Multiple sequence alignment - TraesCS6B01G392500

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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 TraesCS6B01G392500 chr6B 100.000 5065 0 0 1 5065 667782402 667777338 0.000000e+00 9354.0
1 TraesCS6B01G392500 chr6B 91.288 1848 137 14 2506 4338 298822172 298820334 0.000000e+00 2499.0
2 TraesCS6B01G392500 chr6B 89.868 1747 165 9 772 2515 298824262 298822525 0.000000e+00 2235.0
3 TraesCS6B01G392500 chr6B 85.795 176 20 3 192 366 298825109 298824938 1.120000e-41 182.0
4 TraesCS6B01G392500 chr6D 95.990 2943 95 13 410 3345 441770499 441767573 0.000000e+00 4759.0
5 TraesCS6B01G392500 chr6D 90.560 3284 271 19 1065 4338 163334907 163338161 0.000000e+00 4311.0
6 TraesCS6B01G392500 chr6D 98.068 414 8 0 1 414 441784366 441783953 0.000000e+00 721.0
7 TraesCS6B01G392500 chr6D 96.028 428 17 0 3661 4088 441759830 441759403 0.000000e+00 697.0
8 TraesCS6B01G392500 chr6D 97.514 362 8 1 4559 4919 441752015 441751654 7.200000e-173 617.0
9 TraesCS6B01G392500 chr6D 95.278 360 15 1 4155 4514 441754369 441754012 2.050000e-158 569.0
10 TraesCS6B01G392500 chr6D 92.073 328 26 0 3341 3668 441765306 441764979 3.570000e-126 462.0
11 TraesCS6B01G392500 chr6D 95.270 148 6 1 4918 5065 441751494 441751348 3.050000e-57 233.0
12 TraesCS6B01G392500 chr6D 89.362 188 15 4 4 190 441828748 441828565 1.100000e-56 231.0
13 TraesCS6B01G392500 chr6A 93.852 2570 124 16 2504 5065 591021544 591019001 0.000000e+00 3840.0
14 TraesCS6B01G392500 chr6A 91.626 2460 200 5 1022 3477 223555287 223557744 0.000000e+00 3397.0
15 TraesCS6B01G392500 chr6A 95.000 1580 64 6 943 2508 591024772 591023194 0.000000e+00 2466.0
16 TraesCS6B01G392500 chr6A 94.204 949 44 8 1 946 591075739 591074799 0.000000e+00 1437.0
17 TraesCS6B01G392500 chr6A 91.931 694 49 3 3473 4163 223560010 223560699 0.000000e+00 965.0
18 TraesCS6B01G392500 chr1A 84.211 95 14 1 4871 4965 477044628 477044535 1.940000e-14 91.6


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 TraesCS6B01G392500 chr6B 667777338 667782402 5064 True 9354.000000 9354 100.000000 1 5065 1 chr6B.!!$R1 5064
1 TraesCS6B01G392500 chr6B 298820334 298825109 4775 True 1638.666667 2499 88.983667 192 4338 3 chr6B.!!$R2 4146
2 TraesCS6B01G392500 chr6D 163334907 163338161 3254 False 4311.000000 4311 90.560000 1065 4338 1 chr6D.!!$F1 3273
3 TraesCS6B01G392500 chr6D 441764979 441770499 5520 True 2610.500000 4759 94.031500 410 3668 2 chr6D.!!$R5 3258
4 TraesCS6B01G392500 chr6D 441751348 441754369 3021 True 473.000000 617 96.020667 4155 5065 3 chr6D.!!$R4 910
5 TraesCS6B01G392500 chr6A 591019001 591024772 5771 True 3153.000000 3840 94.426000 943 5065 2 chr6A.!!$R2 4122
6 TraesCS6B01G392500 chr6A 223555287 223560699 5412 False 2181.000000 3397 91.778500 1022 4163 2 chr6A.!!$F1 3141
7 TraesCS6B01G392500 chr6A 591074799 591075739 940 True 1437.000000 1437 94.204000 1 946 1 chr6A.!!$R1 945

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
237 238 0.106569 CCTATGAGGCAATGGCACCA 60.107 55.0 10.05 6.97 43.71 4.17 F
396 548 0.529833 CTCACGTCACAGAGCCAGAT 59.470 55.0 0.00 0.00 0.00 2.90 F
1779 2124 1.114119 TGCTGCAAGGCACAATTCCA 61.114 50.0 0.00 0.00 37.29 3.53 F
2955 5317 0.037590 TAATGCTTGTGGGTTCGGCT 59.962 50.0 0.00 0.00 0.00 5.52 F
3520 10430 0.600057 CCCCAAGTTCAGAGCAAAGC 59.400 55.0 0.00 0.00 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2112 2457 2.749621 CAGCTCGCCAGAAAGGTTATTT 59.250 45.455 0.00 0.0 40.61 1.40 R
2367 2712 1.880027 AGACGTGAAAAGTTCCATGGC 59.120 47.619 6.96 0.0 0.00 4.40 R
3049 5411 0.036306 AGCCCGGAAAGAACATCGTT 59.964 50.000 0.73 0.0 0.00 3.85 R
4011 10921 0.037605 GCATGCTGCAGGCTTCTTTT 60.038 50.000 29.54 0.0 44.26 2.27 R
4398 11320 1.269448 GCAAATTTCCCTCGCACTTCA 59.731 47.619 0.00 0.0 0.00 3.02 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
28 29 1.135315 CGATTGTTCTACGGTTCGGGA 60.135 52.381 0.00 0.00 0.00 5.14
106 107 6.034591 CACCTGTAGTAAATAGTGAAGGACG 58.965 44.000 0.00 0.00 0.00 4.79
107 108 5.126707 ACCTGTAGTAAATAGTGAAGGACGG 59.873 44.000 0.00 0.00 0.00 4.79
109 110 6.199937 TGTAGTAAATAGTGAAGGACGGAC 57.800 41.667 0.00 0.00 0.00 4.79
136 137 8.900983 AGATTCAAGATCTAAATACTTGGCTC 57.099 34.615 0.00 0.00 40.60 4.70
139 140 7.423844 TCAAGATCTAAATACTTGGCTCAGA 57.576 36.000 0.00 0.00 40.60 3.27
145 146 4.357918 AAATACTTGGCTCAGACAGTGT 57.642 40.909 0.00 0.00 0.00 3.55
148 149 2.598565 ACTTGGCTCAGACAGTGTCTA 58.401 47.619 25.04 12.66 41.37 2.59
154 155 3.312828 GCTCAGACAGTGTCTACAAGTG 58.687 50.000 25.04 12.90 41.37 3.16
170 171 8.664798 GTCTACAAGTGCAATAATATTGACACA 58.335 33.333 26.33 12.51 32.71 3.72
173 174 5.505173 AGTGCAATAATATTGACACAGGC 57.495 39.130 26.33 10.79 32.71 4.85
215 216 4.816385 ACGTCAACATGAACTTCTGATGTT 59.184 37.500 8.48 8.48 40.20 2.71
216 217 5.296780 ACGTCAACATGAACTTCTGATGTTT 59.703 36.000 9.88 0.00 38.06 2.83
218 219 6.792250 CGTCAACATGAACTTCTGATGTTTAC 59.208 38.462 9.88 6.86 38.06 2.01
237 238 0.106569 CCTATGAGGCAATGGCACCA 60.107 55.000 10.05 6.97 43.71 4.17
336 337 6.649557 ACCAGAAACTGTTTTATTAGGAGACG 59.350 38.462 7.28 0.00 0.00 4.18
392 544 2.941453 TAATCTCACGTCACAGAGCC 57.059 50.000 0.00 0.00 0.00 4.70
396 548 0.529833 CTCACGTCACAGAGCCAGAT 59.470 55.000 0.00 0.00 0.00 2.90
431 583 6.939730 TGTGTGATTGTTTGAGGAATTAGCTA 59.060 34.615 0.00 0.00 0.00 3.32
502 660 7.144234 TGGGCTTATGCTTTTACTAAGGATA 57.856 36.000 0.13 0.00 39.59 2.59
640 799 8.571461 ACTTATCCATCACCATAATGCTTATG 57.429 34.615 8.22 8.22 42.06 1.90
730 892 7.861629 ACATCTCATTAACTGTCTTGGGATTA 58.138 34.615 0.00 0.00 0.00 1.75
734 896 7.993183 TCTCATTAACTGTCTTGGGATTATTCC 59.007 37.037 0.00 0.00 41.77 3.01
757 919 3.425404 CCCATTGTATGAAAGCGAAACG 58.575 45.455 0.00 0.00 0.00 3.60
766 928 3.347443 TGAAAGCGAAACGAAAACGAAG 58.653 40.909 0.00 0.00 0.00 3.79
1030 1357 5.621193 ACAATTACTGTGTTAGCTTCCTGT 58.379 37.500 0.00 0.00 36.69 4.00
1527 1872 4.070716 CAAAGCTCAAGTCACTGATCCTT 58.929 43.478 0.00 0.00 0.00 3.36
1779 2124 1.114119 TGCTGCAAGGCACAATTCCA 61.114 50.000 0.00 0.00 37.29 3.53
2112 2457 5.928839 GCTAGTCAATCTTGAAGTCTGTGAA 59.071 40.000 0.00 0.00 39.21 3.18
2172 2517 8.149647 TGCTTCAACAGGAAATTAAATGACATT 58.850 29.630 0.00 0.00 34.44 2.71
2274 2619 8.684386 TGTACAACAATCATTTTACTGGAGAA 57.316 30.769 0.00 0.00 0.00 2.87
2367 2712 0.253327 GGACCTTTCCTACCCAGCTG 59.747 60.000 6.78 6.78 39.13 4.24
2437 2782 1.478105 CCATTCCAACTTTAGCAGGCC 59.522 52.381 0.00 0.00 0.00 5.19
2785 5147 6.017275 GGAAATTCCAACATCATTGCAAAACA 60.017 34.615 7.23 0.00 36.28 2.83
2844 5206 6.511416 CCTCTGTGTCTCATCGAATAATTCT 58.489 40.000 0.00 0.00 0.00 2.40
2847 5209 9.689976 CTCTGTGTCTCATCGAATAATTCTATT 57.310 33.333 0.00 0.00 0.00 1.73
2850 5212 8.421002 TGTGTCTCATCGAATAATTCTATTCCA 58.579 33.333 0.00 0.00 40.20 3.53
2880 5242 0.467844 TCTGCAGGGCAAGAGCAAAA 60.468 50.000 15.13 0.00 44.61 2.44
2937 5299 5.642063 CCTCTTTTTCGTTCTTGCCAGTATA 59.358 40.000 0.00 0.00 0.00 1.47
2955 5317 0.037590 TAATGCTTGTGGGTTCGGCT 59.962 50.000 0.00 0.00 0.00 5.52
2960 5322 2.406452 CTTGTGGGTTCGGCTGTTGC 62.406 60.000 0.00 0.00 38.76 4.17
2977 5339 5.371115 TGTTGCTGGTTTCTTGCTATTAC 57.629 39.130 0.00 0.00 0.00 1.89
2994 5356 7.338710 TGCTATTACAGAGGCAAAAGAATAGT 58.661 34.615 0.00 0.00 31.18 2.12
3001 5363 6.944862 ACAGAGGCAAAAGAATAGTCAAGATT 59.055 34.615 0.00 0.00 0.00 2.40
3023 5385 3.384789 TCTCTATCATGGAAACTGACCCG 59.615 47.826 0.00 0.00 0.00 5.28
3049 5411 2.259266 TGCACTGCATTTCACAGAGA 57.741 45.000 0.00 0.00 38.55 3.10
3051 5413 2.291465 TGCACTGCATTTCACAGAGAAC 59.709 45.455 0.00 0.00 38.55 3.01
3063 5425 4.307432 TCACAGAGAACGATGTTCTTTCC 58.693 43.478 12.97 1.93 0.00 3.13
3069 5431 0.899720 ACGATGTTCTTTCCGGGCTA 59.100 50.000 0.00 0.00 0.00 3.93
3167 5530 6.093633 GGTAGTAGAATGGTGGCTGTTAAAAG 59.906 42.308 0.00 0.00 0.00 2.27
3306 5669 2.883386 CTCAGAGGCAAAGCTTCTTGTT 59.117 45.455 0.00 0.00 42.23 2.83
3325 5688 6.762187 TCTTGTTTACGAGTACATGGAAAACA 59.238 34.615 1.48 1.48 34.55 2.83
3338 5701 6.296026 ACATGGAAAACAGTAGCTTAGACAA 58.704 36.000 0.00 0.00 0.00 3.18
3372 8012 6.722328 TCAGAGAGATAGAGTTGGTTCACTA 58.278 40.000 0.00 0.00 0.00 2.74
3456 8096 3.939740 ATGCACCATGATAGTTCACCT 57.060 42.857 0.00 0.00 33.85 4.00
3498 10408 7.898014 TGTCAAGTCTGCTAATATCCTTCTA 57.102 36.000 0.00 0.00 0.00 2.10
3505 10415 5.087323 CTGCTAATATCCTTCTAGACCCCA 58.913 45.833 0.00 0.00 0.00 4.96
3520 10430 0.600057 CCCCAAGTTCAGAGCAAAGC 59.400 55.000 0.00 0.00 0.00 3.51
3531 10441 1.002544 AGAGCAAAGCTAGCCGACTTT 59.997 47.619 12.13 2.13 39.88 2.66
3544 10454 2.282462 ACTTTGGGCTTGCTCGGG 60.282 61.111 0.00 0.00 0.00 5.14
3567 10477 2.903784 TCTTCTCAAAACCGGAGATCCA 59.096 45.455 9.46 0.00 40.82 3.41
3570 10480 0.690192 TCAAAACCGGAGATCCAGCA 59.310 50.000 9.46 0.00 35.14 4.41
3583 10493 1.097232 TCCAGCATCAATTTCTGCCG 58.903 50.000 5.57 0.00 39.22 5.69
3626 10536 5.103940 ACATGGCACCAGGTAAGAAATAGAT 60.104 40.000 4.94 0.00 39.28 1.98
3630 10540 6.101150 TGGCACCAGGTAAGAAATAGATATGT 59.899 38.462 0.00 0.00 0.00 2.29
3631 10541 6.428159 GGCACCAGGTAAGAAATAGATATGTG 59.572 42.308 0.00 0.00 0.00 3.21
3852 10762 3.834489 ATCAAGAGTATGGCCTGTCAG 57.166 47.619 3.32 0.00 0.00 3.51
3892 10802 2.821969 ACATTCAAGATCCAGCCAACAC 59.178 45.455 0.00 0.00 0.00 3.32
3978 10888 3.777478 CCATCAATGAAGGATGTGTTGC 58.223 45.455 0.00 0.00 40.38 4.17
3992 10902 1.664965 GTTGCACGCTCTTCTCCGT 60.665 57.895 0.00 0.00 38.35 4.69
3995 10905 0.944311 TGCACGCTCTTCTCCGTTTC 60.944 55.000 0.00 0.00 35.17 2.78
4011 10921 5.239351 TCCGTTTCGAACATAAATCAAGGA 58.761 37.500 0.00 0.00 0.00 3.36
4043 10953 0.175302 AGCATGCTGTCTCCGAAGAG 59.825 55.000 21.98 0.00 41.93 2.85
4078 10988 8.212312 TCTAGAATCCTAGAATAACTGACGACT 58.788 37.037 0.00 0.00 46.09 4.18
4090 11000 9.453325 GAATAACTGACGACTTAGAGGAATAAG 57.547 37.037 0.00 0.00 38.49 1.73
4134 11044 6.734104 ATAATCTAGCATGAGAATTTCCGC 57.266 37.500 0.00 0.00 0.00 5.54
4148 11061 2.399511 TTCCGCGTGCAAATGGTGTG 62.400 55.000 4.92 0.00 0.00 3.82
4153 11066 1.367102 GTGCAAATGGTGTGGGTGG 59.633 57.895 0.00 0.00 0.00 4.61
4201 11114 9.439500 ACATGCTAGTTTACGTTATCCTTTTTA 57.561 29.630 0.00 0.00 0.00 1.52
4318 11240 5.063180 TGCAGACCAAATATTTGCTGAAG 57.937 39.130 26.81 15.70 36.86 3.02
4398 11320 9.467796 ACATTTAGCTTTCTTAGAAGGCTAATT 57.532 29.630 35.17 30.45 36.10 1.40
4399 11321 9.727627 CATTTAGCTTTCTTAGAAGGCTAATTG 57.272 33.333 35.17 34.01 36.10 2.32
4432 11354 6.267014 AGGGAAATTTGCATATTCTCATGAGG 59.733 38.462 22.42 7.19 0.00 3.86
4454 11376 8.999431 TGAGGAGAAGTGACAATTTTATTGTAC 58.001 33.333 5.12 5.08 31.96 2.90
4492 11414 1.847506 TTGCTGAGCCTGAAGGGGA 60.848 57.895 0.23 0.00 35.18 4.81
4754 13630 4.690748 ACATGTGTGTGAATGTAGTACAGC 59.309 41.667 9.25 4.25 37.14 4.40
4981 14019 6.206634 TGTTCACATGTATGAAAGAACTTCCC 59.793 38.462 19.31 1.12 40.22 3.97
4985 14023 4.610605 TGTATGAAAGAACTTCCCGTCA 57.389 40.909 0.00 0.00 32.53 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.135315 TCCCGAACCGTAGAACAATCG 60.135 52.381 0.00 0.00 0.00 3.34
106 107 8.973378 CAAGTATTTAGATCTTGAATCTCGTCC 58.027 37.037 0.00 0.00 40.35 4.79
107 108 8.973378 CCAAGTATTTAGATCTTGAATCTCGTC 58.027 37.037 0.00 0.00 40.35 4.20
109 110 7.655328 AGCCAAGTATTTAGATCTTGAATCTCG 59.345 37.037 0.00 0.00 40.35 4.04
136 137 3.097877 TGCACTTGTAGACACTGTCTG 57.902 47.619 20.19 7.23 43.30 3.51
139 140 8.668353 CAATATTATTGCACTTGTAGACACTGT 58.332 33.333 3.56 0.00 0.00 3.55
145 146 8.785329 TGTGTCAATATTATTGCACTTGTAGA 57.215 30.769 26.19 14.05 32.07 2.59
148 149 6.625740 GCCTGTGTCAATATTATTGCACTTGT 60.626 38.462 26.19 0.00 32.07 3.16
154 155 5.505173 ACAGCCTGTGTCAATATTATTGC 57.495 39.130 10.92 7.45 31.90 3.56
186 187 4.816385 AGAAGTTCATGTTGACGTTCATGT 59.184 37.500 20.29 8.51 41.22 3.21
187 188 5.050159 TCAGAAGTTCATGTTGACGTTCATG 60.050 40.000 17.24 17.24 41.64 3.07
215 216 2.422803 GGTGCCATTGCCTCATAGGTAA 60.423 50.000 0.00 0.00 44.04 2.85
216 217 1.142870 GGTGCCATTGCCTCATAGGTA 59.857 52.381 0.00 0.00 37.80 3.08
218 219 0.106569 TGGTGCCATTGCCTCATAGG 60.107 55.000 0.00 0.00 38.80 2.57
237 238 3.715648 AGACTTCTGGATCACCCCTAT 57.284 47.619 0.00 0.00 34.81 2.57
336 337 2.875080 ACGCTAGTGCATTTCGTTTC 57.125 45.000 2.40 0.00 39.64 2.78
392 544 7.092137 ACAATCACACAATCAATACCATCTG 57.908 36.000 0.00 0.00 0.00 2.90
396 548 7.282332 TCAAACAATCACACAATCAATACCA 57.718 32.000 0.00 0.00 0.00 3.25
431 583 2.306805 TGGATCAGCTCATCTTGTGGTT 59.693 45.455 0.00 0.00 0.00 3.67
502 660 0.040058 TTGCCCAGCATCACCATCTT 59.960 50.000 0.00 0.00 38.76 2.40
673 832 7.646446 AAGTTGGTTTTGTTTTCTACAACAC 57.354 32.000 0.00 0.00 46.09 3.32
734 896 2.051334 TCGCTTTCATACAATGGGGG 57.949 50.000 0.00 0.00 0.00 5.40
741 903 4.025896 TCGTTTTCGTTTCGCTTTCATACA 60.026 37.500 0.00 0.00 44.46 2.29
757 919 4.684242 CCCTGTTATTTTGGCTTCGTTTTC 59.316 41.667 0.00 0.00 0.00 2.29
766 928 1.824852 CACCCTCCCTGTTATTTTGGC 59.175 52.381 0.00 0.00 0.00 4.52
864 1189 3.184628 TGGTCAAGATGTTCTCCTCCAT 58.815 45.455 0.00 0.00 0.00 3.41
1030 1357 4.883585 AGAAATCAGTGCAGTGAAGAACAA 59.116 37.500 27.19 3.75 0.00 2.83
1527 1872 4.097551 TCCATCAAACTGATTGGTGTCA 57.902 40.909 9.61 0.00 46.76 3.58
1779 2124 3.117550 TCTTATGCTGCCATACCCATGTT 60.118 43.478 0.00 0.00 33.79 2.71
2112 2457 2.749621 CAGCTCGCCAGAAAGGTTATTT 59.250 45.455 0.00 0.00 40.61 1.40
2172 2517 9.743057 CCAGAAAAGTTATTATTGAACACAACA 57.257 29.630 0.00 0.00 0.00 3.33
2274 2619 2.306805 TGACCAGATGCTCTTGGTGAAT 59.693 45.455 10.60 0.00 31.31 2.57
2367 2712 1.880027 AGACGTGAAAAGTTCCATGGC 59.120 47.619 6.96 0.00 0.00 4.40
2437 2782 5.649782 ACTGCCCTGAATACTTTCATTTG 57.350 39.130 0.00 0.00 40.95 2.32
2785 5147 4.021916 AGGAAGCTTTGCTCATATGCTTT 58.978 39.130 0.00 0.00 42.95 3.51
2844 5206 5.129155 CCTGCAGAATGGGAAATTTGGAATA 59.871 40.000 17.39 0.00 35.86 1.75
2847 5209 2.833338 CCTGCAGAATGGGAAATTTGGA 59.167 45.455 17.39 0.00 35.86 3.53
2850 5212 1.556451 GCCCTGCAGAATGGGAAATTT 59.444 47.619 17.39 0.00 46.15 1.82
2860 5222 0.467844 TTTGCTCTTGCCCTGCAGAA 60.468 50.000 17.39 0.00 40.61 3.02
2862 5224 0.390124 TTTTTGCTCTTGCCCTGCAG 59.610 50.000 6.78 6.78 40.61 4.41
2880 5242 5.398353 CCTCCTGGAGATATCATTGTTGGTT 60.398 44.000 25.18 0.00 34.57 3.67
2922 5284 4.094887 ACAAGCATTATACTGGCAAGAACG 59.905 41.667 0.00 0.00 0.00 3.95
2937 5299 1.228552 AGCCGAACCCACAAGCATT 60.229 52.632 0.00 0.00 0.00 3.56
2955 5317 4.824537 TGTAATAGCAAGAAACCAGCAACA 59.175 37.500 0.00 0.00 0.00 3.33
2960 5322 4.333926 GCCTCTGTAATAGCAAGAAACCAG 59.666 45.833 0.00 0.00 0.00 4.00
2977 5339 6.998968 ATCTTGACTATTCTTTTGCCTCTG 57.001 37.500 0.00 0.00 0.00 3.35
3001 5363 3.384789 CGGGTCAGTTTCCATGATAGAGA 59.615 47.826 0.00 0.00 0.00 3.10
3015 5377 2.351276 GCATGGAACCGGGTCAGT 59.649 61.111 23.64 5.85 0.00 3.41
3049 5411 0.036306 AGCCCGGAAAGAACATCGTT 59.964 50.000 0.73 0.00 0.00 3.85
3051 5413 1.867233 CATAGCCCGGAAAGAACATCG 59.133 52.381 0.73 0.00 0.00 3.84
3069 5431 2.306805 TCCAATCCAGTTCTGCTCACAT 59.693 45.455 0.00 0.00 0.00 3.21
3167 5530 0.582005 GTTCTGCGCGTTCCATATCC 59.418 55.000 8.43 0.00 0.00 2.59
3237 5600 0.948623 TGTTTGTGTGCCGGATCTCG 60.949 55.000 5.05 0.00 38.88 4.04
3306 5669 5.865552 GCTACTGTTTTCCATGTACTCGTAA 59.134 40.000 0.00 0.00 0.00 3.18
3325 5688 2.354203 GCAGCCACTTGTCTAAGCTACT 60.354 50.000 0.00 0.00 37.43 2.57
3338 5701 1.498264 ATCTCTCTGATGCAGCCACT 58.502 50.000 0.00 0.00 33.43 4.00
3456 8096 1.003464 ACATCACAGTGCACTATGGCA 59.997 47.619 24.23 7.14 42.53 4.92
3498 10408 1.140312 TTGCTCTGAACTTGGGGTCT 58.860 50.000 0.00 0.00 0.00 3.85
3505 10415 2.431454 GGCTAGCTTTGCTCTGAACTT 58.569 47.619 15.72 0.00 40.44 2.66
3531 10441 2.748058 GAAGAACCCGAGCAAGCCCA 62.748 60.000 0.00 0.00 0.00 5.36
3544 10454 3.685272 GGATCTCCGGTTTTGAGAAGAAC 59.315 47.826 0.00 0.00 41.87 3.01
3567 10477 2.292267 CCTACGGCAGAAATTGATGCT 58.708 47.619 13.17 0.22 42.19 3.79
3588 10498 1.663695 CCATGTAGCCAAAGGTACCG 58.336 55.000 6.18 0.00 44.68 4.02
3877 10787 2.373169 TCTTCAGTGTTGGCTGGATCTT 59.627 45.455 0.00 0.00 37.12 2.40
3978 10888 0.386858 TCGAAACGGAGAAGAGCGTG 60.387 55.000 0.00 0.00 0.00 5.34
3992 10902 9.677567 CTTCTTTTCCTTGATTTATGTTCGAAA 57.322 29.630 0.00 0.00 0.00 3.46
3995 10905 6.528072 GGCTTCTTTTCCTTGATTTATGTTCG 59.472 38.462 0.00 0.00 0.00 3.95
4011 10921 0.037605 GCATGCTGCAGGCTTCTTTT 60.038 50.000 29.54 0.00 44.26 2.27
4119 11029 0.863119 GCACGCGGAAATTCTCATGC 60.863 55.000 12.47 2.67 0.00 4.06
4134 11044 1.007502 CACCCACACCATTTGCACG 60.008 57.895 0.00 0.00 0.00 5.34
4148 11061 4.584743 AGAGAATGAAACAGAAAACCACCC 59.415 41.667 0.00 0.00 0.00 4.61
4153 11066 8.749499 CATGTGAAAGAGAATGAAACAGAAAAC 58.251 33.333 0.00 0.00 0.00 2.43
4201 11114 2.079158 CCACAAGCTTCATGTCGACAT 58.921 47.619 25.18 25.18 36.96 3.06
4347 11269 2.247358 CATACACCCTGGCCAAAAAGT 58.753 47.619 7.01 6.34 0.00 2.66
4398 11320 1.269448 GCAAATTTCCCTCGCACTTCA 59.731 47.619 0.00 0.00 0.00 3.02
4399 11321 1.269448 TGCAAATTTCCCTCGCACTTC 59.731 47.619 0.00 0.00 0.00 3.01
4454 11376 6.703607 CAGCAACTAGATTGGAGTAACCTATG 59.296 42.308 0.00 0.00 38.88 2.23
4492 11414 2.831770 CATAGCGCCACCCCATCT 59.168 61.111 2.29 0.00 0.00 2.90
4538 11460 3.949754 GGCCTAAACATTACCCCTGTAAC 59.050 47.826 0.00 0.00 39.66 2.50
4544 11466 3.222603 CTCATGGCCTAAACATTACCCC 58.777 50.000 3.32 0.00 0.00 4.95
4588 13462 6.872670 TTTCGGATTTTGTGTGTGTTTTAC 57.127 33.333 0.00 0.00 0.00 2.01
4735 13609 4.556233 TCAGCTGTACTACATTCACACAC 58.444 43.478 14.67 0.00 0.00 3.82
4736 13610 4.864704 TCAGCTGTACTACATTCACACA 57.135 40.909 14.67 0.00 0.00 3.72
4954 13992 8.299570 GGAAGTTCTTTCATACATGTGAACATT 58.700 33.333 20.28 13.69 37.80 2.71
4960 13998 4.695455 ACGGGAAGTTCTTTCATACATGTG 59.305 41.667 9.11 0.00 37.54 3.21


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

AutoCloner maintained by Alex Coulton.