Multiple sequence alignment - TraesCS1A01G121800

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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 TraesCS1A01G121800 chr1A 100.000 3644 0 0 1 3644 135969561 135965918 0.000000e+00 6730
1 TraesCS1A01G121800 chr1D 96.166 3156 84 10 1 3131 123701425 123698282 0.000000e+00 5123
2 TraesCS1A01G121800 chr1D 85.629 501 44 17 3117 3608 123698263 123697782 5.430000e-138 501
3 TraesCS1A01G121800 chr1B 95.667 3139 93 11 1 3112 188263227 188260105 0.000000e+00 5003
4 TraesCS1A01G121800 chr2D 83.877 1011 141 8 1170 2171 43285094 43284097 0.000000e+00 944
5 TraesCS1A01G121800 chr2B 79.797 985 160 25 1161 2133 68150738 68149781 0.000000e+00 680
6 TraesCS1A01G121800 chr3A 74.276 898 194 28 1230 2104 77410178 77411061 9.690000e-91 344
7 TraesCS1A01G121800 chr2A 81.419 296 45 6 1661 1947 44850030 44849736 2.190000e-57 233
8 TraesCS1A01G121800 chr3D 75.256 489 105 11 1573 2047 66310882 66310396 6.130000e-53 219
9 TraesCS1A01G121800 chr3D 90.000 110 11 0 3534 3643 31728448 31728557 3.790000e-30 143
10 TraesCS1A01G121800 chr6B 85.882 170 18 4 3365 3530 94126252 94126419 3.740000e-40 176
11 TraesCS1A01G121800 chr3B 85.465 172 20 2 3366 3532 134615520 134615691 1.350000e-39 174
12 TraesCS1A01G121800 chr3B 85.143 175 21 2 3366 3535 135357567 135357393 1.350000e-39 174


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 TraesCS1A01G121800 chr1A 135965918 135969561 3643 True 6730 6730 100.0000 1 3644 1 chr1A.!!$R1 3643
1 TraesCS1A01G121800 chr1D 123697782 123701425 3643 True 2812 5123 90.8975 1 3608 2 chr1D.!!$R1 3607
2 TraesCS1A01G121800 chr1B 188260105 188263227 3122 True 5003 5003 95.6670 1 3112 1 chr1B.!!$R1 3111
3 TraesCS1A01G121800 chr2D 43284097 43285094 997 True 944 944 83.8770 1170 2171 1 chr2D.!!$R1 1001
4 TraesCS1A01G121800 chr2B 68149781 68150738 957 True 680 680 79.7970 1161 2133 1 chr2B.!!$R1 972
5 TraesCS1A01G121800 chr3A 77410178 77411061 883 False 344 344 74.2760 1230 2104 1 chr3A.!!$F1 874

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
763 765 3.375782 TCACATGATCATAGACTGGCG 57.624 47.619 8.15 0.0 0.0 5.69 F
1126 1128 0.247736 GGTCGTGAGCAATCCTGTCT 59.752 55.000 0.00 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2536 2550 1.961791 CCGATCGAGCTAGCTCCGA 60.962 63.158 33.57 30.81 39.77 4.55 R
3018 3068 0.037232 AGAAACCCGCGGAAAGAGAG 60.037 55.000 30.73 10.69 0.00 3.20 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
244 245 4.371786 AGCATATTACGTCCACATGACTG 58.628 43.478 0.00 0.00 42.13 3.51
423 425 4.068599 GCTGGATTCTAATTAGCCTCACC 58.931 47.826 7.67 7.19 0.00 4.02
437 439 5.441718 AGCCTCACCAAATTTCTCTATCA 57.558 39.130 0.00 0.00 0.00 2.15
468 470 4.020573 TCCGACAACACAATGACCTTCTAT 60.021 41.667 0.00 0.00 0.00 1.98
474 476 4.265073 ACACAATGACCTTCTATGCCTTC 58.735 43.478 0.00 0.00 0.00 3.46
640 642 7.549488 AGAATGGTGCTTGTAAGATTACTGTAC 59.451 37.037 4.50 6.63 34.77 2.90
730 732 6.403636 GCCTTGTACATACCAGTCAAGAAATG 60.404 42.308 0.00 0.00 38.06 2.32
752 754 9.887629 AAATGGAGATGTATCTATCACATGATC 57.112 33.333 0.00 0.00 36.76 2.92
763 765 3.375782 TCACATGATCATAGACTGGCG 57.624 47.619 8.15 0.00 0.00 5.69
904 906 3.796717 TGCGCTACGTTTTCTGATATCAG 59.203 43.478 24.32 24.32 45.08 2.90
1017 1019 6.060136 TCTTCCTATGCTTTCATGGAAGATG 58.940 40.000 18.45 3.69 46.82 2.90
1126 1128 0.247736 GGTCGTGAGCAATCCTGTCT 59.752 55.000 0.00 0.00 0.00 3.41
1689 1691 0.523072 TTGTAGTACTCGGCCACGTC 59.477 55.000 2.24 0.00 41.85 4.34
1855 1869 2.100197 CAGACCTGGAGGACGATGTTA 58.900 52.381 0.00 0.00 38.94 2.41
1966 1980 4.027173 TGCACGGGTATGGCAGCA 62.027 61.111 0.00 0.00 32.95 4.41
2536 2550 0.889638 TCTCGTCGAGTCTTGGCTGT 60.890 55.000 21.15 0.00 0.00 4.40
2836 2875 2.269241 GAGTGGGGAGGAAAGCGG 59.731 66.667 0.00 0.00 0.00 5.52
2839 2878 3.327404 TGGGGAGGAAAGCGGGTC 61.327 66.667 0.00 0.00 0.00 4.46
2978 3028 3.467226 GGCTGCCTGGCCGTACTA 61.467 66.667 17.53 0.00 42.82 1.82
3091 3141 3.690460 AGTCTTTTTCTATGGGTGCCTG 58.310 45.455 0.00 0.00 0.00 4.85
3131 3181 4.300803 CACCGTGCACTACAAAACTACTA 58.699 43.478 16.19 0.00 0.00 1.82
3133 3183 6.094719 CACCGTGCACTACAAAACTACTATA 58.905 40.000 16.19 0.00 0.00 1.31
3134 3184 6.034256 CACCGTGCACTACAAAACTACTATAC 59.966 42.308 16.19 0.00 0.00 1.47
3135 3185 5.228635 CCGTGCACTACAAAACTACTATACG 59.771 44.000 16.19 0.00 0.00 3.06
3136 3186 5.228635 CGTGCACTACAAAACTACTATACGG 59.771 44.000 16.19 0.00 0.00 4.02
3137 3187 5.005107 GTGCACTACAAAACTACTATACGGC 59.995 44.000 10.32 0.00 0.00 5.68
3138 3188 4.505556 GCACTACAAAACTACTATACGGCC 59.494 45.833 0.00 0.00 0.00 6.13
3141 3218 2.839425 ACAAAACTACTATACGGCCCCA 59.161 45.455 0.00 0.00 0.00 4.96
3145 3222 3.530928 ACTACTATACGGCCCCATGTA 57.469 47.619 0.00 0.00 0.00 2.29
3160 3237 5.338463 GCCCCATGTAGTTCTAGAAAGAAGT 60.338 44.000 6.78 1.47 45.44 3.01
3169 3246 7.554959 AGTTCTAGAAAGAAGTGGATTACCA 57.445 36.000 6.78 0.00 42.61 3.25
3172 3249 9.315525 GTTCTAGAAAGAAGTGGATTACCATAC 57.684 37.037 6.78 0.00 42.40 2.39
3173 3250 8.483758 TTCTAGAAAGAAGTGGATTACCATACC 58.516 37.037 1.68 0.00 41.41 2.73
3186 3263 9.707957 TGGATTACCATACCATAATGTCTTTTT 57.292 29.630 0.00 0.00 41.77 1.94
3215 3292 5.163602 GGATTACCATAATGTTGCGGTCAAA 60.164 40.000 0.00 0.00 33.23 2.69
3230 3307 2.538037 GGTCAAATTTTTGTGACGGCAC 59.462 45.455 16.50 16.50 44.19 5.01
3298 3383 6.528072 GTGAAAAGAACAAACTTCACCTCAAG 59.472 38.462 3.02 0.00 41.06 3.02
3302 3387 5.119694 AGAACAAACTTCACCTCAAGAGAC 58.880 41.667 0.00 0.00 0.00 3.36
3303 3388 4.487714 ACAAACTTCACCTCAAGAGACA 57.512 40.909 0.00 0.00 0.00 3.41
3304 3389 5.041191 ACAAACTTCACCTCAAGAGACAT 57.959 39.130 0.00 0.00 0.00 3.06
3305 3390 5.059833 ACAAACTTCACCTCAAGAGACATC 58.940 41.667 0.00 0.00 0.00 3.06
3306 3391 3.971245 ACTTCACCTCAAGAGACATCC 57.029 47.619 0.00 0.00 0.00 3.51
3307 3392 3.242867 ACTTCACCTCAAGAGACATCCA 58.757 45.455 0.00 0.00 0.00 3.41
3315 3400 5.191426 CCTCAAGAGACATCCACAATGAAT 58.809 41.667 0.00 0.00 38.83 2.57
3341 3426 1.377202 GGCGCAATGAAGGTCCTGA 60.377 57.895 10.83 0.00 0.00 3.86
3358 3443 2.200067 CTGATGAGTTGACGGATGCTC 58.800 52.381 0.00 0.00 0.00 4.26
3394 3479 2.622436 CGGACCCAGAGAGAAAATGAC 58.378 52.381 0.00 0.00 0.00 3.06
3395 3480 2.234908 CGGACCCAGAGAGAAAATGACT 59.765 50.000 0.00 0.00 0.00 3.41
3488 3573 4.006780 ACCAAGGAATCAATTTTGCACC 57.993 40.909 0.00 0.00 0.00 5.01
3490 3575 4.837860 ACCAAGGAATCAATTTTGCACCTA 59.162 37.500 0.00 0.00 0.00 3.08
3518 3603 2.328099 GCACCCAGGAAGCTGAACG 61.328 63.158 0.00 0.00 0.00 3.95
3522 3607 1.371183 CCAGGAAGCTGAACGTGGA 59.629 57.895 17.03 0.00 42.38 4.02
3546 3631 0.394352 CCCCTACCAGTGGCATGAAC 60.394 60.000 9.78 0.00 0.00 3.18
3548 3633 1.271871 CCCTACCAGTGGCATGAACAA 60.272 52.381 9.78 0.00 0.00 2.83
3568 3653 0.329596 ACCCCCTCTTCATGTGCTTC 59.670 55.000 0.00 0.00 0.00 3.86
3571 3656 2.173356 CCCCCTCTTCATGTGCTTCATA 59.827 50.000 0.00 0.00 34.67 2.15
3600 3685 3.698040 TCTAATCCACCGTAGTGTCTTCC 59.302 47.826 0.00 0.00 42.88 3.46
3603 3688 1.548719 TCCACCGTAGTGTCTTCCATG 59.451 52.381 0.00 0.00 42.88 3.66
3608 3693 2.430694 CCGTAGTGTCTTCCATGATCCA 59.569 50.000 0.00 0.00 0.00 3.41
3609 3694 3.118775 CCGTAGTGTCTTCCATGATCCAA 60.119 47.826 0.00 0.00 0.00 3.53
3610 3695 4.115516 CGTAGTGTCTTCCATGATCCAAG 58.884 47.826 0.00 0.00 0.00 3.61
3611 3696 4.382040 CGTAGTGTCTTCCATGATCCAAGT 60.382 45.833 0.00 0.00 0.00 3.16
3612 3697 3.947868 AGTGTCTTCCATGATCCAAGTG 58.052 45.455 0.00 0.00 0.00 3.16
3613 3698 3.584406 AGTGTCTTCCATGATCCAAGTGA 59.416 43.478 0.00 0.00 0.00 3.41
3614 3699 4.226846 AGTGTCTTCCATGATCCAAGTGAT 59.773 41.667 0.00 0.00 36.01 3.06
3626 3711 4.862902 TCCAAGTGATCTAGCTCATAGC 57.137 45.455 0.00 0.00 42.84 2.97
3627 3712 3.576118 TCCAAGTGATCTAGCTCATAGCC 59.424 47.826 0.00 0.00 43.77 3.93
3628 3713 3.323115 CCAAGTGATCTAGCTCATAGCCA 59.677 47.826 0.00 0.00 43.77 4.75
3629 3714 4.020396 CCAAGTGATCTAGCTCATAGCCAT 60.020 45.833 0.00 0.00 43.77 4.40
3630 3715 5.512749 CCAAGTGATCTAGCTCATAGCCATT 60.513 44.000 0.00 0.00 43.77 3.16
3631 3716 5.149973 AGTGATCTAGCTCATAGCCATTG 57.850 43.478 0.00 0.00 43.77 2.82
3632 3717 4.837298 AGTGATCTAGCTCATAGCCATTGA 59.163 41.667 0.00 0.00 43.77 2.57
3633 3718 5.306419 AGTGATCTAGCTCATAGCCATTGAA 59.694 40.000 0.00 0.00 43.77 2.69
3634 3719 5.638657 GTGATCTAGCTCATAGCCATTGAAG 59.361 44.000 0.00 0.00 43.77 3.02
3635 3720 5.306419 TGATCTAGCTCATAGCCATTGAAGT 59.694 40.000 0.00 0.00 43.77 3.01
3636 3721 5.207110 TCTAGCTCATAGCCATTGAAGTC 57.793 43.478 0.00 0.00 43.77 3.01
3637 3722 3.205784 AGCTCATAGCCATTGAAGTCC 57.794 47.619 0.00 0.00 43.77 3.85
3638 3723 2.776536 AGCTCATAGCCATTGAAGTCCT 59.223 45.455 0.00 0.00 43.77 3.85
3639 3724 3.969976 AGCTCATAGCCATTGAAGTCCTA 59.030 43.478 0.00 0.00 43.77 2.94
3640 3725 4.410228 AGCTCATAGCCATTGAAGTCCTAA 59.590 41.667 0.00 0.00 43.77 2.69
3641 3726 5.072872 AGCTCATAGCCATTGAAGTCCTAAT 59.927 40.000 0.00 0.00 43.77 1.73
3642 3727 5.411053 GCTCATAGCCATTGAAGTCCTAATC 59.589 44.000 0.00 0.00 34.48 1.75
3643 3728 6.743773 GCTCATAGCCATTGAAGTCCTAATCT 60.744 42.308 0.00 0.00 34.48 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
244 245 1.212935 AGATGGGAATGTGGGTGCTAC 59.787 52.381 0.00 0.00 0.00 3.58
332 333 6.624352 GTCATAGTAGGTGACGTGGTAATA 57.376 41.667 0.00 0.00 36.92 0.98
398 400 5.767168 GTGAGGCTAATTAGAATCCAGCATT 59.233 40.000 16.85 0.00 33.86 3.56
423 425 7.227314 TCGGACAATGGATGATAGAGAAATTTG 59.773 37.037 0.00 0.00 0.00 2.32
437 439 2.559698 TGTGTTGTCGGACAATGGAT 57.440 45.000 24.81 0.00 40.59 3.41
468 470 1.672030 CTGCATCACGGTGAAGGCA 60.672 57.895 27.80 27.80 38.06 4.75
474 476 1.012086 CTGATTCCTGCATCACGGTG 58.988 55.000 0.56 0.56 0.00 4.94
524 526 0.673644 CCGGGTCTCGTGCAAAGATT 60.674 55.000 0.00 0.00 37.11 2.40
640 642 2.344535 CCTGCAACAAGGTCTTGGG 58.655 57.895 14.29 7.69 44.45 4.12
752 754 4.882671 ACATTTTAAGCGCCAGTCTATG 57.117 40.909 2.29 4.07 0.00 2.23
763 765 6.873605 AGACCAAATTGGCTAACATTTTAAGC 59.126 34.615 12.67 0.00 42.67 3.09
811 813 5.360429 TCATTTGTCCATACCCATGTCATTG 59.640 40.000 0.00 0.00 0.00 2.82
869 871 3.181490 ACGTAGCGCATTCAAGTCTGATA 60.181 43.478 11.47 0.00 0.00 2.15
876 878 3.120683 TCAGAAAACGTAGCGCATTCAAG 60.121 43.478 11.47 0.00 30.74 3.02
904 906 6.578023 AGAGATATTTAGAAGGCACTGACAC 58.422 40.000 0.00 0.00 40.86 3.67
945 947 6.509523 TCGGATGGGAATAGGACTATTTTT 57.490 37.500 6.08 0.00 36.02 1.94
958 960 2.238646 ACATACAGCTTTCGGATGGGAA 59.761 45.455 0.25 0.00 35.35 3.97
1017 1019 6.256757 GGCTTCTGTAATGTGATGAACTACTC 59.743 42.308 0.00 0.00 0.00 2.59
1267 1269 2.108514 CCACAACATGATCGGCGCT 61.109 57.895 7.64 0.00 0.00 5.92
2197 2211 2.208349 AGGAGGAAGGTGCAGGGT 59.792 61.111 0.00 0.00 0.00 4.34
2536 2550 1.961791 CCGATCGAGCTAGCTCCGA 60.962 63.158 33.57 30.81 39.77 4.55
2822 2856 3.327404 GACCCGCTTTCCTCCCCA 61.327 66.667 0.00 0.00 0.00 4.96
2836 2875 4.253257 CTACTCGGCTCGGCGACC 62.253 72.222 4.99 11.95 0.00 4.79
2839 2878 2.762234 AACTCTACTCGGCTCGGCG 61.762 63.158 0.00 0.00 0.00 6.46
2900 2939 1.040893 CCATTTTCCCCTAACCCCGC 61.041 60.000 0.00 0.00 0.00 6.13
2978 3028 2.445085 TCCACCACTCCACACGGT 60.445 61.111 0.00 0.00 0.00 4.83
3018 3068 0.037232 AGAAACCCGCGGAAAGAGAG 60.037 55.000 30.73 10.69 0.00 3.20
3131 3181 1.802553 AGAACTACATGGGGCCGTAT 58.197 50.000 0.00 0.00 0.00 3.06
3133 3183 1.120530 CTAGAACTACATGGGGCCGT 58.879 55.000 0.00 0.00 0.00 5.68
3134 3184 1.410004 TCTAGAACTACATGGGGCCG 58.590 55.000 0.00 0.00 0.00 6.13
3135 3185 3.454812 TCTTTCTAGAACTACATGGGGCC 59.545 47.826 4.18 0.00 0.00 5.80
3136 3186 4.755266 TCTTTCTAGAACTACATGGGGC 57.245 45.455 4.18 0.00 0.00 5.80
3137 3187 6.109359 CACTTCTTTCTAGAACTACATGGGG 58.891 44.000 4.18 0.00 35.49 4.96
3138 3188 6.070767 TCCACTTCTTTCTAGAACTACATGGG 60.071 42.308 17.83 10.34 35.49 4.00
3145 3222 7.554959 TGGTAATCCACTTCTTTCTAGAACT 57.445 36.000 4.18 0.00 39.03 3.01
3185 3262 4.440802 GCAACATTATGGTAATCCCGCAAA 60.441 41.667 0.00 0.00 35.15 3.68
3186 3263 3.067461 GCAACATTATGGTAATCCCGCAA 59.933 43.478 0.00 0.00 35.15 4.85
3187 3264 2.621055 GCAACATTATGGTAATCCCGCA 59.379 45.455 0.00 0.00 35.15 5.69
3189 3266 2.225491 CCGCAACATTATGGTAATCCCG 59.775 50.000 0.00 0.00 35.15 5.14
3190 3267 3.219281 ACCGCAACATTATGGTAATCCC 58.781 45.455 0.00 0.00 31.60 3.85
3191 3268 3.880490 TGACCGCAACATTATGGTAATCC 59.120 43.478 0.00 0.00 34.12 3.01
3192 3269 5.493133 TTGACCGCAACATTATGGTAATC 57.507 39.130 0.00 0.00 34.12 1.75
3194 3271 5.906113 ATTTGACCGCAACATTATGGTAA 57.094 34.783 0.00 0.00 34.12 2.85
3195 3272 5.906113 AATTTGACCGCAACATTATGGTA 57.094 34.783 0.00 0.00 34.12 3.25
3196 3273 4.799564 AATTTGACCGCAACATTATGGT 57.200 36.364 0.00 0.00 37.44 3.55
3197 3274 6.073331 ACAAAAATTTGACCGCAACATTATGG 60.073 34.615 12.54 0.00 40.55 2.74
3198 3275 6.791299 CACAAAAATTTGACCGCAACATTATG 59.209 34.615 12.54 0.00 40.55 1.90
3199 3276 6.703607 TCACAAAAATTTGACCGCAACATTAT 59.296 30.769 12.54 0.00 40.55 1.28
3200 3277 6.019479 GTCACAAAAATTTGACCGCAACATTA 60.019 34.615 12.54 0.00 40.55 1.90
3215 3292 0.040425 GAGCGTGCCGTCACAAAAAT 60.040 50.000 0.00 0.00 43.28 1.82
3237 3314 8.024285 CGCAGGGATATTTGTGTTAGTTAAAAA 58.976 33.333 0.00 0.00 0.00 1.94
3242 3319 4.585879 ACGCAGGGATATTTGTGTTAGTT 58.414 39.130 0.00 0.00 34.61 2.24
3280 3365 4.876107 TGTCTCTTGAGGTGAAGTTTGTTC 59.124 41.667 0.00 0.00 0.00 3.18
3298 3383 3.943381 TGCTGATTCATTGTGGATGTCTC 59.057 43.478 0.00 0.00 37.06 3.36
3302 3387 4.430007 CCTTTGCTGATTCATTGTGGATG 58.570 43.478 0.00 0.00 37.08 3.51
3303 3388 3.118884 GCCTTTGCTGATTCATTGTGGAT 60.119 43.478 0.00 0.00 33.53 3.41
3304 3389 2.231964 GCCTTTGCTGATTCATTGTGGA 59.768 45.455 0.00 0.00 33.53 4.02
3305 3390 2.613691 GCCTTTGCTGATTCATTGTGG 58.386 47.619 0.00 0.00 33.53 4.17
3306 3391 2.256174 CGCCTTTGCTGATTCATTGTG 58.744 47.619 0.00 0.00 34.43 3.33
3307 3392 1.403249 GCGCCTTTGCTGATTCATTGT 60.403 47.619 0.00 0.00 34.43 2.71
3315 3400 0.241749 CTTCATTGCGCCTTTGCTGA 59.758 50.000 4.18 0.00 35.36 4.26
3330 3415 2.029020 CGTCAACTCATCAGGACCTTCA 60.029 50.000 0.00 0.00 0.00 3.02
3331 3416 2.611518 CGTCAACTCATCAGGACCTTC 58.388 52.381 0.00 0.00 0.00 3.46
3341 3426 0.807667 GCGAGCATCCGTCAACTCAT 60.808 55.000 0.00 0.00 0.00 2.90
3374 3459 2.234908 AGTCATTTTCTCTCTGGGTCCG 59.765 50.000 0.00 0.00 0.00 4.79
3375 3460 3.008485 ACAGTCATTTTCTCTCTGGGTCC 59.992 47.826 0.00 0.00 0.00 4.46
3378 3463 3.604582 GGACAGTCATTTTCTCTCTGGG 58.395 50.000 2.17 0.00 0.00 4.45
3424 3509 4.578516 TGTGTGACACCCTGTTTTTAGATG 59.421 41.667 13.85 0.00 32.73 2.90
3471 3556 5.079643 ACACTAGGTGCAAAATTGATTCCT 58.920 37.500 0.00 3.91 36.98 3.36
3488 3573 1.609061 CCTGGGTGCACAAGACACTAG 60.609 57.143 20.43 7.04 38.14 2.57
3490 3575 1.149174 CCTGGGTGCACAAGACACT 59.851 57.895 20.43 0.00 38.14 3.55
3502 3587 1.071471 CACGTTCAGCTTCCTGGGT 59.929 57.895 0.00 0.00 39.61 4.51
3503 3588 1.672356 CCACGTTCAGCTTCCTGGG 60.672 63.158 0.00 0.00 39.61 4.45
3518 3603 1.047034 ACTGGTAGGGGCGTATCCAC 61.047 60.000 0.00 0.00 39.08 4.02
3522 3607 3.965660 CCACTGGTAGGGGCGTAT 58.034 61.111 0.00 0.00 28.07 3.06
3530 3615 2.228822 GGTTTGTTCATGCCACTGGTAG 59.771 50.000 0.00 0.00 0.00 3.18
3531 3616 2.235016 GGTTTGTTCATGCCACTGGTA 58.765 47.619 0.00 0.00 0.00 3.25
3532 3617 1.039856 GGTTTGTTCATGCCACTGGT 58.960 50.000 0.00 0.00 0.00 4.00
3546 3631 0.890683 GCACATGAAGAGGGGGTTTG 59.109 55.000 0.00 0.00 0.00 2.93
3548 3633 0.779997 AAGCACATGAAGAGGGGGTT 59.220 50.000 0.00 0.00 0.00 4.11
3568 3653 4.380531 ACGGTGGATTAGAGCATGTTATG 58.619 43.478 0.00 0.00 0.00 1.90
3571 3656 3.451178 ACTACGGTGGATTAGAGCATGTT 59.549 43.478 0.00 0.00 0.00 2.71
3600 3685 8.319737 GCTATGAGCTAGATCACTTGGATCATG 61.320 44.444 13.91 0.00 45.36 3.07
3603 3688 5.410067 GCTATGAGCTAGATCACTTGGATC 58.590 45.833 13.91 0.00 44.35 3.36
3608 3693 5.306419 TCAATGGCTATGAGCTAGATCACTT 59.694 40.000 13.91 0.51 41.99 3.16
3609 3694 4.837298 TCAATGGCTATGAGCTAGATCACT 59.163 41.667 13.91 5.57 41.99 3.41
3610 3695 5.144692 TCAATGGCTATGAGCTAGATCAC 57.855 43.478 13.91 0.77 41.99 3.06
3611 3696 5.306419 ACTTCAATGGCTATGAGCTAGATCA 59.694 40.000 14.00 14.00 41.99 2.92
3612 3697 5.792741 ACTTCAATGGCTATGAGCTAGATC 58.207 41.667 0.00 0.00 41.99 2.75
3613 3698 5.279910 GGACTTCAATGGCTATGAGCTAGAT 60.280 44.000 0.00 0.00 41.99 1.98
3614 3699 4.039730 GGACTTCAATGGCTATGAGCTAGA 59.960 45.833 0.00 0.00 41.99 2.43
3615 3700 4.040217 AGGACTTCAATGGCTATGAGCTAG 59.960 45.833 0.00 0.00 41.99 3.42
3616 3701 3.969976 AGGACTTCAATGGCTATGAGCTA 59.030 43.478 0.00 0.00 41.99 3.32
3617 3702 2.776536 AGGACTTCAATGGCTATGAGCT 59.223 45.455 0.00 0.00 41.99 4.09
3618 3703 3.205784 AGGACTTCAATGGCTATGAGC 57.794 47.619 0.00 0.00 41.46 4.26
3619 3704 6.767456 AGATTAGGACTTCAATGGCTATGAG 58.233 40.000 0.00 0.00 0.00 2.90
3620 3705 6.753913 AGATTAGGACTTCAATGGCTATGA 57.246 37.500 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.