Multiple sequence alignment - TraesCS3A01G508600

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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 TraesCS3A01G508600 chr3A 100.000 3182 0 0 1 3182 729689661 729692842 0.000000e+00 5877.0
1 TraesCS3A01G508600 chr3A 99.370 3016 14 2 1 3011 728019610 728016595 0.000000e+00 5459.0
2 TraesCS3A01G508600 chr3A 99.841 1887 3 0 1125 3011 728033572 728031686 0.000000e+00 3469.0
3 TraesCS3A01G508600 chr3A 89.086 1237 130 4 952 2186 728056540 728057773 0.000000e+00 1531.0
4 TraesCS3A01G508600 chr3A 87.676 1209 133 12 993 2186 728384615 728385822 0.000000e+00 1393.0
5 TraesCS3A01G508600 chr3A 84.385 1204 174 7 996 2186 728458187 728456985 0.000000e+00 1170.0
6 TraesCS3A01G508600 chr3A 84.753 223 17 9 720 936 728049314 728049103 1.160000e-49 207.0
7 TraesCS3A01G508600 chr3A 80.645 124 15 7 641 756 728049525 728049403 1.570000e-13 87.9
8 TraesCS3A01G508600 chr3D 94.987 1855 69 11 503 2341 598049731 598047885 0.000000e+00 2889.0
9 TraesCS3A01G508600 chr3D 86.557 1458 168 23 740 2186 598060634 598062074 0.000000e+00 1581.0
10 TraesCS3A01G508600 chr3D 88.454 511 45 12 1 502 598050293 598049788 3.510000e-169 604.0
11 TraesCS3A01G508600 chr3D 94.245 278 11 4 2734 3011 598046911 598046639 1.360000e-113 420.0
12 TraesCS3A01G508600 chr3D 84.019 413 52 7 980 1380 598252737 598253147 4.980000e-103 385.0
13 TraesCS3A01G508600 chr3D 96.129 155 5 1 2333 2486 598047838 598047684 5.270000e-63 252.0
14 TraesCS3A01G508600 chr3D 82.095 296 21 14 641 936 598057947 598057684 1.150000e-54 224.0
15 TraesCS3A01G508600 chr3B 94.147 1606 76 10 595 2184 805005071 805003468 0.000000e+00 2429.0
16 TraesCS3A01G508600 chr3B 85.311 1205 163 10 995 2186 805425854 805424651 0.000000e+00 1232.0
17 TraesCS3A01G508600 chr3B 92.617 149 10 1 2373 2520 805003078 805002930 2.490000e-51 213.0
18 TraesCS3A01G508600 chr3B 83.133 83 13 1 512 593 782509876 782509794 1.220000e-09 75.0
19 TraesCS3A01G508600 chrUn 84.902 457 55 11 980 1423 42058277 42057822 1.740000e-122 449.0
20 TraesCS3A01G508600 chrUn 94.180 189 7 3 2546 2733 30689420 30689235 5.190000e-73 285.0
21 TraesCS3A01G508600 chr5A 90.732 205 15 3 2530 2733 291594756 291594555 1.450000e-68 270.0
22 TraesCS3A01G508600 chr5A 92.553 188 9 5 2546 2731 345670559 345670743 6.770000e-67 265.0
23 TraesCS3A01G508600 chr1A 92.670 191 8 5 2546 2733 548793168 548793355 1.450000e-68 270.0
24 TraesCS3A01G508600 chr1A 92.553 188 9 4 2546 2731 7949685 7949501 6.770000e-67 265.0
25 TraesCS3A01G508600 chr4A 92.593 189 9 4 2546 2732 116143526 116143341 1.880000e-67 267.0
26 TraesCS3A01G508600 chr6A 92.553 188 9 4 2546 2731 603917731 603917547 6.770000e-67 265.0


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 TraesCS3A01G508600 chr3A 729689661 729692842 3181 False 5877.00 5877 100.00000 1 3182 1 chr3A.!!$F3 3181
1 TraesCS3A01G508600 chr3A 728016595 728019610 3015 True 5459.00 5459 99.37000 1 3011 1 chr3A.!!$R1 3010
2 TraesCS3A01G508600 chr3A 728031686 728033572 1886 True 3469.00 3469 99.84100 1125 3011 1 chr3A.!!$R2 1886
3 TraesCS3A01G508600 chr3A 728056540 728057773 1233 False 1531.00 1531 89.08600 952 2186 1 chr3A.!!$F1 1234
4 TraesCS3A01G508600 chr3A 728384615 728385822 1207 False 1393.00 1393 87.67600 993 2186 1 chr3A.!!$F2 1193
5 TraesCS3A01G508600 chr3A 728456985 728458187 1202 True 1170.00 1170 84.38500 996 2186 1 chr3A.!!$R3 1190
6 TraesCS3A01G508600 chr3D 598060634 598062074 1440 False 1581.00 1581 86.55700 740 2186 1 chr3D.!!$F1 1446
7 TraesCS3A01G508600 chr3D 598046639 598050293 3654 True 1041.25 2889 93.45375 1 3011 4 chr3D.!!$R2 3010
8 TraesCS3A01G508600 chr3B 805002930 805005071 2141 True 1321.00 2429 93.38200 595 2520 2 chr3B.!!$R3 1925
9 TraesCS3A01G508600 chr3B 805424651 805425854 1203 True 1232.00 1232 85.31100 995 2186 1 chr3B.!!$R2 1191

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
638 711 2.045340 AAATTCCCGACCGCCCTG 60.045 61.111 0.00 0.0 0.00 4.45 F
1644 1768 2.039137 GGGTTCTCTCCCCGGAGT 59.961 66.667 0.73 0.0 42.49 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1798 1922 0.251916 TTCCTTGCCAACGGATCGAT 59.748 50.0 0.0 0.0 0.00 3.59 R
3156 4214 0.466543 TGCTGGTGTTGTTACCGTCT 59.533 50.0 0.0 0.0 43.87 4.18 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
638 711 2.045340 AAATTCCCGACCGCCCTG 60.045 61.111 0.00 0.00 0.00 4.45
655 728 4.820744 GGACACCCATGCCGCCAT 62.821 66.667 0.00 0.00 0.00 4.40
1123 1239 3.063743 ATCGTCGGCACATCGCTCA 62.064 57.895 0.00 0.00 41.91 4.26
1644 1768 2.039137 GGGTTCTCTCCCCGGAGT 59.961 66.667 0.73 0.00 42.49 3.85
1798 1922 2.041762 AGGAGATCTGGGCAGCCA 59.958 61.111 15.19 0.00 0.00 4.75
3011 4069 4.556592 TCACATCAGATGGACATCACAA 57.443 40.909 15.13 0.34 40.22 3.33
3012 4070 4.510571 TCACATCAGATGGACATCACAAG 58.489 43.478 15.13 4.65 40.22 3.16
3013 4071 4.019950 TCACATCAGATGGACATCACAAGT 60.020 41.667 15.13 5.20 40.22 3.16
3014 4072 5.187576 TCACATCAGATGGACATCACAAGTA 59.812 40.000 15.13 0.00 40.22 2.24
3015 4073 6.053650 CACATCAGATGGACATCACAAGTAT 58.946 40.000 15.13 0.00 40.22 2.12
3016 4074 7.069826 TCACATCAGATGGACATCACAAGTATA 59.930 37.037 15.13 0.00 40.22 1.47
3017 4075 7.170489 CACATCAGATGGACATCACAAGTATAC 59.830 40.741 15.13 0.00 40.22 1.47
3018 4076 6.790232 TCAGATGGACATCACAAGTATACA 57.210 37.500 14.16 0.00 40.22 2.29
3019 4077 7.181569 TCAGATGGACATCACAAGTATACAA 57.818 36.000 14.16 0.00 40.22 2.41
3020 4078 7.795047 TCAGATGGACATCACAAGTATACAAT 58.205 34.615 14.16 0.00 40.22 2.71
3021 4079 8.923270 TCAGATGGACATCACAAGTATACAATA 58.077 33.333 14.16 0.00 40.22 1.90
3022 4080 9.716531 CAGATGGACATCACAAGTATACAATAT 57.283 33.333 14.16 0.00 40.22 1.28
3027 4085 9.601217 GGACATCACAAGTATACAATATATCCC 57.399 37.037 5.50 0.00 0.00 3.85
3056 4114 5.614324 TCCGAATGGATGTGACTTAATCT 57.386 39.130 0.00 0.00 40.17 2.40
3057 4115 5.989477 TCCGAATGGATGTGACTTAATCTT 58.011 37.500 0.00 0.00 40.17 2.40
3058 4116 6.414732 TCCGAATGGATGTGACTTAATCTTT 58.585 36.000 0.00 0.00 40.17 2.52
3059 4117 7.561251 TCCGAATGGATGTGACTTAATCTTTA 58.439 34.615 0.00 0.00 40.17 1.85
3060 4118 8.210946 TCCGAATGGATGTGACTTAATCTTTAT 58.789 33.333 0.00 0.00 40.17 1.40
3061 4119 8.285394 CCGAATGGATGTGACTTAATCTTTATG 58.715 37.037 0.00 0.00 37.49 1.90
3062 4120 8.830580 CGAATGGATGTGACTTAATCTTTATGT 58.169 33.333 0.00 0.00 0.00 2.29
3079 4137 8.798975 TCTTTATGTATCAATCCTAAGGTCCT 57.201 34.615 0.00 0.00 0.00 3.85
3080 4138 9.892444 TCTTTATGTATCAATCCTAAGGTCCTA 57.108 33.333 0.00 0.00 0.00 2.94
3083 4141 7.931015 ATGTATCAATCCTAAGGTCCTAACA 57.069 36.000 0.00 0.00 0.00 2.41
3084 4142 7.743116 TGTATCAATCCTAAGGTCCTAACAA 57.257 36.000 0.00 0.00 0.00 2.83
3085 4143 7.792032 TGTATCAATCCTAAGGTCCTAACAAG 58.208 38.462 0.00 0.00 0.00 3.16
3086 4144 7.622081 TGTATCAATCCTAAGGTCCTAACAAGA 59.378 37.037 0.00 0.00 0.00 3.02
3087 4145 6.295719 TCAATCCTAAGGTCCTAACAAGAC 57.704 41.667 0.00 0.00 0.00 3.01
3088 4146 6.023603 TCAATCCTAAGGTCCTAACAAGACT 58.976 40.000 0.00 0.00 34.56 3.24
3089 4147 5.941555 ATCCTAAGGTCCTAACAAGACTG 57.058 43.478 0.00 0.00 34.56 3.51
3090 4148 4.748701 TCCTAAGGTCCTAACAAGACTGT 58.251 43.478 0.00 0.00 37.39 3.55
3091 4149 4.771054 TCCTAAGGTCCTAACAAGACTGTC 59.229 45.833 0.00 0.00 33.45 3.51
3092 4150 4.527038 CCTAAGGTCCTAACAAGACTGTCA 59.473 45.833 10.88 0.00 33.45 3.58
3093 4151 5.187967 CCTAAGGTCCTAACAAGACTGTCAT 59.812 44.000 10.88 0.00 33.45 3.06
3094 4152 4.810191 AGGTCCTAACAAGACTGTCATC 57.190 45.455 10.88 0.00 33.45 2.92
3095 4153 4.421131 AGGTCCTAACAAGACTGTCATCT 58.579 43.478 10.88 0.00 33.45 2.90
3096 4154 4.841246 AGGTCCTAACAAGACTGTCATCTT 59.159 41.667 10.88 0.00 39.60 2.40
3097 4155 5.308237 AGGTCCTAACAAGACTGTCATCTTT 59.692 40.000 10.88 0.44 36.78 2.52
3098 4156 5.409826 GGTCCTAACAAGACTGTCATCTTTG 59.590 44.000 10.88 8.11 36.78 2.77
3099 4157 5.992217 GTCCTAACAAGACTGTCATCTTTGT 59.008 40.000 10.88 8.74 36.78 2.83
3100 4158 6.483640 GTCCTAACAAGACTGTCATCTTTGTT 59.516 38.462 21.65 21.65 36.78 2.83
3101 4159 6.706270 TCCTAACAAGACTGTCATCTTTGTTC 59.294 38.462 21.61 0.00 36.78 3.18
3102 4160 6.483307 CCTAACAAGACTGTCATCTTTGTTCA 59.517 38.462 21.61 12.05 36.78 3.18
3103 4161 6.757897 AACAAGACTGTCATCTTTGTTCAA 57.242 33.333 15.82 0.00 36.78 2.69
3104 4162 6.369059 ACAAGACTGTCATCTTTGTTCAAG 57.631 37.500 10.88 0.00 36.78 3.02
3105 4163 5.297776 ACAAGACTGTCATCTTTGTTCAAGG 59.702 40.000 10.88 0.00 36.78 3.61
3106 4164 5.041191 AGACTGTCATCTTTGTTCAAGGT 57.959 39.130 10.88 0.00 32.64 3.50
3107 4165 5.059833 AGACTGTCATCTTTGTTCAAGGTC 58.940 41.667 10.88 0.00 32.64 3.85
3108 4166 4.780815 ACTGTCATCTTTGTTCAAGGTCA 58.219 39.130 0.00 0.00 32.64 4.02
3109 4167 5.192927 ACTGTCATCTTTGTTCAAGGTCAA 58.807 37.500 0.00 0.00 32.64 3.18
3110 4168 5.066505 ACTGTCATCTTTGTTCAAGGTCAAC 59.933 40.000 0.00 0.00 32.64 3.18
3111 4169 4.946772 TGTCATCTTTGTTCAAGGTCAACA 59.053 37.500 0.00 0.00 32.64 3.33
3112 4170 5.066375 TGTCATCTTTGTTCAAGGTCAACAG 59.934 40.000 0.00 0.00 35.22 3.16
3113 4171 5.296780 GTCATCTTTGTTCAAGGTCAACAGA 59.703 40.000 0.00 0.00 35.22 3.41
3114 4172 5.528690 TCATCTTTGTTCAAGGTCAACAGAG 59.471 40.000 0.00 0.00 37.33 3.35
3115 4173 4.843728 TCTTTGTTCAAGGTCAACAGAGT 58.156 39.130 3.79 0.00 37.30 3.24
3116 4174 5.984725 TCTTTGTTCAAGGTCAACAGAGTA 58.015 37.500 3.79 0.00 37.30 2.59
3117 4175 6.049149 TCTTTGTTCAAGGTCAACAGAGTAG 58.951 40.000 3.79 0.00 37.30 2.57
3118 4176 5.607939 TTGTTCAAGGTCAACAGAGTAGA 57.392 39.130 0.00 0.00 35.22 2.59
3119 4177 4.945246 TGTTCAAGGTCAACAGAGTAGAC 58.055 43.478 0.00 0.00 30.16 2.59
3120 4178 4.404394 TGTTCAAGGTCAACAGAGTAGACA 59.596 41.667 0.00 0.00 34.04 3.41
3121 4179 5.105106 TGTTCAAGGTCAACAGAGTAGACAA 60.105 40.000 0.00 0.00 34.04 3.18
3122 4180 4.945246 TCAAGGTCAACAGAGTAGACAAC 58.055 43.478 0.00 0.00 34.04 3.32
3123 4181 4.649674 TCAAGGTCAACAGAGTAGACAACT 59.350 41.667 0.00 0.00 42.80 3.16
3124 4182 5.128827 TCAAGGTCAACAGAGTAGACAACTT 59.871 40.000 0.00 0.00 39.07 2.66
3125 4183 5.203060 AGGTCAACAGAGTAGACAACTTC 57.797 43.478 0.00 0.00 39.07 3.01
3126 4184 3.982058 GGTCAACAGAGTAGACAACTTCG 59.018 47.826 0.00 0.00 39.07 3.79
3127 4185 3.982058 GTCAACAGAGTAGACAACTTCGG 59.018 47.826 0.00 0.00 39.07 4.30
3128 4186 2.726832 ACAGAGTAGACAACTTCGGC 57.273 50.000 0.00 0.00 39.07 5.54
3129 4187 1.272769 ACAGAGTAGACAACTTCGGCC 59.727 52.381 0.00 0.00 39.07 6.13
3130 4188 1.272490 CAGAGTAGACAACTTCGGCCA 59.728 52.381 2.24 0.00 39.07 5.36
3131 4189 2.093973 CAGAGTAGACAACTTCGGCCAT 60.094 50.000 2.24 0.00 39.07 4.40
3132 4190 2.166664 AGAGTAGACAACTTCGGCCATC 59.833 50.000 2.24 0.00 39.07 3.51
3133 4191 2.166664 GAGTAGACAACTTCGGCCATCT 59.833 50.000 2.24 0.00 39.07 2.90
3134 4192 2.567615 AGTAGACAACTTCGGCCATCTT 59.432 45.455 2.24 0.00 33.35 2.40
3135 4193 2.568623 AGACAACTTCGGCCATCTTT 57.431 45.000 2.24 0.00 0.00 2.52
3136 4194 2.154462 AGACAACTTCGGCCATCTTTG 58.846 47.619 2.24 2.88 0.00 2.77
3137 4195 1.880027 GACAACTTCGGCCATCTTTGT 59.120 47.619 2.24 6.52 0.00 2.83
3138 4196 2.293399 GACAACTTCGGCCATCTTTGTT 59.707 45.455 2.24 0.00 0.00 2.83
3139 4197 2.293399 ACAACTTCGGCCATCTTTGTTC 59.707 45.455 2.24 0.00 0.00 3.18
3140 4198 2.270352 ACTTCGGCCATCTTTGTTCA 57.730 45.000 2.24 0.00 0.00 3.18
3141 4199 1.880027 ACTTCGGCCATCTTTGTTCAC 59.120 47.619 2.24 0.00 0.00 3.18
3142 4200 2.154462 CTTCGGCCATCTTTGTTCACT 58.846 47.619 2.24 0.00 0.00 3.41
3143 4201 1.522668 TCGGCCATCTTTGTTCACTG 58.477 50.000 2.24 0.00 0.00 3.66
3144 4202 1.202758 TCGGCCATCTTTGTTCACTGT 60.203 47.619 2.24 0.00 0.00 3.55
3145 4203 2.037902 TCGGCCATCTTTGTTCACTGTA 59.962 45.455 2.24 0.00 0.00 2.74
3146 4204 2.811431 CGGCCATCTTTGTTCACTGTAA 59.189 45.455 2.24 0.00 0.00 2.41
3147 4205 3.252215 CGGCCATCTTTGTTCACTGTAAA 59.748 43.478 2.24 0.00 0.00 2.01
3148 4206 4.261405 CGGCCATCTTTGTTCACTGTAAAA 60.261 41.667 2.24 0.00 0.00 1.52
3149 4207 5.564651 CGGCCATCTTTGTTCACTGTAAAAT 60.565 40.000 2.24 0.00 0.00 1.82
3150 4208 6.223120 GGCCATCTTTGTTCACTGTAAAATT 58.777 36.000 0.00 0.00 0.00 1.82
3151 4209 7.375053 GGCCATCTTTGTTCACTGTAAAATTA 58.625 34.615 0.00 0.00 0.00 1.40
3152 4210 7.542130 GGCCATCTTTGTTCACTGTAAAATTAG 59.458 37.037 0.00 0.00 0.00 1.73
3153 4211 8.082242 GCCATCTTTGTTCACTGTAAAATTAGT 58.918 33.333 0.00 0.00 0.00 2.24
3154 4212 9.612620 CCATCTTTGTTCACTGTAAAATTAGTC 57.387 33.333 0.00 0.00 0.00 2.59
3159 4217 9.997482 TTTGTTCACTGTAAAATTAGTCAAGAC 57.003 29.630 0.00 0.00 0.00 3.01
3160 4218 7.847487 TGTTCACTGTAAAATTAGTCAAGACG 58.153 34.615 0.00 0.00 36.20 4.18
3161 4219 7.042321 TGTTCACTGTAAAATTAGTCAAGACGG 60.042 37.037 0.00 0.00 36.20 4.79
3162 4220 6.518493 TCACTGTAAAATTAGTCAAGACGGT 58.482 36.000 0.00 0.00 36.20 4.83
3163 4221 7.660112 TCACTGTAAAATTAGTCAAGACGGTA 58.340 34.615 0.00 0.00 36.20 4.02
3164 4222 8.143193 TCACTGTAAAATTAGTCAAGACGGTAA 58.857 33.333 0.00 0.00 36.20 2.85
3165 4223 8.219105 CACTGTAAAATTAGTCAAGACGGTAAC 58.781 37.037 0.00 0.00 36.20 2.50
3166 4224 7.927629 ACTGTAAAATTAGTCAAGACGGTAACA 59.072 33.333 0.00 0.00 36.20 2.41
3167 4225 8.659925 TGTAAAATTAGTCAAGACGGTAACAA 57.340 30.769 0.00 0.00 36.20 2.83
3168 4226 8.550376 TGTAAAATTAGTCAAGACGGTAACAAC 58.450 33.333 0.00 0.00 36.20 3.32
3169 4227 7.556733 AAAATTAGTCAAGACGGTAACAACA 57.443 32.000 0.00 0.00 36.20 3.33
3170 4228 6.535274 AATTAGTCAAGACGGTAACAACAC 57.465 37.500 0.00 0.00 36.20 3.32
3171 4229 2.830104 AGTCAAGACGGTAACAACACC 58.170 47.619 0.00 0.00 36.20 4.16
3172 4230 2.168936 AGTCAAGACGGTAACAACACCA 59.831 45.455 0.00 0.00 38.61 4.17
3173 4231 2.542595 GTCAAGACGGTAACAACACCAG 59.457 50.000 0.00 0.00 38.61 4.00
3174 4232 1.263217 CAAGACGGTAACAACACCAGC 59.737 52.381 0.00 0.00 38.61 4.85
3175 4233 0.466543 AGACGGTAACAACACCAGCA 59.533 50.000 0.00 0.00 38.61 4.41
3176 4234 1.134340 AGACGGTAACAACACCAGCAA 60.134 47.619 0.00 0.00 38.61 3.91
3177 4235 1.671845 GACGGTAACAACACCAGCAAA 59.328 47.619 0.00 0.00 38.61 3.68
3178 4236 1.402613 ACGGTAACAACACCAGCAAAC 59.597 47.619 0.00 0.00 38.61 2.93
3179 4237 1.673920 CGGTAACAACACCAGCAAACT 59.326 47.619 0.00 0.00 38.61 2.66
3180 4238 2.540769 CGGTAACAACACCAGCAAACTG 60.541 50.000 0.00 0.00 44.05 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
244 251 9.388346 GATGAATTGTTTGTAAATACGTGAACA 57.612 29.630 0.00 0.00 0.00 3.18
333 341 7.998964 TCTTTCTTCTTTTATTGGTCCTGTTCT 59.001 33.333 0.00 0.00 0.00 3.01
638 711 4.820744 ATGGCGGCATGGGTGTCC 62.821 66.667 25.20 0.00 0.00 4.02
655 728 3.601435 TCCACGTGTTTCTTTCTTGTGA 58.399 40.909 15.65 0.00 0.00 3.58
1123 1239 2.335369 GCGCGGGAGTATGTCGAT 59.665 61.111 8.83 0.00 0.00 3.59
1798 1922 0.251916 TTCCTTGCCAACGGATCGAT 59.748 50.000 0.00 0.00 0.00 3.59
3035 4093 6.683974 AAAGATTAAGTCACATCCATTCGG 57.316 37.500 0.00 0.00 0.00 4.30
3036 4094 8.830580 ACATAAAGATTAAGTCACATCCATTCG 58.169 33.333 0.00 0.00 0.00 3.34
3053 4111 9.398921 AGGACCTTAGGATTGATACATAAAGAT 57.601 33.333 4.77 0.00 0.00 2.40
3054 4112 8.798975 AGGACCTTAGGATTGATACATAAAGA 57.201 34.615 4.77 0.00 0.00 2.52
3057 4115 9.442062 TGTTAGGACCTTAGGATTGATACATAA 57.558 33.333 4.77 0.00 0.00 1.90
3058 4116 9.442062 TTGTTAGGACCTTAGGATTGATACATA 57.558 33.333 4.77 0.00 0.00 2.29
3059 4117 7.931015 TGTTAGGACCTTAGGATTGATACAT 57.069 36.000 4.77 0.00 0.00 2.29
3060 4118 7.622081 TCTTGTTAGGACCTTAGGATTGATACA 59.378 37.037 4.77 0.00 0.00 2.29
3061 4119 7.927092 GTCTTGTTAGGACCTTAGGATTGATAC 59.073 40.741 4.77 0.00 0.00 2.24
3062 4120 7.844779 AGTCTTGTTAGGACCTTAGGATTGATA 59.155 37.037 4.77 0.00 34.56 2.15
3063 4121 6.674419 AGTCTTGTTAGGACCTTAGGATTGAT 59.326 38.462 4.77 0.00 34.56 2.57
3064 4122 6.023603 AGTCTTGTTAGGACCTTAGGATTGA 58.976 40.000 4.77 0.00 34.56 2.57
3065 4123 6.109359 CAGTCTTGTTAGGACCTTAGGATTG 58.891 44.000 4.77 0.00 34.56 2.67
3066 4124 5.785940 ACAGTCTTGTTAGGACCTTAGGATT 59.214 40.000 4.77 0.00 32.28 3.01
3067 4125 5.342866 ACAGTCTTGTTAGGACCTTAGGAT 58.657 41.667 4.77 0.00 32.28 3.24
3068 4126 4.748701 ACAGTCTTGTTAGGACCTTAGGA 58.251 43.478 4.77 0.00 32.28 2.94
3069 4127 4.527038 TGACAGTCTTGTTAGGACCTTAGG 59.473 45.833 0.00 0.00 37.76 2.69
3070 4128 5.723672 TGACAGTCTTGTTAGGACCTTAG 57.276 43.478 0.00 0.00 37.76 2.18
3071 4129 6.017192 AGATGACAGTCTTGTTAGGACCTTA 58.983 40.000 0.00 0.00 37.76 2.69
3072 4130 4.841246 AGATGACAGTCTTGTTAGGACCTT 59.159 41.667 0.00 0.00 37.76 3.50
3073 4131 4.421131 AGATGACAGTCTTGTTAGGACCT 58.579 43.478 0.00 0.00 37.76 3.85
3074 4132 4.810191 AGATGACAGTCTTGTTAGGACC 57.190 45.455 1.31 0.00 37.76 4.46
3075 4133 5.992217 ACAAAGATGACAGTCTTGTTAGGAC 59.008 40.000 1.31 0.00 38.41 3.85
3076 4134 6.174720 ACAAAGATGACAGTCTTGTTAGGA 57.825 37.500 1.31 0.00 38.41 2.94
3077 4135 6.483307 TGAACAAAGATGACAGTCTTGTTAGG 59.517 38.462 15.18 7.23 38.41 2.69
3078 4136 7.482654 TGAACAAAGATGACAGTCTTGTTAG 57.517 36.000 15.18 0.47 38.41 2.34
3079 4137 7.012327 CCTTGAACAAAGATGACAGTCTTGTTA 59.988 37.037 15.18 4.44 38.41 2.41
3080 4138 6.183360 CCTTGAACAAAGATGACAGTCTTGTT 60.183 38.462 15.15 15.15 38.41 2.83
3081 4139 5.297776 CCTTGAACAAAGATGACAGTCTTGT 59.702 40.000 1.31 1.15 38.41 3.16
3082 4140 5.297776 ACCTTGAACAAAGATGACAGTCTTG 59.702 40.000 1.31 0.49 38.41 3.02
3083 4141 5.440610 ACCTTGAACAAAGATGACAGTCTT 58.559 37.500 1.31 0.00 40.05 3.01
3084 4142 5.041191 ACCTTGAACAAAGATGACAGTCT 57.959 39.130 1.31 0.00 38.24 3.24
3085 4143 4.816385 TGACCTTGAACAAAGATGACAGTC 59.184 41.667 0.00 0.00 38.24 3.51
3086 4144 4.780815 TGACCTTGAACAAAGATGACAGT 58.219 39.130 0.00 0.00 38.24 3.55
3087 4145 5.066375 TGTTGACCTTGAACAAAGATGACAG 59.934 40.000 0.00 0.00 38.24 3.51
3088 4146 4.946772 TGTTGACCTTGAACAAAGATGACA 59.053 37.500 0.00 0.00 38.24 3.58
3089 4147 5.296780 TCTGTTGACCTTGAACAAAGATGAC 59.703 40.000 0.00 0.00 38.24 3.06
3090 4148 5.436175 TCTGTTGACCTTGAACAAAGATGA 58.564 37.500 0.00 0.00 38.24 2.92
3091 4149 5.297776 ACTCTGTTGACCTTGAACAAAGATG 59.702 40.000 0.00 0.00 38.24 2.90
3092 4150 5.440610 ACTCTGTTGACCTTGAACAAAGAT 58.559 37.500 0.00 0.00 38.24 2.40
3093 4151 4.843728 ACTCTGTTGACCTTGAACAAAGA 58.156 39.130 0.00 0.00 38.24 2.52
3094 4152 6.018669 GTCTACTCTGTTGACCTTGAACAAAG 60.019 42.308 1.89 0.00 33.54 2.77
3095 4153 5.815740 GTCTACTCTGTTGACCTTGAACAAA 59.184 40.000 1.89 0.00 33.54 2.83
3096 4154 5.105106 TGTCTACTCTGTTGACCTTGAACAA 60.105 40.000 9.09 0.00 37.46 2.83
3097 4155 4.404394 TGTCTACTCTGTTGACCTTGAACA 59.596 41.667 9.09 0.00 37.46 3.18
3098 4156 4.945246 TGTCTACTCTGTTGACCTTGAAC 58.055 43.478 9.09 0.00 37.46 3.18
3099 4157 5.128827 AGTTGTCTACTCTGTTGACCTTGAA 59.871 40.000 9.09 0.00 37.46 2.69
3100 4158 4.649674 AGTTGTCTACTCTGTTGACCTTGA 59.350 41.667 9.09 0.00 37.46 3.02
3101 4159 4.950050 AGTTGTCTACTCTGTTGACCTTG 58.050 43.478 9.09 0.00 37.46 3.61
3102 4160 5.602628 GAAGTTGTCTACTCTGTTGACCTT 58.397 41.667 9.09 6.65 37.46 3.50
3103 4161 4.261656 CGAAGTTGTCTACTCTGTTGACCT 60.262 45.833 9.09 0.00 37.46 3.85
3104 4162 3.982058 CGAAGTTGTCTACTCTGTTGACC 59.018 47.826 9.09 0.00 37.46 4.02
3105 4163 3.982058 CCGAAGTTGTCTACTCTGTTGAC 59.018 47.826 5.59 5.59 38.40 3.18
3106 4164 3.552273 GCCGAAGTTGTCTACTCTGTTGA 60.552 47.826 0.00 0.00 35.54 3.18
3107 4165 2.731976 GCCGAAGTTGTCTACTCTGTTG 59.268 50.000 0.00 0.00 35.54 3.33
3108 4166 2.288886 GGCCGAAGTTGTCTACTCTGTT 60.289 50.000 0.00 0.00 35.54 3.16
3109 4167 1.272769 GGCCGAAGTTGTCTACTCTGT 59.727 52.381 0.00 0.00 35.54 3.41
3110 4168 1.272490 TGGCCGAAGTTGTCTACTCTG 59.728 52.381 0.00 0.00 35.54 3.35
3111 4169 1.629043 TGGCCGAAGTTGTCTACTCT 58.371 50.000 0.00 0.00 35.54 3.24
3112 4170 2.166664 AGATGGCCGAAGTTGTCTACTC 59.833 50.000 0.00 0.00 35.54 2.59
3113 4171 2.180276 AGATGGCCGAAGTTGTCTACT 58.820 47.619 0.00 0.00 39.32 2.57
3114 4172 2.674796 AGATGGCCGAAGTTGTCTAC 57.325 50.000 0.00 0.00 0.00 2.59
3115 4173 3.244422 ACAAAGATGGCCGAAGTTGTCTA 60.244 43.478 8.43 0.00 0.00 2.59
3116 4174 2.154462 CAAAGATGGCCGAAGTTGTCT 58.846 47.619 0.00 0.00 0.00 3.41
3117 4175 1.880027 ACAAAGATGGCCGAAGTTGTC 59.120 47.619 8.43 0.00 0.00 3.18
3118 4176 1.981256 ACAAAGATGGCCGAAGTTGT 58.019 45.000 8.43 8.43 0.00 3.32
3119 4177 2.293122 TGAACAAAGATGGCCGAAGTTG 59.707 45.455 0.00 2.70 0.00 3.16
3120 4178 2.293399 GTGAACAAAGATGGCCGAAGTT 59.707 45.455 0.00 0.00 0.00 2.66
3121 4179 1.880027 GTGAACAAAGATGGCCGAAGT 59.120 47.619 0.00 0.00 0.00 3.01
3122 4180 2.095567 CAGTGAACAAAGATGGCCGAAG 60.096 50.000 0.00 0.00 0.00 3.79
3123 4181 1.879380 CAGTGAACAAAGATGGCCGAA 59.121 47.619 0.00 0.00 0.00 4.30
3124 4182 1.202758 ACAGTGAACAAAGATGGCCGA 60.203 47.619 0.00 0.00 0.00 5.54
3125 4183 1.238439 ACAGTGAACAAAGATGGCCG 58.762 50.000 0.00 0.00 0.00 6.13
3126 4184 4.846779 TTTACAGTGAACAAAGATGGCC 57.153 40.909 0.00 0.00 0.00 5.36
3127 4185 8.082242 ACTAATTTTACAGTGAACAAAGATGGC 58.918 33.333 0.00 0.00 0.00 4.40
3128 4186 9.612620 GACTAATTTTACAGTGAACAAAGATGG 57.387 33.333 0.00 0.00 0.00 3.51
3133 4191 9.997482 GTCTTGACTAATTTTACAGTGAACAAA 57.003 29.630 0.00 0.00 0.00 2.83
3134 4192 8.332464 CGTCTTGACTAATTTTACAGTGAACAA 58.668 33.333 0.00 0.00 0.00 2.83
3135 4193 7.042321 CCGTCTTGACTAATTTTACAGTGAACA 60.042 37.037 0.00 0.00 0.00 3.18
3136 4194 7.042254 ACCGTCTTGACTAATTTTACAGTGAAC 60.042 37.037 0.00 0.00 0.00 3.18
3137 4195 6.987992 ACCGTCTTGACTAATTTTACAGTGAA 59.012 34.615 0.00 0.00 0.00 3.18
3138 4196 6.518493 ACCGTCTTGACTAATTTTACAGTGA 58.482 36.000 0.00 0.00 0.00 3.41
3139 4197 6.780706 ACCGTCTTGACTAATTTTACAGTG 57.219 37.500 0.00 0.00 0.00 3.66
3140 4198 7.927629 TGTTACCGTCTTGACTAATTTTACAGT 59.072 33.333 0.00 0.00 0.00 3.55
3141 4199 8.301730 TGTTACCGTCTTGACTAATTTTACAG 57.698 34.615 0.00 0.00 0.00 2.74
3142 4200 8.550376 GTTGTTACCGTCTTGACTAATTTTACA 58.450 33.333 0.00 0.00 0.00 2.41
3143 4201 8.550376 TGTTGTTACCGTCTTGACTAATTTTAC 58.450 33.333 0.00 0.00 0.00 2.01
3144 4202 8.550376 GTGTTGTTACCGTCTTGACTAATTTTA 58.450 33.333 0.00 0.00 0.00 1.52
3145 4203 7.412063 GTGTTGTTACCGTCTTGACTAATTTT 58.588 34.615 0.00 0.00 0.00 1.82
3146 4204 6.017687 GGTGTTGTTACCGTCTTGACTAATTT 60.018 38.462 0.00 0.00 0.00 1.82
3147 4205 5.467735 GGTGTTGTTACCGTCTTGACTAATT 59.532 40.000 0.00 0.00 0.00 1.40
3148 4206 4.992951 GGTGTTGTTACCGTCTTGACTAAT 59.007 41.667 0.00 0.00 0.00 1.73
3149 4207 4.141981 TGGTGTTGTTACCGTCTTGACTAA 60.142 41.667 0.00 0.00 43.87 2.24
3150 4208 3.384146 TGGTGTTGTTACCGTCTTGACTA 59.616 43.478 0.00 0.00 43.87 2.59
3151 4209 2.168936 TGGTGTTGTTACCGTCTTGACT 59.831 45.455 0.00 0.00 43.87 3.41
3152 4210 2.542595 CTGGTGTTGTTACCGTCTTGAC 59.457 50.000 0.00 0.00 43.87 3.18
3153 4211 2.828877 CTGGTGTTGTTACCGTCTTGA 58.171 47.619 0.00 0.00 43.87 3.02
3154 4212 1.263217 GCTGGTGTTGTTACCGTCTTG 59.737 52.381 0.00 0.00 43.87 3.02
3155 4213 1.134340 TGCTGGTGTTGTTACCGTCTT 60.134 47.619 0.00 0.00 43.87 3.01
3156 4214 0.466543 TGCTGGTGTTGTTACCGTCT 59.533 50.000 0.00 0.00 43.87 4.18
3157 4215 1.301423 TTGCTGGTGTTGTTACCGTC 58.699 50.000 0.00 0.00 43.87 4.79
3158 4216 1.402613 GTTTGCTGGTGTTGTTACCGT 59.597 47.619 0.00 0.00 43.87 4.83
3159 4217 1.673920 AGTTTGCTGGTGTTGTTACCG 59.326 47.619 0.00 0.00 43.87 4.02
3160 4218 2.685897 TCAGTTTGCTGGTGTTGTTACC 59.314 45.455 0.00 0.00 42.78 2.85


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

AutoCloner maintained by Alex Coulton.