Multiple sequence alignment - TraesCS2B01G152600

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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 TraesCS2B01G152600 chr2B 100.000 3533 0 0 1 3533 119241436 119244968 0.000000e+00 6525.0
1 TraesCS2B01G152600 chr2B 98.246 114 2 0 1 114 119211583 119211696 2.150000e-47 200.0
2 TraesCS2B01G152600 chr2D 92.132 2707 124 33 549 3210 77222225 77224887 0.000000e+00 3736.0
3 TraesCS2B01G152600 chr2D 91.702 470 24 6 1 459 77219089 77219554 3.850000e-179 638.0
4 TraesCS2B01G152600 chr2D 89.700 233 22 2 3302 3533 77225183 77225414 2.670000e-76 296.0
5 TraesCS2B01G152600 chr2A 90.727 2491 113 31 475 2903 78601065 78598631 0.000000e+00 3212.0
6 TraesCS2B01G152600 chr2A 91.561 474 22 7 1 456 78601617 78601144 3.850000e-179 638.0
7 TraesCS2B01G152600 chr7D 78.390 236 46 5 3075 3308 63015214 63015446 7.900000e-32 148.0
8 TraesCS2B01G152600 chr7D 91.667 72 6 0 3239 3310 570444448 570444377 2.240000e-17 100.0
9 TraesCS2B01G152600 chr6D 77.928 222 45 3 3069 3289 121160129 121159911 6.150000e-28 135.0
10 TraesCS2B01G152600 chr3B 77.083 240 41 8 3070 3308 41257467 41257241 3.700000e-25 126.0
11 TraesCS2B01G152600 chr4A 76.667 240 44 8 3069 3308 523055481 523055708 4.790000e-24 122.0
12 TraesCS2B01G152600 chr5D 76.786 224 38 12 3087 3309 464919739 464919949 2.880000e-21 113.0
13 TraesCS2B01G152600 chr4D 88.298 94 11 0 3217 3310 73219307 73219400 2.880000e-21 113.0
14 TraesCS2B01G152600 chr4D 82.301 113 16 3 3198 3310 3745898 3745790 1.040000e-15 95.3
15 TraesCS2B01G152600 chr6B 88.506 87 7 1 3199 3285 213235305 213235222 6.240000e-18 102.0
16 TraesCS2B01G152600 chr7A 87.500 56 7 0 2061 2116 589238237 589238182 8.190000e-07 65.8


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 TraesCS2B01G152600 chr2B 119241436 119244968 3532 False 6525.000000 6525 100.000 1 3533 1 chr2B.!!$F2 3532
1 TraesCS2B01G152600 chr2D 77219089 77225414 6325 False 1556.666667 3736 91.178 1 3533 3 chr2D.!!$F1 3532
2 TraesCS2B01G152600 chr2A 78598631 78601617 2986 True 1925.000000 3212 91.144 1 2903 2 chr2A.!!$R1 2902

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
765 3420 0.531532 GCTCTCGGTCCATGTCCATG 60.532 60.0 0.14 0.14 38.51 3.66 F
1827 4536 0.246635 TGAAGAGCTACACCTTCGGC 59.753 55.0 8.01 0.00 41.10 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2050 4759 0.540923 ACGTAGTAGAGCGAGGACCT 59.459 55.0 0.0 0.0 41.94 3.85 R
2988 5712 0.951040 CTTCTGAACTGGACCGCACC 60.951 60.0 0.0 0.0 0.00 5.01 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
50 54 4.020617 CCAGCCTCTGCCGACCAA 62.021 66.667 0.00 0.00 38.69 3.67
69 73 1.811266 CCTCCGCTCGAACATGGTG 60.811 63.158 0.00 0.00 0.00 4.17
82 86 3.213206 ACATGGTGCTGAGAAGAAACA 57.787 42.857 0.00 0.00 0.00 2.83
121 127 7.255486 GCAAGGGAATTATTAGGAATTTAGCGT 60.255 37.037 0.00 0.00 0.00 5.07
264 289 1.763546 TTCGATCTGGTGGTGGTGCA 61.764 55.000 0.00 0.00 0.00 4.57
352 377 2.686816 CGATGCCCGGAACAACCAC 61.687 63.158 0.73 0.00 38.90 4.16
418 445 1.138459 CTCGCGAGTCACAGCTCAT 59.862 57.895 27.79 0.00 35.33 2.90
503 598 2.126307 CTCGTGAGTCGTGGCAGG 60.126 66.667 0.00 0.00 40.80 4.85
531 626 1.003355 CACCAGTCCTGTCGCCAAT 60.003 57.895 0.00 0.00 0.00 3.16
545 3180 2.677971 CCAATCGAGGCTGTTACCG 58.322 57.895 0.00 0.00 33.69 4.02
577 3213 3.138304 CCCATTCTTATTCGATCGGCAA 58.862 45.455 16.41 3.15 0.00 4.52
625 3274 1.153269 TGCGTGCACAGTCTCCAAA 60.153 52.632 18.64 0.00 0.00 3.28
633 3282 3.996150 CACAGTCTCCAAAGTGCAAAT 57.004 42.857 0.00 0.00 0.00 2.32
635 3284 3.316029 CACAGTCTCCAAAGTGCAAATCA 59.684 43.478 0.00 0.00 0.00 2.57
671 3320 3.688159 GGCACGTACACCGGGTCT 61.688 66.667 6.32 0.00 42.70 3.85
719 3368 3.941188 CGACACCCACTGGCCAGT 61.941 66.667 33.20 33.20 43.61 4.00
732 3381 2.887568 CCAGTGGCATCGTCTCGC 60.888 66.667 0.00 0.00 0.00 5.03
765 3420 0.531532 GCTCTCGGTCCATGTCCATG 60.532 60.000 0.14 0.14 38.51 3.66
984 3644 2.826777 ATCGTACTGGGTCCGGTCGT 62.827 60.000 4.52 0.00 36.80 4.34
989 3649 3.282745 CTGGGTCCGGTCGTGAGTG 62.283 68.421 0.00 0.00 0.00 3.51
990 3650 2.987547 GGGTCCGGTCGTGAGTGA 60.988 66.667 0.00 0.00 0.00 3.41
991 3651 2.567049 GGTCCGGTCGTGAGTGAG 59.433 66.667 0.00 0.00 0.00 3.51
992 3652 1.970114 GGTCCGGTCGTGAGTGAGA 60.970 63.158 0.00 0.00 0.00 3.27
993 3653 1.502640 GTCCGGTCGTGAGTGAGAG 59.497 63.158 0.00 0.00 0.00 3.20
1087 3751 0.801067 GCCGTGTAGTGTAGCTTCCG 60.801 60.000 0.00 0.00 0.00 4.30
1088 3752 0.801067 CCGTGTAGTGTAGCTTCCGC 60.801 60.000 0.00 0.00 0.00 5.54
1089 3753 1.132199 CGTGTAGTGTAGCTTCCGCG 61.132 60.000 0.00 0.00 42.32 6.46
1090 3754 1.153901 TGTAGTGTAGCTTCCGCGC 60.154 57.895 0.00 0.00 42.32 6.86
1091 3755 2.101575 TAGTGTAGCTTCCGCGCG 59.898 61.111 25.67 25.67 42.32 6.86
1092 3756 2.693762 TAGTGTAGCTTCCGCGCGT 61.694 57.895 29.95 12.50 42.32 6.01
1126 3813 1.814394 TCGCGCTATATATCCACCGTT 59.186 47.619 5.56 0.00 0.00 4.44
1127 3814 2.159476 TCGCGCTATATATCCACCGTTC 60.159 50.000 5.56 0.00 0.00 3.95
1128 3815 2.182825 GCGCTATATATCCACCGTTCG 58.817 52.381 0.00 0.00 0.00 3.95
1130 3817 2.163010 CGCTATATATCCACCGTTCGGT 59.837 50.000 11.27 11.27 39.42 4.69
1138 3825 3.131155 ACCGTTCGGTGCTACACA 58.869 55.556 16.22 0.00 37.10 3.72
1139 3826 1.669440 ACCGTTCGGTGCTACACAT 59.331 52.632 16.22 0.00 37.10 3.21
1141 3828 0.719465 CCGTTCGGTGCTACACATTC 59.281 55.000 2.82 0.00 35.86 2.67
1142 3829 1.671850 CCGTTCGGTGCTACACATTCT 60.672 52.381 2.82 0.00 35.86 2.40
1143 3830 1.390123 CGTTCGGTGCTACACATTCTG 59.610 52.381 0.00 0.00 35.86 3.02
1144 3831 1.128692 GTTCGGTGCTACACATTCTGC 59.871 52.381 0.00 0.00 35.86 4.26
1145 3832 0.320050 TCGGTGCTACACATTCTGCA 59.680 50.000 0.00 0.00 35.86 4.41
1207 3898 3.107447 CGAAAATGGCGGGTAGGC 58.893 61.111 0.00 0.00 46.95 3.93
1240 3931 0.248296 CGTTTTGTCGGTGTTGGTGG 60.248 55.000 0.00 0.00 0.00 4.61
1242 3933 1.994507 TTTTGTCGGTGTTGGTGGCG 61.995 55.000 0.00 0.00 0.00 5.69
1434 4143 3.691342 TCGCGGCTGCTGTACCTT 61.691 61.111 17.03 0.00 39.65 3.50
1440 4149 0.610687 GGCTGCTGTACCTTGACTCT 59.389 55.000 0.00 0.00 0.00 3.24
1761 4470 3.170810 CTACGCCGACTCCTCGCTC 62.171 68.421 0.00 0.00 38.70 5.03
1827 4536 0.246635 TGAAGAGCTACACCTTCGGC 59.753 55.000 8.01 0.00 41.10 5.54
1830 4539 1.811679 GAGCTACACCTTCGGCTGC 60.812 63.158 0.00 0.00 35.01 5.25
1908 4617 2.432628 CCGCTGTCGTTCCTGTCC 60.433 66.667 0.00 0.00 0.00 4.02
1968 4677 1.078848 CCCGAGCTTCAAGTCCCTG 60.079 63.158 0.00 0.00 0.00 4.45
2050 4759 4.228567 TGCTCGTGAACCCGCACA 62.229 61.111 0.00 0.00 38.69 4.57
2052 4761 2.738521 CTCGTGAACCCGCACAGG 60.739 66.667 0.00 0.00 38.69 4.00
2385 5094 3.918977 AGCACGTACGGCACCACA 61.919 61.111 24.11 0.00 0.00 4.17
2470 5179 4.254709 AGCAGCAGAACCACCGCA 62.255 61.111 0.00 0.00 0.00 5.69
2487 5196 2.126071 ATCCTGTTCGACGTGCCG 60.126 61.111 0.00 0.00 0.00 5.69
2670 5389 0.108804 TTGTAGCCTAGTGAGCGTGC 60.109 55.000 0.00 0.00 34.64 5.34
2700 5419 1.603802 CGGTGTGCAAGATCTTGTGTT 59.396 47.619 30.88 0.00 42.31 3.32
2732 5451 7.304735 TCTTGTTTGTGTAATATCATGTGTGC 58.695 34.615 0.00 0.00 0.00 4.57
2746 5465 0.034337 GTGTGCCTCACGGGTTTCTA 59.966 55.000 0.00 0.00 37.14 2.10
2755 5474 5.484715 CCTCACGGGTTTCTAGTAATTTCA 58.515 41.667 0.00 0.00 0.00 2.69
2774 5493 1.275010 CATGTGGTTTAAGGTTGGGCC 59.725 52.381 0.00 0.00 37.58 5.80
2828 5547 5.010415 GCATCTACTGTACCCCGTAAGTAAT 59.990 44.000 0.00 0.00 0.00 1.89
2829 5548 6.462067 GCATCTACTGTACCCCGTAAGTAATT 60.462 42.308 0.00 0.00 0.00 1.40
2830 5549 6.455360 TCTACTGTACCCCGTAAGTAATTG 57.545 41.667 0.00 0.00 0.00 2.32
2839 5558 3.253677 CCCGTAAGTAATTGTTGGTTGCA 59.746 43.478 0.00 0.00 0.00 4.08
2879 5598 5.129320 TGAGAAAGTATATGCTGCTTCTGGA 59.871 40.000 11.20 0.00 0.00 3.86
2935 5658 9.294030 CCTATTACAAGCATGTTTTTCAGAATC 57.706 33.333 0.00 0.00 41.05 2.52
2954 5677 9.993454 TCAGAATCCAAGAACTATATCAATCAG 57.007 33.333 0.00 0.00 0.00 2.90
2955 5678 9.993454 CAGAATCCAAGAACTATATCAATCAGA 57.007 33.333 0.00 0.00 0.00 3.27
2988 5712 0.108709 CACAAAATGCCATCCCACGG 60.109 55.000 0.00 0.00 0.00 4.94
3030 5756 3.028130 ACTAGAGACCTAGGCAAAGAGC 58.972 50.000 9.30 0.00 45.19 4.09
3049 5775 8.491152 CAAAGAGCAATATATCAAACCTAGACG 58.509 37.037 0.00 0.00 0.00 4.18
3051 5777 4.923871 AGCAATATATCAAACCTAGACGCG 59.076 41.667 3.53 3.53 0.00 6.01
3054 5780 2.857592 TATCAAACCTAGACGCGGAC 57.142 50.000 12.47 3.93 0.00 4.79
3058 5784 0.529378 AAACCTAGACGCGGACGAAT 59.471 50.000 12.47 0.00 43.93 3.34
3095 5821 5.571784 AAATGATAAGAGCCACATGTGTG 57.428 39.130 23.79 15.96 45.23 3.82
3111 5837 1.195448 GTGTGACATGAAGCACTTCGG 59.805 52.381 0.00 3.61 42.28 4.30
3112 5838 1.202639 TGTGACATGAAGCACTTCGGT 60.203 47.619 0.00 6.57 42.28 4.69
3113 5839 1.461127 GTGACATGAAGCACTTCGGTC 59.539 52.381 19.81 19.81 42.28 4.79
3118 5844 1.795768 TGAAGCACTTCGGTCATGAC 58.204 50.000 17.91 17.91 42.28 3.06
3120 5846 0.033504 AAGCACTTCGGTCATGACGT 59.966 50.000 19.33 8.89 0.00 4.34
3149 5875 5.668558 ACAACTAAACTTGTCATCCGAAC 57.331 39.130 0.00 0.00 27.41 3.95
3151 5877 5.007332 ACAACTAAACTTGTCATCCGAACAC 59.993 40.000 0.00 0.00 27.41 3.32
3194 5920 9.646522 AAAAACTATATCTTGGCATATGGAAGT 57.353 29.630 4.56 0.00 0.00 3.01
3206 5932 4.801891 CATATGGAAGTATGTTGCCATGC 58.198 43.478 0.00 0.00 41.05 4.06
3207 5933 2.512692 TGGAAGTATGTTGCCATGCT 57.487 45.000 0.00 0.00 44.71 3.79
3212 5938 2.794103 AGTATGTTGCCATGCTTGACA 58.206 42.857 0.22 0.00 40.63 3.58
3213 5939 3.156293 AGTATGTTGCCATGCTTGACAA 58.844 40.909 0.22 0.00 40.63 3.18
3214 5940 2.443887 ATGTTGCCATGCTTGACAAC 57.556 45.000 20.26 20.26 42.10 3.32
3215 5941 1.401761 TGTTGCCATGCTTGACAACT 58.598 45.000 24.89 0.00 42.22 3.16
3216 5942 2.580962 TGTTGCCATGCTTGACAACTA 58.419 42.857 24.89 13.42 42.22 2.24
3217 5943 2.954989 TGTTGCCATGCTTGACAACTAA 59.045 40.909 24.89 9.56 42.22 2.24
3218 5944 3.382865 TGTTGCCATGCTTGACAACTAAA 59.617 39.130 24.89 8.98 42.22 1.85
3219 5945 3.921119 TGCCATGCTTGACAACTAAAG 57.079 42.857 0.22 0.00 0.00 1.85
3225 5951 3.540617 TGCTTGACAACTAAAGCTGTCA 58.459 40.909 11.23 11.23 45.88 3.58
3226 5952 4.136796 TGCTTGACAACTAAAGCTGTCAT 58.863 39.130 14.98 0.00 46.49 3.06
3227 5953 4.214119 TGCTTGACAACTAAAGCTGTCATC 59.786 41.667 14.98 11.17 46.49 2.92
3228 5954 4.378874 GCTTGACAACTAAAGCTGTCATCC 60.379 45.833 14.98 7.34 46.49 3.51
3229 5955 4.623932 TGACAACTAAAGCTGTCATCCT 57.376 40.909 11.23 0.00 43.64 3.24
3230 5956 4.973168 TGACAACTAAAGCTGTCATCCTT 58.027 39.130 11.23 0.00 43.64 3.36
3231 5957 6.109156 TGACAACTAAAGCTGTCATCCTTA 57.891 37.500 11.23 0.00 43.64 2.69
3232 5958 6.711277 TGACAACTAAAGCTGTCATCCTTAT 58.289 36.000 11.23 0.00 43.64 1.73
3233 5959 6.818644 TGACAACTAAAGCTGTCATCCTTATC 59.181 38.462 11.23 0.00 43.64 1.75
3234 5960 6.951971 ACAACTAAAGCTGTCATCCTTATCT 58.048 36.000 0.00 0.00 0.00 1.98
3235 5961 7.044798 ACAACTAAAGCTGTCATCCTTATCTC 58.955 38.462 0.00 0.00 0.00 2.75
3236 5962 6.798427 ACTAAAGCTGTCATCCTTATCTCA 57.202 37.500 0.00 0.00 0.00 3.27
3237 5963 6.578023 ACTAAAGCTGTCATCCTTATCTCAC 58.422 40.000 0.00 0.00 0.00 3.51
3238 5964 5.690464 AAAGCTGTCATCCTTATCTCACT 57.310 39.130 0.00 0.00 0.00 3.41
3239 5965 6.798427 AAAGCTGTCATCCTTATCTCACTA 57.202 37.500 0.00 0.00 0.00 2.74
3240 5966 6.798427 AAGCTGTCATCCTTATCTCACTAA 57.202 37.500 0.00 0.00 0.00 2.24
3241 5967 6.798427 AGCTGTCATCCTTATCTCACTAAA 57.202 37.500 0.00 0.00 0.00 1.85
3246 5972 7.907389 TGTCATCCTTATCTCACTAAACTTGT 58.093 34.615 0.00 0.00 0.00 3.16
3278 6004 3.131396 GTTCGGAGTTGTCATGTGTTCT 58.869 45.455 0.00 0.00 0.00 3.01
3281 6007 2.349817 CGGAGTTGTCATGTGTTCTTGC 60.350 50.000 0.00 0.00 0.00 4.01
3282 6008 2.030805 GGAGTTGTCATGTGTTCTTGCC 60.031 50.000 0.00 0.00 0.00 4.52
3286 6012 1.948834 TGTCATGTGTTCTTGCCACAG 59.051 47.619 0.00 0.00 45.25 3.66
3303 6029 3.685139 ACAGGTGTGACACTTATCAGG 57.315 47.619 16.07 0.00 34.40 3.86
3304 6030 2.303022 ACAGGTGTGACACTTATCAGGG 59.697 50.000 16.07 0.00 34.40 4.45
3313 6039 3.756963 GACACTTATCAGGGTCCAAAACC 59.243 47.826 0.00 0.00 46.65 3.27
3314 6040 4.506802 GACACTTATCAGGGTCCAAAACCT 60.507 45.833 0.00 0.00 46.65 3.50
3317 6043 8.017061 GACACTTATCAGGGTCCAAAACCTAAT 61.017 40.741 0.00 0.00 46.65 1.73
3338 6304 1.169577 ACAAAACCAGCGACACAACA 58.830 45.000 0.00 0.00 0.00 3.33
3341 6307 1.388547 AAACCAGCGACACAACACAT 58.611 45.000 0.00 0.00 0.00 3.21
3346 6312 2.289274 CCAGCGACACAACACATTACAA 59.711 45.455 0.00 0.00 0.00 2.41
3353 6319 5.275695 CGACACAACACATTACAAAAGCAAC 60.276 40.000 0.00 0.00 0.00 4.17
3367 6334 2.674796 AGCAACAACGAGGGACTATC 57.325 50.000 0.00 0.00 41.55 2.08
3418 6385 4.881019 ACTAAAGACTCAGCACATCACT 57.119 40.909 0.00 0.00 0.00 3.41
3432 6399 2.307768 CATCACTAGGTAAGGGCTCGA 58.692 52.381 0.00 0.00 0.00 4.04
3442 6409 1.228657 AAGGGCTCGACGCAAACTTC 61.229 55.000 8.71 0.00 41.67 3.01
3448 6415 2.666508 GCTCGACGCAAACTTCAGATTA 59.333 45.455 0.00 0.00 38.92 1.75
3463 6430 4.556697 TCAGATTAGGAGCCCTTACATGA 58.443 43.478 0.00 0.00 34.61 3.07
3514 6481 7.814107 GCTTTCAGAATTGGTCATGTATTTTCA 59.186 33.333 0.00 0.00 0.00 2.69
3523 6490 7.984002 TGGTCATGTATTTTCATTTATTGCG 57.016 32.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 54 2.283529 ACCATGTTCGAGCGGAGGT 61.284 57.895 4.65 4.65 46.54 3.85
69 73 4.092091 CGGAATGTAGTGTTTCTTCTCAGC 59.908 45.833 0.00 0.00 0.00 4.26
82 86 1.837439 TCCCTTGCATCGGAATGTAGT 59.163 47.619 4.23 0.00 35.18 2.73
121 127 2.042569 TGACACAAGGTAGCCTCCTAGA 59.957 50.000 0.00 0.00 36.74 2.43
264 289 0.036388 CGCCATGGTCCTTACTGTGT 60.036 55.000 14.67 0.00 0.00 3.72
352 377 4.824166 GCGCGCCATGTCTGCTTG 62.824 66.667 23.24 0.00 0.00 4.01
373 400 4.966787 GTTGTTGGGCTCGGGGCA 62.967 66.667 12.43 0.00 44.01 5.36
418 445 1.065551 CATGTGACGAGAGCGGATGTA 59.934 52.381 0.00 0.00 43.17 2.29
456 483 3.509137 GAGTTCACCGGCGTCACCA 62.509 63.158 6.01 0.00 39.03 4.17
499 586 1.280421 ACTGGTGGATTCTCTTCCTGC 59.720 52.381 0.00 0.00 36.68 4.85
503 598 2.569404 ACAGGACTGGTGGATTCTCTTC 59.431 50.000 4.14 0.00 34.19 2.87
531 626 4.789075 GCGCGGTAACAGCCTCGA 62.789 66.667 8.83 0.00 38.87 4.04
577 3213 1.313812 CCTCTTCCGTACGCAGGAGT 61.314 60.000 16.11 0.00 39.22 3.85
614 3263 3.554934 TGATTTGCACTTTGGAGACTGT 58.445 40.909 0.00 0.00 0.00 3.55
618 3267 4.012374 GGAGATGATTTGCACTTTGGAGA 58.988 43.478 0.00 0.00 0.00 3.71
625 3274 3.340814 ACGAAGGAGATGATTTGCACT 57.659 42.857 0.00 0.00 0.00 4.40
633 3282 2.735444 CGCTTGCTTACGAAGGAGATGA 60.735 50.000 0.00 0.00 0.00 2.92
635 3284 1.471676 CCGCTTGCTTACGAAGGAGAT 60.472 52.381 0.00 0.00 0.00 2.75
719 3368 4.193334 CCGAGCGAGACGATGCCA 62.193 66.667 0.00 0.00 0.00 4.92
721 3370 0.169230 ATATCCGAGCGAGACGATGC 59.831 55.000 0.00 0.00 0.00 3.91
917 3572 0.805322 GGCAGCTCGTGATCTCAGTG 60.805 60.000 0.00 0.00 0.00 3.66
984 3644 1.482954 CCATGCTCTCCTCTCACTCA 58.517 55.000 0.00 0.00 0.00 3.41
989 3649 1.145819 GTGGCCATGCTCTCCTCTC 59.854 63.158 9.72 0.00 0.00 3.20
990 3650 2.373707 GGTGGCCATGCTCTCCTCT 61.374 63.158 9.72 0.00 0.00 3.69
991 3651 2.191641 GGTGGCCATGCTCTCCTC 59.808 66.667 9.72 0.00 0.00 3.71
992 3652 3.415087 GGGTGGCCATGCTCTCCT 61.415 66.667 9.72 0.00 0.00 3.69
993 3653 4.864334 CGGGTGGCCATGCTCTCC 62.864 72.222 9.72 3.42 0.00 3.71
1105 3792 1.814394 ACGGTGGATATATAGCGCGAA 59.186 47.619 12.10 0.00 41.07 4.70
1126 3813 0.320050 TGCAGAATGTGTAGCACCGA 59.680 50.000 0.00 0.00 39.31 4.69
1127 3814 2.839629 TGCAGAATGTGTAGCACCG 58.160 52.632 0.00 0.00 39.31 4.94
1130 3817 1.159285 GCAGTGCAGAATGTGTAGCA 58.841 50.000 11.09 0.00 39.31 3.49
1131 3818 1.135859 GTGCAGTGCAGAATGTGTAGC 60.136 52.381 20.42 0.00 40.08 3.58
1132 3819 1.466167 GGTGCAGTGCAGAATGTGTAG 59.534 52.381 20.42 0.00 40.08 2.74
1133 3820 1.072173 AGGTGCAGTGCAGAATGTGTA 59.928 47.619 20.42 0.00 40.08 2.90
1134 3821 0.179009 AGGTGCAGTGCAGAATGTGT 60.179 50.000 20.42 0.00 40.08 3.72
1135 3822 0.520404 GAGGTGCAGTGCAGAATGTG 59.480 55.000 20.42 0.00 40.08 3.21
1136 3823 0.109153 TGAGGTGCAGTGCAGAATGT 59.891 50.000 20.42 0.72 40.08 2.71
1137 3824 0.520404 GTGAGGTGCAGTGCAGAATG 59.480 55.000 20.42 0.00 40.08 2.67
1138 3825 0.607489 GGTGAGGTGCAGTGCAGAAT 60.607 55.000 20.42 7.25 40.08 2.40
1139 3826 1.227943 GGTGAGGTGCAGTGCAGAA 60.228 57.895 20.42 1.03 40.08 3.02
1141 3828 3.046087 CGGTGAGGTGCAGTGCAG 61.046 66.667 20.42 0.14 40.08 4.41
1144 3831 4.624364 TGGCGGTGAGGTGCAGTG 62.624 66.667 0.00 0.00 0.00 3.66
1145 3832 4.626081 GTGGCGGTGAGGTGCAGT 62.626 66.667 0.00 0.00 0.00 4.40
1207 3898 2.496828 AAAACGACCCCGCGGAGTAG 62.497 60.000 30.73 23.65 39.95 2.57
1221 3912 0.248296 CCACCAACACCGACAAAACG 60.248 55.000 0.00 0.00 0.00 3.60
1434 4143 3.749064 GCCACGGCGAGAGAGTCA 61.749 66.667 16.62 0.00 0.00 3.41
1626 4335 4.090057 GACGCGGCTGGCTTGAAC 62.090 66.667 12.47 0.00 40.44 3.18
1908 4617 1.548719 TCGTACATGTCCTTGGTCTGG 59.451 52.381 0.00 0.00 0.00 3.86
1968 4677 2.048127 AGCGTGCCGGAGAAGTTC 60.048 61.111 5.05 0.00 0.00 3.01
2040 4749 2.047179 GAGGACCTGTGCGGGTTC 60.047 66.667 0.00 2.00 40.06 3.62
2050 4759 0.540923 ACGTAGTAGAGCGAGGACCT 59.459 55.000 0.00 0.00 41.94 3.85
2052 4761 0.656785 CCACGTAGTAGAGCGAGGAC 59.343 60.000 0.00 0.00 41.61 3.85
2172 4881 2.047274 AGCCGGGTGAACATCGTG 60.047 61.111 4.72 0.00 0.00 4.35
2746 5465 7.256154 CCCAACCTTAAACCACATGAAATTACT 60.256 37.037 0.00 0.00 0.00 2.24
2755 5474 1.639722 GGCCCAACCTTAAACCACAT 58.360 50.000 0.00 0.00 34.51 3.21
2774 5493 4.781621 ACTACCCCTCTTAAACCCTAACAG 59.218 45.833 0.00 0.00 0.00 3.16
2817 5536 3.253677 TGCAACCAACAATTACTTACGGG 59.746 43.478 0.00 0.00 0.00 5.28
2828 5547 2.099921 AGCGTTATTGTGCAACCAACAA 59.900 40.909 0.00 0.00 34.36 2.83
2829 5548 1.678627 AGCGTTATTGTGCAACCAACA 59.321 42.857 0.00 0.00 34.36 3.33
2830 5549 2.415697 AGCGTTATTGTGCAACCAAC 57.584 45.000 0.00 0.00 34.36 3.77
2839 5558 5.643777 ACTTTCTCAAGCATAGCGTTATTGT 59.356 36.000 0.00 0.00 32.57 2.71
2988 5712 0.951040 CTTCTGAACTGGACCGCACC 60.951 60.000 0.00 0.00 0.00 5.01
3030 5756 5.345202 GTCCGCGTCTAGGTTTGATATATTG 59.655 44.000 4.92 0.00 0.00 1.90
3031 5757 5.467705 GTCCGCGTCTAGGTTTGATATATT 58.532 41.667 4.92 0.00 0.00 1.28
3032 5758 4.379186 CGTCCGCGTCTAGGTTTGATATAT 60.379 45.833 4.92 0.00 0.00 0.86
3033 5759 3.058708 CGTCCGCGTCTAGGTTTGATATA 60.059 47.826 4.92 0.00 0.00 0.86
3049 5775 5.105063 AGGTAGTTTTTAGTATTCGTCCGC 58.895 41.667 0.00 0.00 0.00 5.54
3095 5821 1.795768 TGACCGAAGTGCTTCATGTC 58.204 50.000 17.47 17.47 39.47 3.06
3099 5825 1.795768 GTCATGACCGAAGTGCTTCA 58.204 50.000 15.31 0.00 39.46 3.02
3175 5901 7.121759 GCAACATACTTCCATATGCCAAGATAT 59.878 37.037 15.89 9.18 36.21 1.63
3176 5902 6.430925 GCAACATACTTCCATATGCCAAGATA 59.569 38.462 15.89 7.83 36.21 1.98
3178 5904 4.580167 GCAACATACTTCCATATGCCAAGA 59.420 41.667 15.89 0.00 36.21 3.02
3210 5936 6.951971 AGATAAGGATGACAGCTTTAGTTGT 58.048 36.000 1.71 0.00 42.20 3.32
3211 5937 7.010923 GTGAGATAAGGATGACAGCTTTAGTTG 59.989 40.741 1.71 0.00 0.00 3.16
3212 5938 7.044798 GTGAGATAAGGATGACAGCTTTAGTT 58.955 38.462 1.71 0.00 0.00 2.24
3213 5939 6.382570 AGTGAGATAAGGATGACAGCTTTAGT 59.617 38.462 1.71 0.00 0.00 2.24
3214 5940 6.815089 AGTGAGATAAGGATGACAGCTTTAG 58.185 40.000 1.71 0.00 0.00 1.85
3215 5941 6.798427 AGTGAGATAAGGATGACAGCTTTA 57.202 37.500 0.00 0.00 0.00 1.85
3216 5942 5.690464 AGTGAGATAAGGATGACAGCTTT 57.310 39.130 0.00 0.00 0.00 3.51
3217 5943 6.798427 TTAGTGAGATAAGGATGACAGCTT 57.202 37.500 0.00 0.00 0.00 3.74
3218 5944 6.382570 AGTTTAGTGAGATAAGGATGACAGCT 59.617 38.462 0.00 0.00 0.00 4.24
3219 5945 6.578023 AGTTTAGTGAGATAAGGATGACAGC 58.422 40.000 0.00 0.00 0.00 4.40
3220 5946 8.037758 ACAAGTTTAGTGAGATAAGGATGACAG 58.962 37.037 0.00 0.00 0.00 3.51
3221 5947 7.907389 ACAAGTTTAGTGAGATAAGGATGACA 58.093 34.615 0.00 0.00 0.00 3.58
3222 5948 8.035394 TGACAAGTTTAGTGAGATAAGGATGAC 58.965 37.037 0.00 0.00 0.00 3.06
3223 5949 8.134202 TGACAAGTTTAGTGAGATAAGGATGA 57.866 34.615 0.00 0.00 0.00 2.92
3224 5950 8.954950 ATGACAAGTTTAGTGAGATAAGGATG 57.045 34.615 0.00 0.00 0.00 3.51
3255 5981 3.126001 ACACATGACAACTCCGAACAT 57.874 42.857 0.00 0.00 0.00 2.71
3256 5982 2.613026 ACACATGACAACTCCGAACA 57.387 45.000 0.00 0.00 0.00 3.18
3264 5990 2.098934 TGTGGCAAGAACACATGACAAC 59.901 45.455 0.00 0.00 43.35 3.32
3281 6007 3.329386 CTGATAAGTGTCACACCTGTGG 58.671 50.000 3.66 0.00 45.65 4.17
3282 6008 3.329386 CCTGATAAGTGTCACACCTGTG 58.671 50.000 3.66 0.00 46.91 3.66
3286 6012 2.354805 GGACCCTGATAAGTGTCACACC 60.355 54.545 3.66 0.00 34.49 4.16
3304 6030 6.422701 GCTGGTTTTGTTATTAGGTTTTGGAC 59.577 38.462 0.00 0.00 0.00 4.02
3307 6033 6.143278 GTCGCTGGTTTTGTTATTAGGTTTTG 59.857 38.462 0.00 0.00 0.00 2.44
3309 6035 5.299782 TGTCGCTGGTTTTGTTATTAGGTTT 59.700 36.000 0.00 0.00 0.00 3.27
3311 6037 4.214758 GTGTCGCTGGTTTTGTTATTAGGT 59.785 41.667 0.00 0.00 0.00 3.08
3312 6038 4.214545 TGTGTCGCTGGTTTTGTTATTAGG 59.785 41.667 0.00 0.00 0.00 2.69
3313 6039 5.351233 TGTGTCGCTGGTTTTGTTATTAG 57.649 39.130 0.00 0.00 0.00 1.73
3314 6040 5.066117 TGTTGTGTCGCTGGTTTTGTTATTA 59.934 36.000 0.00 0.00 0.00 0.98
3317 6043 2.747989 TGTTGTGTCGCTGGTTTTGTTA 59.252 40.909 0.00 0.00 0.00 2.41
3338 6304 4.499019 CCCTCGTTGTTGCTTTTGTAATGT 60.499 41.667 0.00 0.00 0.00 2.71
3341 6307 3.065648 GTCCCTCGTTGTTGCTTTTGTAA 59.934 43.478 0.00 0.00 0.00 2.41
3346 6312 2.922740 TAGTCCCTCGTTGTTGCTTT 57.077 45.000 0.00 0.00 0.00 3.51
3381 6348 8.396272 AGTCTTTAGTTGTTGCTCATTTGTAT 57.604 30.769 0.00 0.00 0.00 2.29
3382 6349 7.497579 TGAGTCTTTAGTTGTTGCTCATTTGTA 59.502 33.333 0.00 0.00 0.00 2.41
3383 6350 6.318648 TGAGTCTTTAGTTGTTGCTCATTTGT 59.681 34.615 0.00 0.00 0.00 2.83
3384 6351 6.728200 TGAGTCTTTAGTTGTTGCTCATTTG 58.272 36.000 0.00 0.00 0.00 2.32
3390 6357 3.561725 GTGCTGAGTCTTTAGTTGTTGCT 59.438 43.478 0.00 0.00 0.00 3.91
3398 6365 5.105554 ACCTAGTGATGTGCTGAGTCTTTAG 60.106 44.000 0.00 0.00 0.00 1.85
3418 6385 3.518003 GCGTCGAGCCCTTACCTA 58.482 61.111 0.00 0.00 40.81 3.08
3432 6399 3.003480 GCTCCTAATCTGAAGTTTGCGT 58.997 45.455 0.00 0.00 0.00 5.24
3442 6409 4.101585 TGTCATGTAAGGGCTCCTAATCTG 59.898 45.833 0.00 0.00 31.13 2.90
3448 6415 4.322057 AAATTGTCATGTAAGGGCTCCT 57.678 40.909 0.00 0.00 33.87 3.69


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

AutoCloner maintained by Alex Coulton.