Multiple sequence alignment - TraesCS7B01G217400

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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 TraesCS7B01G217400 chr7B 100.000 4084 0 0 1 4084 400924214 400928297 0.000000e+00 7542.0
1 TraesCS7B01G217400 chr7B 80.751 639 81 30 1118 1734 400637579 400638197 1.030000e-125 460.0
2 TraesCS7B01G217400 chr7A 96.123 2012 61 11 732 2736 452757396 452755395 0.000000e+00 3267.0
3 TraesCS7B01G217400 chr7A 94.024 753 20 7 2750 3498 452755269 452754538 0.000000e+00 1118.0
4 TraesCS7B01G217400 chr7A 89.065 695 50 11 3 690 452758280 452757605 0.000000e+00 839.0
5 TraesCS7B01G217400 chr7A 79.692 714 103 28 1049 1734 450965739 450966438 1.030000e-130 477.0
6 TraesCS7B01G217400 chr7A 87.925 265 27 2 3618 3877 452754437 452754173 1.430000e-79 307.0
7 TraesCS7B01G217400 chr7A 93.714 175 8 1 3541 3712 708262728 708262554 4.050000e-65 259.0
8 TraesCS7B01G217400 chr7A 94.891 137 6 1 3886 4021 452754128 452753992 3.200000e-51 213.0
9 TraesCS7B01G217400 chr7A 90.141 71 2 2 3498 3568 452754503 452754438 2.020000e-13 87.9
10 TraesCS7B01G217400 chr7D 94.932 1539 50 21 1962 3492 397196406 397197924 0.000000e+00 2385.0
11 TraesCS7B01G217400 chr7D 96.675 1203 25 9 732 1924 397195204 397196401 0.000000e+00 1986.0
12 TraesCS7B01G217400 chr7D 90.115 698 41 14 1 692 397194319 397194994 0.000000e+00 881.0
13 TraesCS7B01G217400 chr7D 81.447 636 90 23 1115 1734 396985142 396985765 2.840000e-136 496.0
14 TraesCS7B01G217400 chr7D 90.741 216 10 5 3877 4084 397198180 397198393 3.110000e-71 279.0
15 TraesCS7B01G217400 chr7D 93.714 175 8 1 3541 3712 381945804 381945630 4.050000e-65 259.0
16 TraesCS7B01G217400 chr3A 94.286 175 7 1 3541 3712 718992272 718992098 8.700000e-67 265.0
17 TraesCS7B01G217400 chrUn 93.714 175 8 1 3541 3712 171035464 171035638 4.050000e-65 259.0
18 TraesCS7B01G217400 chr6B 93.714 175 8 1 3541 3712 388165086 388164912 4.050000e-65 259.0
19 TraesCS7B01G217400 chr6A 93.714 175 8 1 3541 3712 561399191 561399017 4.050000e-65 259.0
20 TraesCS7B01G217400 chr4D 93.714 175 8 1 3541 3712 398049600 398049426 4.050000e-65 259.0
21 TraesCS7B01G217400 chr1D 93.714 175 8 1 3541 3712 275761816 275761990 4.050000e-65 259.0


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 TraesCS7B01G217400 chr7B 400924214 400928297 4083 False 7542.000000 7542 100.000000 1 4084 1 chr7B.!!$F2 4083
1 TraesCS7B01G217400 chr7B 400637579 400638197 618 False 460.000000 460 80.751000 1118 1734 1 chr7B.!!$F1 616
2 TraesCS7B01G217400 chr7A 452753992 452758280 4288 True 971.983333 3267 92.028167 3 4021 6 chr7A.!!$R2 4018
3 TraesCS7B01G217400 chr7A 450965739 450966438 699 False 477.000000 477 79.692000 1049 1734 1 chr7A.!!$F1 685
4 TraesCS7B01G217400 chr7D 397194319 397198393 4074 False 1382.750000 2385 93.115750 1 4084 4 chr7D.!!$F2 4083
5 TraesCS7B01G217400 chr7D 396985142 396985765 623 False 496.000000 496 81.447000 1115 1734 1 chr7D.!!$F1 619

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
958 1149 0.195096 ACCCCAGAACCCTAACCAGA 59.805 55.0 0.00 0.0 0.00 3.86 F
1965 2213 0.109342 GCATGCCACCTAGCCTGTAT 59.891 55.0 6.36 0.0 31.74 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2551 2800 1.004277 GCCAACAGAATAGACCACCCA 59.996 52.381 0.0 0.0 0.00 4.51 R
3709 4115 0.249031 GAACGCATTAGCAATGGCCC 60.249 55.000 0.0 0.0 42.56 5.80 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
142 143 3.010138 CCTTTTCCCTGACTTATGTGGGA 59.990 47.826 3.42 3.42 46.04 4.37
161 162 2.937149 GGAAATAGAGAGGAAACACGCC 59.063 50.000 0.00 0.00 0.00 5.68
162 163 3.596214 GAAATAGAGAGGAAACACGCCA 58.404 45.455 0.00 0.00 0.00 5.69
164 165 1.334160 TAGAGAGGAAACACGCCACA 58.666 50.000 0.00 0.00 0.00 4.17
186 187 3.813724 ACCTTTCCTTCGCACTAGTTTTC 59.186 43.478 0.00 0.00 0.00 2.29
257 258 9.125026 TCTTCTCTGTTTTCTTTGCTTCTTAAT 57.875 29.630 0.00 0.00 0.00 1.40
258 259 9.741647 CTTCTCTGTTTTCTTTGCTTCTTAATT 57.258 29.630 0.00 0.00 0.00 1.40
509 517 3.642141 ACAACCTTGTGAAATGTCCCTT 58.358 40.909 0.00 0.00 40.49 3.95
876 1067 3.864686 GCAACGCGGCGTGATCAT 61.865 61.111 30.10 10.13 39.99 2.45
877 1068 2.321060 CAACGCGGCGTGATCATC 59.679 61.111 30.10 0.00 39.99 2.92
895 1086 4.401022 TCATCATGGATCTAAATGGGCAC 58.599 43.478 0.00 0.00 0.00 5.01
958 1149 0.195096 ACCCCAGAACCCTAACCAGA 59.805 55.000 0.00 0.00 0.00 3.86
992 1183 4.056125 CACCACTCGCGCCTCTCA 62.056 66.667 0.00 0.00 0.00 3.27
1001 1192 4.821589 CGCCTCTCACGCCCTTCC 62.822 72.222 0.00 0.00 0.00 3.46
1002 1193 4.475135 GCCTCTCACGCCCTTCCC 62.475 72.222 0.00 0.00 0.00 3.97
1003 1194 4.148825 CCTCTCACGCCCTTCCCG 62.149 72.222 0.00 0.00 0.00 5.14
1106 1303 0.676466 CCTTCACTGCCACCGCAATA 60.676 55.000 0.00 0.00 46.66 1.90
1166 1374 2.244117 GACGCAGGAAGGGCATCTCA 62.244 60.000 0.00 0.00 0.00 3.27
1490 1717 2.234908 CCCCTCGTCTTTCTCAGATTGT 59.765 50.000 0.00 0.00 32.60 2.71
1914 2162 4.451629 ACGTGTTAGGTACTTCAGATGG 57.548 45.455 0.00 0.00 41.75 3.51
1955 2203 1.137404 GTCGTCAATGCATGCCACC 59.863 57.895 16.68 0.00 0.00 4.61
1962 2210 0.754217 AATGCATGCCACCTAGCCTG 60.754 55.000 16.68 0.00 0.00 4.85
1965 2213 0.109342 GCATGCCACCTAGCCTGTAT 59.891 55.000 6.36 0.00 31.74 2.29
2041 2289 8.993424 AGAGAAATGGGATTCTAAGCTACTTAA 58.007 33.333 0.00 0.00 39.70 1.85
2197 2446 7.083858 TGATGCAATAGTTTGACTTGTAAAGC 58.916 34.615 0.00 0.00 39.42 3.51
2303 2552 4.612264 AAATGACTTCAATTTGCCAGCT 57.388 36.364 0.00 0.00 0.00 4.24
2306 2555 2.036217 TGACTTCAATTTGCCAGCTTGG 59.964 45.455 0.00 0.00 41.55 3.61
2324 2573 7.301054 CAGCTTGGTAATGTTAACTTCTTCTG 58.699 38.462 7.22 0.03 0.00 3.02
2443 2692 4.019792 TGCAACTGGTTGTGATACTGAT 57.980 40.909 13.85 0.00 42.31 2.90
2686 2940 2.062971 CAGCCATTTATGAGGGTGCT 57.937 50.000 0.00 0.00 45.18 4.40
2741 2996 4.572909 AGGCAAAGGTACTAACTAAACCG 58.427 43.478 0.00 0.00 38.49 4.44
2742 2997 4.040829 AGGCAAAGGTACTAACTAAACCGT 59.959 41.667 0.00 0.00 38.49 4.83
2743 2998 4.152938 GGCAAAGGTACTAACTAAACCGTG 59.847 45.833 0.00 0.00 38.49 4.94
2747 3002 7.570161 CAAAGGTACTAACTAAACCGTGAAAG 58.430 38.462 0.00 0.00 38.49 2.62
2804 3171 6.808008 CCGAAGGCAGTTCAATGATAATAT 57.192 37.500 0.00 0.00 46.14 1.28
2808 3175 8.993121 CGAAGGCAGTTCAATGATAATATTACT 58.007 33.333 0.00 0.00 34.44 2.24
2810 3177 9.632638 AAGGCAGTTCAATGATAATATTACTGT 57.367 29.630 9.74 0.00 32.81 3.55
2868 3235 3.129287 GGCCTGGATGAATTTGTACACAG 59.871 47.826 0.00 0.00 0.00 3.66
2918 3285 4.396166 AGCATTTCCGTTGGACTTATCTTG 59.604 41.667 0.00 0.00 0.00 3.02
2941 3308 9.547753 CTTGTAGTATTCCTAATGTATGTTGCT 57.452 33.333 0.00 0.00 0.00 3.91
2988 3355 9.771915 CAAATGTTTTGCTAACACAATTCTTTT 57.228 25.926 7.05 1.31 32.37 2.27
3232 3599 8.514330 TGTTATAATGTACCCAGATTTTGTCC 57.486 34.615 0.00 0.00 0.00 4.02
3534 3940 2.163815 AGCTTTGCTGAGATGTTGCATC 59.836 45.455 1.18 1.18 37.57 3.91
3535 3941 2.094906 GCTTTGCTGAGATGTTGCATCA 60.095 45.455 11.12 0.00 36.55 3.07
3536 3942 3.428999 GCTTTGCTGAGATGTTGCATCAT 60.429 43.478 10.03 10.03 36.55 2.45
3537 3943 3.775661 TTGCTGAGATGTTGCATCATG 57.224 42.857 14.89 2.15 36.55 3.07
3553 3959 6.054941 TGCATCATGTTAAACTCGGTATCAT 58.945 36.000 0.00 0.00 0.00 2.45
3555 3961 6.425114 GCATCATGTTAAACTCGGTATCATCT 59.575 38.462 0.00 0.00 0.00 2.90
3558 3964 7.203218 TCATGTTAAACTCGGTATCATCTGAG 58.797 38.462 0.00 0.00 43.95 3.35
3566 3972 4.075682 TCGGTATCATCTGAGTCATCTCC 58.924 47.826 0.00 0.00 39.75 3.71
3567 3973 4.078537 CGGTATCATCTGAGTCATCTCCT 58.921 47.826 0.00 0.00 39.75 3.69
3568 3974 4.082841 CGGTATCATCTGAGTCATCTCCTG 60.083 50.000 0.00 0.00 39.75 3.86
3569 3975 5.076182 GGTATCATCTGAGTCATCTCCTGA 58.924 45.833 0.00 0.00 39.75 3.86
3570 3976 5.183713 GGTATCATCTGAGTCATCTCCTGAG 59.816 48.000 0.00 0.00 39.75 3.35
3571 3977 4.516652 TCATCTGAGTCATCTCCTGAGA 57.483 45.455 0.00 0.00 42.37 3.27
3572 3978 4.864726 TCATCTGAGTCATCTCCTGAGAA 58.135 43.478 0.20 0.00 41.36 2.87
3573 3979 5.267587 TCATCTGAGTCATCTCCTGAGAAA 58.732 41.667 0.20 0.00 41.36 2.52
3574 3980 5.360429 TCATCTGAGTCATCTCCTGAGAAAG 59.640 44.000 0.20 0.00 41.36 2.62
3575 3981 4.928263 TCTGAGTCATCTCCTGAGAAAGA 58.072 43.478 0.20 0.23 41.36 2.52
3576 3982 4.704540 TCTGAGTCATCTCCTGAGAAAGAC 59.295 45.833 18.11 18.11 42.17 3.01
3578 3984 5.083122 TGAGTCATCTCCTGAGAAAGACTT 58.917 41.667 24.29 14.83 46.92 3.01
3579 3985 5.541868 TGAGTCATCTCCTGAGAAAGACTTT 59.458 40.000 24.29 0.00 46.92 2.66
3580 3986 6.036577 AGTCATCTCCTGAGAAAGACTTTC 57.963 41.667 18.49 18.49 45.88 2.62
3581 3987 6.071391 GAGTCATCTCCTGAGAAAGACTTTCT 60.071 42.308 26.79 26.79 46.92 2.52
3582 3988 7.525360 GAGTCATCTCCTGAGAAAGACTTTCTT 60.525 40.741 27.07 13.89 46.92 2.52
3609 4015 8.777865 TTTATACCAGATTTCAGAGAACACAG 57.222 34.615 0.00 0.00 0.00 3.66
3610 4016 4.696479 ACCAGATTTCAGAGAACACAGT 57.304 40.909 0.00 0.00 0.00 3.55
3611 4017 4.384056 ACCAGATTTCAGAGAACACAGTG 58.616 43.478 0.00 0.00 0.00 3.66
3612 4018 4.101585 ACCAGATTTCAGAGAACACAGTGA 59.898 41.667 7.81 0.00 0.00 3.41
3613 4019 5.059161 CCAGATTTCAGAGAACACAGTGAA 58.941 41.667 7.81 0.00 0.00 3.18
3614 4020 5.178996 CCAGATTTCAGAGAACACAGTGAAG 59.821 44.000 7.81 0.00 30.86 3.02
3615 4021 4.754114 AGATTTCAGAGAACACAGTGAAGC 59.246 41.667 7.81 0.00 30.86 3.86
3616 4022 2.533266 TCAGAGAACACAGTGAAGCC 57.467 50.000 7.81 0.00 0.00 4.35
3624 4030 0.595095 CACAGTGAAGCCCTCAAAGC 59.405 55.000 0.00 0.00 35.22 3.51
3627 4033 1.968540 GTGAAGCCCTCAAAGCGCT 60.969 57.895 2.64 2.64 35.22 5.92
3630 4036 0.448197 GAAGCCCTCAAAGCGCTAAC 59.552 55.000 12.05 0.00 34.64 2.34
3646 4052 4.618489 GCGCTAACAAAGTCGTAAGTAGAA 59.382 41.667 0.00 0.00 39.48 2.10
3654 4060 9.764870 AACAAAGTCGTAAGTAGAAAAGTTTTC 57.235 29.630 18.77 18.77 39.48 2.29
3657 4063 7.710766 AGTCGTAAGTAGAAAAGTTTTCCAG 57.289 36.000 21.92 8.27 39.48 3.86
3661 4067 8.823818 TCGTAAGTAGAAAAGTTTTCCAGAAAG 58.176 33.333 21.92 10.52 39.48 2.62
3662 4068 8.823818 CGTAAGTAGAAAAGTTTTCCAGAAAGA 58.176 33.333 21.92 2.63 0.00 2.52
3673 4079 9.642343 AAGTTTTCCAGAAAGATACCTAGTTTT 57.358 29.630 0.00 0.00 0.00 2.43
3679 4085 8.390921 TCCAGAAAGATACCTAGTTTTTCCATT 58.609 33.333 0.00 0.00 0.00 3.16
3687 4093 6.327279 ACCTAGTTTTTCCATTAAGTGTGC 57.673 37.500 0.00 0.00 0.00 4.57
3688 4094 5.830991 ACCTAGTTTTTCCATTAAGTGTGCA 59.169 36.000 0.00 0.00 0.00 4.57
3689 4095 6.493458 ACCTAGTTTTTCCATTAAGTGTGCAT 59.507 34.615 0.00 0.00 0.00 3.96
3697 4103 5.255687 TCCATTAAGTGTGCATTGTCTGAT 58.744 37.500 0.00 0.00 0.00 2.90
3701 4107 4.761235 AAGTGTGCATTGTCTGATGAAG 57.239 40.909 0.00 0.00 0.00 3.02
3709 4115 5.065090 TGCATTGTCTGATGAAGAATAACGG 59.935 40.000 0.00 0.00 36.40 4.44
3861 4272 2.630580 TCAAAACCAAATGGCCACCTAC 59.369 45.455 8.16 0.00 39.32 3.18
3883 4332 3.120199 CGTCAAACAATGTAGCCCTCAAG 60.120 47.826 0.00 0.00 0.00 3.02
3940 4390 4.321718 GCATGATCACTATGGCAGTATGT 58.678 43.478 0.00 0.00 39.31 2.29
4014 4464 2.546162 CCACATCAAGCAAATGCACACA 60.546 45.455 8.28 0.00 45.16 3.72
4021 4471 1.223417 GCAAATGCACACACCCTTGC 61.223 55.000 0.00 0.00 41.59 4.01
4022 4472 0.600782 CAAATGCACACACCCTTGCC 60.601 55.000 0.00 0.00 38.00 4.52
4023 4473 1.047596 AAATGCACACACCCTTGCCA 61.048 50.000 0.00 0.00 38.00 4.92
4025 4475 1.047596 ATGCACACACCCTTGCCAAA 61.048 50.000 0.00 0.00 38.00 3.28
4026 4476 1.047596 TGCACACACCCTTGCCAAAT 61.048 50.000 0.00 0.00 38.00 2.32
4039 4494 5.126869 CCCTTGCCAAATGTGTGATACAATA 59.873 40.000 0.00 0.00 43.77 1.90
4040 4495 6.035843 CCTTGCCAAATGTGTGATACAATAC 58.964 40.000 0.00 0.00 43.77 1.89
4061 4516 1.272490 TGGAAGACCACAGATCGTGTC 59.728 52.381 13.90 11.58 44.78 3.67
4066 4521 0.033504 ACCACAGATCGTGTCACACC 59.966 55.000 1.24 0.00 44.78 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
90 91 1.004277 TGAAAAGGCCGCCATTCTACT 59.996 47.619 21.71 0.21 0.00 2.57
92 93 1.459450 GTGAAAAGGCCGCCATTCTA 58.541 50.000 21.71 10.66 0.00 2.10
100 101 0.537371 AGGTCAAGGTGAAAAGGCCG 60.537 55.000 0.00 0.00 0.00 6.13
142 143 3.244422 TGTGGCGTGTTTCCTCTCTATTT 60.244 43.478 0.00 0.00 0.00 1.40
161 162 2.069273 CTAGTGCGAAGGAAAGGTGTG 58.931 52.381 0.00 0.00 0.00 3.82
162 163 1.692519 ACTAGTGCGAAGGAAAGGTGT 59.307 47.619 0.00 0.00 0.00 4.16
164 165 3.487120 AAACTAGTGCGAAGGAAAGGT 57.513 42.857 0.00 0.00 0.00 3.50
186 187 2.343758 CCTCATATGGGCCGACCG 59.656 66.667 2.13 0.00 44.64 4.79
593 604 8.981647 CGAAATCTGGAAACAATTCTGAATTTT 58.018 29.630 12.74 6.35 42.06 1.82
717 749 5.398416 GCGGCGGATAGTATTTTTCATTTTC 59.602 40.000 9.78 0.00 0.00 2.29
722 754 2.215196 GGCGGCGGATAGTATTTTTCA 58.785 47.619 9.78 0.00 0.00 2.69
723 755 1.534163 GGGCGGCGGATAGTATTTTTC 59.466 52.381 9.78 0.00 0.00 2.29
730 762 3.292936 CGTAGGGCGGCGGATAGT 61.293 66.667 9.78 0.00 36.85 2.12
875 1066 4.736611 AGTGCCCATTTAGATCCATGAT 57.263 40.909 0.00 0.00 0.00 2.45
876 1067 4.202461 GGTAGTGCCCATTTAGATCCATGA 60.202 45.833 0.00 0.00 0.00 3.07
877 1068 4.074970 GGTAGTGCCCATTTAGATCCATG 58.925 47.826 0.00 0.00 0.00 3.66
895 1086 9.681062 TTTCTTATATTTTGGTCCTTCAGGTAG 57.319 33.333 0.00 0.00 36.34 3.18
958 1149 5.337788 AGTGGTGAGAGGATAGAAAAGAGT 58.662 41.667 0.00 0.00 0.00 3.24
1106 1303 4.700213 CCATTAGACCAGAAAATTCACCGT 59.300 41.667 0.00 0.00 0.00 4.83
1490 1717 5.072055 TCAATCCACTCATCAAGCAAAGAA 58.928 37.500 0.00 0.00 0.00 2.52
1914 2162 7.518370 CGACACAATATCACATTTAAGTAGCCC 60.518 40.741 0.00 0.00 0.00 5.19
1955 2203 9.149225 CAGATTAGCATCTAAAATACAGGCTAG 57.851 37.037 0.00 0.00 37.71 3.42
1962 2210 8.072567 CAGCCAACAGATTAGCATCTAAAATAC 58.927 37.037 0.00 0.00 37.71 1.89
1965 2213 5.945784 ACAGCCAACAGATTAGCATCTAAAA 59.054 36.000 0.00 0.00 37.71 1.52
2041 2289 7.557719 ACAACTAAGCTTAATCACAGGCATAAT 59.442 33.333 7.74 0.00 0.00 1.28
2303 2552 9.841295 AACTACAGAAGAAGTTAACATTACCAA 57.159 29.630 8.61 0.00 34.23 3.67
2383 2632 6.824305 AACATTTCAGTTGGGTTGATCTAG 57.176 37.500 0.00 0.00 0.00 2.43
2443 2692 7.552459 CCATACGTGGGATAATGACACATATA 58.448 38.462 0.00 0.00 42.11 0.86
2484 2733 6.804677 TGCAGTTTGAAGAACACATTGTATT 58.195 32.000 0.00 0.00 0.00 1.89
2549 2798 2.305927 CCAACAGAATAGACCACCCAGT 59.694 50.000 0.00 0.00 0.00 4.00
2550 2799 2.941415 GCCAACAGAATAGACCACCCAG 60.941 54.545 0.00 0.00 0.00 4.45
2551 2800 1.004277 GCCAACAGAATAGACCACCCA 59.996 52.381 0.00 0.00 0.00 4.51
2552 2801 1.282157 AGCCAACAGAATAGACCACCC 59.718 52.381 0.00 0.00 0.00 4.61
2747 3002 9.787532 ACAATGTTTACATTACATAGATGCAAC 57.212 29.630 7.72 0.00 44.10 4.17
2804 3171 9.639601 CAGACAGTGAATATAAACTGACAGTAA 57.360 33.333 19.44 0.44 45.43 2.24
2808 3175 7.095229 GCAACAGACAGTGAATATAAACTGACA 60.095 37.037 19.44 0.00 45.43 3.58
2810 3177 6.934083 TGCAACAGACAGTGAATATAAACTGA 59.066 34.615 19.44 0.00 45.43 3.41
2826 3193 3.674753 GCCATACAACAAATGCAACAGAC 59.325 43.478 0.00 0.00 0.00 3.51
2868 3235 5.120830 ACGTATGACAAAAAGCAGTCTGATC 59.879 40.000 3.32 0.00 35.81 2.92
2953 3320 8.812329 GTGTTAGCAAAACATTTGTTGTATGAA 58.188 29.630 7.77 0.00 37.68 2.57
3232 3599 3.568538 ACGGTAACTGCTAACTGTAACG 58.431 45.455 0.00 0.00 33.47 3.18
3495 3866 7.604545 AGCAAAGCTAGACTAAAGGAAGTTAAG 59.395 37.037 0.00 0.00 36.99 1.85
3534 3940 6.980978 ACTCAGATGATACCGAGTTTAACATG 59.019 38.462 0.00 0.00 35.18 3.21
3535 3941 7.113658 ACTCAGATGATACCGAGTTTAACAT 57.886 36.000 0.00 0.00 35.18 2.71
3536 3942 6.152154 TGACTCAGATGATACCGAGTTTAACA 59.848 38.462 0.00 0.00 38.80 2.41
3537 3943 6.561614 TGACTCAGATGATACCGAGTTTAAC 58.438 40.000 0.00 0.00 38.80 2.01
3553 3959 4.704540 GTCTTTCTCAGGAGATGACTCAGA 59.295 45.833 17.86 5.72 44.22 3.27
3555 3961 4.671831 AGTCTTTCTCAGGAGATGACTCA 58.328 43.478 20.20 0.00 42.43 3.41
3558 3964 6.036577 AGAAAGTCTTTCTCAGGAGATGAC 57.963 41.667 20.11 17.63 46.62 3.06
3583 3989 9.388506 CTGTGTTCTCTGAAATCTGGTATAAAT 57.611 33.333 0.00 0.00 0.00 1.40
3584 3990 8.375506 ACTGTGTTCTCTGAAATCTGGTATAAA 58.624 33.333 0.00 0.00 0.00 1.40
3585 3991 7.819415 CACTGTGTTCTCTGAAATCTGGTATAA 59.181 37.037 0.00 0.00 0.00 0.98
3586 3992 7.178451 TCACTGTGTTCTCTGAAATCTGGTATA 59.822 37.037 7.79 0.00 0.00 1.47
3587 3993 6.014242 TCACTGTGTTCTCTGAAATCTGGTAT 60.014 38.462 7.79 0.00 0.00 2.73
3588 3994 5.304357 TCACTGTGTTCTCTGAAATCTGGTA 59.696 40.000 7.79 0.00 0.00 3.25
3589 3995 4.101585 TCACTGTGTTCTCTGAAATCTGGT 59.898 41.667 7.79 0.00 0.00 4.00
3590 3996 4.635223 TCACTGTGTTCTCTGAAATCTGG 58.365 43.478 7.79 0.00 0.00 3.86
3591 3997 5.333952 GCTTCACTGTGTTCTCTGAAATCTG 60.334 44.000 7.79 0.00 0.00 2.90
3592 3998 4.754114 GCTTCACTGTGTTCTCTGAAATCT 59.246 41.667 7.79 0.00 0.00 2.40
3593 3999 4.083590 GGCTTCACTGTGTTCTCTGAAATC 60.084 45.833 7.79 0.00 0.00 2.17
3594 4000 3.817647 GGCTTCACTGTGTTCTCTGAAAT 59.182 43.478 7.79 0.00 0.00 2.17
3595 4001 3.206150 GGCTTCACTGTGTTCTCTGAAA 58.794 45.455 7.79 0.00 0.00 2.69
3596 4002 2.485479 GGGCTTCACTGTGTTCTCTGAA 60.485 50.000 7.79 0.00 0.00 3.02
3597 4003 1.070758 GGGCTTCACTGTGTTCTCTGA 59.929 52.381 7.79 0.00 0.00 3.27
3598 4004 1.071385 AGGGCTTCACTGTGTTCTCTG 59.929 52.381 7.79 0.00 0.00 3.35
3599 4005 1.346068 GAGGGCTTCACTGTGTTCTCT 59.654 52.381 7.79 3.49 0.00 3.10
3600 4006 1.070758 TGAGGGCTTCACTGTGTTCTC 59.929 52.381 7.79 8.98 0.00 2.87
3601 4007 1.131638 TGAGGGCTTCACTGTGTTCT 58.868 50.000 7.79 0.01 0.00 3.01
3602 4008 1.967319 TTGAGGGCTTCACTGTGTTC 58.033 50.000 7.79 0.00 34.94 3.18
3603 4009 2.301346 CTTTGAGGGCTTCACTGTGTT 58.699 47.619 7.79 0.00 34.94 3.32
3604 4010 1.972872 CTTTGAGGGCTTCACTGTGT 58.027 50.000 7.79 0.00 34.94 3.72
3605 4011 0.595095 GCTTTGAGGGCTTCACTGTG 59.405 55.000 0.00 0.17 34.94 3.66
3606 4012 0.886490 CGCTTTGAGGGCTTCACTGT 60.886 55.000 0.00 0.00 34.94 3.55
3607 4013 1.871772 CGCTTTGAGGGCTTCACTG 59.128 57.895 0.00 0.00 34.94 3.66
3608 4014 4.386413 CGCTTTGAGGGCTTCACT 57.614 55.556 0.00 0.00 34.94 3.41
3615 4021 1.880027 ACTTTGTTAGCGCTTTGAGGG 59.120 47.619 18.68 5.34 0.00 4.30
3616 4022 2.411547 CGACTTTGTTAGCGCTTTGAGG 60.412 50.000 18.68 4.77 0.00 3.86
3624 4030 6.680055 TTTCTACTTACGACTTTGTTAGCG 57.320 37.500 0.00 0.00 0.00 4.26
3630 4036 8.392612 TGGAAAACTTTTCTACTTACGACTTTG 58.607 33.333 12.88 0.00 0.00 2.77
3646 4052 9.642343 AAACTAGGTATCTTTCTGGAAAACTTT 57.358 29.630 0.00 0.00 0.00 2.66
3654 4060 8.581253 AATGGAAAAACTAGGTATCTTTCTGG 57.419 34.615 3.98 0.00 0.00 3.86
3661 4067 8.182227 GCACACTTAATGGAAAAACTAGGTATC 58.818 37.037 0.00 0.00 0.00 2.24
3662 4068 7.668052 TGCACACTTAATGGAAAAACTAGGTAT 59.332 33.333 0.00 0.00 0.00 2.73
3668 4074 6.581712 ACAATGCACACTTAATGGAAAAACT 58.418 32.000 0.00 0.00 0.00 2.66
3673 4079 5.069318 TCAGACAATGCACACTTAATGGAA 58.931 37.500 0.00 0.00 0.00 3.53
3679 4085 5.550290 TCTTCATCAGACAATGCACACTTA 58.450 37.500 0.00 0.00 0.00 2.24
3687 4093 5.008019 CCCCGTTATTCTTCATCAGACAATG 59.992 44.000 0.00 0.00 0.00 2.82
3688 4094 5.126067 CCCCGTTATTCTTCATCAGACAAT 58.874 41.667 0.00 0.00 0.00 2.71
3689 4095 4.513442 CCCCGTTATTCTTCATCAGACAA 58.487 43.478 0.00 0.00 0.00 3.18
3697 4103 2.374184 CAATGGCCCCGTTATTCTTCA 58.626 47.619 0.00 0.00 0.00 3.02
3701 4107 1.975660 TAGCAATGGCCCCGTTATTC 58.024 50.000 0.00 0.00 42.56 1.75
3709 4115 0.249031 GAACGCATTAGCAATGGCCC 60.249 55.000 0.00 0.00 42.56 5.80
3861 4272 2.422597 TGAGGGCTACATTGTTTGACG 58.577 47.619 0.00 0.00 0.00 4.35
3883 4332 1.971695 GCCAAGGGTGTGTACAGGC 60.972 63.158 0.00 0.00 0.00 4.85
3918 4368 4.321718 ACATACTGCCATAGTGATCATGC 58.678 43.478 0.00 0.00 40.65 4.06
4014 4464 2.014010 ATCACACATTTGGCAAGGGT 57.986 45.000 0.00 0.00 0.00 4.34
4021 4471 7.336679 TCTTCCAGTATTGTATCACACATTTGG 59.663 37.037 0.00 0.00 36.90 3.28
4022 4472 8.177663 GTCTTCCAGTATTGTATCACACATTTG 58.822 37.037 0.00 0.00 36.90 2.32
4023 4473 7.336931 GGTCTTCCAGTATTGTATCACACATTT 59.663 37.037 0.00 0.00 36.90 2.32
4025 4475 6.070251 TGGTCTTCCAGTATTGTATCACACAT 60.070 38.462 0.00 0.00 39.03 3.21
4026 4476 5.247337 TGGTCTTCCAGTATTGTATCACACA 59.753 40.000 0.00 0.00 39.03 3.72
4039 4494 1.273606 CACGATCTGTGGTCTTCCAGT 59.726 52.381 9.07 0.00 45.24 4.00
4040 4495 2.001812 CACGATCTGTGGTCTTCCAG 57.998 55.000 9.07 0.00 45.24 3.86
4061 4516 1.522668 TCTTCTTTGATGCCGGTGTG 58.477 50.000 1.90 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.