Multiple sequence alignment - TraesCS4B01G351400

Loading Multiple Alignment...

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 TraesCS4B01G351400 chr4B 100.000 5543 0 0 1 5543 643628116 643633658 0.000000e+00 10237.0
1 TraesCS4B01G351400 chr4B 86.223 4638 549 45 913 5509 643528103 643532691 0.000000e+00 4942.0
2 TraesCS4B01G351400 chr4B 87.086 3957 455 34 948 4873 643481805 643485736 0.000000e+00 4425.0
3 TraesCS4B01G351400 chr4B 93.494 2813 154 13 34 2843 643534552 643537338 0.000000e+00 4154.0
4 TraesCS4B01G351400 chr4B 80.351 285 38 9 5181 5458 643538927 643539200 3.390000e-47 200.0
5 TraesCS4B01G351400 chr4D 93.492 5516 331 14 34 5543 500300006 500305499 0.000000e+00 8172.0
6 TraesCS4B01G351400 chr4D 86.385 4598 543 43 948 5500 500197145 500201704 0.000000e+00 4946.0
7 TraesCS4B01G351400 chr4D 81.960 704 85 23 4809 5500 500155372 500156045 4.850000e-155 558.0
8 TraesCS4B01G351400 chr5A 93.508 4698 274 20 1 4692 680980209 680984881 0.000000e+00 6957.0
9 TraesCS4B01G351400 chr5A 86.215 4447 488 69 913 5299 680865411 680869792 0.000000e+00 4700.0
10 TraesCS4B01G351400 chr5A 88.442 3634 393 12 913 4532 680921202 680924822 0.000000e+00 4359.0
11 TraesCS4B01G351400 chr5A 96.524 863 28 2 4683 5543 680985067 680985929 0.000000e+00 1426.0
12 TraesCS4B01G351400 chrUn 87.093 4548 511 38 955 5471 60417252 60412750 0.000000e+00 5077.0
13 TraesCS4B01G351400 chrUn 87.360 4019 447 33 955 4947 16761224 16757241 0.000000e+00 4551.0
14 TraesCS4B01G351400 chrUn 86.727 3511 380 44 1983 5450 60473869 60470402 0.000000e+00 3823.0
15 TraesCS4B01G351400 chrUn 78.125 640 103 21 4887 5509 285025599 285026218 6.780000e-99 372.0
16 TraesCS4B01G351400 chrUn 78.125 640 103 21 4887 5509 293569099 293568480 6.780000e-99 372.0
17 TraesCS4B01G351400 chrUn 80.747 348 49 11 5128 5468 16757235 16756899 7.130000e-64 255.0
18 TraesCS4B01G351400 chrUn 83.704 135 18 4 360 491 277589979 277589846 2.100000e-24 124.0
19 TraesCS4B01G351400 chrUn 97.872 47 1 0 57 103 277590257 277590211 1.280000e-11 82.4


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 TraesCS4B01G351400 chr4B 643628116 643633658 5542 False 10237.000000 10237 100.000000 1 5543 1 chr4B.!!$F2 5542
1 TraesCS4B01G351400 chr4B 643481805 643485736 3931 False 4425.000000 4425 87.086000 948 4873 1 chr4B.!!$F1 3925
2 TraesCS4B01G351400 chr4B 643528103 643539200 11097 False 3098.666667 4942 86.689333 34 5509 3 chr4B.!!$F3 5475
3 TraesCS4B01G351400 chr4D 500300006 500305499 5493 False 8172.000000 8172 93.492000 34 5543 1 chr4D.!!$F3 5509
4 TraesCS4B01G351400 chr4D 500197145 500201704 4559 False 4946.000000 4946 86.385000 948 5500 1 chr4D.!!$F2 4552
5 TraesCS4B01G351400 chr4D 500155372 500156045 673 False 558.000000 558 81.960000 4809 5500 1 chr4D.!!$F1 691
6 TraesCS4B01G351400 chr5A 680865411 680869792 4381 False 4700.000000 4700 86.215000 913 5299 1 chr5A.!!$F1 4386
7 TraesCS4B01G351400 chr5A 680921202 680924822 3620 False 4359.000000 4359 88.442000 913 4532 1 chr5A.!!$F2 3619
8 TraesCS4B01G351400 chr5A 680980209 680985929 5720 False 4191.500000 6957 95.016000 1 5543 2 chr5A.!!$F3 5542
9 TraesCS4B01G351400 chrUn 60412750 60417252 4502 True 5077.000000 5077 87.093000 955 5471 1 chrUn.!!$R1 4516
10 TraesCS4B01G351400 chrUn 60470402 60473869 3467 True 3823.000000 3823 86.727000 1983 5450 1 chrUn.!!$R2 3467
11 TraesCS4B01G351400 chrUn 16756899 16761224 4325 True 2403.000000 4551 84.053500 955 5468 2 chrUn.!!$R4 4513
12 TraesCS4B01G351400 chrUn 285025599 285026218 619 False 372.000000 372 78.125000 4887 5509 1 chrUn.!!$F1 622
13 TraesCS4B01G351400 chrUn 293568480 293569099 619 True 372.000000 372 78.125000 4887 5509 1 chrUn.!!$R3 622

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
485 488 0.392193 ACCGCTTCCAGCTGATTCAG 60.392 55.000 17.39 9.4 39.60 3.02 F
901 905 0.682209 CCTGTTGCTCCAATCCCCTG 60.682 60.000 0.00 0.0 0.00 4.45 F
907 911 0.688749 GCTCCAATCCCCTGCCATTT 60.689 55.000 0.00 0.0 0.00 2.32 F
908 912 1.411501 GCTCCAATCCCCTGCCATTTA 60.412 52.381 0.00 0.0 0.00 1.40 F
2545 9872 0.813821 GCTGGAGATTGGCAACCTTC 59.186 55.000 0.00 0.0 0.00 3.46 F
2694 10021 1.202758 ACTGTTGGCAATCTTGTCCGA 60.203 47.619 1.92 0.0 30.03 4.55 F
2976 10303 1.297968 TTCCATCATCCCTCAGCCAA 58.702 50.000 0.00 0.0 0.00 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1398 8718 1.160137 AAGCGTTGATGCTGAGGTTC 58.840 50.0 0.0 0.0 46.60 3.62 R
2521 9848 0.392461 TTGCCAATCTCCAGCGGTAC 60.392 55.0 0.0 0.0 0.00 3.34 R
2526 9853 0.813821 GAAGGTTGCCAATCTCCAGC 59.186 55.0 0.0 0.0 0.00 4.85 R
2870 10197 1.198094 TGGCATTCCTCCGGACAAGA 61.198 55.0 0.0 0.0 0.00 3.02 R
3704 11052 0.688749 GGCCTTGAAATCTGCCCCAT 60.689 55.0 0.0 0.0 37.94 4.00 R
3876 11224 2.287915 GCAATGTATAACTGGAGGTGCG 59.712 50.0 0.0 0.0 0.00 5.34 R
4746 12401 2.101415 TCCTGACTTCGCCATGTATGAG 59.899 50.0 0.0 0.0 0.00 2.90 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
53 54 7.765695 AATTTGTTAGACATCCAACTGACAT 57.234 32.000 0.00 0.00 33.86 3.06
54 55 8.862325 AATTTGTTAGACATCCAACTGACATA 57.138 30.769 0.00 0.00 33.86 2.29
55 56 8.862325 ATTTGTTAGACATCCAACTGACATAA 57.138 30.769 0.00 0.00 33.86 1.90
149 150 6.575162 AAAGGTTGTTAATTAGCAGGAGTG 57.425 37.500 2.13 0.00 0.00 3.51
154 155 4.832248 TGTTAATTAGCAGGAGTGTCTGG 58.168 43.478 0.00 0.00 35.43 3.86
163 164 3.244249 GCAGGAGTGTCTGGTACTTTCTT 60.244 47.826 0.00 0.00 35.43 2.52
199 200 4.566759 CGAGTCAAAAAGAGTCAGTCAACA 59.433 41.667 0.00 0.00 45.30 3.33
216 217 5.305644 AGTCAACAGTCTACAAGGATGAAGT 59.694 40.000 0.00 0.00 0.00 3.01
294 297 6.650120 TCTTCACCTTTCAGTGTACTTCTTT 58.350 36.000 0.00 0.00 38.91 2.52
295 298 6.761714 TCTTCACCTTTCAGTGTACTTCTTTC 59.238 38.462 0.00 0.00 38.91 2.62
296 299 5.984725 TCACCTTTCAGTGTACTTCTTTCA 58.015 37.500 0.00 0.00 38.91 2.69
297 300 6.411376 TCACCTTTCAGTGTACTTCTTTCAA 58.589 36.000 0.00 0.00 38.91 2.69
298 301 6.882140 TCACCTTTCAGTGTACTTCTTTCAAA 59.118 34.615 0.00 0.00 38.91 2.69
299 302 7.556275 TCACCTTTCAGTGTACTTCTTTCAAAT 59.444 33.333 0.00 0.00 38.91 2.32
300 303 7.645340 CACCTTTCAGTGTACTTCTTTCAAATG 59.355 37.037 0.00 0.00 32.89 2.32
301 304 7.556275 ACCTTTCAGTGTACTTCTTTCAAATGA 59.444 33.333 0.00 0.00 0.00 2.57
353 356 5.206299 CGACGATGATTAGTACCTTGAGAC 58.794 45.833 0.00 0.00 0.00 3.36
442 445 6.435164 ACAACTTGCTAGGAATCCCATATTT 58.565 36.000 0.00 0.00 33.88 1.40
444 447 7.400052 ACAACTTGCTAGGAATCCCATATTTTT 59.600 33.333 0.00 0.00 33.88 1.94
485 488 0.392193 ACCGCTTCCAGCTGATTCAG 60.392 55.000 17.39 9.40 39.60 3.02
494 497 2.202932 CTGATTCAGGGGTCGCCG 60.203 66.667 5.73 0.00 0.00 6.46
506 509 2.046796 TCGCCGGCAAGCACATAA 60.047 55.556 28.98 0.00 0.00 1.90
566 569 7.887381 TGTTGATTTCCACATTACCGTTAAAT 58.113 30.769 0.00 0.00 0.00 1.40
644 647 2.750141 ATCATCTGCTTTGGCTGGAT 57.250 45.000 0.00 0.00 39.59 3.41
753 757 6.057533 CCTGGAACAATGACTTGCAGATATA 58.942 40.000 6.67 0.00 38.70 0.86
755 759 7.067372 CCTGGAACAATGACTTGCAGATATAAA 59.933 37.037 6.67 0.00 38.70 1.40
883 887 4.067896 CCGCCCATTATGATATCATAGCC 58.932 47.826 21.60 10.90 39.69 3.93
901 905 0.682209 CCTGTTGCTCCAATCCCCTG 60.682 60.000 0.00 0.00 0.00 4.45
903 907 2.054453 GTTGCTCCAATCCCCTGCC 61.054 63.158 0.00 0.00 0.00 4.85
905 909 1.877672 TTGCTCCAATCCCCTGCCAT 61.878 55.000 0.00 0.00 0.00 4.40
906 910 1.075748 GCTCCAATCCCCTGCCATT 60.076 57.895 0.00 0.00 0.00 3.16
907 911 0.688749 GCTCCAATCCCCTGCCATTT 60.689 55.000 0.00 0.00 0.00 2.32
908 912 1.411501 GCTCCAATCCCCTGCCATTTA 60.412 52.381 0.00 0.00 0.00 1.40
909 913 2.954539 GCTCCAATCCCCTGCCATTTAA 60.955 50.000 0.00 0.00 0.00 1.52
910 914 3.373830 CTCCAATCCCCTGCCATTTAAA 58.626 45.455 0.00 0.00 0.00 1.52
911 915 3.969312 CTCCAATCCCCTGCCATTTAAAT 59.031 43.478 0.00 0.00 0.00 1.40
921 925 7.016661 TCCCCTGCCATTTAAATTTTAAAGTGA 59.983 33.333 16.88 0.00 0.00 3.41
940 949 2.135933 GAGTGAGGTACTGCAACACAC 58.864 52.381 0.00 8.87 41.55 3.82
1034 8354 2.332654 CCTTCTTGTTTCCGGGCCG 61.333 63.158 21.46 21.46 0.00 6.13
1398 8718 4.335647 AGCCGGCTCACCAACCTG 62.336 66.667 27.08 0.00 34.57 4.00
2054 9374 7.345653 TCCAACACTAGAGATATTGACCTTGAT 59.654 37.037 0.00 0.00 0.00 2.57
2075 9395 6.662755 TGATTATGAACAACTTATCTGGGCT 58.337 36.000 0.00 0.00 0.00 5.19
2231 9558 3.075882 AGTTTTGATGGACCAATCCCAGA 59.924 43.478 0.00 0.00 45.59 3.86
2358 9685 5.181245 CGATTTGGGACACAACAAGTTAGAT 59.819 40.000 0.00 0.00 39.29 1.98
2473 9800 6.327934 CCAAGTTCTATTGGCAATCTTTCAG 58.672 40.000 17.41 8.29 43.12 3.02
2514 9841 9.862371 TTGTTTCTAAGTAGCAACAAAATTTCA 57.138 25.926 12.06 0.00 43.07 2.69
2521 9848 4.326504 AGCAACAAAATTTCAGGACCTG 57.673 40.909 15.99 15.99 0.00 4.00
2526 9853 3.818773 ACAAAATTTCAGGACCTGTACCG 59.181 43.478 21.06 7.28 32.61 4.02
2528 9855 1.276622 ATTTCAGGACCTGTACCGCT 58.723 50.000 21.06 0.00 32.61 5.52
2545 9872 0.813821 GCTGGAGATTGGCAACCTTC 59.186 55.000 0.00 0.00 0.00 3.46
2621 9948 4.735662 CAACAATTGGGAAATTGCACAG 57.264 40.909 10.83 0.00 42.37 3.66
2644 9971 5.104360 AGCTTGGTCTATCTATCCTTTGCAA 60.104 40.000 0.00 0.00 0.00 4.08
2693 10020 1.238439 ACTGTTGGCAATCTTGTCCG 58.762 50.000 1.92 0.00 30.03 4.79
2694 10021 1.202758 ACTGTTGGCAATCTTGTCCGA 60.203 47.619 1.92 0.00 30.03 4.55
2716 10043 5.121380 ACTGAGTATGCTGGAATTGGATT 57.879 39.130 0.00 0.00 0.00 3.01
2727 10054 8.815565 TGCTGGAATTGGATTATAACAACTTA 57.184 30.769 0.00 0.00 0.00 2.24
2770 10097 1.417592 GCACGATGCACTCAACTCG 59.582 57.895 3.71 3.71 44.26 4.18
2819 10146 1.416401 AGATGGGCGTATACCAAGTGG 59.584 52.381 0.00 0.00 42.17 4.00
2870 10197 4.080863 AGAGTTGGACTTGTCAGACAACTT 60.081 41.667 12.24 2.15 44.38 2.66
2925 10252 6.757010 GCAATCTCATTCATCTGCAGAAAATT 59.243 34.615 22.50 0.00 0.00 1.82
2949 10276 5.705609 ACATGTCAAATAACAGGTTGTCC 57.294 39.130 0.00 0.00 41.00 4.02
2952 10279 3.181453 TGTCAAATAACAGGTTGTCCGGA 60.181 43.478 0.00 0.00 39.05 5.14
2958 10285 2.358322 ACAGGTTGTCCGGAAACATT 57.642 45.000 22.50 12.52 39.05 2.71
2976 10303 1.297968 TTCCATCATCCCTCAGCCAA 58.702 50.000 0.00 0.00 0.00 4.52
3007 10334 3.135348 TCTGGAGTATCTTGGGATGCAAG 59.865 47.826 0.00 0.00 37.09 4.01
3052 10379 5.798125 TCCACAATCATTTGCCAACTTAA 57.202 34.783 0.00 0.00 36.22 1.85
3177 10504 2.167075 CCATTTTGATGGAGCAGTTCCC 59.833 50.000 0.00 0.00 46.19 3.97
3204 10531 2.616376 CGGTGTTTTTGACATCACTGGA 59.384 45.455 0.00 0.00 39.45 3.86
3231 10558 7.404985 CAGTGTCAATCGAAGGAAATTATCAG 58.595 38.462 0.00 0.00 0.00 2.90
3241 10568 6.237942 CGAAGGAAATTATCAGCTGTGTACAG 60.238 42.308 14.67 7.64 46.40 2.74
3275 10602 5.106118 CGAGAGGTATGTCTCTTTGTTCAGA 60.106 44.000 0.00 0.00 43.51 3.27
3376 10717 7.945033 TTCTCCTTTATTGCAACAATTTGTC 57.055 32.000 0.00 0.00 34.90 3.18
3548 10896 4.405756 TTGGAAGGGTTTATAAGGGCAA 57.594 40.909 0.00 0.00 0.00 4.52
3704 11052 6.100279 ACCTTATGCTCTTCAGTGGATCATAA 59.900 38.462 0.00 0.00 33.59 1.90
3876 11224 5.581126 TGGATTATCTTCACAACCAATGC 57.419 39.130 0.00 0.00 0.00 3.56
3918 11266 3.487544 GCGACTTGAAGCCAACCAATATC 60.488 47.826 0.00 0.00 0.00 1.63
4099 11448 7.219484 AGATATTGGTTCTGTTTGTTCCTTG 57.781 36.000 0.00 0.00 0.00 3.61
4180 11533 3.320541 AGAGTATGGAATGAGCGAAGAGG 59.679 47.826 0.00 0.00 0.00 3.69
4305 11658 9.234384 CTTCATGAATTTGTTGATAGAGCATTC 57.766 33.333 8.96 0.00 0.00 2.67
4346 11699 1.423541 TGTTGACCCCACAATGCTACT 59.576 47.619 0.00 0.00 32.36 2.57
4452 11805 1.418334 AAGAGCGGCCAGATATGACT 58.582 50.000 2.24 0.00 0.00 3.41
4565 11918 7.516198 AGCAACAGAAGTTCATGTAAAGAAT 57.484 32.000 5.50 0.00 35.28 2.40
4688 12343 9.809096 TTGTTTCTGCTAATGTATGTTTTTCAA 57.191 25.926 0.00 0.00 0.00 2.69
4759 12416 6.447162 CAAAGTATCTACTCATACATGGCGA 58.553 40.000 0.00 0.00 34.99 5.54
4773 12430 0.756294 TGGCGAAGTCAGGAGTGAAA 59.244 50.000 0.00 0.00 36.97 2.69
4885 12553 5.441500 TCCAAACCTGACTGTACAATGAAA 58.558 37.500 0.00 0.00 0.00 2.69
5280 12965 3.136763 GGTATGTGAGGATCTCGTACGA 58.863 50.000 18.41 18.41 46.55 3.43
5290 12975 3.119919 GGATCTCGTACGACAGTGAGTTT 60.120 47.826 15.28 0.00 0.00 2.66
5306 12998 0.788391 GTTTGGGATGTCGTCGTGTC 59.212 55.000 0.00 0.00 0.00 3.67
5338 13037 1.215647 GGTCTCAACGAGGTCGCAT 59.784 57.895 0.00 0.00 44.43 4.73
5426 13126 0.465278 GCAGCTCCCCTTCCTCATTC 60.465 60.000 0.00 0.00 0.00 2.67
5503 13203 0.450983 GGACGTTGTAGTAGCTCGCT 59.549 55.000 0.00 0.00 0.00 4.93
5509 13209 1.669604 TGTAGTAGCTCGCTCTCCTG 58.330 55.000 0.00 0.00 0.00 3.86
5530 13230 1.729470 CCGTCTCCTCGATCACCCAG 61.729 65.000 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 7.653311 AGTTGGATGTCTAACAAATTTGCTTTC 59.347 33.333 18.12 6.14 39.43 2.62
64 65 1.463444 CCGGCTTACAAGGAAGAAACG 59.537 52.381 0.00 0.00 0.00 3.60
149 150 7.036829 GGATTCAGACTAAGAAAGTACCAGAC 58.963 42.308 0.00 0.00 39.07 3.51
154 155 7.086230 TCGAGGATTCAGACTAAGAAAGTAC 57.914 40.000 0.00 0.00 39.07 2.73
163 164 5.977489 TTTTGACTCGAGGATTCAGACTA 57.023 39.130 18.41 0.00 0.00 2.59
199 200 4.160329 TGGTCACTTCATCCTTGTAGACT 58.840 43.478 0.00 0.00 0.00 3.24
294 297 4.553351 GCATCGAGCGATTTGATCATTTGA 60.553 41.667 2.12 0.00 30.45 2.69
295 298 3.662645 GCATCGAGCGATTTGATCATTTG 59.337 43.478 2.12 0.00 30.45 2.32
296 299 3.881795 GCATCGAGCGATTTGATCATTT 58.118 40.909 2.12 0.00 30.45 2.32
297 300 3.532892 GCATCGAGCGATTTGATCATT 57.467 42.857 2.12 0.00 30.45 2.57
353 356 9.025020 GTATAAGACGCATTGGATGATAGTATG 57.975 37.037 0.00 0.00 0.00 2.39
442 445 1.771854 TGGCACTCCACTTGGACTAAA 59.228 47.619 0.00 0.00 39.78 1.85
444 447 1.071699 GTTGGCACTCCACTTGGACTA 59.928 52.381 0.00 0.00 43.33 2.59
494 497 6.985645 TGATTAATTTGGATTATGTGCTTGCC 59.014 34.615 0.00 0.00 0.00 4.52
498 501 6.208644 GCGTGATTAATTTGGATTATGTGCT 58.791 36.000 0.00 0.00 0.00 4.40
506 509 2.942376 TGAGCGCGTGATTAATTTGGAT 59.058 40.909 8.43 0.00 0.00 3.41
585 588 7.761704 AGCGTACTATCTCTGGCAATTAATATG 59.238 37.037 0.00 0.00 0.00 1.78
644 647 1.462426 ATGGTTTGGTTGGGGTCCTA 58.538 50.000 0.00 0.00 0.00 2.94
753 757 8.037166 GGAAAATCTGCCTGAAACTCAATATTT 58.963 33.333 0.00 0.00 0.00 1.40
755 759 6.664816 TGGAAAATCTGCCTGAAACTCAATAT 59.335 34.615 0.00 0.00 0.00 1.28
854 858 0.754587 TCATAATGGGCGGCAATGCA 60.755 50.000 12.47 0.00 36.28 3.96
883 887 1.318158 GCAGGGGATTGGAGCAACAG 61.318 60.000 0.00 0.00 0.00 3.16
901 905 8.925700 CCTCACTCACTTTAAAATTTAAATGGC 58.074 33.333 10.85 0.00 0.00 4.40
907 911 8.780249 GCAGTACCTCACTCACTTTAAAATTTA 58.220 33.333 0.00 0.00 34.26 1.40
908 912 7.284489 TGCAGTACCTCACTCACTTTAAAATTT 59.716 33.333 0.00 0.00 34.26 1.82
909 913 6.770785 TGCAGTACCTCACTCACTTTAAAATT 59.229 34.615 0.00 0.00 34.26 1.82
910 914 6.296026 TGCAGTACCTCACTCACTTTAAAAT 58.704 36.000 0.00 0.00 34.26 1.82
911 915 5.676552 TGCAGTACCTCACTCACTTTAAAA 58.323 37.500 0.00 0.00 34.26 1.52
921 925 1.202651 GGTGTGTTGCAGTACCTCACT 60.203 52.381 11.16 0.00 38.32 3.41
940 949 4.036380 GCAAGAGGATGTTTAATTACGGGG 59.964 45.833 0.00 0.00 0.00 5.73
1034 8354 4.097286 AGAAGAGGTAGAGAAATCGACAGC 59.903 45.833 0.00 0.00 0.00 4.40
1153 8473 0.597898 GAAGATAGAACTCCGGCGGC 60.598 60.000 23.83 7.19 0.00 6.53
1215 8535 2.591715 GGTGTCACGCTGCAGGTT 60.592 61.111 17.12 0.00 0.00 3.50
1272 8592 1.595993 GCGCTATGGAGCCCGAGATA 61.596 60.000 0.00 0.00 46.86 1.98
1398 8718 1.160137 AAGCGTTGATGCTGAGGTTC 58.840 50.000 0.00 0.00 46.60 3.62
2054 9374 5.192927 CCAGCCCAGATAAGTTGTTCATAA 58.807 41.667 0.00 0.00 0.00 1.90
2128 9448 1.939934 TCTGCCGACAAGTGAGTTTTG 59.060 47.619 0.00 0.00 0.00 2.44
2231 9558 4.262678 GGTGGTAAGCTTTGAGAAGAGAGT 60.263 45.833 3.20 0.00 34.71 3.24
2358 9685 1.187974 CAAAGCCCCAATCATCTGCA 58.812 50.000 0.00 0.00 0.00 4.41
2473 9800 9.262358 ACTTAGAAACAAACACTCAAGACTATC 57.738 33.333 0.00 0.00 0.00 2.08
2514 9841 1.682684 CTCCAGCGGTACAGGTCCT 60.683 63.158 0.00 0.00 0.00 3.85
2521 9848 0.392461 TTGCCAATCTCCAGCGGTAC 60.392 55.000 0.00 0.00 0.00 3.34
2526 9853 0.813821 GAAGGTTGCCAATCTCCAGC 59.186 55.000 0.00 0.00 0.00 4.85
2528 9855 1.704628 TCTGAAGGTTGCCAATCTCCA 59.295 47.619 0.00 0.00 0.00 3.86
2545 9872 2.493675 TGTACAAGCTACTGAGGCTCTG 59.506 50.000 18.54 18.54 39.30 3.35
2621 9948 4.708177 TGCAAAGGATAGATAGACCAAGC 58.292 43.478 0.00 0.00 0.00 4.01
2644 9971 4.164843 TCTGACCTGTAAGCCTGTTTTT 57.835 40.909 0.00 0.00 0.00 1.94
2656 9983 4.357325 ACAGTATCTGGAATCTGACCTGT 58.643 43.478 10.49 0.00 35.51 4.00
2693 10020 4.142609 TCCAATTCCAGCATACTCAGTC 57.857 45.455 0.00 0.00 0.00 3.51
2694 10021 4.785346 ATCCAATTCCAGCATACTCAGT 57.215 40.909 0.00 0.00 0.00 3.41
2770 10097 1.740025 GTGAGCAAGGTTGAGTATGGC 59.260 52.381 0.00 0.00 0.00 4.40
2819 10146 7.902403 CAGAAAGCGTAGAGATTTTGAAGATTC 59.098 37.037 0.00 0.00 38.74 2.52
2870 10197 1.198094 TGGCATTCCTCCGGACAAGA 61.198 55.000 0.00 0.00 0.00 3.02
2877 10204 2.094675 ACTTCATTTGGCATTCCTCCG 58.905 47.619 0.00 0.00 0.00 4.63
2890 10217 5.988310 TGAATGAGATTGCCAACTTCATT 57.012 34.783 14.56 14.56 0.00 2.57
2925 10252 6.072948 CGGACAACCTGTTATTTGACATGTTA 60.073 38.462 0.00 0.00 36.61 2.41
2952 10279 3.294214 GCTGAGGGATGATGGAATGTTT 58.706 45.455 0.00 0.00 0.00 2.83
2958 10285 1.144298 CATTGGCTGAGGGATGATGGA 59.856 52.381 0.00 0.00 0.00 3.41
2965 10292 0.478072 ACAACACATTGGCTGAGGGA 59.522 50.000 0.00 0.00 40.42 4.20
2967 10294 2.030540 CAGAACAACACATTGGCTGAGG 60.031 50.000 6.40 0.00 41.33 3.86
2976 10303 5.248640 CCAAGATACTCCAGAACAACACAT 58.751 41.667 0.00 0.00 0.00 3.21
3052 10379 7.341256 AGAAACATCCATCTGTTTTATGCTGAT 59.659 33.333 3.94 0.00 46.50 2.90
3204 10531 2.839486 TTCCTTCGATTGACACTGCT 57.161 45.000 0.00 0.00 0.00 4.24
3231 10558 0.322456 TTGGGATGCCTGTACACAGC 60.322 55.000 4.35 6.24 42.47 4.40
3241 10568 0.759346 ATACCTCTCGTTGGGATGCC 59.241 55.000 0.00 0.00 0.00 4.40
3275 10602 4.142160 GCTTTCTTTTCCTGTCAACCACTT 60.142 41.667 0.00 0.00 0.00 3.16
3313 10640 5.941948 ACAACAGTTGGCAATAGAACTAC 57.058 39.130 17.76 0.00 31.09 2.73
3376 10717 1.745653 GGCTTTCATCCTTTTCCTCCG 59.254 52.381 0.00 0.00 0.00 4.63
3548 10896 6.002704 ACTTGATCTTCTTGAAACTGCAGAT 58.997 36.000 23.35 5.41 0.00 2.90
3601 10949 1.344953 AAGCTCCGATGTGCCCCATA 61.345 55.000 0.00 0.00 32.56 2.74
3704 11052 0.688749 GGCCTTGAAATCTGCCCCAT 60.689 55.000 0.00 0.00 37.94 4.00
3876 11224 2.287915 GCAATGTATAACTGGAGGTGCG 59.712 50.000 0.00 0.00 0.00 5.34
3918 11266 2.597455 ACCATGTCAAGACCCAAAAGG 58.403 47.619 0.00 0.00 43.78 3.11
4099 11448 6.811253 TCACCATTATTTGTACAACTCCAC 57.189 37.500 8.07 0.00 0.00 4.02
4180 11533 4.222124 AGACATCACCCTTGGTTGATAC 57.778 45.455 0.00 0.00 31.02 2.24
4305 11658 6.241207 ACAACCTCGTGAATATTCTTTGTG 57.759 37.500 16.24 7.86 0.00 3.33
4346 11699 3.250762 GTCAGTTGCACTGCTGTTATCAA 59.749 43.478 1.98 0.00 45.54 2.57
4452 11805 3.278668 AGGATCTCGGTAGAAACTCGA 57.721 47.619 0.00 0.00 34.73 4.04
4607 11978 5.489792 AGCTACCTCTGAAATGACTCAAA 57.510 39.130 0.00 0.00 0.00 2.69
4742 12397 3.951680 TGACTTCGCCATGTATGAGTAGA 59.048 43.478 0.00 0.00 0.00 2.59
4743 12398 4.294232 CTGACTTCGCCATGTATGAGTAG 58.706 47.826 0.00 0.00 0.00 2.57
4744 12399 3.068165 CCTGACTTCGCCATGTATGAGTA 59.932 47.826 0.00 0.00 0.00 2.59
4745 12400 2.159043 CCTGACTTCGCCATGTATGAGT 60.159 50.000 0.00 0.00 0.00 3.41
4746 12401 2.101415 TCCTGACTTCGCCATGTATGAG 59.899 50.000 0.00 0.00 0.00 2.90
4748 12403 2.159043 ACTCCTGACTTCGCCATGTATG 60.159 50.000 0.00 0.00 0.00 2.39
4749 12404 2.111384 ACTCCTGACTTCGCCATGTAT 58.889 47.619 0.00 0.00 0.00 2.29
4759 12416 4.640771 TTATGCCTTTCACTCCTGACTT 57.359 40.909 0.00 0.00 0.00 3.01
4773 12430 6.555711 AGATATTTAGGTGCCATTTATGCCT 58.444 36.000 0.00 0.00 0.00 4.75
4849 12517 4.513692 TCAGGTTTGGAACACTGATTTACG 59.486 41.667 0.00 0.00 39.29 3.18
4850 12518 5.531287 AGTCAGGTTTGGAACACTGATTTAC 59.469 40.000 12.05 4.42 39.29 2.01
4885 12553 7.587037 TGAATTGAAGTCCTTGTTTCAGAAT 57.413 32.000 0.00 0.00 35.01 2.40
5077 12753 0.035056 CCAGGGATTCACACTCCACC 60.035 60.000 0.00 0.00 34.24 4.61
5280 12965 1.416401 ACGACATCCCAAACTCACTGT 59.584 47.619 0.00 0.00 0.00 3.55
5290 12975 2.967397 GGACACGACGACATCCCA 59.033 61.111 0.00 0.00 0.00 4.37
5306 12998 3.221222 GACCATGGAGAGGTCGGG 58.779 66.667 21.47 0.00 45.35 5.14
5503 13203 2.043852 GAGGAGACGGCCAGGAGA 60.044 66.667 2.24 0.00 0.00 3.71
5509 13209 2.413765 GTGATCGAGGAGACGGCC 59.586 66.667 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.