Multiple sequence alignment - TraesCS4D01G122300

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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 TraesCS4D01G122300 chr4D 100.000 5184 0 0 1 5184 105933331 105928148 0.000000e+00 9574
1 TraesCS4D01G122300 chr4B 95.752 4661 120 29 1 4616 149725582 149720955 0.000000e+00 7439
2 TraesCS4D01G122300 chr4B 90.404 396 27 5 4800 5184 149720019 149719624 1.290000e-140 510
3 TraesCS4D01G122300 chr4B 95.652 184 8 0 588 771 568468965 568469148 3.920000e-76 296
4 TraesCS4D01G122300 chr4B 93.407 91 6 0 4608 4698 149720152 149720062 9.050000e-28 135
5 TraesCS4D01G122300 chr4A 93.958 2499 92 32 2422 4885 470099060 470101534 0.000000e+00 3723
6 TraesCS4D01G122300 chr4A 97.591 1868 32 8 286 2146 470097201 470099062 0.000000e+00 3188
7 TraesCS4D01G122300 chr4A 87.293 362 30 9 4837 5183 57159042 57159402 2.910000e-107 399
8 TraesCS4D01G122300 chr4A 84.872 390 36 14 4811 5182 470101610 470101994 6.340000e-99 372
9 TraesCS4D01G122300 chr1A 92.988 984 40 8 2013 2977 541979960 541978987 0.000000e+00 1408
10 TraesCS4D01G122300 chr1A 84.635 384 46 6 4813 5184 491654987 491654605 2.280000e-98 370
11 TraesCS4D01G122300 chr1A 98.315 178 3 0 588 765 435375730 435375907 3.900000e-81 313
12 TraesCS4D01G122300 chr5D 91.135 564 38 4 1 554 512453598 512454159 0.000000e+00 754
13 TraesCS4D01G122300 chr5D 86.170 376 32 11 4825 5183 499229916 499229544 6.290000e-104 388
14 TraesCS4D01G122300 chr5D 96.154 182 7 0 588 769 512454972 512455153 1.090000e-76 298
15 TraesCS4D01G122300 chr3B 87.223 587 40 12 1 554 25933435 25932851 2.040000e-178 636
16 TraesCS4D01G122300 chr3B 90.041 492 38 3 73 554 26258526 26258036 1.230000e-175 627
17 TraesCS4D01G122300 chr3B 82.601 569 67 18 1 554 25999546 25998995 1.690000e-129 473
18 TraesCS4D01G122300 chr3B 82.394 568 70 16 1 554 26187112 26186561 7.860000e-128 468
19 TraesCS4D01G122300 chr3B 91.212 330 19 3 233 554 26337367 26337040 1.710000e-119 440
20 TraesCS4D01G122300 chr3B 91.212 330 18 4 233 554 26296653 26296327 6.160000e-119 438
21 TraesCS4D01G122300 chr3B 85.645 411 25 11 1 378 26337839 26337430 8.090000e-108 401
22 TraesCS4D01G122300 chr3B 87.838 148 18 0 73 220 26187017 26186870 1.920000e-39 174
23 TraesCS4D01G122300 chr6D 86.655 562 39 10 1 527 4673533 4672973 1.610000e-164 590
24 TraesCS4D01G122300 chr6D 85.641 390 33 19 4812 5184 127479530 127479913 6.290000e-104 388
25 TraesCS4D01G122300 chr2B 87.474 487 33 10 78 554 431576783 431577251 2.120000e-148 536
26 TraesCS4D01G122300 chr2B 94.764 191 10 0 588 778 123303073 123302883 1.090000e-76 298
27 TraesCS4D01G122300 chr7A 93.958 331 13 1 369 699 486211093 486210770 1.300000e-135 494
28 TraesCS4D01G122300 chr7A 96.154 182 7 0 588 769 303957805 303957986 1.090000e-76 298
29 TraesCS4D01G122300 chr7A 82.540 252 18 9 1 227 486214809 486214559 1.140000e-46 198
30 TraesCS4D01G122300 chr3D 87.603 363 28 10 4836 5182 333005191 333005552 6.250000e-109 405
31 TraesCS4D01G122300 chr7D 86.427 361 36 8 4836 5183 543352946 543353306 2.930000e-102 383
32 TraesCS4D01G122300 chr6B 85.090 389 36 15 4812 5183 413742763 413743146 1.360000e-100 377
33 TraesCS4D01G122300 chr5A 95.652 184 8 0 588 771 78445823 78446006 3.920000e-76 296


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 TraesCS4D01G122300 chr4D 105928148 105933331 5183 True 9574.000000 9574 100.000000 1 5184 1 chr4D.!!$R1 5183
1 TraesCS4D01G122300 chr4B 149719624 149725582 5958 True 2694.666667 7439 93.187667 1 5184 3 chr4B.!!$R1 5183
2 TraesCS4D01G122300 chr4A 470097201 470101994 4793 False 2427.666667 3723 92.140333 286 5182 3 chr4A.!!$F2 4896
3 TraesCS4D01G122300 chr1A 541978987 541979960 973 True 1408.000000 1408 92.988000 2013 2977 1 chr1A.!!$R2 964
4 TraesCS4D01G122300 chr5D 512453598 512455153 1555 False 526.000000 754 93.644500 1 769 2 chr5D.!!$F1 768
5 TraesCS4D01G122300 chr3B 25932851 25933435 584 True 636.000000 636 87.223000 1 554 1 chr3B.!!$R1 553
6 TraesCS4D01G122300 chr3B 25998995 25999546 551 True 473.000000 473 82.601000 1 554 1 chr3B.!!$R2 553
7 TraesCS4D01G122300 chr3B 26337040 26337839 799 True 420.500000 440 88.428500 1 554 2 chr3B.!!$R6 553
8 TraesCS4D01G122300 chr3B 26186561 26187112 551 True 321.000000 468 85.116000 1 554 2 chr3B.!!$R5 553
9 TraesCS4D01G122300 chr6D 4672973 4673533 560 True 590.000000 590 86.655000 1 527 1 chr6D.!!$R1 526
10 TraesCS4D01G122300 chr7A 486210770 486214809 4039 True 346.000000 494 88.249000 1 699 2 chr7A.!!$R1 698

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
47 48 0.041926 GTGTCGTTTTTCCCCGTTCG 60.042 55.000 0.00 0.00 0.0 3.95 F
289 2304 0.764271 TGCACCATGGTTGACAGAGA 59.236 50.000 16.84 0.00 0.0 3.10 F
396 4005 1.434773 CTCCTCCTCCCTCCATATCCA 59.565 57.143 0.00 0.00 0.0 3.41 F
1575 5970 1.407618 CAATGGTCGTCGAGGGTATCA 59.592 52.381 5.12 0.00 0.0 2.15 F
2807 7224 1.334869 GAAAATAGCCCATGACCTGCG 59.665 52.381 0.00 0.00 0.0 5.18 F
3218 7644 2.345991 GTTAGTCCTGTGGCGCCA 59.654 61.111 29.03 29.03 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1468 5863 2.368655 ATTTCATCAAAGGCGCCAAC 57.631 45.000 31.54 0.33 0.00 3.77 R
1575 5970 2.625314 GGCTTCTTCAACTCCTTTTGCT 59.375 45.455 0.00 0.00 0.00 3.91 R
2351 6751 4.102524 TCTCTAGTTGGGTTTCAAGAAGCA 59.897 41.667 0.00 0.00 35.80 3.91 R
3025 7451 0.806868 TACTAGGACACTTGCGACCG 59.193 55.000 0.00 0.00 0.00 4.79 R
3849 8275 0.807667 GCCGCGTGATGTCTCAAGAT 60.808 55.000 4.92 0.00 33.25 2.40 R
5008 10425 0.454196 AACGTTTGCACAGTTCACCC 59.546 50.000 0.00 0.00 0.00 4.61 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
47 48 0.041926 GTGTCGTTTTTCCCCGTTCG 60.042 55.000 0.00 0.00 0.00 3.95
289 2304 0.764271 TGCACCATGGTTGACAGAGA 59.236 50.000 16.84 0.00 0.00 3.10
396 4005 1.434773 CTCCTCCTCCCTCCATATCCA 59.565 57.143 0.00 0.00 0.00 3.41
658 5050 3.195396 GCATTTCAAGGGCCAATTCACTA 59.805 43.478 6.18 0.00 0.00 2.74
812 5204 9.542462 GTCTGTGGTAGCATAAATAAATCACTA 57.458 33.333 0.00 0.00 0.00 2.74
926 5321 8.697067 CAACATTCAGAATTGAAATGTGTTCTC 58.303 33.333 9.30 0.00 45.82 2.87
1211 5606 6.974622 CCATTTCTGGTGCAATATTACACTTC 59.025 38.462 16.53 4.01 37.79 3.01
1446 5841 4.794248 TTCACTTCGCCATATTGAATCG 57.206 40.909 0.00 0.00 0.00 3.34
1468 5863 4.274459 CGCCCTTCATTTTCTTCTAGATGG 59.726 45.833 5.84 0.00 0.00 3.51
1575 5970 1.407618 CAATGGTCGTCGAGGGTATCA 59.592 52.381 5.12 0.00 0.00 2.15
1661 6056 2.778299 TCACATGTGGCCTTACACTTC 58.222 47.619 25.16 0.00 41.84 3.01
1904 6302 7.509141 TTCTGTCTTTTGAGTTTATCATGCA 57.491 32.000 0.00 0.00 37.89 3.96
1963 6361 4.261322 GCTCCAAATCACATGTTCGCATAT 60.261 41.667 0.00 0.00 35.78 1.78
2351 6751 7.667575 AGAGAACACAGTATGGATAAGATGT 57.332 36.000 0.00 0.00 43.62 3.06
2352 6752 7.495901 AGAGAACACAGTATGGATAAGATGTG 58.504 38.462 1.83 1.83 43.62 3.21
2353 6753 6.051717 AGAACACAGTATGGATAAGATGTGC 58.948 40.000 3.22 0.00 43.62 4.57
2354 6754 5.620738 ACACAGTATGGATAAGATGTGCT 57.379 39.130 3.22 0.00 43.62 4.40
2355 6755 5.994250 ACACAGTATGGATAAGATGTGCTT 58.006 37.500 3.22 0.00 43.62 3.91
2356 6756 6.051717 ACACAGTATGGATAAGATGTGCTTC 58.948 40.000 3.22 0.00 43.62 3.86
2357 6757 6.126940 ACACAGTATGGATAAGATGTGCTTCT 60.127 38.462 3.22 0.00 43.62 2.85
2422 6839 9.255029 AGCCACTGGAACAAATTAATTAACTAT 57.745 29.630 0.01 0.00 38.70 2.12
2807 7224 1.334869 GAAAATAGCCCATGACCTGCG 59.665 52.381 0.00 0.00 0.00 5.18
2894 7319 8.677130 AGATAGGCTTATCAAGGTATGGACCTG 61.677 44.444 17.21 0.00 44.74 4.00
3025 7451 2.575461 GGTGCCCTTGAAGCATGC 59.425 61.111 10.51 10.51 43.29 4.06
3218 7644 2.345991 GTTAGTCCTGTGGCGCCA 59.654 61.111 29.03 29.03 0.00 5.69
3288 7714 7.712264 TGAAATGGCTTGTTTCTGTTAAATG 57.288 32.000 10.34 0.00 36.71 2.32
3338 7764 8.458573 TGTAACTTTCTGATTGGTTTACACAT 57.541 30.769 0.00 0.00 0.00 3.21
3492 7918 4.335315 CACCATTTATACGTGAGCATGGTT 59.665 41.667 17.11 5.34 41.33 3.67
3495 7921 5.296780 CCATTTATACGTGAGCATGGTTTCT 59.703 40.000 0.00 0.00 0.00 2.52
3603 8029 5.453567 ACCTGTCAAAGTAAGAATTTGCC 57.546 39.130 0.00 0.00 37.52 4.52
3814 8240 7.828717 TGAGAATCTTTTCATACCATGCTTGTA 59.171 33.333 0.00 0.00 34.08 2.41
3815 8241 8.757982 AGAATCTTTTCATACCATGCTTGTAT 57.242 30.769 0.00 0.00 34.08 2.29
3816 8242 9.193806 AGAATCTTTTCATACCATGCTTGTATT 57.806 29.630 0.00 0.00 34.08 1.89
3817 8243 9.241317 GAATCTTTTCATACCATGCTTGTATTG 57.759 33.333 0.00 0.00 0.00 1.90
3818 8244 7.936496 TCTTTTCATACCATGCTTGTATTGA 57.064 32.000 0.00 0.00 0.00 2.57
3819 8245 7.988737 TCTTTTCATACCATGCTTGTATTGAG 58.011 34.615 0.00 0.00 0.00 3.02
3820 8246 6.698008 TTTCATACCATGCTTGTATTGAGG 57.302 37.500 0.00 0.00 0.00 3.86
3821 8247 5.372343 TCATACCATGCTTGTATTGAGGT 57.628 39.130 0.00 0.00 0.00 3.85
3822 8248 5.125356 TCATACCATGCTTGTATTGAGGTG 58.875 41.667 0.00 0.00 0.00 4.00
3823 8249 3.719268 ACCATGCTTGTATTGAGGTGA 57.281 42.857 0.00 0.00 0.00 4.02
3824 8250 4.032960 ACCATGCTTGTATTGAGGTGAA 57.967 40.909 0.00 0.00 0.00 3.18
3825 8251 4.603131 ACCATGCTTGTATTGAGGTGAAT 58.397 39.130 0.00 0.00 0.00 2.57
3826 8252 4.641989 ACCATGCTTGTATTGAGGTGAATC 59.358 41.667 0.00 0.00 0.00 2.52
3827 8253 4.037208 CCATGCTTGTATTGAGGTGAATCC 59.963 45.833 0.00 0.00 0.00 3.01
3833 8259 7.615365 TGCTTGTATTGAGGTGAATCCTAAATT 59.385 33.333 2.29 0.00 43.14 1.82
3834 8260 8.470002 GCTTGTATTGAGGTGAATCCTAAATTT 58.530 33.333 2.29 0.00 43.14 1.82
3836 8262 8.519799 TGTATTGAGGTGAATCCTAAATTTCC 57.480 34.615 0.00 0.00 43.14 3.13
3838 8264 9.847224 GTATTGAGGTGAATCCTAAATTTCCTA 57.153 33.333 0.00 0.00 43.14 2.94
3839 8265 8.753497 ATTGAGGTGAATCCTAAATTTCCTAC 57.247 34.615 0.00 0.00 43.14 3.18
3840 8266 8.560903 ATTGAGGTGAATCCTAAATTTCCTACT 58.439 33.333 0.00 0.00 43.14 2.57
3842 8268 7.757242 AGGTGAATCCTAAATTTCCTACTCT 57.243 36.000 0.00 0.00 46.10 3.24
3843 8269 8.164057 AGGTGAATCCTAAATTTCCTACTCTT 57.836 34.615 0.00 0.00 46.10 2.85
3844 8270 9.280456 AGGTGAATCCTAAATTTCCTACTCTTA 57.720 33.333 0.00 0.00 46.10 2.10
3908 8334 7.655521 TTCTGGCAGCTACTAGAAATTACTA 57.344 36.000 10.12 0.00 0.00 1.82
3909 8335 7.655521 TCTGGCAGCTACTAGAAATTACTAA 57.344 36.000 10.34 0.00 0.00 2.24
4056 8495 9.232473 GGAACTGGTTCAAGATAAGAAGTAAAT 57.768 33.333 14.25 0.00 41.20 1.40
4288 8730 6.865651 ACCCCCTTATTCTTCCATAAATCT 57.134 37.500 0.00 0.00 0.00 2.40
4539 8981 5.296151 TCTAATATCTCTGCCTTTGTGGG 57.704 43.478 0.00 0.00 36.00 4.61
4637 9892 6.115446 CAGAGGTTTGCTCACTCCAATAATA 58.885 40.000 0.00 0.00 31.70 0.98
4677 9932 3.492313 GCAAACGTTAGAGCAATTCCAG 58.508 45.455 0.00 0.00 0.00 3.86
4706 9961 3.423179 TTTTTGTCGGGTGTCGGC 58.577 55.556 0.00 0.00 44.94 5.54
4708 9963 2.888464 TTTTTGTCGGGTGTCGGCCA 62.888 55.000 2.24 0.00 43.91 5.36
4709 9964 2.684192 TTTTGTCGGGTGTCGGCCAT 62.684 55.000 2.24 0.00 43.91 4.40
4710 9965 3.599285 TTGTCGGGTGTCGGCCATC 62.599 63.158 2.24 0.00 43.91 3.51
4711 9966 4.832608 GTCGGGTGTCGGCCATCC 62.833 72.222 2.24 0.00 41.38 3.51
4723 9978 4.907034 CCATCCGCTCGTCGTCCG 62.907 72.222 0.00 0.00 36.19 4.79
4750 10005 1.791103 CGCCCTCTTTTGCGTTTGGA 61.791 55.000 0.00 0.00 45.43 3.53
4760 10015 1.106351 TGCGTTTGGATTGGCAGTGT 61.106 50.000 0.00 0.00 0.00 3.55
4783 10038 0.932585 CAACACGCGGACGCATTTTT 60.933 50.000 17.35 1.11 45.53 1.94
4792 10047 2.132740 GACGCATTTTTGTCCTTGCA 57.867 45.000 0.00 0.00 34.80 4.08
4964 10380 5.103940 AGCCCACATATACTCAACCAAATCT 60.104 40.000 0.00 0.00 0.00 2.40
4979 10395 8.147058 TCAACCAAATCTTTTTGCAGCTAAATA 58.853 29.630 2.71 0.00 40.77 1.40
5004 10421 5.008118 TGAGTTTCACAACACGCATTTGATA 59.992 36.000 0.00 0.00 35.05 2.15
5007 10424 6.922957 AGTTTCACAACACGCATTTGATAATT 59.077 30.769 0.00 0.00 35.05 1.40
5008 10425 6.687653 TTCACAACACGCATTTGATAATTG 57.312 33.333 0.00 0.00 0.00 2.32
5009 10426 5.159925 TCACAACACGCATTTGATAATTGG 58.840 37.500 0.00 0.00 0.00 3.16
5012 10429 4.108699 ACACGCATTTGATAATTGGGTG 57.891 40.909 21.45 21.45 39.16 4.61
5014 10431 4.219507 ACACGCATTTGATAATTGGGTGAA 59.780 37.500 26.05 0.00 38.10 3.18
5015 10432 4.562394 CACGCATTTGATAATTGGGTGAAC 59.438 41.667 19.81 0.00 37.60 3.18
5069 10491 4.261741 GGCACAACATTGTCACTCTGAAAT 60.262 41.667 0.00 0.00 39.91 2.17
5075 10497 8.199449 ACAACATTGTCACTCTGAAATTGAAAT 58.801 29.630 0.00 0.00 36.50 2.17
5095 10517 7.335627 TGAAATCCTTGGTCATAGATACGTTT 58.664 34.615 0.00 0.00 0.00 3.60
5122 10544 5.874831 ACGCTCATTCTCTACGATCATATC 58.125 41.667 0.00 0.00 0.00 1.63
5165 10594 0.109342 CTCCCACAACTTGGTGCTCT 59.891 55.000 0.00 0.00 45.25 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 1.604915 GGTGGGGAAGAGGAAGAGC 59.395 63.158 0.00 0.00 0.00 4.09
184 458 3.531207 CGCGGCTGATCCAGAGGA 61.531 66.667 0.00 0.00 32.44 3.71
216 490 2.504519 GCATAGGGGGACGTGGAC 59.495 66.667 0.00 0.00 0.00 4.02
263 2278 2.227388 GTCAACCATGGTGCAGAAAGAG 59.773 50.000 20.60 0.48 0.00 2.85
678 5070 5.393027 GGAAACTGAAATGGCACGAATATGT 60.393 40.000 0.00 0.00 0.00 2.29
812 5204 9.030301 GCATAAACTGTAAACAACAAGACATTT 57.970 29.630 0.00 0.00 37.74 2.32
926 5321 3.140814 GGGCGGCCAAGCTAAAGG 61.141 66.667 25.33 0.00 37.29 3.11
1446 5841 5.196695 ACCATCTAGAAGAAAATGAAGGGC 58.803 41.667 0.00 0.00 0.00 5.19
1468 5863 2.368655 ATTTCATCAAAGGCGCCAAC 57.631 45.000 31.54 0.33 0.00 3.77
1575 5970 2.625314 GGCTTCTTCAACTCCTTTTGCT 59.375 45.455 0.00 0.00 0.00 3.91
2351 6751 4.102524 TCTCTAGTTGGGTTTCAAGAAGCA 59.897 41.667 0.00 0.00 35.80 3.91
2352 6752 4.642429 TCTCTAGTTGGGTTTCAAGAAGC 58.358 43.478 0.00 0.00 35.80 3.86
2353 6753 7.751768 AAATCTCTAGTTGGGTTTCAAGAAG 57.248 36.000 0.00 0.00 35.80 2.85
2354 6754 9.807921 ATAAAATCTCTAGTTGGGTTTCAAGAA 57.192 29.630 0.00 0.00 35.80 2.52
2355 6755 9.807921 AATAAAATCTCTAGTTGGGTTTCAAGA 57.192 29.630 0.00 0.00 35.80 3.02
2422 6839 7.928307 AGAAGCTGCAATTTAGAGATAACAA 57.072 32.000 1.02 0.00 0.00 2.83
2807 7224 1.947456 AGAAACGCCAAGGAACTGAAC 59.053 47.619 0.00 0.00 40.86 3.18
2894 7319 4.215827 TCAGTGAAGAGTAGAAGACGTTCC 59.784 45.833 0.00 0.00 32.48 3.62
3025 7451 0.806868 TACTAGGACACTTGCGACCG 59.193 55.000 0.00 0.00 0.00 4.79
3218 7644 6.667414 TGTCATTGGGCAAATAAAGGATTACT 59.333 34.615 0.00 0.00 0.00 2.24
3364 7790 7.340232 TCCAGAATTAGCACATTTTGAGCTTAT 59.660 33.333 4.82 0.00 41.43 1.73
3365 7791 6.658816 TCCAGAATTAGCACATTTTGAGCTTA 59.341 34.615 4.82 0.00 41.43 3.09
3481 7907 4.191544 TGCATACTAGAAACCATGCTCAC 58.808 43.478 0.00 0.00 43.30 3.51
3603 8029 5.741388 ATAGACGGCATTTTAGAAAGCAG 57.259 39.130 0.00 0.00 31.34 4.24
3830 8256 9.844257 CTCAAGATTGGATAAGAGTAGGAAATT 57.156 33.333 0.00 0.00 0.00 1.82
3832 8258 8.478877 GTCTCAAGATTGGATAAGAGTAGGAAA 58.521 37.037 0.00 0.00 0.00 3.13
3833 8259 7.619698 TGTCTCAAGATTGGATAAGAGTAGGAA 59.380 37.037 0.00 0.00 0.00 3.36
3834 8260 7.126061 TGTCTCAAGATTGGATAAGAGTAGGA 58.874 38.462 0.00 0.00 0.00 2.94
3835 8261 7.353414 TGTCTCAAGATTGGATAAGAGTAGG 57.647 40.000 0.00 0.00 0.00 3.18
3836 8262 8.637099 TGATGTCTCAAGATTGGATAAGAGTAG 58.363 37.037 0.00 0.00 0.00 2.57
3838 8264 7.271511 GTGATGTCTCAAGATTGGATAAGAGT 58.728 38.462 0.00 0.00 31.85 3.24
3839 8265 6.420306 CGTGATGTCTCAAGATTGGATAAGAG 59.580 42.308 0.00 0.00 33.25 2.85
3840 8266 6.276091 CGTGATGTCTCAAGATTGGATAAGA 58.724 40.000 0.00 0.00 33.25 2.10
3841 8267 5.050499 GCGTGATGTCTCAAGATTGGATAAG 60.050 44.000 0.00 0.00 33.25 1.73
3842 8268 4.811024 GCGTGATGTCTCAAGATTGGATAA 59.189 41.667 0.00 0.00 33.25 1.75
3843 8269 4.371786 GCGTGATGTCTCAAGATTGGATA 58.628 43.478 0.00 0.00 33.25 2.59
3844 8270 3.201290 GCGTGATGTCTCAAGATTGGAT 58.799 45.455 0.00 0.00 33.25 3.41
3845 8271 2.621338 GCGTGATGTCTCAAGATTGGA 58.379 47.619 0.00 0.00 33.25 3.53
3846 8272 1.325640 CGCGTGATGTCTCAAGATTGG 59.674 52.381 0.00 0.00 33.25 3.16
3847 8273 1.325640 CCGCGTGATGTCTCAAGATTG 59.674 52.381 4.92 0.00 33.25 2.67
3848 8274 1.645034 CCGCGTGATGTCTCAAGATT 58.355 50.000 4.92 0.00 33.25 2.40
3849 8275 0.807667 GCCGCGTGATGTCTCAAGAT 60.808 55.000 4.92 0.00 33.25 2.40
3908 8334 9.880157 AATTAGTTTCAGCATCATAGCAAATTT 57.120 25.926 0.00 0.00 36.85 1.82
4056 8495 6.356556 ACTAATATGCCAGCAACTGTATTGA 58.643 36.000 0.00 0.00 0.00 2.57
4061 8500 5.943416 TGTAAACTAATATGCCAGCAACTGT 59.057 36.000 0.00 0.00 0.00 3.55
4251 8693 1.432807 AGGGGGTTCCAATGTTCATGT 59.567 47.619 0.00 0.00 38.24 3.21
4288 8730 2.360844 TGAAAGTCACCGCACTTCAAA 58.639 42.857 0.00 0.00 35.45 2.69
4637 9892 2.825861 CCATTTCAAAGGCTTGCACT 57.174 45.000 0.00 0.00 32.14 4.40
4724 9979 3.339093 AAAAGAGGGCGGAGGGGG 61.339 66.667 0.00 0.00 0.00 5.40
4726 9981 2.751837 GCAAAAGAGGGCGGAGGG 60.752 66.667 0.00 0.00 0.00 4.30
4736 9991 1.410517 TGCCAATCCAAACGCAAAAGA 59.589 42.857 0.00 0.00 0.00 2.52
4776 10031 1.150827 GGCTGCAAGGACAAAAATGC 58.849 50.000 0.50 0.00 39.22 3.56
4777 10032 1.421382 CGGCTGCAAGGACAAAAATG 58.579 50.000 0.50 0.00 0.00 2.32
4792 10047 3.860930 AAAACATGTCCGGCCGGCT 62.861 57.895 39.89 22.95 34.68 5.52
4964 10380 8.140628 TGTGAAACTCATATTTAGCTGCAAAAA 58.859 29.630 1.02 2.35 38.04 1.94
4979 10395 3.988379 AATGCGTGTTGTGAAACTCAT 57.012 38.095 0.00 0.00 38.04 2.90
5004 10421 2.481104 CGTTTGCACAGTTCACCCAATT 60.481 45.455 0.00 0.00 0.00 2.32
5007 10424 0.678366 ACGTTTGCACAGTTCACCCA 60.678 50.000 0.00 0.00 0.00 4.51
5008 10425 0.454196 AACGTTTGCACAGTTCACCC 59.546 50.000 0.00 0.00 0.00 4.61
5009 10426 1.544686 CAACGTTTGCACAGTTCACC 58.455 50.000 0.00 0.00 0.00 4.02
5069 10491 6.884832 ACGTATCTATGACCAAGGATTTCAA 58.115 36.000 0.00 0.00 0.00 2.69
5075 10497 4.202080 CCGAAACGTATCTATGACCAAGGA 60.202 45.833 0.00 0.00 0.00 3.36
5095 10517 0.656259 CGTAGAGAATGAGCGTCCGA 59.344 55.000 0.00 0.00 0.00 4.55
5122 10544 3.630312 TGATGATTGTGTGATCATGCAGG 59.370 43.478 0.00 0.00 44.57 4.85


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

AutoCloner maintained by Alex Coulton.