51 TraesCS4B01G250600 chr6A 77.912 249 25 14 254 483 228287033 228287270 9.560000e-26 128.0
52 TraesCS4B01G250600 chr1D 78.884 251 26 12 253 486 222025252 222025492 9.500000e-31 145.0
53 TraesCS4B01G250600 chr1D 80.000 205 21 9 290 486 216797293 216797101 2.060000e-27 134.0
54 TraesCS4B01G250600 chr1D 83.951 81 5 2 414 486 168631741 168631661 1.630000e-08 71.3
55 TraesCS4B01G250600 chr1A 75.748 301 50 17 2798 3085 576096687 576096397 2.660000e-26 130.0
56 TraesCS4B01G250600 chr1A 96.774 31 1 0 1 31 175540298 175540268 6.000000e-03 52.8
57 TraesCS4B01G250600 chr5D 90.909 44 1 3 242 284 9389934 9389975 4.580000e-04 56.5


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 TraesCS4B01G250600 chr4B 517006288 517009571 3283 True 6065.0 6065 100.0000 1 3284 1 chr4B.!!$R1 3283
1 TraesCS4B01G250600 chr4B 517080201 517084972 4771 True 2105.5 3173 95.1265 4 2524 2 chr4B.!!$R2 2520
2 TraesCS4B01G250600 chr4B 517126474 517129712 3238 True 1741.0 2396 94.3905 496 2737 2 chr4B.!!$R3 2241
3 TraesCS4B01G250600 chr4B 517171128 517172831 1703 False 1059.0 1988 88.3345 581 2289 2 chr4B.!!$F2 1708
4 TraesCS4B01G250600 chr4D 419245918 419247715 1797 False 2386.0 2386 90.7460 549 2355 1 chr4D.!!$F1 1806
5 TraesCS4B01G250600 chr4D 419204580 419207572 2992 True 2271.0 4010 93.4850 1 3153 2 chr4D.!!$R4 3152
6 TraesCS4B01G250600 chr4D 419231189 419233145 1956 True 1225.0 2335 88.8025 603 2547 2 chr4D.!!$R5 1944
7 TraesCS4B01G250600 chr4A 45734512 45737532 3020 False 1752.0 3308 89.4750 494 3151 2 chr4A.!!$F6 2657
8 TraesCS4B01G250600 chr4A 45465950 45469052 3102 True 1717.5 2976 87.1375 866 3153 2 chr4A.!!$R3 2287
9 TraesCS4B01G250600 chr4A 45364972 45366268 1296 True 1421.0 1421 86.6520 1415 2730 1 chr4A.!!$R1 1315

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
623 636 4.211125 TGGCAACATCCTTTGACTTGTAA 58.789 39.130 0.00 0.0 46.17 2.41 F
1565 4349 1.887956 GCTGGCCATGTCCTTGAAGAA 60.888 52.381 5.51 0.0 0.00 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2148 6013 1.347707 GCCGGTGGGATGATCTTGATA 59.652 52.381 1.90 0.00 34.06 2.15 R
3196 8401 0.179000 AGGATGCGATCGCCTTTCTT 59.821 50.000 35.12 22.18 41.09 2.52 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 5.516339 GTGATGAAAACACCAAACTGAACAG 59.484 40.000 0.00 0.00 32.93 3.16
155 156 5.031066 ACCGTAAGAGCCTGCAAATAATA 57.969 39.130 0.00 0.00 43.02 0.98
264 265 5.700402 AATGCTTGTTATGTACTCCCTCT 57.300 39.130 0.00 0.00 0.00 3.69
279 280 4.415846 ACTCCCTCTGGTCCTTTTTAGTTT 59.584 41.667 0.00 0.00 0.00 2.66
286 296 7.230712 CCTCTGGTCCTTTTTAGTTTGTATGTT 59.769 37.037 0.00 0.00 0.00 2.71
312 322 8.441312 TGAAGTTAAACCTCGTAAACTTTGAT 57.559 30.769 0.00 0.00 41.08 2.57
365 375 8.667987 TCAGAATGCGAAATTAACAACATTAC 57.332 30.769 0.00 0.00 34.76 1.89
382 392 6.735678 ACATTACATGCGTCATGACTTTAA 57.264 33.333 22.95 12.42 43.81 1.52
623 636 4.211125 TGGCAACATCCTTTGACTTGTAA 58.789 39.130 0.00 0.00 46.17 2.41
628 641 5.376854 ACATCCTTTGACTTGTAATGCAC 57.623 39.130 0.00 0.00 0.00 4.57
1565 4349 1.887956 GCTGGCCATGTCCTTGAAGAA 60.888 52.381 5.51 0.00 0.00 2.52
1593 4377 4.107051 CCGTACGAGTTCGCCGGT 62.107 66.667 18.76 0.00 45.75 5.28
2148 6013 3.021451 CAAGAAGAACCTTGGGCGT 57.979 52.632 0.00 0.00 39.74 5.68
2223 6088 2.933287 AAGGTCATCCCACCGGCA 60.933 61.111 0.00 0.00 41.90 5.69
2613 6507 6.515531 CGCAAATTTGAGGGCATCATACTAAT 60.516 38.462 22.31 0.00 37.89 1.73
2614 6508 7.212274 GCAAATTTGAGGGCATCATACTAATT 58.788 34.615 22.31 3.16 37.89 1.40
2615 6509 8.359642 GCAAATTTGAGGGCATCATACTAATTA 58.640 33.333 22.31 0.00 37.89 1.40
2694 7878 3.814005 ATTTGCCCTCTTCATTGCATC 57.186 42.857 0.00 0.00 33.08 3.91
3090 8295 4.538490 ACACCCAGGAATCAAAGGTACATA 59.462 41.667 0.00 0.00 0.00 2.29
3153 8358 1.005766 AGCGTAACAACGAACAACACG 60.006 47.619 1.51 0.00 34.64 4.49
3154 8359 1.368886 CGTAACAACGAACAACACGC 58.631 50.000 0.00 0.00 34.64 5.34
3155 8360 1.005766 CGTAACAACGAACAACACGCT 60.006 47.619 0.00 0.00 34.64 5.07
3156 8361 2.535335 CGTAACAACGAACAACACGCTT 60.535 45.455 0.00 0.00 34.64 4.68
3157 8362 1.889891 AACAACGAACAACACGCTTG 58.110 45.000 0.00 0.00 0.00 4.01
3158 8363 0.098025 ACAACGAACAACACGCTTGG 59.902 50.000 0.00 0.00 0.00 3.61
3159 8364 0.375454 CAACGAACAACACGCTTGGA 59.625 50.000 0.00 0.00 0.00 3.53
3160 8365 0.375803 AACGAACAACACGCTTGGAC 59.624 50.000 0.00 0.00 0.00 4.02
3161 8366 1.083657 CGAACAACACGCTTGGACG 60.084 57.895 0.00 0.00 39.50 4.79
3168 8373 4.959446 ACGCTTGGACGTGTCTAC 57.041 55.556 0.00 0.00 46.28 2.59
3169 8374 2.338381 ACGCTTGGACGTGTCTACT 58.662 52.632 0.00 0.00 46.28 2.57
3170 8375 0.240411 ACGCTTGGACGTGTCTACTC 59.760 55.000 0.00 0.00 46.28 2.59
3171 8376 0.522180 CGCTTGGACGTGTCTACTCT 59.478 55.000 0.00 0.00 0.00 3.24
3172 8377 1.729472 CGCTTGGACGTGTCTACTCTG 60.729 57.143 0.00 0.00 0.00 3.35
3173 8378 1.983972 CTTGGACGTGTCTACTCTGC 58.016 55.000 0.00 0.00 0.00 4.26
3174 8379 1.542030 CTTGGACGTGTCTACTCTGCT 59.458 52.381 0.00 0.00 0.00 4.24
3175 8380 1.617322 TGGACGTGTCTACTCTGCTT 58.383 50.000 0.00 0.00 0.00 3.91
3176 8381 1.961394 TGGACGTGTCTACTCTGCTTT 59.039 47.619 0.00 0.00 0.00 3.51
3177 8382 2.030185 TGGACGTGTCTACTCTGCTTTC 60.030 50.000 0.00 0.00 0.00 2.62
3178 8383 2.229302 GGACGTGTCTACTCTGCTTTCT 59.771 50.000 0.00 0.00 0.00 2.52
3179 8384 3.305471 GGACGTGTCTACTCTGCTTTCTT 60.305 47.826 0.00 0.00 0.00 2.52
3180 8385 4.299978 GACGTGTCTACTCTGCTTTCTTT 58.700 43.478 0.00 0.00 0.00 2.52
3181 8386 4.299978 ACGTGTCTACTCTGCTTTCTTTC 58.700 43.478 0.00 0.00 0.00 2.62
3182 8387 4.038162 ACGTGTCTACTCTGCTTTCTTTCT 59.962 41.667 0.00 0.00 0.00 2.52
3183 8388 4.985409 CGTGTCTACTCTGCTTTCTTTCTT 59.015 41.667 0.00 0.00 0.00 2.52
3184 8389 5.117897 CGTGTCTACTCTGCTTTCTTTCTTC 59.882 44.000 0.00 0.00 0.00 2.87
3185 8390 5.407084 GTGTCTACTCTGCTTTCTTTCTTCC 59.593 44.000 0.00 0.00 0.00 3.46
3186 8391 5.070446 TGTCTACTCTGCTTTCTTTCTTCCA 59.930 40.000 0.00 0.00 0.00 3.53
3187 8392 5.637387 GTCTACTCTGCTTTCTTTCTTCCAG 59.363 44.000 0.00 0.00 0.00 3.86
3188 8393 3.749226 ACTCTGCTTTCTTTCTTCCAGG 58.251 45.455 0.00 0.00 0.00 4.45
3189 8394 3.392616 ACTCTGCTTTCTTTCTTCCAGGA 59.607 43.478 0.00 0.00 0.00 3.86
3190 8395 4.002316 CTCTGCTTTCTTTCTTCCAGGAG 58.998 47.826 0.00 0.00 0.00 3.69
3191 8396 3.648067 TCTGCTTTCTTTCTTCCAGGAGA 59.352 43.478 0.00 0.00 30.30 3.71
3192 8397 4.103153 TCTGCTTTCTTTCTTCCAGGAGAA 59.897 41.667 0.00 0.00 29.91 2.87
3204 8409 3.756117 TCCAGGAGAAGAAAAGAAAGGC 58.244 45.455 0.00 0.00 0.00 4.35
3205 8410 2.485814 CCAGGAGAAGAAAAGAAAGGCG 59.514 50.000 0.00 0.00 0.00 5.52
3206 8411 3.403038 CAGGAGAAGAAAAGAAAGGCGA 58.597 45.455 0.00 0.00 0.00 5.54
3207 8412 4.006319 CAGGAGAAGAAAAGAAAGGCGAT 58.994 43.478 0.00 0.00 0.00 4.58
3208 8413 4.094146 CAGGAGAAGAAAAGAAAGGCGATC 59.906 45.833 0.00 0.00 0.00 3.69
3209 8414 3.062774 GGAGAAGAAAAGAAAGGCGATCG 59.937 47.826 11.69 11.69 0.00 3.69
3210 8415 2.416893 AGAAGAAAAGAAAGGCGATCGC 59.583 45.455 31.52 31.52 41.06 4.58
3211 8416 1.808411 AGAAAAGAAAGGCGATCGCA 58.192 45.000 38.00 0.00 44.11 5.10
3212 8417 2.359900 AGAAAAGAAAGGCGATCGCAT 58.640 42.857 38.00 31.49 44.11 4.73
3213 8418 2.352960 AGAAAAGAAAGGCGATCGCATC 59.647 45.455 38.00 30.06 44.11 3.91
3214 8419 1.017387 AAAGAAAGGCGATCGCATCC 58.983 50.000 38.00 26.23 44.11 3.51
3215 8420 0.179000 AAGAAAGGCGATCGCATCCT 59.821 50.000 38.00 27.84 44.11 3.24
3216 8421 0.531532 AGAAAGGCGATCGCATCCTG 60.532 55.000 38.00 0.00 44.11 3.86
3217 8422 2.110734 GAAAGGCGATCGCATCCTGC 62.111 60.000 38.00 21.32 44.11 4.85
3218 8423 4.615815 AGGCGATCGCATCCTGCC 62.616 66.667 38.00 20.60 46.07 4.85
3222 8427 4.916293 GATCGCATCCTGCCGCCA 62.916 66.667 0.00 0.00 41.12 5.69
3223 8428 4.923942 ATCGCATCCTGCCGCCAG 62.924 66.667 0.00 0.00 41.12 4.85
3236 8441 2.187163 GCCAGGGCGACTTCCTAC 59.813 66.667 0.00 0.00 32.49 3.18
3237 8442 2.494918 CCAGGGCGACTTCCTACG 59.505 66.667 0.00 0.00 32.49 3.51
3245 8450 4.125695 ACTTCCTACGCCGCCGTC 62.126 66.667 0.00 0.00 46.39 4.79
3246 8451 4.867599 CTTCCTACGCCGCCGTCC 62.868 72.222 0.00 0.00 46.39 4.79
3272 8477 3.827898 CTCCCCTCCGCTGACGAC 61.828 72.222 0.00 0.00 43.93 4.34
3275 8480 3.827898 CCCTCCGCTGACGACCTC 61.828 72.222 0.00 0.00 43.93 3.85
3276 8481 4.180946 CCTCCGCTGACGACCTCG 62.181 72.222 0.00 0.00 43.93 4.63
3277 8482 4.180946 CTCCGCTGACGACCTCGG 62.181 72.222 8.18 8.18 43.93 4.63
3279 8484 4.477975 CCGCTGACGACCTCGGTC 62.478 72.222 6.01 6.01 43.93 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 115 5.827666 ACGGTTAGAGGTGAACAATTTTTG 58.172 37.500 0.00 0.00 0.00 2.44
264 265 8.294954 TCAAACATACAAACTAAAAAGGACCA 57.705 30.769 0.00 0.00 0.00 4.02
279 280 8.659925 TTACGAGGTTTAACTTCAAACATACA 57.340 30.769 7.92 0.00 39.65 2.29
286 296 8.266392 TCAAAGTTTACGAGGTTTAACTTCAA 57.734 30.769 7.92 0.00 39.25 2.69
365 375 8.124823 AGTATGAAATTAAAGTCATGACGCATG 58.875 33.333 19.85 11.97 42.60 4.06
623 636 0.448990 CATGTTGTGCTAGCGTGCAT 59.551 50.000 10.77 8.91 45.23 3.96
1531 4315 4.504916 CAGCCCGAGGTCGCAGAG 62.505 72.222 0.00 0.00 36.95 3.35
1565 4349 4.471726 CGTACGGCTTCCTCGCGT 62.472 66.667 7.57 0.00 0.00 6.01
2148 6013 1.347707 GCCGGTGGGATGATCTTGATA 59.652 52.381 1.90 0.00 34.06 2.15
2223 6088 2.872245 CACGTTCTTCATCTGTGGTGTT 59.128 45.455 0.00 0.00 0.00 3.32
2437 6329 8.256605 AGCAATTACATATAGCTAGATGGACAG 58.743 37.037 27.33 14.82 33.06 3.51
2613 6507 6.573664 ACTTAGCACATTTCATGCACTTAA 57.426 33.333 0.00 0.00 45.92 1.85
2614 6508 7.864108 ATACTTAGCACATTTCATGCACTTA 57.136 32.000 0.00 0.00 45.92 2.24
2615 6509 6.764308 ATACTTAGCACATTTCATGCACTT 57.236 33.333 0.00 0.00 45.92 3.16
2616 6510 6.764308 AATACTTAGCACATTTCATGCACT 57.236 33.333 0.00 0.00 45.92 4.40
2663 6585 6.180472 TGAAGAGGGCAAATAGGAGTAAAAG 58.820 40.000 0.00 0.00 0.00 2.27
2664 6586 6.134535 TGAAGAGGGCAAATAGGAGTAAAA 57.865 37.500 0.00 0.00 0.00 1.52
2694 7878 6.499234 TCACTGTCCAAAATGTCATGTATG 57.501 37.500 0.00 0.00 0.00 2.39
3153 8358 1.983972 CAGAGTAGACACGTCCAAGC 58.016 55.000 0.00 0.00 0.00 4.01
3154 8359 1.542030 AGCAGAGTAGACACGTCCAAG 59.458 52.381 0.00 0.00 0.00 3.61
3155 8360 1.617322 AGCAGAGTAGACACGTCCAA 58.383 50.000 0.00 0.00 0.00 3.53
3156 8361 1.617322 AAGCAGAGTAGACACGTCCA 58.383 50.000 0.00 0.00 0.00 4.02
3157 8362 2.229302 AGAAAGCAGAGTAGACACGTCC 59.771 50.000 0.00 0.00 0.00 4.79
3158 8363 3.562567 AGAAAGCAGAGTAGACACGTC 57.437 47.619 0.00 0.00 0.00 4.34
3159 8364 4.038162 AGAAAGAAAGCAGAGTAGACACGT 59.962 41.667 0.00 0.00 0.00 4.49
3160 8365 4.551388 AGAAAGAAAGCAGAGTAGACACG 58.449 43.478 0.00 0.00 0.00 4.49
3161 8366 5.407084 GGAAGAAAGAAAGCAGAGTAGACAC 59.593 44.000 0.00 0.00 0.00 3.67
3162 8367 5.070446 TGGAAGAAAGAAAGCAGAGTAGACA 59.930 40.000 0.00 0.00 0.00 3.41
3163 8368 5.542779 TGGAAGAAAGAAAGCAGAGTAGAC 58.457 41.667 0.00 0.00 0.00 2.59
3164 8369 5.279708 CCTGGAAGAAAGAAAGCAGAGTAGA 60.280 44.000 0.00 0.00 34.07 2.59
3165 8370 4.934602 CCTGGAAGAAAGAAAGCAGAGTAG 59.065 45.833 0.00 0.00 34.07 2.57
3166 8371 4.593206 TCCTGGAAGAAAGAAAGCAGAGTA 59.407 41.667 0.00 0.00 34.07 2.59
3167 8372 3.392616 TCCTGGAAGAAAGAAAGCAGAGT 59.607 43.478 0.00 0.00 34.07 3.24
3168 8373 4.002316 CTCCTGGAAGAAAGAAAGCAGAG 58.998 47.826 0.00 0.00 34.07 3.35
3169 8374 3.648067 TCTCCTGGAAGAAAGAAAGCAGA 59.352 43.478 0.00 0.00 34.07 4.26
3170 8375 4.013267 TCTCCTGGAAGAAAGAAAGCAG 57.987 45.455 0.00 0.00 34.07 4.24
3171 8376 4.437682 TTCTCCTGGAAGAAAGAAAGCA 57.562 40.909 0.00 0.00 34.20 3.91
3182 8387 4.145052 GCCTTTCTTTTCTTCTCCTGGAA 58.855 43.478 0.00 0.00 0.00 3.53
3183 8388 3.756117 GCCTTTCTTTTCTTCTCCTGGA 58.244 45.455 0.00 0.00 0.00 3.86
3184 8389 2.485814 CGCCTTTCTTTTCTTCTCCTGG 59.514 50.000 0.00 0.00 0.00 4.45
3185 8390 3.403038 TCGCCTTTCTTTTCTTCTCCTG 58.597 45.455 0.00 0.00 0.00 3.86
3186 8391 3.771577 TCGCCTTTCTTTTCTTCTCCT 57.228 42.857 0.00 0.00 0.00 3.69
3187 8392 3.062774 CGATCGCCTTTCTTTTCTTCTCC 59.937 47.826 0.26 0.00 0.00 3.71
3188 8393 3.484393 GCGATCGCCTTTCTTTTCTTCTC 60.484 47.826 29.48 0.00 34.56 2.87
3189 8394 2.416893 GCGATCGCCTTTCTTTTCTTCT 59.583 45.455 29.48 0.00 34.56 2.85
3190 8395 2.159627 TGCGATCGCCTTTCTTTTCTTC 59.840 45.455 35.12 5.17 41.09 2.87
3191 8396 2.151202 TGCGATCGCCTTTCTTTTCTT 58.849 42.857 35.12 0.00 41.09 2.52
3192 8397 1.808411 TGCGATCGCCTTTCTTTTCT 58.192 45.000 35.12 0.00 41.09 2.52
3193 8398 2.539750 GGATGCGATCGCCTTTCTTTTC 60.540 50.000 35.12 17.85 41.09 2.29
3194 8399 1.401905 GGATGCGATCGCCTTTCTTTT 59.598 47.619 35.12 11.02 41.09 2.27
3195 8400 1.017387 GGATGCGATCGCCTTTCTTT 58.983 50.000 35.12 12.39 41.09 2.52
3196 8401 0.179000 AGGATGCGATCGCCTTTCTT 59.821 50.000 35.12 22.18 41.09 2.52
3197 8402 0.531532 CAGGATGCGATCGCCTTTCT 60.532 55.000 35.12 23.74 41.09 2.52
3198 8403 1.937391 CAGGATGCGATCGCCTTTC 59.063 57.895 35.12 26.66 41.09 2.62
3199 8404 4.131376 CAGGATGCGATCGCCTTT 57.869 55.556 35.12 20.92 41.09 3.11
3219 8424 2.187163 GTAGGAAGTCGCCCTGGC 59.813 66.667 0.00 0.00 35.30 4.85
3220 8425 2.494918 CGTAGGAAGTCGCCCTGG 59.505 66.667 0.00 0.00 35.30 4.45
3221 8426 2.202756 GCGTAGGAAGTCGCCCTG 60.203 66.667 0.00 0.00 45.54 4.45
3227 8432 4.125695 ACGGCGGCGTAGGAAGTC 62.126 66.667 36.78 0.00 0.00 3.01
3228 8433 4.125695 GACGGCGGCGTAGGAAGT 62.126 66.667 37.57 13.25 0.00 3.01
3229 8434 4.867599 GGACGGCGGCGTAGGAAG 62.868 72.222 37.57 6.62 0.00 3.46
3255 8460 3.827898 GTCGTCAGCGGAGGGGAG 61.828 72.222 6.71 0.00 38.89 4.30
3258 8463 3.827898 GAGGTCGTCAGCGGAGGG 61.828 72.222 6.71 0.00 38.89 4.30
3259 8464 4.180946 CGAGGTCGTCAGCGGAGG 62.181 72.222 0.00 0.00 38.89 4.30
3260 8465 4.180946 CCGAGGTCGTCAGCGGAG 62.181 72.222 6.59 0.00 46.29 4.63


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

AutoCloner maintained by Alex Coulton.