Multiple sequence alignment - TraesCS4B01G105000

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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 TraesCS4B01G105000 chr4B 100.000 3616 0 0 1 3616 112358435 112354820 0.000000e+00 6678.0
1 TraesCS4B01G105000 chr4B 100.000 44 0 0 1041 1084 112357352 112357309 8.320000e-12 82.4
2 TraesCS4B01G105000 chr4B 100.000 44 0 0 1084 1127 112357395 112357352 8.320000e-12 82.4
3 TraesCS4B01G105000 chr4D 96.077 2498 89 6 1125 3615 80146857 80144362 0.000000e+00 4061.0
4 TraesCS4B01G105000 chr4A 94.651 2561 93 19 1084 3615 505788794 505791339 0.000000e+00 3930.0
5 TraesCS4B01G105000 chr3B 97.937 1018 21 0 1 1018 706923036 706922019 0.000000e+00 1764.0
6 TraesCS4B01G105000 chr7D 92.974 1039 43 12 1 1015 75152192 75153224 0.000000e+00 1487.0
7 TraesCS4B01G105000 chr5A 92.589 1039 50 9 1 1015 532476950 532475915 0.000000e+00 1467.0
8 TraesCS4B01G105000 chr7A 91.329 1038 61 6 1 1014 619111702 619112734 0.000000e+00 1391.0
9 TraesCS4B01G105000 chr2D 85.533 629 54 16 103 698 2008220 2007596 1.100000e-174 623.0
10 TraesCS4B01G105000 chr3A 84.152 631 65 13 100 698 401009265 401009892 2.420000e-161 579.0
11 TraesCS4B01G105000 chr6B 90.805 261 16 3 1 253 6356443 6356703 3.460000e-90 342.0
12 TraesCS4B01G105000 chr6B 84.516 310 32 7 103 398 492640301 492639994 3.530000e-75 292.0
13 TraesCS4B01G105000 chr6B 85.765 281 33 2 423 698 492639930 492639652 1.270000e-74 291.0
14 TraesCS4B01G105000 chr1A 94.286 35 2 0 983 1017 504221789 504221823 2.000000e-03 54.7


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 TraesCS4B01G105000 chr4B 112354820 112358435 3615 True 2280.933333 6678 100.0000 1 3616 3 chr4B.!!$R1 3615
1 TraesCS4B01G105000 chr4D 80144362 80146857 2495 True 4061.000000 4061 96.0770 1125 3615 1 chr4D.!!$R1 2490
2 TraesCS4B01G105000 chr4A 505788794 505791339 2545 False 3930.000000 3930 94.6510 1084 3615 1 chr4A.!!$F1 2531
3 TraesCS4B01G105000 chr3B 706922019 706923036 1017 True 1764.000000 1764 97.9370 1 1018 1 chr3B.!!$R1 1017
4 TraesCS4B01G105000 chr7D 75152192 75153224 1032 False 1487.000000 1487 92.9740 1 1015 1 chr7D.!!$F1 1014
5 TraesCS4B01G105000 chr5A 532475915 532476950 1035 True 1467.000000 1467 92.5890 1 1015 1 chr5A.!!$R1 1014
6 TraesCS4B01G105000 chr7A 619111702 619112734 1032 False 1391.000000 1391 91.3290 1 1014 1 chr7A.!!$F1 1013
7 TraesCS4B01G105000 chr2D 2007596 2008220 624 True 623.000000 623 85.5330 103 698 1 chr2D.!!$R1 595
8 TraesCS4B01G105000 chr3A 401009265 401009892 627 False 579.000000 579 84.1520 100 698 1 chr3A.!!$F1 598
9 TraesCS4B01G105000 chr6B 492639652 492640301 649 True 291.500000 292 85.1405 103 698 2 chr6B.!!$R1 595

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
818 882 7.120138 TGCATTGCATATCGTCTTGATGAATAT 59.880 33.333 7.38 0.00 34.19 1.28 F
1070 1136 0.318360 CGATCGTAGGCGGCATACAA 60.318 55.000 22.59 6.76 38.89 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1979 2062 1.298859 GGTCCGTGAACATGTCCAGC 61.299 60.000 0.0 0.0 0.0 4.85 R
3039 3132 1.133513 AGTTGTTTGCCATCACCTCCA 60.134 47.619 0.0 0.0 0.0 3.86 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
709 773 8.186178 ACGTGTGCTCTTGAAGTATAAATTAG 57.814 34.615 0.00 0.00 0.00 1.73
818 882 7.120138 TGCATTGCATATCGTCTTGATGAATAT 59.880 33.333 7.38 0.00 34.19 1.28
863 927 7.899178 TTACTTGATTTCTGCGTCTAATCAA 57.101 32.000 12.48 12.48 42.69 2.57
870 934 8.390354 TGATTTCTGCGTCTAATCAAATAGTTG 58.610 33.333 0.00 0.00 35.86 3.16
929 995 9.435688 AAATTAACTGCTAATTGGGTCAATTTC 57.564 29.630 10.55 5.26 40.60 2.17
987 1053 9.046296 CATTAGTTTATAAGCAGAGATTTCCGT 57.954 33.333 1.97 0.00 0.00 4.69
988 1054 8.644318 TTAGTTTATAAGCAGAGATTTCCGTC 57.356 34.615 1.97 0.00 0.00 4.79
1018 1084 5.286558 GCGCGGAGAATCATCTAGTTATAAC 59.713 44.000 8.83 7.57 35.54 1.89
1019 1085 6.379386 CGCGGAGAATCATCTAGTTATAACA 58.621 40.000 17.65 3.41 35.54 2.41
1020 1086 6.524933 CGCGGAGAATCATCTAGTTATAACAG 59.475 42.308 17.65 12.18 35.54 3.16
1021 1087 6.309251 GCGGAGAATCATCTAGTTATAACAGC 59.691 42.308 17.65 0.00 35.54 4.40
1022 1088 6.524933 CGGAGAATCATCTAGTTATAACAGCG 59.475 42.308 17.65 5.58 35.54 5.18
1023 1089 7.573283 CGGAGAATCATCTAGTTATAACAGCGA 60.573 40.741 17.65 10.40 35.54 4.93
1024 1090 8.247562 GGAGAATCATCTAGTTATAACAGCGAT 58.752 37.037 17.65 12.01 35.54 4.58
1025 1091 9.632807 GAGAATCATCTAGTTATAACAGCGATT 57.367 33.333 17.65 18.35 35.54 3.34
1026 1092 9.988815 AGAATCATCTAGTTATAACAGCGATTT 57.011 29.630 17.65 7.94 32.88 2.17
1028 1094 9.547753 AATCATCTAGTTATAACAGCGATTTGT 57.452 29.630 17.65 0.00 0.00 2.83
1029 1095 8.352752 TCATCTAGTTATAACAGCGATTTGTG 57.647 34.615 17.65 6.22 0.00 3.33
1030 1096 6.583912 TCTAGTTATAACAGCGATTTGTGC 57.416 37.500 17.65 0.00 0.00 4.57
1031 1097 4.616181 AGTTATAACAGCGATTTGTGCC 57.384 40.909 17.65 0.00 0.00 5.01
1032 1098 4.006989 AGTTATAACAGCGATTTGTGCCA 58.993 39.130 17.65 0.00 0.00 4.92
1033 1099 4.457603 AGTTATAACAGCGATTTGTGCCAA 59.542 37.500 17.65 0.00 0.00 4.52
1034 1100 2.987413 TAACAGCGATTTGTGCCAAG 57.013 45.000 0.00 0.00 0.00 3.61
1035 1101 1.317613 AACAGCGATTTGTGCCAAGA 58.682 45.000 0.00 0.00 0.00 3.02
1036 1102 1.317613 ACAGCGATTTGTGCCAAGAA 58.682 45.000 0.00 0.00 0.00 2.52
1037 1103 1.267806 ACAGCGATTTGTGCCAAGAAG 59.732 47.619 0.00 0.00 0.00 2.85
1038 1104 1.536766 CAGCGATTTGTGCCAAGAAGA 59.463 47.619 0.00 0.00 0.00 2.87
1039 1105 1.537202 AGCGATTTGTGCCAAGAAGAC 59.463 47.619 0.00 0.00 0.00 3.01
1040 1106 1.725931 GCGATTTGTGCCAAGAAGACG 60.726 52.381 0.00 0.00 0.00 4.18
1041 1107 1.798223 CGATTTGTGCCAAGAAGACGA 59.202 47.619 0.00 0.00 0.00 4.20
1042 1108 2.411547 CGATTTGTGCCAAGAAGACGAC 60.412 50.000 0.00 0.00 0.00 4.34
1043 1109 1.305201 TTTGTGCCAAGAAGACGACC 58.695 50.000 0.00 0.00 0.00 4.79
1044 1110 0.534203 TTGTGCCAAGAAGACGACCC 60.534 55.000 0.00 0.00 0.00 4.46
1045 1111 1.371558 GTGCCAAGAAGACGACCCT 59.628 57.895 0.00 0.00 0.00 4.34
1046 1112 0.670854 GTGCCAAGAAGACGACCCTC 60.671 60.000 0.00 0.00 0.00 4.30
1047 1113 1.446272 GCCAAGAAGACGACCCTCG 60.446 63.158 0.00 0.00 46.93 4.63
1048 1114 1.446272 CCAAGAAGACGACCCTCGC 60.446 63.158 0.00 0.00 45.12 5.03
1049 1115 1.801913 CAAGAAGACGACCCTCGCG 60.802 63.158 0.00 0.00 45.12 5.87
1050 1116 3.628280 AAGAAGACGACCCTCGCGC 62.628 63.158 0.00 0.00 45.12 6.86
1059 1125 4.685026 CCCTCGCGCCGATCGTAG 62.685 72.222 15.09 8.50 41.07 3.51
1060 1126 4.685026 CCTCGCGCCGATCGTAGG 62.685 72.222 15.09 8.59 41.07 3.18
1067 1133 2.959372 CCGATCGTAGGCGGCATA 59.041 61.111 15.09 0.00 38.74 3.14
1068 1134 1.443872 CCGATCGTAGGCGGCATAC 60.444 63.158 15.09 14.35 38.74 2.39
1069 1135 1.284715 CGATCGTAGGCGGCATACA 59.715 57.895 22.59 11.42 38.89 2.29
1070 1136 0.318360 CGATCGTAGGCGGCATACAA 60.318 55.000 22.59 6.76 38.89 2.41
1071 1137 1.668919 CGATCGTAGGCGGCATACAAT 60.669 52.381 22.59 11.59 38.89 2.71
1072 1138 2.414957 CGATCGTAGGCGGCATACAATA 60.415 50.000 22.59 9.29 38.89 1.90
1073 1139 3.581755 GATCGTAGGCGGCATACAATAA 58.418 45.455 22.59 7.04 38.89 1.40
1074 1140 3.455990 TCGTAGGCGGCATACAATAAA 57.544 42.857 22.59 1.97 38.89 1.40
1075 1141 3.125316 TCGTAGGCGGCATACAATAAAC 58.875 45.455 22.59 0.00 38.89 2.01
1076 1142 2.867368 CGTAGGCGGCATACAATAAACA 59.133 45.455 22.59 0.00 0.00 2.83
1077 1143 3.310227 CGTAGGCGGCATACAATAAACAA 59.690 43.478 22.59 0.00 0.00 2.83
1078 1144 4.201832 CGTAGGCGGCATACAATAAACAAA 60.202 41.667 22.59 0.00 0.00 2.83
1079 1145 5.504994 CGTAGGCGGCATACAATAAACAAAT 60.505 40.000 22.59 0.00 0.00 2.32
1080 1146 4.932146 AGGCGGCATACAATAAACAAATC 58.068 39.130 13.08 0.00 0.00 2.17
1081 1147 3.728718 GGCGGCATACAATAAACAAATCG 59.271 43.478 3.07 0.00 0.00 3.34
1082 1148 4.347813 GCGGCATACAATAAACAAATCGT 58.652 39.130 0.00 0.00 0.00 3.73
1102 1168 4.685026 CCCTCGCGCCGATCGTAG 62.685 72.222 15.09 8.50 41.07 3.51
1103 1169 4.685026 CCTCGCGCCGATCGTAGG 62.685 72.222 15.09 8.59 41.07 3.18
1114 1180 1.668919 CGATCGTAGGCGGCATACAAT 60.669 52.381 22.59 11.59 38.89 2.71
1119 1185 2.867368 CGTAGGCGGCATACAATAAACA 59.133 45.455 22.59 0.00 0.00 2.83
1129 1195 4.316377 GCATACAATAAACAAATCGTGCGC 60.316 41.667 0.00 0.00 0.00 6.09
1146 1212 4.767255 CCTGGCAGGGTCGCTGTC 62.767 72.222 26.34 14.25 0.00 3.51
1150 1216 4.057428 GCAGGGTCGCTGTCGTCT 62.057 66.667 17.35 0.00 36.96 4.18
1151 1217 2.126307 CAGGGTCGCTGTCGTCTG 60.126 66.667 8.71 0.00 36.96 3.51
1152 1218 4.057428 AGGGTCGCTGTCGTCTGC 62.057 66.667 1.61 1.61 36.96 4.26
1155 1221 1.211969 GGTCGCTGTCGTCTGCTTA 59.788 57.895 9.51 0.00 36.58 3.09
1157 1223 1.154016 TCGCTGTCGTCTGCTTAGC 60.154 57.895 9.51 0.00 36.58 3.09
1158 1224 1.444383 CGCTGTCGTCTGCTTAGCA 60.444 57.895 6.76 6.76 36.58 3.49
1197 1265 4.656112 CACCCAGGGATCATTTACTACTCT 59.344 45.833 14.54 0.00 0.00 3.24
1288 1356 1.800805 CTGCTCACAAGGTGTTCGAT 58.199 50.000 0.00 0.00 34.79 3.59
1302 1370 2.308450 TTCGATGAAATGCCGCGCTG 62.308 55.000 5.56 0.00 0.00 5.18
1484 1567 2.659610 GCCAGACTGCTCCGTCTT 59.340 61.111 0.00 0.00 42.10 3.01
1676 1759 1.153745 GCTCACGAAGGTCTGCGAT 60.154 57.895 5.24 0.00 0.00 4.58
1871 1954 4.473520 GCCTGCGCCAGCTTCCTA 62.474 66.667 4.18 0.00 45.42 2.94
1979 2062 2.608752 GGCAAAGACATGGCAAGAAGTG 60.609 50.000 0.00 0.00 44.66 3.16
2063 2146 1.075601 AGAAGGTGGAGGCCATGAAA 58.924 50.000 5.01 0.00 35.28 2.69
2117 2200 0.984230 AGAGGGACATCGCCTTCAAA 59.016 50.000 0.00 0.00 36.56 2.69
2325 2408 3.270000 TCGACGGCGATGAACTCA 58.730 55.556 10.67 0.00 42.51 3.41
2413 2496 4.564821 GGCAAATACTGACACTGGGACTAA 60.565 45.833 0.00 0.00 30.79 2.24
2492 2575 2.142292 ATCTGTGGGGCCTTGGTGTC 62.142 60.000 0.84 0.00 0.00 3.67
2495 2578 3.172106 TGGGGCCTTGGTGTCGAA 61.172 61.111 0.84 0.00 0.00 3.71
2594 2677 5.163652 GCAACACCTTATCTGTAAATCACCC 60.164 44.000 0.00 0.00 0.00 4.61
2595 2678 4.766375 ACACCTTATCTGTAAATCACCCG 58.234 43.478 0.00 0.00 0.00 5.28
2610 2694 1.757118 CACCCGGCTTCTGAAGATAGA 59.243 52.381 21.06 0.00 0.00 1.98
2789 2877 1.223077 AGGGGAGATACATACAGGGCA 59.777 52.381 0.00 0.00 0.00 5.36
2943 3036 0.183971 TTTTCTGGCGAGGGGTTTCA 59.816 50.000 0.00 0.00 0.00 2.69
2976 3069 0.613260 TGAGATAGTTGCTTGGCCGT 59.387 50.000 0.00 0.00 0.00 5.68
2990 3083 1.520666 GCCGTGTAGGGTACAGCAT 59.479 57.895 0.00 0.00 39.77 3.79
3169 3262 6.096001 GCTGGACAAATCAGATTACCAGATTT 59.904 38.462 29.01 9.37 43.91 2.17
3298 3392 3.070018 CTGGCACCACTAAGTTTCTCAG 58.930 50.000 0.00 0.00 0.00 3.35
3379 3473 7.327032 GCTTGTCTTTACCTGAAATTTGATCAC 59.673 37.037 0.00 0.00 0.00 3.06
3481 3575 4.758674 GGTCATCATACATAGCACAAGCAT 59.241 41.667 0.00 0.00 45.49 3.79
3502 3596 6.892691 GCATAGGCGGATTTCATAATATAGC 58.107 40.000 0.00 0.00 0.00 2.97
3508 3602 5.065218 GCGGATTTCATAATATAGCCCACTG 59.935 44.000 0.00 0.00 0.00 3.66
3615 3709 1.495574 GAGCCAGACCTAGAGGACCTA 59.504 57.143 1.60 0.00 38.94 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
229 236 4.473477 AAAGATGGGTCACTACTGTAGC 57.527 45.455 14.55 0.00 0.00 3.58
745 809 6.098409 ACTGGATAATGGAATAGACGACACTT 59.902 38.462 0.00 0.00 0.00 3.16
778 842 4.932146 TGCAATGCATCATTCATCTTCAG 58.068 39.130 2.72 0.00 31.05 3.02
818 882 6.711645 AGTAAACGCAGTAGGGAAAAATGTTA 59.288 34.615 0.00 0.00 45.00 2.41
870 934 8.713271 ACGAAGTTCTTATGAGAGTCAAATTTC 58.287 33.333 0.56 0.00 37.78 2.17
929 995 7.587037 ATCTATATTTGTTTCACCATGTGGG 57.413 36.000 3.77 0.00 44.81 4.61
964 1030 6.916387 CGACGGAAATCTCTGCTTATAAACTA 59.084 38.462 0.00 0.00 0.00 2.24
1000 1066 9.988815 AAATCGCTGTTATAACTAGATGATTCT 57.011 29.630 16.33 11.26 35.90 2.40
1026 1092 1.070786 GGGTCGTCTTCTTGGCACA 59.929 57.895 0.00 0.00 0.00 4.57
1027 1093 0.670854 GAGGGTCGTCTTCTTGGCAC 60.671 60.000 0.00 0.00 0.00 5.01
1028 1094 1.671742 GAGGGTCGTCTTCTTGGCA 59.328 57.895 0.00 0.00 0.00 4.92
1029 1095 1.446272 CGAGGGTCGTCTTCTTGGC 60.446 63.158 0.00 0.00 34.72 4.52
1030 1096 1.446272 GCGAGGGTCGTCTTCTTGG 60.446 63.158 0.00 0.00 42.81 3.61
1031 1097 1.801913 CGCGAGGGTCGTCTTCTTG 60.802 63.158 0.00 0.00 42.81 3.02
1032 1098 2.567049 CGCGAGGGTCGTCTTCTT 59.433 61.111 0.00 0.00 42.81 2.52
1033 1099 4.117661 GCGCGAGGGTCGTCTTCT 62.118 66.667 12.10 0.00 42.81 2.85
1042 1108 4.685026 CTACGATCGGCGCGAGGG 62.685 72.222 20.98 0.00 46.04 4.30
1043 1109 4.685026 CCTACGATCGGCGCGAGG 62.685 72.222 20.98 13.06 46.04 4.63
1051 1117 0.318360 TTGTATGCCGCCTACGATCG 60.318 55.000 14.88 14.88 43.93 3.69
1052 1118 2.080286 ATTGTATGCCGCCTACGATC 57.920 50.000 3.38 0.00 43.93 3.69
1053 1119 3.671008 TTATTGTATGCCGCCTACGAT 57.329 42.857 11.84 11.84 43.93 3.73
1054 1120 3.125316 GTTTATTGTATGCCGCCTACGA 58.875 45.455 0.00 0.00 43.93 3.43
1055 1121 2.867368 TGTTTATTGTATGCCGCCTACG 59.133 45.455 1.96 0.00 39.67 3.51
1056 1122 4.886247 TTGTTTATTGTATGCCGCCTAC 57.114 40.909 0.00 0.00 0.00 3.18
1057 1123 5.277586 CGATTTGTTTATTGTATGCCGCCTA 60.278 40.000 0.00 0.00 0.00 3.93
1058 1124 4.497340 CGATTTGTTTATTGTATGCCGCCT 60.497 41.667 0.00 0.00 0.00 5.52
1059 1125 3.728718 CGATTTGTTTATTGTATGCCGCC 59.271 43.478 0.00 0.00 0.00 6.13
1060 1126 4.204168 CACGATTTGTTTATTGTATGCCGC 59.796 41.667 0.00 0.00 0.00 6.53
1061 1127 5.451023 GTCACGATTTGTTTATTGTATGCCG 59.549 40.000 0.00 0.00 0.00 5.69
1062 1128 5.741982 GGTCACGATTTGTTTATTGTATGCC 59.258 40.000 0.00 0.00 0.00 4.40
1063 1129 5.741982 GGGTCACGATTTGTTTATTGTATGC 59.258 40.000 0.00 0.00 0.00 3.14
1064 1130 7.083875 AGGGTCACGATTTGTTTATTGTATG 57.916 36.000 0.00 0.00 0.00 2.39
1065 1131 6.036735 CGAGGGTCACGATTTGTTTATTGTAT 59.963 38.462 0.00 0.00 0.00 2.29
1066 1132 5.349270 CGAGGGTCACGATTTGTTTATTGTA 59.651 40.000 0.00 0.00 0.00 2.41
1067 1133 4.153475 CGAGGGTCACGATTTGTTTATTGT 59.847 41.667 0.00 0.00 0.00 2.71
1068 1134 4.647964 CGAGGGTCACGATTTGTTTATTG 58.352 43.478 0.00 0.00 0.00 1.90
1069 1135 3.126343 GCGAGGGTCACGATTTGTTTATT 59.874 43.478 0.00 0.00 0.00 1.40
1070 1136 2.676342 GCGAGGGTCACGATTTGTTTAT 59.324 45.455 0.00 0.00 0.00 1.40
1071 1137 2.070783 GCGAGGGTCACGATTTGTTTA 58.929 47.619 0.00 0.00 0.00 2.01
1072 1138 0.872388 GCGAGGGTCACGATTTGTTT 59.128 50.000 0.00 0.00 0.00 2.83
1073 1139 1.289109 CGCGAGGGTCACGATTTGTT 61.289 55.000 0.00 0.00 0.00 2.83
1074 1140 1.736645 CGCGAGGGTCACGATTTGT 60.737 57.895 0.00 0.00 0.00 2.83
1075 1141 3.081133 CGCGAGGGTCACGATTTG 58.919 61.111 0.00 0.00 0.00 2.32
1076 1142 2.813908 GCGCGAGGGTCACGATTT 60.814 61.111 12.10 0.00 0.00 2.17
1077 1143 4.814294 GGCGCGAGGGTCACGATT 62.814 66.667 12.10 0.00 0.00 3.34
1094 1160 0.318360 TTGTATGCCGCCTACGATCG 60.318 55.000 14.88 14.88 43.93 3.69
1102 1168 3.728718 CGATTTGTTTATTGTATGCCGCC 59.271 43.478 0.00 0.00 0.00 6.13
1103 1169 4.204168 CACGATTTGTTTATTGTATGCCGC 59.796 41.667 0.00 0.00 0.00 6.53
1114 1180 0.519519 CCAGGCGCACGATTTGTTTA 59.480 50.000 10.83 0.00 0.00 2.01
1119 1185 3.434319 CTGCCAGGCGCACGATTT 61.434 61.111 10.83 0.00 44.64 2.17
1129 1195 4.767255 GACAGCGACCCTGCCAGG 62.767 72.222 2.91 2.91 45.78 4.45
1141 1207 4.578913 TGCTAAGCAGACGACAGC 57.421 55.556 0.00 0.00 33.32 4.40
1150 1216 4.433615 CGATTAAAGAGGACTGCTAAGCA 58.566 43.478 0.00 0.00 36.92 3.91
1151 1217 3.246463 GCGATTAAAGAGGACTGCTAAGC 59.754 47.826 0.00 0.00 0.00 3.09
1152 1218 3.804873 GGCGATTAAAGAGGACTGCTAAG 59.195 47.826 0.00 0.00 0.00 2.18
1155 1221 1.555075 TGGCGATTAAAGAGGACTGCT 59.445 47.619 0.00 0.00 0.00 4.24
1157 1223 2.280628 GGTGGCGATTAAAGAGGACTG 58.719 52.381 0.00 0.00 0.00 3.51
1158 1224 1.209747 GGGTGGCGATTAAAGAGGACT 59.790 52.381 0.00 0.00 0.00 3.85
1159 1225 1.065709 TGGGTGGCGATTAAAGAGGAC 60.066 52.381 0.00 0.00 0.00 3.85
1160 1226 1.209504 CTGGGTGGCGATTAAAGAGGA 59.790 52.381 0.00 0.00 0.00 3.71
1161 1227 1.668419 CTGGGTGGCGATTAAAGAGG 58.332 55.000 0.00 0.00 0.00 3.69
1164 1230 0.254747 TCCCTGGGTGGCGATTAAAG 59.745 55.000 13.56 0.00 0.00 1.85
1197 1265 1.855513 CACGTTACCTTCGGTGTTCA 58.144 50.000 0.00 0.00 36.19 3.18
1288 1356 3.803082 GCTCAGCGCGGCATTTCA 61.803 61.111 8.83 0.00 0.00 2.69
1366 1449 4.189188 CTCTGGTACCGACGCCCG 62.189 72.222 7.57 0.00 38.18 6.13
1979 2062 1.298859 GGTCCGTGAACATGTCCAGC 61.299 60.000 0.00 0.00 0.00 4.85
2365 2448 2.373169 TCCCAGACAAAGCTGAAGACAT 59.627 45.455 0.00 0.00 38.14 3.06
2390 2473 2.084546 GTCCCAGTGTCAGTATTTGCC 58.915 52.381 0.00 0.00 0.00 4.52
2492 2575 2.638556 ATGTCACCGTCTTCTCTTCG 57.361 50.000 0.00 0.00 0.00 3.79
2495 2578 3.687125 TCTGTATGTCACCGTCTTCTCT 58.313 45.455 0.00 0.00 0.00 3.10
2732 2816 4.154195 CCTCGTCCTTTGTACAAATTCAGG 59.846 45.833 20.83 17.77 0.00 3.86
2877 2970 9.838339 AGAAGATTGTAGAAATTCCAATCGTAT 57.162 29.630 14.68 9.31 45.69 3.06
2880 2973 7.912250 CCAAGAAGATTGTAGAAATTCCAATCG 59.088 37.037 14.68 5.33 45.69 3.34
2943 3036 1.194781 ATCTCACAGACCCGTGGCTT 61.195 55.000 0.00 0.00 37.50 4.35
2976 3069 5.685520 TCAACAATATGCTGTACCCTACA 57.314 39.130 0.00 0.00 37.13 2.74
2990 3083 5.680619 CCAACTACAGCCCTATCAACAATA 58.319 41.667 0.00 0.00 0.00 1.90
3039 3132 1.133513 AGTTGTTTGCCATCACCTCCA 60.134 47.619 0.00 0.00 0.00 3.86
3246 3340 3.793797 TCCTTCGATATCAACTCGCAA 57.206 42.857 3.12 0.00 36.11 4.85
3379 3473 6.488683 TGGTGTCCTTTAATTTCTAACCACTG 59.511 38.462 0.00 0.00 30.48 3.66
3425 3519 7.828223 GGCTGGATGACATTATCTCTCATATTT 59.172 37.037 0.00 0.00 0.00 1.40
3461 3555 5.163784 GCCTATGCTTGTGCTATGTATGATG 60.164 44.000 0.00 0.00 40.48 3.07
3481 3575 5.427157 TGGGCTATATTATGAAATCCGCCTA 59.573 40.000 0.00 0.00 34.61 3.93
3508 3602 6.035435 CAGTCTATGACTATGCACTGTCAAAC 59.965 42.308 22.08 19.22 44.81 2.93


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

AutoCloner maintained by Alex Coulton.