Multiple sequence alignment - TraesCS7B01G326400

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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 TraesCS7B01G326400 chr7B 100.000 3503 0 0 1 3503 579994205 579997707 0.000000e+00 6469.0
1 TraesCS7B01G326400 chr7B 77.690 381 41 28 3 363 579852087 579852443 3.570000e-45 193.0
2 TraesCS7B01G326400 chr7A 92.732 2559 95 33 416 2937 616221208 616218704 0.000000e+00 3611.0
3 TraesCS7B01G326400 chr7A 90.047 422 28 6 3092 3499 616218683 616218262 5.150000e-148 534.0
4 TraesCS7B01G326400 chr7A 85.263 95 7 1 211 298 616221541 616221447 1.340000e-14 91.6
5 TraesCS7B01G326400 chr7A 82.114 123 5 8 312 417 616221375 616221253 4.820000e-14 89.8
6 TraesCS7B01G326400 chr7D 93.409 2382 93 23 549 2880 536764199 536766566 0.000000e+00 3470.0
7 TraesCS7B01G326400 chr7D 90.930 430 22 11 1 414 536760715 536761143 2.360000e-156 562.0
8 TraesCS7B01G326400 chr7D 88.347 369 19 8 3138 3499 536767696 536768047 4.180000e-114 422.0
9 TraesCS7B01G326400 chr7D 90.972 144 8 3 416 555 536761173 536761315 4.620000e-44 189.0
10 TraesCS7B01G326400 chr7D 87.156 109 14 0 2934 3042 443413661 443413553 1.320000e-24 124.0
11 TraesCS7B01G326400 chr7D 75.945 291 36 26 3 270 536595165 536595444 6.140000e-23 119.0
12 TraesCS7B01G326400 chr7D 90.698 43 4 0 2879 2921 536766624 536766666 1.360000e-04 58.4
13 TraesCS7B01G326400 chr2D 81.548 1550 233 27 1136 2666 20359591 20361106 0.000000e+00 1229.0
14 TraesCS7B01G326400 chr4D 83.058 909 131 13 1764 2666 278346863 278345972 0.000000e+00 804.0
15 TraesCS7B01G326400 chr5A 73.231 650 125 36 1637 2266 631504494 631505114 1.280000e-44 191.0
16 TraesCS7B01G326400 chr5D 73.118 651 124 37 1637 2266 503049196 503049816 5.970000e-43 185.0
17 TraesCS7B01G326400 chr5B 73.810 546 102 31 1730 2259 631826751 631827271 9.990000e-41 178.0
18 TraesCS7B01G326400 chr3D 79.147 211 44 0 1748 1958 462073139 462073349 2.820000e-31 147.0
19 TraesCS7B01G326400 chr6B 88.793 116 13 0 2928 3043 469780410 469780525 3.640000e-30 143.0
20 TraesCS7B01G326400 chr1D 74.336 339 82 3 1637 1971 349082159 349081822 4.710000e-29 139.0
21 TraesCS7B01G326400 chr1D 87.963 108 13 0 2934 3041 475815098 475814991 1.020000e-25 128.0
22 TraesCS7B01G326400 chr3B 87.912 91 11 0 2942 3032 90977091 90977181 1.330000e-19 108.0
23 TraesCS7B01G326400 chrUn 82.456 114 16 4 1740 1851 99864093 99864204 2.880000e-16 97.1
24 TraesCS7B01G326400 chr6A 94.340 53 3 0 3188 3240 606359517 606359465 8.060000e-12 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 TraesCS7B01G326400 chr7B 579994205 579997707 3502 False 6469.00 6469 100.0000 1 3503 1 chr7B.!!$F2 3502
1 TraesCS7B01G326400 chr7A 616218262 616221541 3279 True 1081.60 3611 87.5390 211 3499 4 chr7A.!!$R1 3288
2 TraesCS7B01G326400 chr7D 536760715 536768047 7332 False 940.28 3470 90.8712 1 3499 5 chr7D.!!$F2 3498
3 TraesCS7B01G326400 chr2D 20359591 20361106 1515 False 1229.00 1229 81.5480 1136 2666 1 chr2D.!!$F1 1530
4 TraesCS7B01G326400 chr4D 278345972 278346863 891 True 804.00 804 83.0580 1764 2666 1 chr4D.!!$R1 902

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
135 136 0.321653 CAGAAAACACTAGCCGCCCT 60.322 55.000 0.00 0.0 0.00 5.19 F
966 4047 1.280710 ACCCACTGACACTGTGACAAA 59.719 47.619 15.86 0.0 35.76 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1044 4146 0.601576 TTCGGAACACCATGACCGTG 60.602 55.000 0.00 0.0 39.84 4.94 R
2838 5962 1.135344 TCCGACGTCAACGCATGATAA 60.135 47.619 17.16 0.0 44.43 1.75 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
33 34 1.602311 GGGGCAGATCTACAAGCATG 58.398 55.000 0.00 0.00 0.00 4.06
34 35 1.602311 GGGCAGATCTACAAGCATGG 58.398 55.000 0.00 0.00 0.00 3.66
57 58 4.383774 TCGTGTAACATTTCAGAAAGCG 57.616 40.909 1.28 0.00 35.74 4.68
74 75 2.173669 CGCTATGCACTGAACCGGG 61.174 63.158 6.32 0.00 0.00 5.73
110 111 1.777819 CGACAAGTCGCTCAAGCTG 59.222 57.895 9.85 0.00 46.50 4.24
126 127 1.133976 AGCTGCAGACCAGAAAACACT 60.134 47.619 20.43 0.00 44.64 3.55
127 128 2.104792 AGCTGCAGACCAGAAAACACTA 59.895 45.455 20.43 0.00 44.64 2.74
135 136 0.321653 CAGAAAACACTAGCCGCCCT 60.322 55.000 0.00 0.00 0.00 5.19
177 183 2.586792 GAGATTGCACCGGGCTCT 59.413 61.111 6.32 6.40 45.15 4.09
204 210 4.624364 CAGCACAGTGCCGGTCCA 62.624 66.667 22.41 0.00 46.52 4.02
298 321 2.563179 TCTCCAGTCCACTTGTAGCTTC 59.437 50.000 0.00 0.00 0.00 3.86
360 431 2.319844 CCTTTGGGCTCTGAACCTTTT 58.680 47.619 0.00 0.00 0.00 2.27
361 432 2.297315 CCTTTGGGCTCTGAACCTTTTC 59.703 50.000 0.00 0.00 0.00 2.29
414 502 2.851104 GTGCAACCGTCGTACTGC 59.149 61.111 0.00 4.09 35.32 4.40
502 641 2.515901 GTGGTGGTGGTGCTCCTT 59.484 61.111 6.34 0.00 34.23 3.36
509 648 1.598130 GTGGTGCTCCTTCGTGCTT 60.598 57.895 6.34 0.00 34.23 3.91
594 3642 1.580845 CCGACCGACTACTCACCGTT 61.581 60.000 0.00 0.00 0.00 4.44
646 3702 2.125350 GCACGGAAGCCTCTCAGG 60.125 66.667 0.00 0.00 38.80 3.86
647 3703 2.948720 GCACGGAAGCCTCTCAGGT 61.949 63.158 0.00 0.00 37.80 4.00
664 3720 1.349688 AGGTACATTTTCGCCACCTCA 59.650 47.619 0.00 0.00 34.49 3.86
693 3749 4.129737 CGGGCCGACTCGTGTCAT 62.130 66.667 24.41 0.00 43.06 3.06
878 3939 2.810164 GCCACCTATAAAAACCCACCA 58.190 47.619 0.00 0.00 0.00 4.17
887 3948 2.169590 AAAACCCACCACCACCACCA 62.170 55.000 0.00 0.00 0.00 4.17
966 4047 1.280710 ACCCACTGACACTGTGACAAA 59.719 47.619 15.86 0.00 35.76 2.83
1009 4111 4.240103 CGGCGGCCATGGAGATGA 62.240 66.667 18.40 0.00 0.00 2.92
1011 4113 1.679311 GGCGGCCATGGAGATGATA 59.321 57.895 18.40 0.00 0.00 2.15
1062 4164 1.005512 CACGGTCATGGTGTTCCGA 60.006 57.895 17.29 0.00 44.86 4.55
1423 4531 1.301087 CCCTACAACGTGTTCGGCA 60.301 57.895 0.00 0.00 41.85 5.69
1526 4634 0.396435 TACATCCCCCACATCATCGC 59.604 55.000 0.00 0.00 0.00 4.58
1662 4770 3.671411 ACCTTCGACACGCTCGCT 61.671 61.111 0.00 0.00 42.62 4.93
1701 4809 3.285215 GAGATCCGCGCCGACCTA 61.285 66.667 0.00 0.00 0.00 3.08
2145 5259 3.010472 TGATGATCTTCACCACCAACCAT 59.990 43.478 7.19 0.00 0.00 3.55
2205 5320 1.880340 GGACCGCAAGATCGAGCTG 60.880 63.158 2.80 0.00 43.02 4.24
2289 5410 2.680352 ATGGACGAGCCCGACACT 60.680 61.111 0.00 0.00 39.50 3.55
2379 5500 2.351276 GGCGAGGTGTTCATGGGT 59.649 61.111 0.00 0.00 0.00 4.51
2424 5545 2.581354 CTGAGGAGGCTTGTCGGG 59.419 66.667 0.00 0.00 0.00 5.14
2550 5671 1.978580 AGTAGTAGGTGGCTTGTTGCT 59.021 47.619 0.00 0.00 42.39 3.91
2687 5808 2.349249 GCTGCTTGATCATCGAATTCGG 60.349 50.000 26.47 12.47 40.29 4.30
2703 5824 6.150641 TCGAATTCGGTAGATCCTATTGTAGG 59.849 42.308 26.47 0.00 42.71 3.18
2708 5832 7.427989 TCGGTAGATCCTATTGTAGGTTTTT 57.572 36.000 3.15 0.00 46.32 1.94
2722 5846 4.688770 TTTTTGTTGCCCGGGAGT 57.311 50.000 29.31 0.00 0.00 3.85
2723 5847 3.823369 TTTTTGTTGCCCGGGAGTA 57.177 47.368 29.31 6.54 0.00 2.59
2724 5848 2.296073 TTTTTGTTGCCCGGGAGTAT 57.704 45.000 29.31 0.00 0.00 2.12
2725 5849 3.436577 TTTTTGTTGCCCGGGAGTATA 57.563 42.857 29.31 3.05 0.00 1.47
2726 5850 3.436577 TTTTGTTGCCCGGGAGTATAA 57.563 42.857 29.31 9.91 0.00 0.98
2727 5851 3.655615 TTTGTTGCCCGGGAGTATAAT 57.344 42.857 29.31 0.00 0.00 1.28
2728 5852 4.774660 TTTGTTGCCCGGGAGTATAATA 57.225 40.909 29.31 5.95 0.00 0.98
2729 5853 4.986054 TTGTTGCCCGGGAGTATAATAT 57.014 40.909 29.31 0.00 0.00 1.28
2730 5854 6.436738 TTTGTTGCCCGGGAGTATAATATA 57.563 37.500 29.31 1.47 0.00 0.86
2731 5855 6.436738 TTGTTGCCCGGGAGTATAATATAA 57.563 37.500 29.31 1.34 0.00 0.98
2732 5856 6.045072 TGTTGCCCGGGAGTATAATATAAG 57.955 41.667 29.31 0.00 0.00 1.73
2738 5862 7.557719 TGCCCGGGAGTATAATATAAGTAGTAC 59.442 40.741 29.31 0.00 0.00 2.73
2806 5930 3.134574 TCCGTCTTTTGTAAGCACCAT 57.865 42.857 0.00 0.00 0.00 3.55
2829 5953 5.115480 TGTTCTTGGATTTTTGTTTGAGCC 58.885 37.500 0.00 0.00 0.00 4.70
2838 5962 4.734398 TTTTGTTTGAGCCTTCACATGT 57.266 36.364 0.00 0.00 31.71 3.21
2911 6094 2.418628 CGGTACAAAATGTTGATCGCCT 59.581 45.455 1.62 0.00 38.20 5.52
2922 6105 3.181475 TGTTGATCGCCTAAGATGGAGTC 60.181 47.826 0.00 0.00 0.00 3.36
2937 6122 2.881513 TGGAGTCGCAGATCTGATACTC 59.118 50.000 30.91 30.91 40.67 2.59
2938 6123 2.227865 GGAGTCGCAGATCTGATACTCC 59.772 54.545 36.26 36.26 46.67 3.85
2939 6124 2.227865 GAGTCGCAGATCTGATACTCCC 59.772 54.545 29.76 17.22 40.67 4.30
2940 6125 2.158534 AGTCGCAGATCTGATACTCCCT 60.159 50.000 27.04 8.06 40.67 4.20
2941 6126 2.227865 GTCGCAGATCTGATACTCCCTC 59.772 54.545 27.04 4.08 40.67 4.30
2942 6127 2.107378 TCGCAGATCTGATACTCCCTCT 59.893 50.000 27.04 0.00 0.00 3.69
2943 6128 2.228582 CGCAGATCTGATACTCCCTCTG 59.771 54.545 27.04 0.00 34.61 3.35
2944 6129 3.230134 GCAGATCTGATACTCCCTCTGT 58.770 50.000 27.04 0.00 34.13 3.41
2945 6130 3.640967 GCAGATCTGATACTCCCTCTGTT 59.359 47.826 27.04 0.00 34.13 3.16
2946 6131 4.261994 GCAGATCTGATACTCCCTCTGTTC 60.262 50.000 27.04 0.00 34.13 3.18
2947 6132 4.892345 CAGATCTGATACTCCCTCTGTTCA 59.108 45.833 18.34 0.00 0.00 3.18
2948 6133 5.539574 CAGATCTGATACTCCCTCTGTTCAT 59.460 44.000 18.34 0.00 0.00 2.57
2949 6134 6.041865 CAGATCTGATACTCCCTCTGTTCATT 59.958 42.308 18.34 0.00 0.00 2.57
2950 6135 6.614906 AGATCTGATACTCCCTCTGTTCATTT 59.385 38.462 0.00 0.00 0.00 2.32
2951 6136 6.627087 TCTGATACTCCCTCTGTTCATTTT 57.373 37.500 0.00 0.00 0.00 1.82
2952 6137 7.020827 TCTGATACTCCCTCTGTTCATTTTT 57.979 36.000 0.00 0.00 0.00 1.94
2953 6138 6.881065 TCTGATACTCCCTCTGTTCATTTTTG 59.119 38.462 0.00 0.00 0.00 2.44
2954 6139 6.542821 TGATACTCCCTCTGTTCATTTTTGT 58.457 36.000 0.00 0.00 0.00 2.83
2955 6140 7.685481 TGATACTCCCTCTGTTCATTTTTGTA 58.315 34.615 0.00 0.00 0.00 2.41
2956 6141 8.160765 TGATACTCCCTCTGTTCATTTTTGTAA 58.839 33.333 0.00 0.00 0.00 2.41
2957 6142 8.934023 ATACTCCCTCTGTTCATTTTTGTAAA 57.066 30.769 0.00 0.00 0.00 2.01
2958 6143 7.654022 ACTCCCTCTGTTCATTTTTGTAAAA 57.346 32.000 0.00 0.00 0.00 1.52
2959 6144 7.489160 ACTCCCTCTGTTCATTTTTGTAAAAC 58.511 34.615 0.00 0.00 0.00 2.43
2960 6145 7.123547 ACTCCCTCTGTTCATTTTTGTAAAACA 59.876 33.333 0.00 0.00 0.00 2.83
2961 6146 8.017418 TCCCTCTGTTCATTTTTGTAAAACAT 57.983 30.769 0.00 0.00 0.00 2.71
2962 6147 8.482128 TCCCTCTGTTCATTTTTGTAAAACATT 58.518 29.630 0.00 0.00 0.00 2.71
2963 6148 9.108284 CCCTCTGTTCATTTTTGTAAAACATTT 57.892 29.630 0.00 0.00 0.00 2.32
2991 6176 7.992180 ACAGCTTAAATTGAACTGTTTTGAG 57.008 32.000 0.00 0.00 38.38 3.02
2992 6177 7.547227 ACAGCTTAAATTGAACTGTTTTGAGT 58.453 30.769 0.00 0.00 38.38 3.41
2993 6178 7.489113 ACAGCTTAAATTGAACTGTTTTGAGTG 59.511 33.333 0.00 0.00 38.38 3.51
2994 6179 7.489113 CAGCTTAAATTGAACTGTTTTGAGTGT 59.511 33.333 0.00 0.00 0.00 3.55
2995 6180 8.034804 AGCTTAAATTGAACTGTTTTGAGTGTT 58.965 29.630 0.00 0.00 0.00 3.32
2996 6181 8.110002 GCTTAAATTGAACTGTTTTGAGTGTTG 58.890 33.333 0.00 0.00 0.00 3.33
2997 6182 9.139174 CTTAAATTGAACTGTTTTGAGTGTTGT 57.861 29.630 0.00 0.00 0.00 3.32
2998 6183 7.581011 AAATTGAACTGTTTTGAGTGTTGTC 57.419 32.000 0.00 0.00 0.00 3.18
2999 6184 5.957842 TTGAACTGTTTTGAGTGTTGTCT 57.042 34.783 0.00 0.00 0.00 3.41
3000 6185 5.957842 TGAACTGTTTTGAGTGTTGTCTT 57.042 34.783 0.00 0.00 0.00 3.01
3001 6186 7.441890 TTGAACTGTTTTGAGTGTTGTCTTA 57.558 32.000 0.00 0.00 0.00 2.10
3002 6187 7.441890 TGAACTGTTTTGAGTGTTGTCTTAA 57.558 32.000 0.00 0.00 0.00 1.85
3003 6188 7.877003 TGAACTGTTTTGAGTGTTGTCTTAAA 58.123 30.769 0.00 0.00 0.00 1.52
3004 6189 8.519526 TGAACTGTTTTGAGTGTTGTCTTAAAT 58.480 29.630 0.00 0.00 0.00 1.40
3005 6190 9.997482 GAACTGTTTTGAGTGTTGTCTTAAATA 57.003 29.630 0.00 0.00 0.00 1.40
3034 6219 8.628882 AAAAGGTCTTACAAAAATGAACGAAG 57.371 30.769 0.00 0.00 0.00 3.79
3035 6220 7.562454 AAGGTCTTACAAAAATGAACGAAGA 57.438 32.000 0.00 0.00 0.00 2.87
3036 6221 7.190920 AGGTCTTACAAAAATGAACGAAGAG 57.809 36.000 0.00 0.00 0.00 2.85
3037 6222 6.990349 AGGTCTTACAAAAATGAACGAAGAGA 59.010 34.615 0.00 0.00 0.00 3.10
3038 6223 7.171678 AGGTCTTACAAAAATGAACGAAGAGAG 59.828 37.037 0.00 0.00 0.00 3.20
3039 6224 7.041984 GGTCTTACAAAAATGAACGAAGAGAGT 60.042 37.037 0.00 0.00 0.00 3.24
3040 6225 8.975439 GTCTTACAAAAATGAACGAAGAGAGTA 58.025 33.333 0.00 0.00 0.00 2.59
3041 6226 9.706691 TCTTACAAAAATGAACGAAGAGAGTAT 57.293 29.630 0.00 0.00 0.00 2.12
3053 6238 5.892119 ACGAAGAGAGTATAGGATTGACCAA 59.108 40.000 0.00 0.00 42.04 3.67
3061 6246 6.906659 AGTATAGGATTGACCAATACGTACG 58.093 40.000 15.01 15.01 42.04 3.67
3063 6248 4.460948 AGGATTGACCAATACGTACGTT 57.539 40.909 27.92 7.90 42.04 3.99
3065 6250 3.242188 GGATTGACCAATACGTACGTTGC 60.242 47.826 27.92 6.46 38.79 4.17
3092 6277 2.226225 GCATTGCGCGGAGAATTGC 61.226 57.895 8.83 9.64 0.00 3.56
3093 6278 1.137194 CATTGCGCGGAGAATTGCA 59.863 52.632 8.83 0.00 35.15 4.08
3094 6279 0.864377 CATTGCGCGGAGAATTGCAG 60.864 55.000 8.83 0.00 38.75 4.41
3095 6280 1.026182 ATTGCGCGGAGAATTGCAGA 61.026 50.000 8.83 0.00 38.75 4.26
3096 6281 1.233950 TTGCGCGGAGAATTGCAGAA 61.234 50.000 8.83 0.00 38.75 3.02
3097 6282 1.061570 GCGCGGAGAATTGCAGAAG 59.938 57.895 8.83 0.00 0.00 2.85
3101 6286 2.019984 GCGGAGAATTGCAGAAGGAAT 58.980 47.619 0.00 0.00 37.39 3.01
3107 6292 6.457528 CGGAGAATTGCAGAAGGAATTAACTC 60.458 42.308 0.00 0.00 44.47 3.01
3127 6316 3.917988 TCCAGTATTCATATCTGCAGCG 58.082 45.455 9.47 0.00 0.00 5.18
3158 7268 8.499403 TTCAGATAGATCGATATGTAGAGTGG 57.501 38.462 9.79 0.00 0.00 4.00
3162 7272 5.697473 AGATCGATATGTAGAGTGGTGTG 57.303 43.478 0.00 0.00 0.00 3.82
3245 7364 3.118555 TGGTACGCCTATGTACTTGCATT 60.119 43.478 4.29 0.00 43.36 3.56
3312 7441 6.643388 ACATGATGACAATCAGCACTAGTAA 58.357 36.000 0.00 0.00 46.19 2.24
3327 7456 6.541278 AGCACTAGTAAAAAGTTTCTTCCGTT 59.459 34.615 0.00 0.00 0.00 4.44
3356 7485 7.602517 TTAAGAGCACTTCTTCTATTCTTGC 57.397 36.000 0.00 0.00 42.54 4.01
3463 7592 0.453782 CCGAATTGAAAACGACGGGC 60.454 55.000 0.00 0.00 36.17 6.13
3471 7600 1.170290 AAAACGACGGGCAAAGGAGG 61.170 55.000 0.00 0.00 0.00 4.30
3477 7606 1.887707 CGGGCAAAGGAGGATACGC 60.888 63.158 0.00 0.00 46.39 4.42
3487 7616 1.741327 GAGGATACGCCGTGCCCTTA 61.741 60.000 12.38 0.00 43.43 2.69
3499 7628 2.723209 GTGCCCTTACACGTTGTTTTC 58.277 47.619 0.00 0.00 0.00 2.29
3500 7629 2.356695 GTGCCCTTACACGTTGTTTTCT 59.643 45.455 0.00 0.00 0.00 2.52
3501 7630 2.614983 TGCCCTTACACGTTGTTTTCTC 59.385 45.455 0.00 0.00 0.00 2.87
3502 7631 2.876550 GCCCTTACACGTTGTTTTCTCT 59.123 45.455 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.110678 TAGATCTGCCCCGATCGACT 59.889 55.000 18.66 5.21 43.52 4.18
7 8 0.241481 GTAGATCTGCCCCGATCGAC 59.759 60.000 18.66 6.23 43.52 4.20
12 13 0.975556 TGCTTGTAGATCTGCCCCGA 60.976 55.000 5.18 0.00 0.00 5.14
33 34 5.324697 GCTTTCTGAAATGTTACACGATCC 58.675 41.667 2.88 0.00 0.00 3.36
34 35 5.015733 CGCTTTCTGAAATGTTACACGATC 58.984 41.667 2.88 0.00 0.00 3.69
57 58 2.472909 GCCCGGTTCAGTGCATAGC 61.473 63.158 0.00 0.00 0.00 2.97
66 67 2.189257 CATGGATCGCCCGGTTCA 59.811 61.111 0.00 0.00 37.93 3.18
74 75 0.236711 CGAAATCAGGCATGGATCGC 59.763 55.000 0.00 0.00 0.00 4.58
110 111 1.807142 GGCTAGTGTTTTCTGGTCTGC 59.193 52.381 0.00 0.00 0.00 4.26
140 141 2.875485 CGCTCTTTCGGACGGAGA 59.125 61.111 9.65 0.98 0.00 3.71
161 167 1.377725 CAAGAGCCCGGTGCAATCT 60.378 57.895 15.92 8.74 44.83 2.40
290 303 1.373748 GGCCGTGAACGAAGCTACA 60.374 57.895 4.03 0.00 43.02 2.74
298 321 0.942410 TTCTTTCGAGGCCGTGAACG 60.942 55.000 11.64 10.39 37.05 3.95
414 502 6.258727 GTCCACACAGTCCACTGATAATAATG 59.741 42.308 13.75 2.16 46.59 1.90
466 600 1.298413 CGTACGTGGCCTCGATCTG 60.298 63.158 32.11 15.01 34.70 2.90
502 641 1.803334 AAGCAACGGATTAAGCACGA 58.197 45.000 8.28 0.00 0.00 4.35
509 648 0.812412 GGCGGCTAAGCAACGGATTA 60.812 55.000 0.00 0.00 39.27 1.75
577 3618 1.202121 GCTAACGGTGAGTAGTCGGTC 60.202 57.143 0.00 0.00 0.00 4.79
594 3642 1.300931 GCCGAGCGATGATTGGCTA 60.301 57.895 6.08 0.00 44.35 3.93
645 3701 1.467342 GTGAGGTGGCGAAAATGTACC 59.533 52.381 0.00 0.00 0.00 3.34
646 3702 1.467342 GGTGAGGTGGCGAAAATGTAC 59.533 52.381 0.00 0.00 0.00 2.90
647 3703 1.816074 GGTGAGGTGGCGAAAATGTA 58.184 50.000 0.00 0.00 0.00 2.29
788 3848 4.035102 GAGGTGAGGGGGTGGTGC 62.035 72.222 0.00 0.00 0.00 5.01
793 3853 4.974438 TTGGCGAGGTGAGGGGGT 62.974 66.667 0.00 0.00 0.00 4.95
794 3854 4.410400 GTTGGCGAGGTGAGGGGG 62.410 72.222 0.00 0.00 0.00 5.40
795 3855 2.411765 AAAGTTGGCGAGGTGAGGGG 62.412 60.000 0.00 0.00 0.00 4.79
796 3856 0.955919 GAAAGTTGGCGAGGTGAGGG 60.956 60.000 0.00 0.00 0.00 4.30
878 3939 2.529389 GGAGGAGGTGGTGGTGGT 60.529 66.667 0.00 0.00 0.00 4.16
887 3948 0.031616 GAGTGGGATGAGGAGGAGGT 60.032 60.000 0.00 0.00 0.00 3.85
1009 4111 2.786495 CCGAGCGCCAGTCCAGTAT 61.786 63.158 2.29 0.00 0.00 2.12
1044 4146 0.601576 TTCGGAACACCATGACCGTG 60.602 55.000 0.00 0.00 39.84 4.94
1062 4164 4.344865 AAGTCCCGCATGGCCGTT 62.345 61.111 0.00 0.00 0.00 4.44
2289 5410 2.927856 ATGAGGCCGTCCACCACA 60.928 61.111 0.00 0.00 33.74 4.17
2355 5476 1.215647 GAACACCTCGCCGATGTCT 59.784 57.895 0.00 0.00 0.00 3.41
2470 5591 1.746615 CCTCTGTCAATGCACCGGG 60.747 63.158 6.32 0.00 0.00 5.73
2550 5671 1.947597 GCAATTCTCCGGGCAATGCA 61.948 55.000 7.79 0.00 0.00 3.96
2595 5716 3.930634 TCGATCTGGTGCTGATATCAG 57.069 47.619 25.64 25.64 46.40 2.90
2708 5832 4.986054 ATATTATACTCCCGGGCAACAA 57.014 40.909 18.49 6.20 39.74 2.83
2710 5834 6.046290 ACTTATATTATACTCCCGGGCAAC 57.954 41.667 18.49 0.00 0.00 4.17
2711 5835 6.955851 ACTACTTATATTATACTCCCGGGCAA 59.044 38.462 18.49 3.14 0.00 4.52
2713 5837 7.777440 AGTACTACTTATATTATACTCCCGGGC 59.223 40.741 18.49 0.00 0.00 6.13
2806 5930 5.104982 AGGCTCAAACAAAAATCCAAGAACA 60.105 36.000 0.00 0.00 0.00 3.18
2838 5962 1.135344 TCCGACGTCAACGCATGATAA 60.135 47.619 17.16 0.00 44.43 1.75
2911 6094 3.555966 TCAGATCTGCGACTCCATCTTA 58.444 45.455 18.36 0.00 0.00 2.10
2922 6105 2.228582 CAGAGGGAGTATCAGATCTGCG 59.771 54.545 18.36 0.00 35.00 5.18
2937 6122 8.661352 AATGTTTTACAAAAATGAACAGAGGG 57.339 30.769 0.00 0.00 34.17 4.30
2967 6152 7.489113 CACTCAAAACAGTTCAATTTAAGCTGT 59.511 33.333 0.00 2.34 41.51 4.40
2968 6153 7.489113 ACACTCAAAACAGTTCAATTTAAGCTG 59.511 33.333 0.00 0.00 0.00 4.24
2969 6154 7.547227 ACACTCAAAACAGTTCAATTTAAGCT 58.453 30.769 0.00 0.00 0.00 3.74
2970 6155 7.755582 ACACTCAAAACAGTTCAATTTAAGC 57.244 32.000 0.00 0.00 0.00 3.09
2971 6156 9.139174 ACAACACTCAAAACAGTTCAATTTAAG 57.861 29.630 0.00 0.00 0.00 1.85
2972 6157 9.134734 GACAACACTCAAAACAGTTCAATTTAA 57.865 29.630 0.00 0.00 0.00 1.52
2973 6158 8.519526 AGACAACACTCAAAACAGTTCAATTTA 58.480 29.630 0.00 0.00 0.00 1.40
2974 6159 7.378181 AGACAACACTCAAAACAGTTCAATTT 58.622 30.769 0.00 0.00 0.00 1.82
2975 6160 6.924111 AGACAACACTCAAAACAGTTCAATT 58.076 32.000 0.00 0.00 0.00 2.32
2976 6161 6.515272 AGACAACACTCAAAACAGTTCAAT 57.485 33.333 0.00 0.00 0.00 2.57
2977 6162 5.957842 AGACAACACTCAAAACAGTTCAA 57.042 34.783 0.00 0.00 0.00 2.69
2978 6163 5.957842 AAGACAACACTCAAAACAGTTCA 57.042 34.783 0.00 0.00 0.00 3.18
2979 6164 8.911247 ATTTAAGACAACACTCAAAACAGTTC 57.089 30.769 0.00 0.00 0.00 3.01
3008 6193 9.724839 CTTCGTTCATTTTTGTAAGACCTTTTA 57.275 29.630 0.00 0.00 0.00 1.52
3009 6194 8.463607 TCTTCGTTCATTTTTGTAAGACCTTTT 58.536 29.630 0.00 0.00 0.00 2.27
3010 6195 7.992008 TCTTCGTTCATTTTTGTAAGACCTTT 58.008 30.769 0.00 0.00 0.00 3.11
3011 6196 7.497909 TCTCTTCGTTCATTTTTGTAAGACCTT 59.502 33.333 0.00 0.00 0.00 3.50
3012 6197 6.990349 TCTCTTCGTTCATTTTTGTAAGACCT 59.010 34.615 0.00 0.00 0.00 3.85
3013 6198 7.041984 ACTCTCTTCGTTCATTTTTGTAAGACC 60.042 37.037 0.00 0.00 0.00 3.85
3014 6199 7.852516 ACTCTCTTCGTTCATTTTTGTAAGAC 58.147 34.615 0.00 0.00 0.00 3.01
3015 6200 9.706691 ATACTCTCTTCGTTCATTTTTGTAAGA 57.293 29.630 0.00 0.00 0.00 2.10
3018 6203 9.582431 CCTATACTCTCTTCGTTCATTTTTGTA 57.418 33.333 0.00 0.00 0.00 2.41
3019 6204 8.311836 TCCTATACTCTCTTCGTTCATTTTTGT 58.688 33.333 0.00 0.00 0.00 2.83
3020 6205 8.703604 TCCTATACTCTCTTCGTTCATTTTTG 57.296 34.615 0.00 0.00 0.00 2.44
3021 6206 9.892130 AATCCTATACTCTCTTCGTTCATTTTT 57.108 29.630 0.00 0.00 0.00 1.94
3022 6207 9.319143 CAATCCTATACTCTCTTCGTTCATTTT 57.681 33.333 0.00 0.00 0.00 1.82
3023 6208 8.696374 TCAATCCTATACTCTCTTCGTTCATTT 58.304 33.333 0.00 0.00 0.00 2.32
3024 6209 8.138712 GTCAATCCTATACTCTCTTCGTTCATT 58.861 37.037 0.00 0.00 0.00 2.57
3025 6210 7.255660 GGTCAATCCTATACTCTCTTCGTTCAT 60.256 40.741 0.00 0.00 0.00 2.57
3026 6211 6.039493 GGTCAATCCTATACTCTCTTCGTTCA 59.961 42.308 0.00 0.00 0.00 3.18
3027 6212 6.039493 TGGTCAATCCTATACTCTCTTCGTTC 59.961 42.308 0.00 0.00 37.07 3.95
3028 6213 5.892119 TGGTCAATCCTATACTCTCTTCGTT 59.108 40.000 0.00 0.00 37.07 3.85
3029 6214 5.446860 TGGTCAATCCTATACTCTCTTCGT 58.553 41.667 0.00 0.00 37.07 3.85
3030 6215 6.392625 TTGGTCAATCCTATACTCTCTTCG 57.607 41.667 0.00 0.00 37.07 3.79
3031 6216 8.024285 CGTATTGGTCAATCCTATACTCTCTTC 58.976 40.741 13.29 0.00 45.75 2.87
3032 6217 7.506261 ACGTATTGGTCAATCCTATACTCTCTT 59.494 37.037 13.29 0.00 45.75 2.85
3033 6218 7.005296 ACGTATTGGTCAATCCTATACTCTCT 58.995 38.462 13.29 0.00 45.75 3.10
3034 6219 7.216973 ACGTATTGGTCAATCCTATACTCTC 57.783 40.000 13.29 0.00 45.75 3.20
3035 6220 7.094890 CGTACGTATTGGTCAATCCTATACTCT 60.095 40.741 7.22 4.85 45.75 3.24
3036 6221 7.020010 CGTACGTATTGGTCAATCCTATACTC 58.980 42.308 7.22 6.25 45.75 2.59
3037 6222 6.488006 ACGTACGTATTGGTCAATCCTATACT 59.512 38.462 21.41 0.00 45.75 2.12
3038 6223 6.672147 ACGTACGTATTGGTCAATCCTATAC 58.328 40.000 21.41 7.88 45.06 1.47
3039 6224 6.882610 ACGTACGTATTGGTCAATCCTATA 57.117 37.500 21.41 0.00 37.07 1.31
3040 6225 5.779529 ACGTACGTATTGGTCAATCCTAT 57.220 39.130 21.41 0.00 37.07 2.57
3041 6226 5.342433 CAACGTACGTATTGGTCAATCCTA 58.658 41.667 23.12 0.00 37.07 2.94
3042 6227 4.178540 CAACGTACGTATTGGTCAATCCT 58.821 43.478 23.12 0.00 37.07 3.24
3043 6228 3.242188 GCAACGTACGTATTGGTCAATCC 60.242 47.826 23.12 0.00 32.50 3.01
3053 6238 1.073177 GCAACAGGCAACGTACGTAT 58.927 50.000 23.12 9.26 43.97 3.06
3092 6277 8.970859 ATGAATACTGGAGTTAATTCCTTCTG 57.029 34.615 17.06 8.02 38.12 3.02
3097 6282 8.940952 GCAGATATGAATACTGGAGTTAATTCC 58.059 37.037 10.00 10.00 37.77 3.01
3101 6286 6.931281 GCTGCAGATATGAATACTGGAGTTAA 59.069 38.462 20.43 0.00 46.46 2.01
3107 6292 3.657634 ACGCTGCAGATATGAATACTGG 58.342 45.455 20.43 0.00 33.00 4.00
3158 7268 0.111266 GATGACACGAACACGCACAC 60.111 55.000 0.00 0.00 0.00 3.82
3162 7272 0.790207 ACATGATGACACGAACACGC 59.210 50.000 0.00 0.00 0.00 5.34
3275 7394 4.141665 TGTCATCATGTCATGTCATGCCTA 60.142 41.667 23.09 10.61 43.18 3.93
3280 7399 5.008712 GCTGATTGTCATCATGTCATGTCAT 59.991 40.000 12.54 0.00 38.81 3.06
3281 7400 4.334481 GCTGATTGTCATCATGTCATGTCA 59.666 41.667 12.54 6.33 38.81 3.58
3282 7401 4.334481 TGCTGATTGTCATCATGTCATGTC 59.666 41.667 12.54 2.04 38.81 3.06
3283 7402 4.095932 GTGCTGATTGTCATCATGTCATGT 59.904 41.667 12.54 0.00 38.81 3.21
3284 7403 4.335594 AGTGCTGATTGTCATCATGTCATG 59.664 41.667 6.47 6.47 38.81 3.07
3312 7441 9.569167 CTCTTAAAAAGAACGGAAGAAACTTTT 57.431 29.630 0.00 0.00 39.99 2.27
3463 7592 1.429148 GCACGGCGTATCCTCCTTTG 61.429 60.000 14.22 0.00 0.00 2.77
3471 7600 1.142314 TGTAAGGGCACGGCGTATC 59.858 57.895 14.22 7.65 0.00 2.24


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

AutoCloner maintained by Alex Coulton.