Multiple sequence alignment - TraesCS4A01G094700

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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 TraesCS4A01G094700 chr4A 100.000 2771 0 0 1 2771 103067612 103070382 0.000000e+00 5118.0
1 TraesCS4A01G094700 chr4A 81.184 473 83 5 1129 1601 603540348 603539882 2.610000e-100 375.0
2 TraesCS4A01G094700 chr4A 100.000 30 0 0 2558 2587 642451157 642451128 3.860000e-04 56.5
3 TraesCS4A01G094700 chr4B 93.718 2117 84 20 4 2095 447458638 447456546 0.000000e+00 3127.0
4 TraesCS4A01G094700 chr4B 82.664 473 76 4 1129 1601 653587 653121 5.520000e-112 414.0
5 TraesCS4A01G094700 chr4B 94.667 75 2 2 2136 2209 447456433 447456360 6.270000e-22 115.0
6 TraesCS4A01G094700 chr4D 93.384 2086 68 27 4 2081 362132988 362130965 0.000000e+00 3024.0
7 TraesCS4A01G094700 chr4D 82.664 473 76 4 1129 1601 1230952 1231418 5.520000e-112 414.0
8 TraesCS4A01G094700 chr4D 90.041 241 12 8 2533 2771 362129118 362128888 4.490000e-78 302.0
9 TraesCS4A01G094700 chr4D 82.866 321 51 4 2223 2541 362129619 362129301 4.520000e-73 285.0
10 TraesCS4A01G094700 chr6D 83.932 473 70 3 1129 1601 26351123 26351589 5.440000e-122 448.0
11 TraesCS4A01G094700 chr6D 94.828 58 2 1 81 138 100941152 100941096 3.800000e-14 89.8
12 TraesCS4A01G094700 chr6A 83.789 475 67 9 1129 1601 27772867 27773333 2.530000e-120 442.0
13 TraesCS4A01G094700 chr6A 83.721 86 12 2 2348 2432 468477149 468477065 2.290000e-11 80.5
14 TraesCS4A01G094700 chr1A 83.299 485 69 10 1101 1581 23856982 23857458 1.180000e-118 436.0
15 TraesCS4A01G094700 chr1A 77.395 261 46 7 2329 2587 449845719 449845968 2.880000e-30 143.0
16 TraesCS4A01G094700 chr1D 83.093 485 70 10 1101 1581 22863605 22864081 5.480000e-117 431.0
17 TraesCS4A01G094700 chr6B 82.737 475 72 8 1129 1601 48552036 48552502 5.520000e-112 414.0
18 TraesCS4A01G094700 chr6B 84.783 138 19 2 1 138 156743671 156743806 1.340000e-28 137.0
19 TraesCS4A01G094700 chr7A 76.718 262 41 11 2331 2587 642591190 642591436 8.060000e-26 128.0
20 TraesCS4A01G094700 chr2B 80.556 108 17 3 2486 2589 7649233 7649126 2.290000e-11 80.5
21 TraesCS4A01G094700 chr2D 79.048 105 22 0 2329 2433 395305690 395305794 3.830000e-09 73.1
22 TraesCS4A01G094700 chr5B 72.031 261 59 10 2329 2587 134061897 134062145 6.410000e-07 65.8


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 TraesCS4A01G094700 chr4A 103067612 103070382 2770 False 5118.000000 5118 100.000000 1 2771 1 chr4A.!!$F1 2770
1 TraesCS4A01G094700 chr4B 447456360 447458638 2278 True 1621.000000 3127 94.192500 4 2209 2 chr4B.!!$R2 2205
2 TraesCS4A01G094700 chr4D 362128888 362132988 4100 True 1203.666667 3024 88.763667 4 2771 3 chr4D.!!$R1 2767

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
842 868 0.037326 CCACTCGCTAGCAACCAGAA 60.037 55.0 16.45 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2402 3716 0.035739 TGAACGTGCCCCTAAGAACC 59.964 55.0 0.0 0.0 0.0 3.62 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
179 181 6.090898 AGTCGATTCTAATATATGGCGTTTGC 59.909 38.462 0.00 0.00 41.71 3.68
195 197 4.848299 GCGTTTGCTATTTTCACAAGAGAG 59.152 41.667 0.00 0.00 38.39 3.20
240 242 5.411361 ACATGCATGTAAAGTCGTATGTGTT 59.589 36.000 30.50 0.00 39.68 3.32
241 243 5.276240 TGCATGTAAAGTCGTATGTGTTG 57.724 39.130 0.00 0.00 0.00 3.33
242 244 4.991687 TGCATGTAAAGTCGTATGTGTTGA 59.008 37.500 0.00 0.00 0.00 3.18
243 245 5.467063 TGCATGTAAAGTCGTATGTGTTGAA 59.533 36.000 0.00 0.00 0.00 2.69
244 246 5.788531 GCATGTAAAGTCGTATGTGTTGAAC 59.211 40.000 0.00 0.00 0.00 3.18
245 247 6.347402 GCATGTAAAGTCGTATGTGTTGAACT 60.347 38.462 0.00 0.00 0.00 3.01
258 260 4.898829 TGTTGAACTTGAACACATCCTG 57.101 40.909 0.00 0.00 0.00 3.86
261 263 2.618241 TGAACTTGAACACATCCTGCAC 59.382 45.455 0.00 0.00 0.00 4.57
264 266 1.267806 CTTGAACACATCCTGCACACC 59.732 52.381 0.00 0.00 0.00 4.16
279 281 1.339610 CACACCAAAAAGCGGGAATCA 59.660 47.619 0.00 0.00 0.00 2.57
282 284 1.343142 ACCAAAAAGCGGGAATCAACC 59.657 47.619 0.00 0.00 0.00 3.77
355 370 4.071423 TCTTCGTCATGGCATTCAAAAGA 58.929 39.130 0.00 2.74 0.00 2.52
667 686 3.232213 TGATCGTAGCAGAGTGGTTTC 57.768 47.619 0.00 0.00 0.00 2.78
676 695 1.136252 CAGAGTGGTTTCGATTGTGCG 60.136 52.381 0.00 0.00 0.00 5.34
770 796 6.099159 AGCCGTAAATAAATACTCCTCCTC 57.901 41.667 0.00 0.00 0.00 3.71
771 797 5.011840 AGCCGTAAATAAATACTCCTCCTCC 59.988 44.000 0.00 0.00 0.00 4.30
772 798 5.011840 GCCGTAAATAAATACTCCTCCTCCT 59.988 44.000 0.00 0.00 0.00 3.69
828 854 3.740141 CGTCCCATACCATACAACCACTC 60.740 52.174 0.00 0.00 0.00 3.51
842 868 0.037326 CCACTCGCTAGCAACCAGAA 60.037 55.000 16.45 0.00 0.00 3.02
878 907 3.126879 CGCCGCTTGCATTGGAGA 61.127 61.111 3.75 0.00 41.33 3.71
879 908 2.689785 CGCCGCTTGCATTGGAGAA 61.690 57.895 3.75 0.00 41.33 2.87
921 950 0.517316 GTGTGTGCCATCTTCGTTCC 59.483 55.000 0.00 0.00 0.00 3.62
957 986 2.834638 AAATTGTAGGGCTGGCAGAT 57.165 45.000 20.86 5.57 0.00 2.90
1467 1496 4.253257 CTCGCCGTCTACCTCGCC 62.253 72.222 0.00 0.00 0.00 5.54
1512 1541 3.011517 AGCGTGATGGGGGAGCTT 61.012 61.111 0.00 0.00 34.05 3.74
1521 1550 4.516195 GGGGAGCTTCTCGCGTCC 62.516 72.222 5.77 3.99 43.09 4.79
1986 2016 7.865706 ATGTGAAATTCCTACAGGTATCAAC 57.134 36.000 0.00 0.00 36.34 3.18
2122 3380 5.683876 AGATAGCATGTACAGTCCAGTTT 57.316 39.130 0.33 0.00 0.00 2.66
2145 3411 5.678583 TCATAAGATCCAAGCTTCTTGAGG 58.321 41.667 8.37 1.35 34.22 3.86
2198 3464 2.101783 TGCTTGGTTTGGGATATGCAG 58.898 47.619 0.00 0.00 0.00 4.41
2215 3481 1.552792 GCAGGCTTCTGGTTACTCTCT 59.447 52.381 0.00 0.00 38.87 3.10
2216 3482 2.418060 GCAGGCTTCTGGTTACTCTCTC 60.418 54.545 0.00 0.00 38.87 3.20
2218 3484 3.130340 CAGGCTTCTGGTTACTCTCTCTC 59.870 52.174 0.00 0.00 34.96 3.20
2220 3486 3.380320 GGCTTCTGGTTACTCTCTCTCTC 59.620 52.174 0.00 0.00 0.00 3.20
2221 3487 4.270008 GCTTCTGGTTACTCTCTCTCTCT 58.730 47.826 0.00 0.00 0.00 3.10
2222 3488 4.335594 GCTTCTGGTTACTCTCTCTCTCTC 59.664 50.000 0.00 0.00 0.00 3.20
2225 3491 5.030147 TCTGGTTACTCTCTCTCTCTCTCT 58.970 45.833 0.00 0.00 0.00 3.10
2226 3492 5.128827 TCTGGTTACTCTCTCTCTCTCTCTC 59.871 48.000 0.00 0.00 0.00 3.20
2227 3493 5.030147 TGGTTACTCTCTCTCTCTCTCTCT 58.970 45.833 0.00 0.00 0.00 3.10
2228 3494 5.128827 TGGTTACTCTCTCTCTCTCTCTCTC 59.871 48.000 0.00 0.00 0.00 3.20
2234 3547 6.157645 ACTCTCTCTCTCTCTCTCTCTTTGAT 59.842 42.308 0.00 0.00 0.00 2.57
2243 3556 7.068593 TCTCTCTCTCTCTTTGATTCCTCAATC 59.931 40.741 0.00 0.00 40.95 2.67
2268 3581 6.425721 CCAGTGTCTCGGTTTACTTAATTTCA 59.574 38.462 0.00 0.00 0.00 2.69
2269 3582 7.288672 CAGTGTCTCGGTTTACTTAATTTCAC 58.711 38.462 0.00 0.00 0.00 3.18
2271 3584 8.362639 AGTGTCTCGGTTTACTTAATTTCACTA 58.637 33.333 0.00 0.00 0.00 2.74
2307 3620 7.731054 AGAAGGTCTAGAGCCATAGTTTTATG 58.269 38.462 18.14 0.00 37.09 1.90
2312 3625 9.343539 GGTCTAGAGCCATAGTTTTATGAAAAT 57.656 33.333 10.97 0.00 39.22 1.82
2330 3644 7.456684 TGAAAATTTGTTATTGAACACCGTG 57.543 32.000 0.00 0.00 45.29 4.94
2341 3655 0.250124 AACACCGTGGCGAGATTTGA 60.250 50.000 3.03 0.00 0.00 2.69
2343 3657 1.206132 ACACCGTGGCGAGATTTGATA 59.794 47.619 3.03 0.00 0.00 2.15
2359 3673 7.512992 AGATTTGATATCGGGTTCTTCAGATT 58.487 34.615 0.00 0.00 0.00 2.40
2360 3674 8.651389 AGATTTGATATCGGGTTCTTCAGATTA 58.349 33.333 0.00 0.00 0.00 1.75
2376 3690 7.723616 TCTTCAGATTAATTCAAGGGTTCAACA 59.276 33.333 0.00 0.00 0.00 3.33
2377 3691 7.831691 TCAGATTAATTCAAGGGTTCAACAA 57.168 32.000 0.00 0.00 0.00 2.83
2382 3696 0.106918 TCAAGGGTTCAACAACGGCT 60.107 50.000 0.00 0.00 32.68 5.52
2393 3707 3.382832 AACGGCTACTGCGGCTCT 61.383 61.111 0.00 0.00 42.31 4.09
2394 3708 2.050350 AACGGCTACTGCGGCTCTA 61.050 57.895 0.00 0.00 42.31 2.43
2411 3725 0.105039 CTAGGGCGCTGGTTCTTAGG 59.895 60.000 14.51 0.00 0.00 2.69
2413 3727 2.124695 GGCGCTGGTTCTTAGGGG 60.125 66.667 7.64 0.00 0.00 4.79
2417 3731 1.745489 GCTGGTTCTTAGGGGCACG 60.745 63.158 0.00 0.00 0.00 5.34
2418 3732 1.677552 CTGGTTCTTAGGGGCACGT 59.322 57.895 0.00 0.00 0.00 4.49
2422 3736 1.339727 GGTTCTTAGGGGCACGTTCAT 60.340 52.381 0.00 0.00 0.00 2.57
2423 3737 1.737793 GTTCTTAGGGGCACGTTCATG 59.262 52.381 0.00 0.00 0.00 3.07
2426 3740 2.009774 CTTAGGGGCACGTTCATGAAG 58.990 52.381 8.80 5.91 0.00 3.02
2441 3755 5.060662 TCATGAAGACTTCCTTACTGTCG 57.939 43.478 12.66 0.00 34.68 4.35
2444 3758 3.887110 TGAAGACTTCCTTACTGTCGTCA 59.113 43.478 12.66 6.82 43.13 4.35
2453 3767 0.753867 TACTGTCGTCAACAAGGGCA 59.246 50.000 0.00 0.00 37.45 5.36
2463 3777 3.066814 CAAGGGCAGGCCAGCTTC 61.067 66.667 20.55 12.44 37.98 3.86
2482 3796 3.883744 GATATGGGTGGGAGCGGCG 62.884 68.421 0.51 0.51 0.00 6.46
2542 3856 2.729028 ACAGTAGTTGTTTGGTGCCT 57.271 45.000 0.00 0.00 36.31 4.75
2544 3858 1.608590 CAGTAGTTGTTTGGTGCCTGG 59.391 52.381 0.00 0.00 0.00 4.45
2545 3859 0.958822 GTAGTTGTTTGGTGCCTGGG 59.041 55.000 0.00 0.00 0.00 4.45
2547 3861 0.755327 AGTTGTTTGGTGCCTGGGAC 60.755 55.000 10.21 10.21 0.00 4.46
2548 3862 1.456705 TTGTTTGGTGCCTGGGACC 60.457 57.895 28.59 28.59 0.00 4.46
2549 3863 1.943730 TTGTTTGGTGCCTGGGACCT 61.944 55.000 33.30 0.00 34.26 3.85
2552 3866 0.854218 TTTGGTGCCTGGGACCTTAA 59.146 50.000 33.30 24.51 34.26 1.85
2553 3867 1.080638 TTGGTGCCTGGGACCTTAAT 58.919 50.000 33.30 0.00 34.26 1.40
2554 3868 0.331278 TGGTGCCTGGGACCTTAATG 59.669 55.000 33.30 0.00 34.26 1.90
2555 3869 0.331616 GGTGCCTGGGACCTTAATGT 59.668 55.000 28.10 0.00 0.00 2.71
2556 3870 1.682087 GGTGCCTGGGACCTTAATGTC 60.682 57.143 28.10 2.51 34.42 3.06
2558 3872 1.922447 TGCCTGGGACCTTAATGTCAT 59.078 47.619 12.20 0.00 36.97 3.06
2588 4093 7.849804 TTATGTTTGAGATGCTTTCTACTCC 57.150 36.000 0.00 0.00 33.74 3.85
2590 4095 6.605471 TGTTTGAGATGCTTTCTACTCCTA 57.395 37.500 0.00 0.00 33.74 2.94
2591 4096 6.398918 TGTTTGAGATGCTTTCTACTCCTAC 58.601 40.000 0.00 0.00 33.74 3.18
2593 4098 6.859112 TTGAGATGCTTTCTACTCCTACTT 57.141 37.500 0.00 0.00 33.74 2.24
2594 4099 6.859112 TGAGATGCTTTCTACTCCTACTTT 57.141 37.500 0.00 0.00 33.74 2.66
2595 4100 6.634805 TGAGATGCTTTCTACTCCTACTTTG 58.365 40.000 0.00 0.00 33.74 2.77
2596 4101 5.983540 AGATGCTTTCTACTCCTACTTTGG 58.016 41.667 0.00 0.00 30.96 3.28
2598 4103 4.894784 TGCTTTCTACTCCTACTTTGGTG 58.105 43.478 0.00 0.00 0.00 4.17
2599 4104 4.591498 TGCTTTCTACTCCTACTTTGGTGA 59.409 41.667 0.00 0.00 0.00 4.02
2600 4105 5.071250 TGCTTTCTACTCCTACTTTGGTGAA 59.929 40.000 0.00 0.00 0.00 3.18
2601 4106 5.408909 GCTTTCTACTCCTACTTTGGTGAAC 59.591 44.000 0.00 0.00 0.00 3.18
2602 4107 6.741801 GCTTTCTACTCCTACTTTGGTGAACT 60.742 42.308 0.00 0.00 0.00 3.01
2603 4108 6.742559 TTCTACTCCTACTTTGGTGAACTT 57.257 37.500 0.00 0.00 0.00 2.66
2604 4109 6.742559 TCTACTCCTACTTTGGTGAACTTT 57.257 37.500 0.00 0.00 0.00 2.66
2605 4110 7.844493 TCTACTCCTACTTTGGTGAACTTTA 57.156 36.000 0.00 0.00 0.00 1.85
2606 4111 8.253867 TCTACTCCTACTTTGGTGAACTTTAA 57.746 34.615 0.00 0.00 0.00 1.52
2634 4139 8.691797 AGTAGATGTTAGTTCTTTTGGCAAAAA 58.308 29.630 24.15 13.48 34.17 1.94
2675 4181 7.725251 ACTTTGGCTCAATTTCAGTTGATTTA 58.275 30.769 0.00 0.00 37.47 1.40
2730 4236 9.120538 TCAAGCTGTTAAAATTTTACTGACTCT 57.879 29.630 10.18 5.75 0.00 3.24
2767 4273 3.676172 CGTCCTACAAAGCGTATTGTCAA 59.324 43.478 10.55 0.00 42.33 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.324402 GCAAGGAGCGTGTAAATTTTCATG 59.676 41.667 11.50 11.50 0.00 3.07
1 2 4.485163 GCAAGGAGCGTGTAAATTTTCAT 58.515 39.130 0.00 0.00 0.00 2.57
2 3 3.896122 GCAAGGAGCGTGTAAATTTTCA 58.104 40.909 0.00 0.00 0.00 2.69
93 95 4.118410 CTCATCTACACCTGATGAACAGC 58.882 47.826 7.65 0.00 46.30 4.40
103 105 1.762460 CCCGGGCTCATCTACACCT 60.762 63.158 8.08 0.00 0.00 4.00
195 197 5.049167 TGTGCTCAATTTGAAAATCACACC 58.951 37.500 14.20 0.00 0.00 4.16
240 242 2.618241 GTGCAGGATGTGTTCAAGTTCA 59.382 45.455 0.00 0.00 39.31 3.18
241 243 2.618241 TGTGCAGGATGTGTTCAAGTTC 59.382 45.455 0.00 0.00 39.31 3.01
242 244 2.358898 GTGTGCAGGATGTGTTCAAGTT 59.641 45.455 0.00 0.00 39.31 2.66
243 245 1.949525 GTGTGCAGGATGTGTTCAAGT 59.050 47.619 0.00 0.00 39.31 3.16
244 246 1.267806 GGTGTGCAGGATGTGTTCAAG 59.732 52.381 0.00 0.00 39.31 3.02
245 247 1.317613 GGTGTGCAGGATGTGTTCAA 58.682 50.000 0.00 0.00 39.31 2.69
258 260 0.033366 ATTCCCGCTTTTTGGTGTGC 59.967 50.000 0.00 0.00 0.00 4.57
261 263 2.403259 GTTGATTCCCGCTTTTTGGTG 58.597 47.619 0.00 0.00 0.00 4.17
264 266 2.810439 TGGTTGATTCCCGCTTTTTG 57.190 45.000 0.00 0.00 0.00 2.44
282 284 3.072468 CTGCCCTGCCAACCCATG 61.072 66.667 0.00 0.00 0.00 3.66
528 543 1.403249 CGGTTAGTTAGTGTGACCCGG 60.403 57.143 0.00 0.00 0.00 5.73
530 545 1.718396 GCGGTTAGTTAGTGTGACCC 58.282 55.000 0.00 0.00 0.00 4.46
531 546 1.068333 TCGCGGTTAGTTAGTGTGACC 60.068 52.381 6.13 0.00 0.00 4.02
532 547 1.981533 GTCGCGGTTAGTTAGTGTGAC 59.018 52.381 6.13 0.00 33.57 3.67
589 608 3.055819 CCGAGGCAGTATATATGCAAGGT 60.056 47.826 13.11 0.00 45.68 3.50
592 611 4.081862 GGTACCGAGGCAGTATATATGCAA 60.082 45.833 13.11 0.00 45.68 4.08
639 658 1.135199 TCTGCTACGATCAAACGGGAC 60.135 52.381 0.00 0.00 37.61 4.46
667 686 0.796870 TAGTCGCACTCGCACAATCG 60.797 55.000 0.00 0.00 38.40 3.34
676 695 0.725686 TAGCAGTCGTAGTCGCACTC 59.274 55.000 0.00 0.00 36.96 3.51
720 745 2.003301 AGAAATTCGCTTCGCTTCTCC 58.997 47.619 0.00 0.00 0.00 3.71
736 762 9.538508 GTATTTATTTACGGCTCCTTCTAGAAA 57.461 33.333 6.63 0.00 0.00 2.52
771 797 1.517257 CGTTGCTCTCACCGGCTAG 60.517 63.158 0.00 0.00 0.00 3.42
772 798 2.571757 CGTTGCTCTCACCGGCTA 59.428 61.111 0.00 0.00 0.00 3.93
828 854 1.461127 GTGAGTTTCTGGTTGCTAGCG 59.539 52.381 10.77 0.00 0.00 4.26
904 933 2.589369 CGAGGAACGAAGATGGCACAC 61.589 57.143 0.00 0.00 43.99 3.82
905 934 0.389817 CGAGGAACGAAGATGGCACA 60.390 55.000 0.00 0.00 45.05 4.57
1521 1550 4.175337 ATCACCATGACGGGGCCG 62.175 66.667 0.00 0.00 38.54 6.13
1836 1865 2.237392 AGCTAGGCAAACAACTAGGGAG 59.763 50.000 0.00 0.00 37.69 4.30
1986 2016 2.880963 AACCATTGTTCGTTGGGTTG 57.119 45.000 0.00 0.00 40.18 3.77
2098 3292 6.985653 AACTGGACTGTACATGCTATCTAT 57.014 37.500 0.00 0.00 0.00 1.98
2099 3293 6.379988 TGAAACTGGACTGTACATGCTATCTA 59.620 38.462 0.00 0.00 0.00 1.98
2111 3369 5.762179 TGGATCTTATGAAACTGGACTGT 57.238 39.130 0.00 0.00 0.00 3.55
2114 3372 5.189180 AGCTTGGATCTTATGAAACTGGAC 58.811 41.667 0.00 0.00 0.00 4.02
2122 3380 5.190528 ACCTCAAGAAGCTTGGATCTTATGA 59.809 40.000 2.10 0.00 34.24 2.15
2145 3411 0.238289 GCATGCATGGCCGTACATAC 59.762 55.000 27.34 1.28 0.00 2.39
2198 3464 3.361786 AGAGAGAGAGTAACCAGAAGCC 58.638 50.000 0.00 0.00 0.00 4.35
2215 3481 6.078456 AGGAATCAAAGAGAGAGAGAGAGA 57.922 41.667 0.00 0.00 0.00 3.10
2216 3482 5.887598 TGAGGAATCAAAGAGAGAGAGAGAG 59.112 44.000 0.00 0.00 0.00 3.20
2218 3484 6.528537 TTGAGGAATCAAAGAGAGAGAGAG 57.471 41.667 0.00 0.00 0.00 3.20
2220 3486 6.127111 TGGATTGAGGAATCAAAGAGAGAGAG 60.127 42.308 0.00 0.00 39.98 3.20
2221 3487 5.723405 TGGATTGAGGAATCAAAGAGAGAGA 59.277 40.000 0.00 0.00 39.98 3.10
2222 3488 5.987098 TGGATTGAGGAATCAAAGAGAGAG 58.013 41.667 0.00 0.00 39.98 3.20
2225 3491 5.013495 ACACTGGATTGAGGAATCAAAGAGA 59.987 40.000 0.00 0.00 39.98 3.10
2226 3492 5.251764 ACACTGGATTGAGGAATCAAAGAG 58.748 41.667 0.00 0.00 39.98 2.85
2227 3493 5.013495 AGACACTGGATTGAGGAATCAAAGA 59.987 40.000 0.00 0.00 39.98 2.52
2228 3494 5.251764 AGACACTGGATTGAGGAATCAAAG 58.748 41.667 0.00 0.00 39.98 2.77
2234 3547 1.550524 CCGAGACACTGGATTGAGGAA 59.449 52.381 0.00 0.00 0.00 3.36
2243 3556 6.425721 TGAAATTAAGTAAACCGAGACACTGG 59.574 38.462 0.00 0.00 0.00 4.00
2271 3584 8.603304 TGGCTCTAGACCTTCTAAAATACTTTT 58.397 33.333 11.21 0.00 36.67 2.27
2307 3620 6.563196 GCCACGGTGTTCAATAACAAATTTTC 60.563 38.462 7.45 0.00 46.84 2.29
2312 3625 2.287069 CGCCACGGTGTTCAATAACAAA 60.287 45.455 7.45 0.00 46.84 2.83
2313 3626 1.264557 CGCCACGGTGTTCAATAACAA 59.735 47.619 7.45 0.00 46.84 2.83
2315 3628 1.127951 CTCGCCACGGTGTTCAATAAC 59.872 52.381 7.45 0.00 36.07 1.89
2316 3629 1.001068 TCTCGCCACGGTGTTCAATAA 59.999 47.619 7.45 0.00 0.00 1.40
2318 3631 0.036388 ATCTCGCCACGGTGTTCAAT 60.036 50.000 7.45 0.00 0.00 2.57
2319 3632 0.250124 AATCTCGCCACGGTGTTCAA 60.250 50.000 7.45 0.00 0.00 2.69
2322 3636 0.250124 TCAAATCTCGCCACGGTGTT 60.250 50.000 7.45 0.00 0.00 3.32
2327 3641 1.721389 CCGATATCAAATCTCGCCACG 59.279 52.381 3.12 0.00 0.00 4.94
2330 3644 2.457366 ACCCGATATCAAATCTCGCC 57.543 50.000 3.12 0.00 0.00 5.54
2341 3655 9.277783 CTTGAATTAATCTGAAGAACCCGATAT 57.722 33.333 0.00 0.00 0.00 1.63
2343 3657 6.543831 CCTTGAATTAATCTGAAGAACCCGAT 59.456 38.462 0.00 0.00 0.00 4.18
2359 3673 3.004944 GCCGTTGTTGAACCCTTGAATTA 59.995 43.478 0.00 0.00 0.00 1.40
2360 3674 2.223947 GCCGTTGTTGAACCCTTGAATT 60.224 45.455 0.00 0.00 0.00 2.17
2376 3690 2.005960 CTAGAGCCGCAGTAGCCGTT 62.006 60.000 0.00 0.00 37.52 4.44
2377 3691 2.439701 TAGAGCCGCAGTAGCCGT 60.440 61.111 0.00 0.00 37.52 5.68
2382 3696 3.217017 CGCCCTAGAGCCGCAGTA 61.217 66.667 0.00 0.00 0.00 2.74
2393 3707 1.335132 CCCTAAGAACCAGCGCCCTA 61.335 60.000 2.29 0.00 0.00 3.53
2394 3708 2.670148 CCCTAAGAACCAGCGCCCT 61.670 63.158 2.29 0.00 0.00 5.19
2402 3716 0.035739 TGAACGTGCCCCTAAGAACC 59.964 55.000 0.00 0.00 0.00 3.62
2411 3725 1.464997 GAAGTCTTCATGAACGTGCCC 59.535 52.381 3.38 0.00 0.00 5.36
2413 3727 2.417719 AGGAAGTCTTCATGAACGTGC 58.582 47.619 14.49 0.29 0.00 5.34
2417 3731 5.346281 CGACAGTAAGGAAGTCTTCATGAAC 59.654 44.000 14.49 9.35 36.93 3.18
2418 3732 5.010719 ACGACAGTAAGGAAGTCTTCATGAA 59.989 40.000 14.49 8.12 36.93 2.57
2422 3736 3.887110 TGACGACAGTAAGGAAGTCTTCA 59.113 43.478 14.49 0.00 37.95 3.02
2423 3737 4.500603 TGACGACAGTAAGGAAGTCTTC 57.499 45.455 3.80 3.80 36.93 2.87
2426 3740 3.973657 TGTTGACGACAGTAAGGAAGTC 58.026 45.455 0.00 0.00 33.40 3.01
2441 3755 2.203480 TGGCCTGCCCTTGTTGAC 60.203 61.111 3.32 0.00 34.56 3.18
2444 3758 3.457329 AAGCTGGCCTGCCCTTGTT 62.457 57.895 28.96 14.77 34.56 2.83
2453 3767 1.056700 ACCCATATCGAAGCTGGCCT 61.057 55.000 3.32 0.00 0.00 5.19
2463 3777 2.343758 CCGCTCCCACCCATATCG 59.656 66.667 0.00 0.00 0.00 2.92
2500 3814 2.089349 GTCAGAACGAGCCGCACTC 61.089 63.158 0.00 0.00 42.47 3.51
2511 3825 2.150397 ACTACTGTTGCCGTCAGAAC 57.850 50.000 6.84 0.00 36.81 3.01
2605 4110 9.515226 TTGCCAAAAGAACTAACATCTACTATT 57.485 29.630 0.00 0.00 0.00 1.73
2606 4111 9.515226 TTTGCCAAAAGAACTAACATCTACTAT 57.485 29.630 0.00 0.00 0.00 2.12
2609 4114 8.865590 TTTTTGCCAAAAGAACTAACATCTAC 57.134 30.769 2.46 0.00 0.00 2.59
2730 4236 5.195185 TGTAGGACGACATACTTGTGGATA 58.805 41.667 10.70 0.00 35.79 2.59
2733 4239 3.861276 TGTAGGACGACATACTTGTGG 57.139 47.619 10.70 0.00 35.79 4.17


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

AutoCloner maintained by Alex Coulton.