Multiple sequence alignment - TraesCS6B01G204700

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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 TraesCS6B01G204700 chr6B 100.000 3803 0 0 757 4559 255271610 255267808 0.000000e+00 7023.0
1 TraesCS6B01G204700 chr6B 100.000 435 0 0 1 435 255272366 255271932 0.000000e+00 804.0
2 TraesCS6B01G204700 chr6B 94.000 150 9 0 1 150 255468432 255468283 1.280000e-55 228.0
3 TraesCS6B01G204700 chr6A 93.138 2900 130 29 863 3729 205101881 205104744 0.000000e+00 4189.0
4 TraesCS6B01G204700 chr6A 91.874 443 19 6 4129 4559 205105194 205105631 1.810000e-168 603.0
5 TraesCS6B01G204700 chr6A 93.143 350 18 5 3744 4093 205104854 205105197 4.070000e-140 508.0
6 TraesCS6B01G204700 chr6A 89.356 404 27 8 1 397 205101425 205101819 1.140000e-135 494.0
7 TraesCS6B01G204700 chr6A 96.552 58 1 1 790 847 205101829 205101885 1.350000e-15 95.3
8 TraesCS6B01G204700 chr6D 93.371 2836 135 23 785 3592 143403906 143401096 0.000000e+00 4146.0
9 TraesCS6B01G204700 chr6D 93.587 421 16 4 1 419 143404294 143403883 6.480000e-173 617.0
10 TraesCS6B01G204700 chr6D 86.329 395 38 9 4170 4554 143400598 143400210 2.540000e-112 416.0
11 TraesCS6B01G204700 chr6D 85.401 137 6 6 3622 3750 143401101 143400971 3.700000e-26 130.0
12 TraesCS6B01G204700 chr2B 78.363 171 26 10 3898 4064 497415879 497415716 2.900000e-17 100.0


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 TraesCS6B01G204700 chr6B 255267808 255272366 4558 True 3913.50 7023 100.0000 1 4559 2 chr6B.!!$R2 4558
1 TraesCS6B01G204700 chr6A 205101425 205105631 4206 False 1177.86 4189 92.8126 1 4559 5 chr6A.!!$F1 4558
2 TraesCS6B01G204700 chr6D 143400210 143404294 4084 True 1327.25 4146 89.6720 1 4554 4 chr6D.!!$R1 4553

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
964 978 0.033991 GGCTTTCCTTCCTCCCTTCC 60.034 60.0 0.0 0.0 0.00 3.46 F
1813 1858 0.032130 TTCGTTCTGTTGCTCTCGCT 59.968 50.0 0.0 0.0 36.97 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2806 2865 0.98423 CCTCCTGGGTTGCTCTACAA 59.016 55.0 0.00 0.0 35.33 2.41 R
3688 3755 0.84203 TGCTGGACCATGGAGAGGTT 60.842 55.0 21.47 0.0 40.09 3.50 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
38 39 5.262588 ACACCCTGATGAGAAACAAAAAC 57.737 39.130 0.00 0.00 0.00 2.43
52 53 4.655762 ACAAAAACAAGAGAAGAAGGGC 57.344 40.909 0.00 0.00 0.00 5.19
203 210 2.665603 GGAGGGCTCGAAGCTGTT 59.334 61.111 6.78 0.00 41.99 3.16
324 331 3.299977 CCCATCCATGCCGCCATG 61.300 66.667 0.00 0.00 46.70 3.66
397 406 3.005472 CCGTTTCCTTTTCCCTTTCCTTC 59.995 47.826 0.00 0.00 0.00 3.46
400 409 5.601662 GTTTCCTTTTCCCTTTCCTTCTTG 58.398 41.667 0.00 0.00 0.00 3.02
401 410 4.806952 TCCTTTTCCCTTTCCTTCTTGA 57.193 40.909 0.00 0.00 0.00 3.02
402 411 4.729868 TCCTTTTCCCTTTCCTTCTTGAG 58.270 43.478 0.00 0.00 0.00 3.02
403 412 4.168088 TCCTTTTCCCTTTCCTTCTTGAGT 59.832 41.667 0.00 0.00 0.00 3.41
404 413 4.895889 CCTTTTCCCTTTCCTTCTTGAGTT 59.104 41.667 0.00 0.00 0.00 3.01
405 414 5.010112 CCTTTTCCCTTTCCTTCTTGAGTTC 59.990 44.000 0.00 0.00 0.00 3.01
406 415 5.388599 TTTCCCTTTCCTTCTTGAGTTCT 57.611 39.130 0.00 0.00 0.00 3.01
407 416 4.357918 TCCCTTTCCTTCTTGAGTTCTG 57.642 45.455 0.00 0.00 0.00 3.02
408 417 2.816672 CCCTTTCCTTCTTGAGTTCTGC 59.183 50.000 0.00 0.00 0.00 4.26
409 418 2.816672 CCTTTCCTTCTTGAGTTCTGCC 59.183 50.000 0.00 0.00 0.00 4.85
410 419 3.497584 CCTTTCCTTCTTGAGTTCTGCCT 60.498 47.826 0.00 0.00 0.00 4.75
411 420 3.864789 TTCCTTCTTGAGTTCTGCCTT 57.135 42.857 0.00 0.00 0.00 4.35
412 421 3.409026 TCCTTCTTGAGTTCTGCCTTC 57.591 47.619 0.00 0.00 0.00 3.46
413 422 2.072298 CCTTCTTGAGTTCTGCCTTCG 58.928 52.381 0.00 0.00 0.00 3.79
414 423 2.289072 CCTTCTTGAGTTCTGCCTTCGA 60.289 50.000 0.00 0.00 0.00 3.71
415 424 3.594134 CTTCTTGAGTTCTGCCTTCGAT 58.406 45.455 0.00 0.00 0.00 3.59
416 425 3.685139 TCTTGAGTTCTGCCTTCGATT 57.315 42.857 0.00 0.00 0.00 3.34
417 426 4.008074 TCTTGAGTTCTGCCTTCGATTT 57.992 40.909 0.00 0.00 0.00 2.17
418 427 4.389374 TCTTGAGTTCTGCCTTCGATTTT 58.611 39.130 0.00 0.00 0.00 1.82
419 428 4.821805 TCTTGAGTTCTGCCTTCGATTTTT 59.178 37.500 0.00 0.00 0.00 1.94
779 788 6.575162 AATAAGTTCTGCCTTCGAATTTGT 57.425 33.333 0.00 0.00 0.00 2.83
780 789 7.681939 AATAAGTTCTGCCTTCGAATTTGTA 57.318 32.000 0.00 0.00 0.00 2.41
781 790 7.865706 ATAAGTTCTGCCTTCGAATTTGTAT 57.134 32.000 0.00 0.00 0.00 2.29
782 791 6.575162 AAGTTCTGCCTTCGAATTTGTATT 57.425 33.333 0.00 0.00 0.00 1.89
783 792 6.575162 AGTTCTGCCTTCGAATTTGTATTT 57.425 33.333 0.00 0.00 0.00 1.40
784 793 6.981722 AGTTCTGCCTTCGAATTTGTATTTT 58.018 32.000 0.00 0.00 0.00 1.82
785 794 7.433680 AGTTCTGCCTTCGAATTTGTATTTTT 58.566 30.769 0.00 0.00 0.00 1.94
815 824 3.596214 GTGCCTTCGAATTTGTAGAGGA 58.404 45.455 0.00 0.00 0.00 3.71
960 974 2.272471 CCGGCTTTCCTTCCTCCC 59.728 66.667 0.00 0.00 0.00 4.30
961 975 2.301738 CCGGCTTTCCTTCCTCCCT 61.302 63.158 0.00 0.00 0.00 4.20
962 976 1.685820 CGGCTTTCCTTCCTCCCTT 59.314 57.895 0.00 0.00 0.00 3.95
963 977 0.393132 CGGCTTTCCTTCCTCCCTTC 60.393 60.000 0.00 0.00 0.00 3.46
964 978 0.033991 GGCTTTCCTTCCTCCCTTCC 60.034 60.000 0.00 0.00 0.00 3.46
1052 1090 1.522569 GGAGGCTAGCGACCACAAT 59.477 57.895 19.39 0.00 0.00 2.71
1067 1105 2.302260 CACAATAGAGAGGAGCTCCGA 58.698 52.381 26.95 11.52 45.10 4.55
1068 1106 2.034053 CACAATAGAGAGGAGCTCCGAC 59.966 54.545 26.95 23.10 45.10 4.79
1095 1133 3.786635 ACGTCTCAGCTCATAAATGGAC 58.213 45.455 0.00 0.00 0.00 4.02
1180 1218 2.352032 CCCTCCGGTCCTGTGAGAC 61.352 68.421 0.00 0.00 35.95 3.36
1269 1307 0.521735 CTTTCCGGTAGCAGCAAACC 59.478 55.000 0.00 6.84 0.00 3.27
1397 1441 2.833794 TCGAAATGAGCCCGGATTTAG 58.166 47.619 0.73 1.26 0.00 1.85
1497 1542 6.636705 ACATAAAGCAGCACAAAATCATGAT 58.363 32.000 1.18 1.18 0.00 2.45
1498 1543 6.533723 ACATAAAGCAGCACAAAATCATGATG 59.466 34.615 9.46 0.50 35.33 3.07
1548 1593 2.290450 TGCTCATTGTCAGGATCAAGCA 60.290 45.455 0.00 0.00 0.00 3.91
1572 1617 1.215647 CTGTAGTCTCGGTGGTGGC 59.784 63.158 0.00 0.00 0.00 5.01
1624 1669 3.088789 AGTTCCTGTCGGAGTATGTCT 57.911 47.619 0.00 0.00 41.25 3.41
1711 1756 3.898123 TCAGCAAAGTAGAGAAGGACAGT 59.102 43.478 0.00 0.00 0.00 3.55
1753 1798 4.751600 TGCACTTCTGATACTGTTTGAGTG 59.248 41.667 0.00 0.00 35.96 3.51
1813 1858 0.032130 TTCGTTCTGTTGCTCTCGCT 59.968 50.000 0.00 0.00 36.97 4.93
1888 1943 5.385509 TCCTAAAGCCAAAAACATGCTAC 57.614 39.130 0.00 0.00 34.29 3.58
2029 2086 1.905354 GGCACCTTTTCTGCTGCCT 60.905 57.895 0.00 0.00 44.99 4.75
2037 2094 1.210204 TTTCTGCTGCCTCCCATCCT 61.210 55.000 0.00 0.00 0.00 3.24
2058 2115 3.780850 CTCACTAGGGATTTTGGGGTAGT 59.219 47.826 0.00 0.00 0.00 2.73
2066 2123 5.257816 AGGGATTTTGGGGTAGTATTTTCCT 59.742 40.000 0.00 0.00 0.00 3.36
2179 2238 7.396540 AAAGATGGTGGAGTGCTAAATAAAG 57.603 36.000 0.00 0.00 0.00 1.85
2188 2247 8.228464 GTGGAGTGCTAAATAAAGAAACTGTAC 58.772 37.037 0.00 0.00 0.00 2.90
2263 2322 1.973281 AGATGTGGCAACTTGGGCG 60.973 57.895 0.00 0.00 35.84 6.13
2290 2349 8.848474 ATATAAGAACATATACTTGTGGGCAC 57.152 34.615 0.00 0.00 0.00 5.01
2291 2350 4.844349 AGAACATATACTTGTGGGCACT 57.156 40.909 0.00 0.00 0.00 4.40
2292 2351 4.517285 AGAACATATACTTGTGGGCACTG 58.483 43.478 0.00 0.00 0.00 3.66
2293 2352 3.281727 ACATATACTTGTGGGCACTGG 57.718 47.619 0.00 0.00 0.00 4.00
2294 2353 2.092429 ACATATACTTGTGGGCACTGGG 60.092 50.000 0.00 0.00 0.00 4.45
2295 2354 1.959710 TATACTTGTGGGCACTGGGA 58.040 50.000 0.00 0.00 0.00 4.37
2296 2355 1.072266 ATACTTGTGGGCACTGGGAA 58.928 50.000 0.00 0.00 0.00 3.97
2427 2486 4.341502 CACGGGTTGCGGCTTTGG 62.342 66.667 0.00 0.00 0.00 3.28
2449 2508 1.477553 GGAATGTGGCACATCACCAT 58.522 50.000 32.52 21.12 44.52 3.55
2466 2525 2.993863 ACCATCCCTTTCACCCTAAACT 59.006 45.455 0.00 0.00 0.00 2.66
2519 2578 8.829373 AATTTTCAATTTCTAGTCCTGCCTAT 57.171 30.769 0.00 0.00 0.00 2.57
2540 2599 4.403015 TTGAACACATGTCACTATTGCG 57.597 40.909 0.00 0.00 0.00 4.85
2681 2740 0.174389 TGTTGGCAAACGCATGTTGT 59.826 45.000 0.00 0.00 39.30 3.32
2797 2856 1.343069 ACCCTCTCTGACCTGACAAC 58.657 55.000 0.00 0.00 0.00 3.32
2806 2865 3.572682 TCTGACCTGACAACGTGTAATCT 59.427 43.478 0.00 0.00 0.00 2.40
2947 3006 0.465097 AGACACATGCTATGCCTGGC 60.465 55.000 12.87 12.87 0.00 4.85
3077 3137 7.775053 TTGCTTACCCTGTCTTCATATTTTT 57.225 32.000 0.00 0.00 0.00 1.94
3129 3189 7.944554 TCTGAGGAAGAAAATGTAAACCAGAAT 59.055 33.333 0.00 0.00 29.54 2.40
3389 3449 7.786178 ATGCTATGCGTCTCTTTAATAAACA 57.214 32.000 0.00 0.00 0.00 2.83
3413 3473 0.874175 TTCACGAGTTGAGTGTGGCG 60.874 55.000 0.00 0.00 40.28 5.69
3417 3477 1.367840 GAGTTGAGTGTGGCGGACT 59.632 57.895 0.00 0.00 0.00 3.85
3433 3493 2.147150 GGACTGAGGCAGTTTCTGAAC 58.853 52.381 1.18 0.00 45.44 3.18
3445 3505 5.111989 CAGTTTCTGAACTCTGTGTTGAGA 58.888 41.667 7.51 7.51 44.85 3.27
3515 3575 8.184848 TGTTTTTATGTGTTTGATGAGAACGAA 58.815 29.630 0.00 0.00 0.00 3.85
3548 3608 1.154054 GATTTGCAACGCCGCATGA 60.154 52.632 0.00 0.00 42.62 3.07
3567 3627 6.401796 CGCATGAGTGTGATGATGTATAATGG 60.402 42.308 0.00 0.00 38.10 3.16
3576 3636 8.219868 TGTGATGATGTATAATGGTTCATCCTT 58.780 33.333 8.31 0.00 41.14 3.36
3663 3723 4.233632 TGGATAATGCATCACCTGTGAA 57.766 40.909 0.00 0.00 43.58 3.18
3688 3755 6.128035 ACTGAATGCGCATAGTATTGTTCAAA 60.128 34.615 25.61 0.00 35.27 2.69
3776 3946 7.446625 AGAGATTTTGTCTGTAGCTTGTTTCAT 59.553 33.333 0.00 0.00 37.29 2.57
3780 3950 6.785488 TTGTCTGTAGCTTGTTTCATACTG 57.215 37.500 0.00 0.00 0.00 2.74
4123 4326 8.671384 TGTGTAGTTATTTCTGCAGTTAAACT 57.329 30.769 14.67 19.01 31.39 2.66
4126 4329 9.116067 TGTAGTTATTTCTGCAGTTAAACTTGT 57.884 29.630 22.04 9.12 0.00 3.16
4195 4438 6.899393 AATATGTTCTCCATGTGTGTTTGT 57.101 33.333 0.00 0.00 34.86 2.83
4254 4507 7.106439 TGGTAAAATCTGCTTGAGTGAAAAA 57.894 32.000 0.00 0.00 0.00 1.94
4322 4575 9.740239 CACCAGATAATTGATGAGTTAAATTGG 57.260 33.333 0.00 0.00 0.00 3.16
4345 4598 3.428870 GTGAGTACAGGAACACATGAACG 59.571 47.826 0.00 0.00 34.05 3.95
4425 4680 8.557864 CATTGCCAAAAGAAATCAACAATACAA 58.442 29.630 0.00 0.00 0.00 2.41
4471 4729 0.111639 GTGAAGGGCCCAAGTAACCA 59.888 55.000 27.56 7.58 0.00 3.67
4472 4730 1.080638 TGAAGGGCCCAAGTAACCAT 58.919 50.000 27.56 0.00 0.00 3.55
4511 4771 3.682858 ACCATACGCAGACATACACAAAC 59.317 43.478 0.00 0.00 0.00 2.93
4512 4772 3.063452 CCATACGCAGACATACACAAACC 59.937 47.826 0.00 0.00 0.00 3.27
4513 4773 2.248280 ACGCAGACATACACAAACCA 57.752 45.000 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 3.937706 CACATACTGCCCTTCTTCTCTTG 59.062 47.826 0.00 0.00 0.00 3.02
52 53 4.564041 AGCAAAGACTGAGACACATACTG 58.436 43.478 0.00 0.00 0.00 2.74
127 134 5.893897 AATTCTCTGAATCTCAACTTGCC 57.106 39.130 0.00 0.00 0.00 4.52
346 353 0.881796 GACTACTGGGCCAAAACAGC 59.118 55.000 8.04 0.00 38.25 4.40
397 406 4.756084 AAAATCGAAGGCAGAACTCAAG 57.244 40.909 0.00 0.00 0.00 3.02
756 765 6.575162 ACAAATTCGAAGGCAGAACTTATT 57.425 33.333 3.35 0.00 0.00 1.40
757 766 7.865706 ATACAAATTCGAAGGCAGAACTTAT 57.134 32.000 3.35 0.00 0.00 1.73
758 767 7.681939 AATACAAATTCGAAGGCAGAACTTA 57.318 32.000 3.35 0.00 0.00 2.24
759 768 6.575162 AATACAAATTCGAAGGCAGAACTT 57.425 33.333 3.35 0.00 0.00 2.66
760 769 6.575162 AAATACAAATTCGAAGGCAGAACT 57.425 33.333 3.35 0.00 0.00 3.01
761 770 7.637709 AAAAATACAAATTCGAAGGCAGAAC 57.362 32.000 3.35 0.00 0.00 3.01
784 793 2.045561 TCGAAGGCACCACTCAAAAA 57.954 45.000 0.00 0.00 0.00 1.94
785 794 2.045561 TTCGAAGGCACCACTCAAAA 57.954 45.000 0.00 0.00 0.00 2.44
786 795 2.270352 ATTCGAAGGCACCACTCAAA 57.730 45.000 3.35 0.00 0.00 2.69
787 796 2.270352 AATTCGAAGGCACCACTCAA 57.730 45.000 3.35 0.00 0.00 3.02
793 802 2.678336 CCTCTACAAATTCGAAGGCACC 59.322 50.000 3.35 0.00 0.00 5.01
815 824 1.002087 GTGGACTCGGACACCAGATTT 59.998 52.381 0.00 0.00 34.21 2.17
928 939 1.095600 GCCGGGCTTTTCTCCTTTAG 58.904 55.000 12.87 0.00 0.00 1.85
1040 1078 3.215151 CTCCTCTCTATTGTGGTCGCTA 58.785 50.000 0.00 0.00 0.00 4.26
1041 1079 2.028130 CTCCTCTCTATTGTGGTCGCT 58.972 52.381 0.00 0.00 0.00 4.93
1042 1080 1.537135 GCTCCTCTCTATTGTGGTCGC 60.537 57.143 0.00 0.00 0.00 5.19
1043 1081 2.028130 AGCTCCTCTCTATTGTGGTCG 58.972 52.381 0.00 0.00 0.00 4.79
1052 1090 1.146485 CGGTCGGAGCTCCTCTCTA 59.854 63.158 29.73 7.77 41.60 2.43
1067 1105 3.575351 GAGCTGAGACGTTGCCGGT 62.575 63.158 1.90 0.00 38.78 5.28
1068 1106 2.811317 GAGCTGAGACGTTGCCGG 60.811 66.667 0.00 0.00 38.78 6.13
1073 1111 4.184629 GTCCATTTATGAGCTGAGACGTT 58.815 43.478 0.00 0.00 0.00 3.99
1194 1232 0.609662 TACGTCACCCAGGCTTTACC 59.390 55.000 0.00 0.00 39.61 2.85
1204 1242 1.080025 GCACACTCCTACGTCACCC 60.080 63.158 0.00 0.00 0.00 4.61
1269 1307 4.583489 TCCTAACTAGGCGGAATACTTCAG 59.417 45.833 0.00 0.00 43.31 3.02
1397 1441 5.470098 TGGCCGATTAGAGCTTTTATTGATC 59.530 40.000 0.00 0.00 0.00 2.92
1481 1525 4.104696 TGCTCATCATGATTTTGTGCTG 57.895 40.909 17.82 3.54 32.61 4.41
1497 1542 2.493500 CCTATATGGGTCTCCCTGCTCA 60.494 54.545 6.38 0.00 45.70 4.26
1498 1543 2.183679 CCTATATGGGTCTCCCTGCTC 58.816 57.143 6.38 0.00 45.70 4.26
1548 1593 2.963782 ACCACCGAGACTACAGAAGTTT 59.036 45.455 0.00 0.00 39.07 2.66
1572 1617 3.594603 TGGAGGAAGCTAGACGAAAAG 57.405 47.619 0.00 0.00 0.00 2.27
1624 1669 4.937620 GGAAAGAACACTCAGCATCATGTA 59.062 41.667 0.00 0.00 0.00 2.29
1711 1756 0.463654 AAGACGCAAACCTGACAGCA 60.464 50.000 0.00 0.00 0.00 4.41
1737 1782 3.675225 CGTGTCCACTCAAACAGTATCAG 59.325 47.826 0.00 0.00 32.21 2.90
1753 1798 2.069273 CAAAGTCATCTCCACGTGTCC 58.931 52.381 15.65 0.00 0.00 4.02
1813 1858 4.944930 ACGGAAAATCGGAAATTACATGGA 59.055 37.500 0.00 0.00 0.00 3.41
1870 1915 6.758254 ACTAATGTAGCATGTTTTTGGCTTT 58.242 32.000 0.00 0.00 39.01 3.51
1912 1969 9.209175 CTGAAGCAGTATAAACCAATATAGACC 57.791 37.037 0.00 0.00 0.00 3.85
1971 2028 5.448225 GCATATGAATGGTAGGCAATCATCG 60.448 44.000 6.97 0.00 33.17 3.84
2037 2094 3.810623 ACTACCCCAAAATCCCTAGTGA 58.189 45.455 0.00 0.00 0.00 3.41
2066 2123 9.787435 AACATCACTGAACTTTAGGTATTTACA 57.213 29.630 0.00 0.00 0.00 2.41
2179 2238 6.554334 TTCTGCATAACCTTGTACAGTTTC 57.446 37.500 5.88 0.00 0.00 2.78
2188 2247 6.813152 CCCTTACAAATTTCTGCATAACCTTG 59.187 38.462 0.00 0.00 0.00 3.61
2229 2288 4.877823 CCACATCTGCAAGTCTAAAGCATA 59.122 41.667 0.00 0.00 37.68 3.14
2263 2322 9.938280 TGCCCACAAGTATATGTTCTTATATAC 57.062 33.333 0.00 0.00 42.67 1.47
2290 2349 2.756760 CCATCAACAATCACCTTCCCAG 59.243 50.000 0.00 0.00 0.00 4.45
2291 2350 2.557229 CCCATCAACAATCACCTTCCCA 60.557 50.000 0.00 0.00 0.00 4.37
2292 2351 2.102578 CCCATCAACAATCACCTTCCC 58.897 52.381 0.00 0.00 0.00 3.97
2293 2352 2.102578 CCCCATCAACAATCACCTTCC 58.897 52.381 0.00 0.00 0.00 3.46
2294 2353 2.102578 CCCCCATCAACAATCACCTTC 58.897 52.381 0.00 0.00 0.00 3.46
2295 2354 1.715931 TCCCCCATCAACAATCACCTT 59.284 47.619 0.00 0.00 0.00 3.50
2296 2355 1.285962 CTCCCCCATCAACAATCACCT 59.714 52.381 0.00 0.00 0.00 4.00
2347 2406 2.036256 CTGAAGCCAACCCCAGGG 59.964 66.667 0.00 0.00 42.03 4.45
2427 2486 1.000233 TGATGTGCCACATTCCCCC 60.000 57.895 12.36 0.00 39.27 5.40
2449 2508 4.019591 GCTCTAAGTTTAGGGTGAAAGGGA 60.020 45.833 1.09 0.00 33.70 4.20
2466 2525 5.422331 AGGTAGTATGCACAGAAAGCTCTAA 59.578 40.000 0.00 0.00 0.00 2.10
2519 2578 3.812609 ACGCAATAGTGACATGTGTTCAA 59.187 39.130 1.15 0.00 34.35 2.69
2540 2599 4.192317 TGGCAAATGTGTAAACCCAAAAC 58.808 39.130 0.00 0.00 0.00 2.43
2681 2740 4.959210 TGGATGTTCCCAAAAAGACAGAAA 59.041 37.500 0.00 0.00 35.03 2.52
2749 2808 6.003326 TCAGCAGGAAAAGTGACATCAATTA 58.997 36.000 0.00 0.00 32.55 1.40
2797 2856 3.617263 GGGTTGCTCTACAAGATTACACG 59.383 47.826 0.00 0.00 39.50 4.49
2806 2865 0.984230 CCTCCTGGGTTGCTCTACAA 59.016 55.000 0.00 0.00 35.33 2.41
2947 3006 2.163818 TTACGCTCTTGGGAAGTGTG 57.836 50.000 0.00 0.00 38.20 3.82
3036 3096 8.040727 GGGTAAGCAATAATGTCCAAAAAGATT 58.959 33.333 0.00 0.00 0.00 2.40
3077 3137 4.214310 TGATGAGAAGGTTTGCCTGAAAA 58.786 39.130 0.00 0.00 46.33 2.29
3129 3189 8.292444 TCAATCTTTTCTTCTTCTTTTGGACA 57.708 30.769 0.00 0.00 0.00 4.02
3282 3342 3.092301 GAGGGCCTTTTTAATGTGCTCT 58.908 45.455 7.89 0.00 34.93 4.09
3389 3449 4.154195 GCCACACTCAACTCGTGAAATTAT 59.846 41.667 0.00 0.00 35.22 1.28
3413 3473 2.147150 GTTCAGAAACTGCCTCAGTCC 58.853 52.381 0.00 0.00 44.62 3.85
3417 3477 2.435805 ACAGAGTTCAGAAACTGCCTCA 59.564 45.455 14.77 0.00 45.80 3.86
3433 3493 2.351253 CCAGACGAGTCTCAACACAGAG 60.351 54.545 2.29 0.00 37.98 3.35
3515 3575 6.859508 CGTTGCAAATCACAAGCATATATGAT 59.140 34.615 17.10 7.36 38.19 2.45
3548 3608 7.663081 GGATGAACCATTATACATCATCACACT 59.337 37.037 14.00 0.00 45.12 3.55
3567 3627 7.500559 AGCATAGGATTTCTAACAAGGATGAAC 59.499 37.037 0.00 0.00 0.00 3.18
3576 3636 6.611642 ACCTACAGAGCATAGGATTTCTAACA 59.388 38.462 5.08 0.00 41.70 2.41
3617 3677 9.764363 CATACATAACTATAGCTCAAAGGTCAA 57.236 33.333 0.00 0.00 0.00 3.18
3618 3678 8.367911 CCATACATAACTATAGCTCAAAGGTCA 58.632 37.037 0.00 0.00 0.00 4.02
3642 3702 3.929955 TCACAGGTGATGCATTATCCA 57.070 42.857 0.00 0.00 34.77 3.41
3651 3711 2.159612 CGCATTCAGTTCACAGGTGATG 60.160 50.000 2.52 0.00 39.64 3.07
3663 3723 4.875536 TGAACAATACTATGCGCATTCAGT 59.124 37.500 30.42 27.07 0.00 3.41
3688 3755 0.842030 TGCTGGACCATGGAGAGGTT 60.842 55.000 21.47 0.00 40.09 3.50
3931 4101 8.267620 ACTTGTATCATCAGATCCATCCTTAA 57.732 34.615 0.00 0.00 35.67 1.85
3932 4102 7.862274 ACTTGTATCATCAGATCCATCCTTA 57.138 36.000 0.00 0.00 35.67 2.69
3933 4103 6.760440 ACTTGTATCATCAGATCCATCCTT 57.240 37.500 0.00 0.00 35.67 3.36
4046 4249 0.106569 TATACTCCCTCCGTTCCGCA 60.107 55.000 0.00 0.00 0.00 5.69
4097 4300 9.284968 AGTTTAACTGCAGAAATAACTACACAT 57.715 29.630 23.35 0.00 0.00 3.21
4098 4301 8.671384 AGTTTAACTGCAGAAATAACTACACA 57.329 30.769 23.35 0.00 0.00 3.72
4099 4302 9.382244 CAAGTTTAACTGCAGAAATAACTACAC 57.618 33.333 23.35 10.82 0.00 2.90
4100 4303 9.116067 ACAAGTTTAACTGCAGAAATAACTACA 57.884 29.630 23.35 0.00 0.00 2.74
4101 4304 9.595357 GACAAGTTTAACTGCAGAAATAACTAC 57.405 33.333 23.35 11.74 0.00 2.73
4102 4305 9.555727 AGACAAGTTTAACTGCAGAAATAACTA 57.444 29.630 23.35 0.39 0.00 2.24
4103 4306 8.451908 AGACAAGTTTAACTGCAGAAATAACT 57.548 30.769 23.35 18.95 0.00 2.24
4107 4310 9.066892 TGAATAGACAAGTTTAACTGCAGAAAT 57.933 29.630 23.35 8.69 0.00 2.17
4108 4311 8.445275 TGAATAGACAAGTTTAACTGCAGAAA 57.555 30.769 23.35 11.47 0.00 2.52
4109 4312 7.931407 TCTGAATAGACAAGTTTAACTGCAGAA 59.069 33.333 23.35 4.90 0.00 3.02
4110 4313 7.441836 TCTGAATAGACAAGTTTAACTGCAGA 58.558 34.615 23.35 0.00 0.00 4.26
4111 4314 7.600375 TCTCTGAATAGACAAGTTTAACTGCAG 59.400 37.037 13.48 13.48 0.00 4.41
4112 4315 7.441836 TCTCTGAATAGACAAGTTTAACTGCA 58.558 34.615 0.00 0.00 0.00 4.41
4113 4316 7.891183 TCTCTGAATAGACAAGTTTAACTGC 57.109 36.000 0.00 0.00 0.00 4.40
4126 4329 8.831738 AGGCTACAGATAGTATCTCTGAATAGA 58.168 37.037 9.84 0.00 42.22 1.98
4254 4507 4.091509 CGACTTATACTTGCGCAAAAGACT 59.908 41.667 29.45 14.56 0.00 3.24
4289 4542 6.127814 ACTCATCAATTATCTGGTGTGCAAAG 60.128 38.462 0.00 0.00 0.00 2.77
4322 4575 3.678056 TCATGTGTTCCTGTACTCACC 57.322 47.619 0.00 0.00 0.00 4.02
4345 4598 5.063564 GGACTGATTCCGACAATAACAAGTC 59.936 44.000 0.00 0.00 33.46 3.01
4363 4617 5.810587 GCTTGTAAGATTCGTATTGGACTGA 59.189 40.000 0.00 0.00 0.00 3.41
4374 4628 3.684305 TGTGATGTGGCTTGTAAGATTCG 59.316 43.478 0.00 0.00 0.00 3.34
4425 4680 3.261897 CCAGAGATGTACTTGTGGTTCCT 59.738 47.826 0.00 0.00 31.98 3.36
4471 4729 5.612725 ATGGTTGTTTCTTGTTGTTGGAT 57.387 34.783 0.00 0.00 0.00 3.41
4472 4730 5.449314 CGTATGGTTGTTTCTTGTTGTTGGA 60.449 40.000 0.00 0.00 0.00 3.53
4511 4771 0.322816 CCTTCCTGGGATGTGTGTGG 60.323 60.000 0.00 0.00 0.00 4.17
4512 4772 3.254629 CCTTCCTGGGATGTGTGTG 57.745 57.895 0.00 0.00 0.00 3.82


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

AutoCloner maintained by Alex Coulton.