Multiple sequence alignment - TraesCS7D01G341700

Loading Multiple Alignment...

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 TraesCS7D01G341700 chr7D 100.000 3847 0 0 1 3847 437422880 437426726 0.000000e+00 7105.0
1 TraesCS7D01G341700 chr7B 93.190 2320 95 20 1143 3454 454239160 454241424 0.000000e+00 3350.0
2 TraesCS7D01G341700 chr7B 96.970 627 13 2 135 760 454237142 454237763 0.000000e+00 1048.0
3 TraesCS7D01G341700 chr7B 93.734 383 18 3 764 1140 454238721 454239103 1.550000e-158 569.0
4 TraesCS7D01G341700 chr7B 94.211 190 10 1 3530 3718 454241419 454241608 4.860000e-74 289.0
5 TraesCS7D01G341700 chr7B 97.802 91 2 0 3712 3802 454241630 454241720 1.430000e-34 158.0
6 TraesCS7D01G341700 chr7B 100.000 41 0 0 3807 3847 747370702 747370662 4.120000e-10 76.8
7 TraesCS7D01G341700 chr7B 94.444 36 2 0 146 181 454237117 454237152 5.370000e-04 56.5
8 TraesCS7D01G341700 chr7A 90.206 2430 165 34 1169 3569 487631155 487633540 0.000000e+00 3101.0
9 TraesCS7D01G341700 chr7A 91.185 1021 41 20 150 1127 487630039 487631053 0.000000e+00 1341.0
10 TraesCS7D01G341700 chr7A 91.703 229 15 4 3568 3793 487633701 487633928 8.020000e-82 315.0
11 TraesCS7D01G341700 chr7A 93.662 142 8 1 1 141 47053677 47053536 1.080000e-50 211.0
12 TraesCS7D01G341700 chr1B 85.726 1198 132 20 1203 2387 57381001 57379830 0.000000e+00 1229.0
13 TraesCS7D01G341700 chr1B 88.136 413 46 2 2413 2824 57379749 57379339 4.470000e-134 488.0
14 TraesCS7D01G341700 chr1D 85.620 1217 120 28 1203 2408 37460375 37459203 0.000000e+00 1227.0
15 TraesCS7D01G341700 chr1D 90.073 413 37 2 2413 2824 37459145 37458736 2.030000e-147 532.0
16 TraesCS7D01G341700 chr1A 87.616 969 95 14 1448 2408 36763275 36762324 0.000000e+00 1101.0
17 TraesCS7D01G341700 chr1A 89.104 413 44 1 2413 2824 36762268 36761856 2.650000e-141 512.0
18 TraesCS7D01G341700 chr1A 93.431 137 8 1 1 136 506523919 506524055 6.520000e-48 202.0
19 TraesCS7D01G341700 chr5B 94.853 136 6 1 1 135 278892101 278892236 1.080000e-50 211.0
20 TraesCS7D01G341700 chr5B 100.000 41 0 0 3807 3847 13175988 13176028 4.120000e-10 76.8
21 TraesCS7D01G341700 chr3D 94.853 136 5 2 1 134 478122447 478122582 1.080000e-50 211.0
22 TraesCS7D01G341700 chr3D 94.074 135 7 1 1 134 542836740 542836874 1.810000e-48 204.0
23 TraesCS7D01G341700 chr2D 94.853 136 5 2 1 134 634061009 634060874 1.080000e-50 211.0
24 TraesCS7D01G341700 chr2D 93.333 135 8 1 1 134 388058998 388058864 8.430000e-47 198.0
25 TraesCS7D01G341700 chr2D 100.000 41 0 0 3807 3847 369542168 369542128 4.120000e-10 76.8
26 TraesCS7D01G341700 chr2D 85.965 57 6 2 3792 3847 529583481 529583426 4.150000e-05 60.2
27 TraesCS7D01G341700 chr4A 92.908 141 9 1 1 140 136915382 136915522 1.810000e-48 204.0
28 TraesCS7D01G341700 chr5D 90.972 144 12 1 3 145 430929405 430929548 3.920000e-45 193.0
29 TraesCS7D01G341700 chr6D 100.000 41 0 0 3807 3847 91559560 91559600 4.120000e-10 76.8
30 TraesCS7D01G341700 chr6D 97.561 41 1 0 3807 3847 16186090 16186130 1.920000e-08 71.3
31 TraesCS7D01G341700 chr4D 100.000 41 0 0 3807 3847 74607673 74607633 4.120000e-10 76.8
32 TraesCS7D01G341700 chr4D 85.484 62 3 3 3789 3847 28237897 28237839 4.150000e-05 60.2
33 TraesCS7D01G341700 chr2B 100.000 41 0 0 3807 3847 58988557 58988597 4.120000e-10 76.8


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 TraesCS7D01G341700 chr7D 437422880 437426726 3846 False 7105.000000 7105 100.000000 1 3847 1 chr7D.!!$F1 3846
1 TraesCS7D01G341700 chr7B 454237117 454241720 4603 False 911.750000 3350 95.058500 135 3802 6 chr7B.!!$F1 3667
2 TraesCS7D01G341700 chr7A 487630039 487633928 3889 False 1585.666667 3101 91.031333 150 3793 3 chr7A.!!$F1 3643
3 TraesCS7D01G341700 chr1B 57379339 57381001 1662 True 858.500000 1229 86.931000 1203 2824 2 chr1B.!!$R1 1621
4 TraesCS7D01G341700 chr1D 37458736 37460375 1639 True 879.500000 1227 87.846500 1203 2824 2 chr1D.!!$R1 1621
5 TraesCS7D01G341700 chr1A 36761856 36763275 1419 True 806.500000 1101 88.360000 1448 2824 2 chr1A.!!$R1 1376

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
50 51 0.036164 AACAACTGGCAGATGGCGTA 59.964 50.0 25.74 0.00 46.16 4.42 F
121 122 0.107831 AGCCCTGTAGCAAACGACAA 59.892 50.0 0.00 0.00 30.54 3.18 F
132 133 0.179158 AAACGACAACCAAACACGCC 60.179 50.0 0.00 0.00 0.00 5.68 F
1726 2823 0.384309 CGAGCCAAGCATGCATGAAT 59.616 50.0 30.64 14.73 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1823 2924 0.398318 AGAGTCACAGGAAAGGCACC 59.602 55.00 0.00 0.0 0.00 5.01 R
2126 3238 1.490621 CTTTTTGTTTGAGCTGCGGG 58.509 50.00 0.00 0.0 0.00 6.13 R
2371 3483 9.295825 TCAGTTGTTGATTGGACTTATTACAAT 57.704 29.63 0.00 0.0 37.52 2.71 R
3511 4724 0.320421 GCCGGTTGAGCTGACAACTA 60.320 55.00 15.56 0.0 46.17 2.24 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
21 22 1.747709 AATGCAGAGACACCAGATGC 58.252 50.000 0.00 0.00 37.40 3.91
22 23 2.060370 TGCAGAGACACCAGATGCA 58.940 52.632 0.00 0.00 44.10 3.96
23 24 0.036671 TGCAGAGACACCAGATGCAG 60.037 55.000 0.00 0.00 41.65 4.41
24 25 0.743701 GCAGAGACACCAGATGCAGG 60.744 60.000 0.00 0.00 36.88 4.85
25 26 0.743701 CAGAGACACCAGATGCAGGC 60.744 60.000 0.00 0.00 0.00 4.85
26 27 1.196766 AGAGACACCAGATGCAGGCA 61.197 55.000 0.00 0.00 0.00 4.75
28 29 0.607489 AGACACCAGATGCAGGCAAC 60.607 55.000 0.00 0.00 0.00 4.17
29 30 1.589716 GACACCAGATGCAGGCAACC 61.590 60.000 0.00 0.00 37.17 3.77
30 31 1.604308 CACCAGATGCAGGCAACCA 60.604 57.895 0.00 0.00 37.17 3.67
31 32 1.153524 ACCAGATGCAGGCAACCAA 59.846 52.632 0.00 0.00 37.17 3.67
32 33 0.469705 ACCAGATGCAGGCAACCAAA 60.470 50.000 0.00 0.00 37.17 3.28
33 34 0.037975 CCAGATGCAGGCAACCAAAC 60.038 55.000 0.00 0.00 37.17 2.93
34 35 0.675083 CAGATGCAGGCAACCAAACA 59.325 50.000 0.00 0.00 37.17 2.83
35 36 1.068895 CAGATGCAGGCAACCAAACAA 59.931 47.619 0.00 0.00 37.17 2.83
36 37 1.069049 AGATGCAGGCAACCAAACAAC 59.931 47.619 0.00 0.00 37.17 3.32
37 38 1.069049 GATGCAGGCAACCAAACAACT 59.931 47.619 0.00 0.00 37.17 3.16
38 39 0.175302 TGCAGGCAACCAAACAACTG 59.825 50.000 0.00 0.00 37.17 3.16
39 40 0.530431 GCAGGCAACCAAACAACTGG 60.530 55.000 0.00 0.00 42.68 4.00
40 41 0.530431 CAGGCAACCAAACAACTGGC 60.530 55.000 0.00 0.00 40.45 4.85
41 42 0.975040 AGGCAACCAAACAACTGGCA 60.975 50.000 0.00 0.00 40.45 4.92
42 43 0.530431 GGCAACCAAACAACTGGCAG 60.530 55.000 14.16 14.16 40.45 4.85
43 44 0.459489 GCAACCAAACAACTGGCAGA 59.541 50.000 23.66 0.00 40.45 4.26
44 45 1.069049 GCAACCAAACAACTGGCAGAT 59.931 47.619 23.66 6.45 40.45 2.90
45 46 2.746269 CAACCAAACAACTGGCAGATG 58.254 47.619 23.66 22.47 40.45 2.90
46 47 1.331214 ACCAAACAACTGGCAGATGG 58.669 50.000 25.74 21.77 40.45 3.51
47 48 0.037975 CCAAACAACTGGCAGATGGC 60.038 55.000 25.74 0.00 43.74 4.40
48 49 0.387622 CAAACAACTGGCAGATGGCG 60.388 55.000 25.74 11.70 46.16 5.69
49 50 0.823356 AAACAACTGGCAGATGGCGT 60.823 50.000 25.74 10.21 46.16 5.68
50 51 0.036164 AACAACTGGCAGATGGCGTA 59.964 50.000 25.74 0.00 46.16 4.42
51 52 0.253044 ACAACTGGCAGATGGCGTAT 59.747 50.000 25.74 4.52 46.16 3.06
52 53 1.340017 ACAACTGGCAGATGGCGTATT 60.340 47.619 25.74 3.82 46.16 1.89
53 54 2.093181 ACAACTGGCAGATGGCGTATTA 60.093 45.455 25.74 0.00 46.16 0.98
54 55 2.533266 ACTGGCAGATGGCGTATTAG 57.467 50.000 23.66 0.00 46.16 1.73
55 56 1.070758 ACTGGCAGATGGCGTATTAGG 59.929 52.381 23.66 0.00 46.16 2.69
56 57 0.396435 TGGCAGATGGCGTATTAGGG 59.604 55.000 1.68 0.00 46.16 3.53
57 58 0.955919 GGCAGATGGCGTATTAGGGC 60.956 60.000 3.21 3.21 46.16 5.19
63 64 3.489391 GGCGTATTAGGGCCTGTTT 57.511 52.632 18.53 2.87 45.93 2.83
64 65 1.758936 GGCGTATTAGGGCCTGTTTT 58.241 50.000 18.53 0.06 45.93 2.43
65 66 2.097036 GGCGTATTAGGGCCTGTTTTT 58.903 47.619 18.53 0.00 45.93 1.94
66 67 2.159296 GGCGTATTAGGGCCTGTTTTTG 60.159 50.000 18.53 2.56 45.93 2.44
67 68 2.734175 GCGTATTAGGGCCTGTTTTTGC 60.734 50.000 18.53 9.50 0.00 3.68
68 69 2.752903 CGTATTAGGGCCTGTTTTTGCT 59.247 45.455 18.53 0.00 0.00 3.91
69 70 3.942748 CGTATTAGGGCCTGTTTTTGCTA 59.057 43.478 18.53 0.00 0.00 3.49
70 71 4.396790 CGTATTAGGGCCTGTTTTTGCTAA 59.603 41.667 18.53 0.00 0.00 3.09
71 72 5.106078 CGTATTAGGGCCTGTTTTTGCTAAA 60.106 40.000 18.53 0.00 0.00 1.85
72 73 4.594123 TTAGGGCCTGTTTTTGCTAAAC 57.406 40.909 18.53 7.73 0.00 2.01
73 74 1.691976 AGGGCCTGTTTTTGCTAAACC 59.308 47.619 4.50 1.80 0.00 3.27
74 75 1.414550 GGGCCTGTTTTTGCTAAACCA 59.585 47.619 0.84 2.33 0.00 3.67
75 76 2.547855 GGGCCTGTTTTTGCTAAACCAG 60.548 50.000 10.43 10.43 34.56 4.00
77 78 2.754472 CCTGTTTTTGCTAAACCAGGC 58.246 47.619 20.53 0.00 43.95 4.85
78 79 2.365293 CCTGTTTTTGCTAAACCAGGCT 59.635 45.455 20.53 0.00 43.95 4.58
79 80 3.383761 CTGTTTTTGCTAAACCAGGCTG 58.616 45.455 7.75 7.75 32.05 4.85
80 81 2.102252 TGTTTTTGCTAAACCAGGCTGG 59.898 45.455 31.62 31.62 45.02 4.85
90 91 3.733709 CCAGGCTGGTTTGAGAAGT 57.266 52.632 25.74 0.00 31.35 3.01
91 92 1.242076 CCAGGCTGGTTTGAGAAGTG 58.758 55.000 25.74 0.00 31.35 3.16
92 93 1.477558 CCAGGCTGGTTTGAGAAGTGT 60.478 52.381 25.74 0.00 31.35 3.55
93 94 2.224523 CCAGGCTGGTTTGAGAAGTGTA 60.225 50.000 25.74 0.00 31.35 2.90
94 95 2.808543 CAGGCTGGTTTGAGAAGTGTAC 59.191 50.000 6.61 0.00 0.00 2.90
95 96 1.798813 GGCTGGTTTGAGAAGTGTACG 59.201 52.381 0.00 0.00 0.00 3.67
96 97 1.194772 GCTGGTTTGAGAAGTGTACGC 59.805 52.381 0.00 0.00 0.00 4.42
97 98 1.455786 CTGGTTTGAGAAGTGTACGCG 59.544 52.381 3.53 3.53 0.00 6.01
98 99 1.067364 TGGTTTGAGAAGTGTACGCGA 59.933 47.619 15.93 0.00 0.00 5.87
99 100 2.288579 TGGTTTGAGAAGTGTACGCGAT 60.289 45.455 15.93 0.00 0.00 4.58
100 101 2.092211 GGTTTGAGAAGTGTACGCGATG 59.908 50.000 15.93 0.00 0.00 3.84
101 102 1.346365 TTGAGAAGTGTACGCGATGC 58.654 50.000 15.93 2.28 0.00 3.91
102 103 0.242555 TGAGAAGTGTACGCGATGCA 59.757 50.000 15.93 5.40 0.00 3.96
103 104 0.917259 GAGAAGTGTACGCGATGCAG 59.083 55.000 15.93 0.00 0.00 4.41
104 105 1.078759 AGAAGTGTACGCGATGCAGC 61.079 55.000 15.93 0.00 0.00 5.25
105 106 2.025359 GAAGTGTACGCGATGCAGCC 62.025 60.000 15.93 0.00 0.00 4.85
106 107 3.564027 GTGTACGCGATGCAGCCC 61.564 66.667 15.93 0.00 0.00 5.19
107 108 3.770040 TGTACGCGATGCAGCCCT 61.770 61.111 15.93 0.00 0.00 5.19
108 109 3.264897 GTACGCGATGCAGCCCTG 61.265 66.667 15.93 0.00 0.00 4.45
109 110 3.770040 TACGCGATGCAGCCCTGT 61.770 61.111 15.93 0.00 0.00 4.00
110 111 2.419739 TACGCGATGCAGCCCTGTA 61.420 57.895 15.93 0.00 0.00 2.74
111 112 2.349969 TACGCGATGCAGCCCTGTAG 62.350 60.000 15.93 0.00 0.00 2.74
112 113 3.275338 GCGATGCAGCCCTGTAGC 61.275 66.667 0.00 0.00 0.00 3.58
113 114 2.187685 CGATGCAGCCCTGTAGCA 59.812 61.111 0.00 0.00 43.14 3.49
114 115 1.450134 CGATGCAGCCCTGTAGCAA 60.450 57.895 0.00 0.00 42.15 3.91
115 116 1.026182 CGATGCAGCCCTGTAGCAAA 61.026 55.000 0.00 0.00 42.15 3.68
116 117 0.453390 GATGCAGCCCTGTAGCAAAC 59.547 55.000 0.00 0.00 42.15 2.93
117 118 1.308069 ATGCAGCCCTGTAGCAAACG 61.308 55.000 0.00 0.00 42.15 3.60
118 119 1.671054 GCAGCCCTGTAGCAAACGA 60.671 57.895 0.00 0.00 34.23 3.85
119 120 1.912371 GCAGCCCTGTAGCAAACGAC 61.912 60.000 0.00 0.00 34.23 4.34
120 121 0.602638 CAGCCCTGTAGCAAACGACA 60.603 55.000 0.00 0.00 34.23 4.35
121 122 0.107831 AGCCCTGTAGCAAACGACAA 59.892 50.000 0.00 0.00 30.54 3.18
122 123 0.237498 GCCCTGTAGCAAACGACAAC 59.763 55.000 0.00 0.00 30.54 3.32
123 124 0.872388 CCCTGTAGCAAACGACAACC 59.128 55.000 0.00 0.00 30.54 3.77
124 125 1.588674 CCTGTAGCAAACGACAACCA 58.411 50.000 0.00 0.00 30.54 3.67
125 126 1.944024 CCTGTAGCAAACGACAACCAA 59.056 47.619 0.00 0.00 30.54 3.67
126 127 2.356382 CCTGTAGCAAACGACAACCAAA 59.644 45.455 0.00 0.00 30.54 3.28
127 128 3.359654 CTGTAGCAAACGACAACCAAAC 58.640 45.455 0.00 0.00 30.54 2.93
128 129 2.747989 TGTAGCAAACGACAACCAAACA 59.252 40.909 0.00 0.00 0.00 2.83
129 130 2.271821 AGCAAACGACAACCAAACAC 57.728 45.000 0.00 0.00 0.00 3.32
130 131 0.911184 GCAAACGACAACCAAACACG 59.089 50.000 0.00 0.00 0.00 4.49
131 132 0.911184 CAAACGACAACCAAACACGC 59.089 50.000 0.00 0.00 0.00 5.34
132 133 0.179158 AAACGACAACCAAACACGCC 60.179 50.000 0.00 0.00 0.00 5.68
133 134 1.995646 AACGACAACCAAACACGCCC 61.996 55.000 0.00 0.00 0.00 6.13
134 135 2.184167 CGACAACCAAACACGCCCT 61.184 57.895 0.00 0.00 0.00 5.19
135 136 1.720694 CGACAACCAAACACGCCCTT 61.721 55.000 0.00 0.00 0.00 3.95
136 137 1.310904 GACAACCAAACACGCCCTTA 58.689 50.000 0.00 0.00 0.00 2.69
137 138 1.265905 GACAACCAAACACGCCCTTAG 59.734 52.381 0.00 0.00 0.00 2.18
138 139 1.314730 CAACCAAACACGCCCTTAGT 58.685 50.000 0.00 0.00 0.00 2.24
483 529 2.100989 CTAGCCCTACCGACTTCACTT 58.899 52.381 0.00 0.00 0.00 3.16
484 530 0.896226 AGCCCTACCGACTTCACTTC 59.104 55.000 0.00 0.00 0.00 3.01
485 531 0.606604 GCCCTACCGACTTCACTTCA 59.393 55.000 0.00 0.00 0.00 3.02
486 532 1.672145 GCCCTACCGACTTCACTTCAC 60.672 57.143 0.00 0.00 0.00 3.18
487 533 1.893801 CCCTACCGACTTCACTTCACT 59.106 52.381 0.00 0.00 0.00 3.41
580 627 0.461339 GCCGTGGGGTACATGTAGTG 60.461 60.000 5.62 0.00 34.14 2.74
668 715 5.348997 GTGACTGGAGCAGTTGTTATCTTAC 59.651 44.000 0.00 0.00 45.44 2.34
870 1872 2.064581 GCCTTCTTCCTCCCGGCTA 61.065 63.158 0.00 0.00 37.76 3.93
871 1873 1.623542 GCCTTCTTCCTCCCGGCTAA 61.624 60.000 0.00 0.00 37.76 3.09
997 2003 1.574263 AAGGAACAGAGGGCTAGTCC 58.426 55.000 4.79 4.79 0.00 3.85
1022 2028 1.536907 TGGAAGCGGTGGGGACTTA 60.537 57.895 0.00 0.00 0.00 2.24
1101 2107 4.349048 CAGATGGGGGAGACATTCATCTTA 59.651 45.833 0.00 0.00 39.29 2.10
1184 2261 6.758886 CGCCCAAATAAATAGCACCAAATTAA 59.241 34.615 0.00 0.00 0.00 1.40
1281 2364 1.081892 CGCAACTGTATTCTGCAGCT 58.918 50.000 9.47 0.84 37.47 4.24
1332 2415 0.739813 ACGGAAAGCAGGCGTATGTC 60.740 55.000 0.00 0.00 0.00 3.06
1364 2447 1.826024 CTTCCTCCCGTATGCTGCT 59.174 57.895 0.00 0.00 0.00 4.24
1365 2448 0.531532 CTTCCTCCCGTATGCTGCTG 60.532 60.000 0.00 0.00 0.00 4.41
1366 2449 2.590007 CCTCCCGTATGCTGCTGC 60.590 66.667 8.89 8.89 40.20 5.25
1377 2466 1.092348 TGCTGCTGCACAAGATCATC 58.908 50.000 14.93 0.00 45.31 2.92
1476 2568 1.604593 GCACAGGGTGGTGAGCAAT 60.605 57.895 0.00 0.00 41.32 3.56
1491 2583 3.124560 GAGCAATCTTAAGGAGTACGCC 58.875 50.000 7.70 7.70 0.00 5.68
1633 2725 3.344515 CAGGTTTTAGTTAGTGCCTCCC 58.655 50.000 0.00 0.00 0.00 4.30
1649 2742 3.370527 GCCTCCCAAGTTCAGCAGTAATA 60.371 47.826 0.00 0.00 0.00 0.98
1676 2773 7.990886 TCCTTGTAATATGCTTTCGGATTAACT 59.009 33.333 0.00 0.00 0.00 2.24
1677 2774 9.268268 CCTTGTAATATGCTTTCGGATTAACTA 57.732 33.333 0.00 0.00 0.00 2.24
1726 2823 0.384309 CGAGCCAAGCATGCATGAAT 59.616 50.000 30.64 14.73 0.00 2.57
1728 2825 2.033675 CGAGCCAAGCATGCATGAATAA 59.966 45.455 30.64 0.00 0.00 1.40
1801 2898 6.154706 ACAAGAGGTACATCTTACCAGGTAAG 59.845 42.308 27.89 27.89 44.65 2.34
1802 2899 5.840081 AGAGGTACATCTTACCAGGTAAGT 58.160 41.667 30.75 19.41 43.95 2.24
1803 2900 6.978261 AGAGGTACATCTTACCAGGTAAGTA 58.022 40.000 30.75 20.84 43.95 2.24
1804 2901 7.416731 AGAGGTACATCTTACCAGGTAAGTAA 58.583 38.462 30.75 18.15 43.95 2.24
2126 3238 1.068333 CCTACATGTTGGCAGCAACAC 60.068 52.381 13.48 0.00 46.22 3.32
2168 3280 4.613944 CAAAGACAAGCAAGCTTCATTCA 58.386 39.130 3.97 0.00 33.42 2.57
2271 3383 1.437573 CAGCAAGCTCCGGTCGATA 59.562 57.895 0.00 0.00 0.00 2.92
2371 3483 5.889289 GCAATACCCACCAAAAGAGGTATAA 59.111 40.000 1.20 0.00 43.25 0.98
2373 3485 7.069455 GCAATACCCACCAAAAGAGGTATAATT 59.931 37.037 1.20 0.00 43.25 1.40
2416 3591 6.500589 ACTGATGGTGGTATAGCAGTAAAT 57.499 37.500 4.51 0.00 40.65 1.40
2467 3645 5.277825 TGTTCTGTAGCCAATTTTGTTTCG 58.722 37.500 0.00 0.00 0.00 3.46
2585 3763 1.349067 AGTGTCAGGGTCCAGGTAAC 58.651 55.000 0.00 0.00 0.00 2.50
2613 3791 6.125029 AGCTGGCTTGTGAACATAAGATTAT 58.875 36.000 13.78 0.00 32.13 1.28
2756 3935 1.048601 AGGAAAACGAGCAGACTCCA 58.951 50.000 0.00 0.00 40.03 3.86
2903 4104 3.133141 ACTTCTGCTTCAGTCTTTCCC 57.867 47.619 0.00 0.00 32.61 3.97
2904 4105 2.708325 ACTTCTGCTTCAGTCTTTCCCT 59.292 45.455 0.00 0.00 32.61 4.20
2905 4106 2.847327 TCTGCTTCAGTCTTTCCCTG 57.153 50.000 0.00 0.00 32.61 4.45
2906 4107 1.349026 TCTGCTTCAGTCTTTCCCTGG 59.651 52.381 0.00 0.00 32.61 4.45
2907 4108 0.250901 TGCTTCAGTCTTTCCCTGGC 60.251 55.000 0.00 0.00 0.00 4.85
2908 4109 0.250901 GCTTCAGTCTTTCCCTGGCA 60.251 55.000 0.00 0.00 0.00 4.92
2909 4110 1.819305 GCTTCAGTCTTTCCCTGGCAA 60.819 52.381 0.00 0.00 0.00 4.52
2910 4111 2.586425 CTTCAGTCTTTCCCTGGCAAA 58.414 47.619 0.00 0.00 0.00 3.68
2911 4112 2.276732 TCAGTCTTTCCCTGGCAAAG 57.723 50.000 3.60 3.60 32.89 2.77
2912 4113 1.494721 TCAGTCTTTCCCTGGCAAAGT 59.505 47.619 9.83 0.00 33.32 2.66
2924 4125 6.672593 TCCCTGGCAAAGTCTTGATATAAAT 58.327 36.000 0.00 0.00 34.14 1.40
3045 4249 2.530701 TCCCCACTTTTTGTTGTGTGT 58.469 42.857 0.00 0.00 32.76 3.72
3046 4250 2.900546 TCCCCACTTTTTGTTGTGTGTT 59.099 40.909 0.00 0.00 32.76 3.32
3058 4262 5.045668 TGTTGTGTGTTATGCATCATGAC 57.954 39.130 0.19 0.00 32.14 3.06
3068 4272 0.179156 GCATCATGACTTGGCCGTTG 60.179 55.000 0.00 0.00 0.00 4.10
3080 4284 1.367840 GCCGTTGTGGTCACTCTCT 59.632 57.895 2.66 0.00 41.21 3.10
3090 4294 4.950475 TGTGGTCACTCTCTCGATAATCTT 59.050 41.667 2.66 0.00 0.00 2.40
3091 4295 5.163612 TGTGGTCACTCTCTCGATAATCTTG 60.164 44.000 2.66 0.00 0.00 3.02
3179 4383 4.809958 CAGCAATCTGATCTTAGTGGTCAG 59.190 45.833 0.00 0.00 42.95 3.51
3184 4388 3.954904 TCTGATCTTAGTGGTCAGGTAGC 59.045 47.826 6.15 0.00 39.77 3.58
3244 4452 2.287915 GGAGTATAATGCTGCCAACACG 59.712 50.000 0.00 0.00 0.00 4.49
3329 4538 5.185454 CAACTCTGGTTGCATAAGTCCATA 58.815 41.667 0.00 0.00 44.83 2.74
3330 4539 5.435686 ACTCTGGTTGCATAAGTCCATAA 57.564 39.130 0.00 0.00 0.00 1.90
3331 4540 5.815581 ACTCTGGTTGCATAAGTCCATAAA 58.184 37.500 0.00 0.00 0.00 1.40
3384 4593 2.217750 TGATACACAAAACGCACAGCT 58.782 42.857 0.00 0.00 0.00 4.24
3450 4663 2.168521 TGGACAGTAGCTAGAACATGCC 59.831 50.000 0.00 0.00 0.00 4.40
3464 4677 4.337555 AGAACATGCCATGCAGAGAAATAC 59.662 41.667 4.17 0.00 43.65 1.89
3569 4782 5.221661 GGAGGAAGTCTGGAGTTGTTTCTAA 60.222 44.000 0.00 0.00 0.00 2.10
3608 4984 3.308323 GCAATTTGGACTTGTTTTTCGCA 59.692 39.130 0.00 0.00 0.00 5.10
3802 5208 5.336491 AGGTTATCTAATACTCCCTCCGT 57.664 43.478 0.00 0.00 0.00 4.69
3803 5209 5.323581 AGGTTATCTAATACTCCCTCCGTC 58.676 45.833 0.00 0.00 0.00 4.79
3804 5210 4.462132 GGTTATCTAATACTCCCTCCGTCC 59.538 50.000 0.00 0.00 0.00 4.79
3805 5211 2.671896 TCTAATACTCCCTCCGTCCC 57.328 55.000 0.00 0.00 0.00 4.46
3806 5212 1.146566 TCTAATACTCCCTCCGTCCCC 59.853 57.143 0.00 0.00 0.00 4.81
3807 5213 1.147399 CTAATACTCCCTCCGTCCCCT 59.853 57.143 0.00 0.00 0.00 4.79
3808 5214 0.105607 AATACTCCCTCCGTCCCCTC 60.106 60.000 0.00 0.00 0.00 4.30
3809 5215 1.294426 ATACTCCCTCCGTCCCCTCA 61.294 60.000 0.00 0.00 0.00 3.86
3810 5216 1.512201 TACTCCCTCCGTCCCCTCAA 61.512 60.000 0.00 0.00 0.00 3.02
3811 5217 2.038975 TCCCTCCGTCCCCTCAAG 59.961 66.667 0.00 0.00 0.00 3.02
3812 5218 3.787001 CCCTCCGTCCCCTCAAGC 61.787 72.222 0.00 0.00 0.00 4.01
3813 5219 2.685380 CCTCCGTCCCCTCAAGCT 60.685 66.667 0.00 0.00 0.00 3.74
3814 5220 2.294078 CCTCCGTCCCCTCAAGCTT 61.294 63.158 0.00 0.00 0.00 3.74
3815 5221 0.976073 CCTCCGTCCCCTCAAGCTTA 60.976 60.000 0.00 0.00 0.00 3.09
3816 5222 0.461961 CTCCGTCCCCTCAAGCTTAG 59.538 60.000 0.00 0.00 0.00 2.18
3817 5223 0.252103 TCCGTCCCCTCAAGCTTAGT 60.252 55.000 0.00 0.00 0.00 2.24
3818 5224 1.006281 TCCGTCCCCTCAAGCTTAGTA 59.994 52.381 0.00 0.00 0.00 1.82
3819 5225 1.136500 CCGTCCCCTCAAGCTTAGTAC 59.864 57.143 0.00 0.00 0.00 2.73
3820 5226 1.822990 CGTCCCCTCAAGCTTAGTACA 59.177 52.381 0.00 0.00 0.00 2.90
3821 5227 2.232941 CGTCCCCTCAAGCTTAGTACAA 59.767 50.000 0.00 0.00 0.00 2.41
3822 5228 3.597255 GTCCCCTCAAGCTTAGTACAAC 58.403 50.000 0.00 0.00 0.00 3.32
3823 5229 3.261137 GTCCCCTCAAGCTTAGTACAACT 59.739 47.826 0.00 0.00 0.00 3.16
3824 5230 3.908103 TCCCCTCAAGCTTAGTACAACTT 59.092 43.478 0.00 0.00 0.00 2.66
3825 5231 4.349930 TCCCCTCAAGCTTAGTACAACTTT 59.650 41.667 0.00 0.00 0.00 2.66
3826 5232 4.455877 CCCCTCAAGCTTAGTACAACTTTG 59.544 45.833 0.00 0.00 0.00 2.77
3827 5233 5.063880 CCCTCAAGCTTAGTACAACTTTGT 58.936 41.667 0.00 0.00 44.86 2.83
3828 5234 6.228258 CCCTCAAGCTTAGTACAACTTTGTA 58.772 40.000 0.00 0.00 42.35 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.236893 TGCATCTGGTGTCTCTGCATTA 59.763 45.455 0.00 0.00 37.88 1.90
2 3 1.003928 TGCATCTGGTGTCTCTGCATT 59.996 47.619 0.00 0.00 37.88 3.56
3 4 0.616891 TGCATCTGGTGTCTCTGCAT 59.383 50.000 0.00 0.00 37.88 3.96
4 5 0.036671 CTGCATCTGGTGTCTCTGCA 60.037 55.000 0.00 0.00 40.29 4.41
5 6 0.743701 CCTGCATCTGGTGTCTCTGC 60.744 60.000 0.00 0.00 0.00 4.26
7 8 1.196766 TGCCTGCATCTGGTGTCTCT 61.197 55.000 0.00 0.00 0.00 3.10
8 9 0.321919 TTGCCTGCATCTGGTGTCTC 60.322 55.000 0.00 0.00 0.00 3.36
9 10 0.607489 GTTGCCTGCATCTGGTGTCT 60.607 55.000 0.00 0.00 0.00 3.41
10 11 1.589716 GGTTGCCTGCATCTGGTGTC 61.590 60.000 0.00 0.00 0.00 3.67
12 13 1.180456 TTGGTTGCCTGCATCTGGTG 61.180 55.000 0.00 0.00 0.00 4.17
13 14 0.469705 TTTGGTTGCCTGCATCTGGT 60.470 50.000 0.00 0.00 0.00 4.00
16 17 1.069049 GTTGTTTGGTTGCCTGCATCT 59.931 47.619 0.00 0.00 0.00 2.90
18 19 1.122227 AGTTGTTTGGTTGCCTGCAT 58.878 45.000 0.00 0.00 0.00 3.96
19 20 0.175302 CAGTTGTTTGGTTGCCTGCA 59.825 50.000 0.00 0.00 0.00 4.41
20 21 0.530431 CCAGTTGTTTGGTTGCCTGC 60.530 55.000 0.00 0.00 33.38 4.85
21 22 0.530431 GCCAGTTGTTTGGTTGCCTG 60.530 55.000 0.00 0.00 40.49 4.85
22 23 0.975040 TGCCAGTTGTTTGGTTGCCT 60.975 50.000 0.00 0.00 40.49 4.75
23 24 0.530431 CTGCCAGTTGTTTGGTTGCC 60.530 55.000 0.00 0.00 40.49 4.52
24 25 0.459489 TCTGCCAGTTGTTTGGTTGC 59.541 50.000 0.00 0.00 40.49 4.17
25 26 2.546373 CCATCTGCCAGTTGTTTGGTTG 60.546 50.000 2.33 0.00 40.49 3.77
26 27 1.688197 CCATCTGCCAGTTGTTTGGTT 59.312 47.619 2.33 0.00 40.49 3.67
28 29 0.037975 GCCATCTGCCAGTTGTTTGG 60.038 55.000 2.33 0.40 41.35 3.28
29 30 0.387622 CGCCATCTGCCAGTTGTTTG 60.388 55.000 2.33 0.00 36.24 2.93
30 31 0.823356 ACGCCATCTGCCAGTTGTTT 60.823 50.000 2.33 0.00 36.24 2.83
31 32 0.036164 TACGCCATCTGCCAGTTGTT 59.964 50.000 2.33 0.00 36.24 2.83
32 33 0.253044 ATACGCCATCTGCCAGTTGT 59.747 50.000 2.33 0.00 36.24 3.32
33 34 1.382522 AATACGCCATCTGCCAGTTG 58.617 50.000 0.00 0.00 36.24 3.16
34 35 2.485479 CCTAATACGCCATCTGCCAGTT 60.485 50.000 0.00 0.00 36.24 3.16
35 36 1.070758 CCTAATACGCCATCTGCCAGT 59.929 52.381 0.00 0.00 36.24 4.00
36 37 1.609061 CCCTAATACGCCATCTGCCAG 60.609 57.143 0.00 0.00 36.24 4.85
37 38 0.396435 CCCTAATACGCCATCTGCCA 59.604 55.000 0.00 0.00 36.24 4.92
38 39 0.955919 GCCCTAATACGCCATCTGCC 60.956 60.000 0.00 0.00 36.24 4.85
39 40 0.955919 GGCCCTAATACGCCATCTGC 60.956 60.000 0.00 0.00 45.01 4.26
40 41 3.233355 GGCCCTAATACGCCATCTG 57.767 57.895 0.00 0.00 45.01 2.90
45 46 1.758936 AAAACAGGCCCTAATACGCC 58.241 50.000 0.00 0.00 46.09 5.68
46 47 2.734175 GCAAAAACAGGCCCTAATACGC 60.734 50.000 0.00 0.00 0.00 4.42
47 48 2.752903 AGCAAAAACAGGCCCTAATACG 59.247 45.455 0.00 0.00 0.00 3.06
48 49 5.907866 TTAGCAAAAACAGGCCCTAATAC 57.092 39.130 0.00 0.00 0.00 1.89
49 50 5.186215 GGTTTAGCAAAAACAGGCCCTAATA 59.814 40.000 14.36 0.00 32.21 0.98
50 51 4.020573 GGTTTAGCAAAAACAGGCCCTAAT 60.021 41.667 14.36 0.00 32.21 1.73
51 52 3.322541 GGTTTAGCAAAAACAGGCCCTAA 59.677 43.478 14.36 0.00 32.21 2.69
52 53 2.894765 GGTTTAGCAAAAACAGGCCCTA 59.105 45.455 14.36 0.00 32.21 3.53
53 54 1.691976 GGTTTAGCAAAAACAGGCCCT 59.308 47.619 14.36 0.00 32.21 5.19
54 55 1.414550 TGGTTTAGCAAAAACAGGCCC 59.585 47.619 14.36 0.82 37.38 5.80
55 56 2.900716 TGGTTTAGCAAAAACAGGCC 57.099 45.000 14.36 0.00 37.38 5.19
59 60 2.102252 CCAGCCTGGTTTAGCAAAAACA 59.898 45.455 1.39 0.00 40.00 2.83
60 61 2.754472 CCAGCCTGGTTTAGCAAAAAC 58.246 47.619 1.39 6.22 31.35 2.43
72 73 1.242076 CACTTCTCAAACCAGCCTGG 58.758 55.000 9.83 9.83 45.02 4.45
73 74 1.972872 ACACTTCTCAAACCAGCCTG 58.027 50.000 0.00 0.00 0.00 4.85
74 75 2.548067 CGTACACTTCTCAAACCAGCCT 60.548 50.000 0.00 0.00 0.00 4.58
75 76 1.798813 CGTACACTTCTCAAACCAGCC 59.201 52.381 0.00 0.00 0.00 4.85
76 77 1.194772 GCGTACACTTCTCAAACCAGC 59.805 52.381 0.00 0.00 0.00 4.85
77 78 1.455786 CGCGTACACTTCTCAAACCAG 59.544 52.381 0.00 0.00 0.00 4.00
78 79 1.067364 TCGCGTACACTTCTCAAACCA 59.933 47.619 5.77 0.00 0.00 3.67
79 80 1.774639 TCGCGTACACTTCTCAAACC 58.225 50.000 5.77 0.00 0.00 3.27
80 81 2.472397 GCATCGCGTACACTTCTCAAAC 60.472 50.000 5.77 0.00 0.00 2.93
81 82 1.724623 GCATCGCGTACACTTCTCAAA 59.275 47.619 5.77 0.00 0.00 2.69
82 83 1.336424 TGCATCGCGTACACTTCTCAA 60.336 47.619 5.77 0.00 0.00 3.02
83 84 0.242555 TGCATCGCGTACACTTCTCA 59.757 50.000 5.77 0.00 0.00 3.27
84 85 0.917259 CTGCATCGCGTACACTTCTC 59.083 55.000 5.77 0.00 0.00 2.87
85 86 1.078759 GCTGCATCGCGTACACTTCT 61.079 55.000 5.77 0.00 0.00 2.85
86 87 1.345176 GCTGCATCGCGTACACTTC 59.655 57.895 5.77 0.00 0.00 3.01
87 88 2.100631 GGCTGCATCGCGTACACTT 61.101 57.895 5.77 0.00 0.00 3.16
88 89 2.509336 GGCTGCATCGCGTACACT 60.509 61.111 5.77 0.00 0.00 3.55
89 90 3.564027 GGGCTGCATCGCGTACAC 61.564 66.667 5.77 0.00 0.00 2.90
90 91 3.770040 AGGGCTGCATCGCGTACA 61.770 61.111 5.77 1.80 0.00 2.90
91 92 2.622903 TACAGGGCTGCATCGCGTAC 62.623 60.000 5.77 0.00 0.00 3.67
92 93 2.349969 CTACAGGGCTGCATCGCGTA 62.350 60.000 5.77 4.54 0.00 4.42
93 94 3.723235 CTACAGGGCTGCATCGCGT 62.723 63.158 5.77 3.66 0.00 6.01
94 95 2.963854 CTACAGGGCTGCATCGCG 60.964 66.667 0.00 0.00 0.00 5.87
95 96 3.275338 GCTACAGGGCTGCATCGC 61.275 66.667 0.50 0.00 0.00 4.58
96 97 1.026182 TTTGCTACAGGGCTGCATCG 61.026 55.000 0.50 0.00 36.55 3.84
97 98 0.453390 GTTTGCTACAGGGCTGCATC 59.547 55.000 0.50 0.00 36.55 3.91
98 99 1.308069 CGTTTGCTACAGGGCTGCAT 61.308 55.000 0.50 0.00 36.55 3.96
99 100 1.965930 CGTTTGCTACAGGGCTGCA 60.966 57.895 0.50 0.00 34.69 4.41
100 101 1.671054 TCGTTTGCTACAGGGCTGC 60.671 57.895 0.00 0.00 0.00 5.25
101 102 0.602638 TGTCGTTTGCTACAGGGCTG 60.603 55.000 0.00 0.00 0.00 4.85
102 103 0.107831 TTGTCGTTTGCTACAGGGCT 59.892 50.000 0.00 0.00 0.00 5.19
103 104 0.237498 GTTGTCGTTTGCTACAGGGC 59.763 55.000 0.00 0.00 0.00 5.19
104 105 0.872388 GGTTGTCGTTTGCTACAGGG 59.128 55.000 0.00 0.00 0.00 4.45
105 106 1.588674 TGGTTGTCGTTTGCTACAGG 58.411 50.000 0.00 0.00 0.00 4.00
106 107 3.181505 TGTTTGGTTGTCGTTTGCTACAG 60.182 43.478 0.00 0.00 0.00 2.74
107 108 2.747989 TGTTTGGTTGTCGTTTGCTACA 59.252 40.909 0.00 0.00 0.00 2.74
108 109 3.103007 GTGTTTGGTTGTCGTTTGCTAC 58.897 45.455 0.00 0.00 0.00 3.58
109 110 2.223066 CGTGTTTGGTTGTCGTTTGCTA 60.223 45.455 0.00 0.00 0.00 3.49
110 111 1.466697 CGTGTTTGGTTGTCGTTTGCT 60.467 47.619 0.00 0.00 0.00 3.91
111 112 0.911184 CGTGTTTGGTTGTCGTTTGC 59.089 50.000 0.00 0.00 0.00 3.68
112 113 0.911184 GCGTGTTTGGTTGTCGTTTG 59.089 50.000 0.00 0.00 0.00 2.93
113 114 0.179158 GGCGTGTTTGGTTGTCGTTT 60.179 50.000 0.00 0.00 0.00 3.60
114 115 1.430228 GGCGTGTTTGGTTGTCGTT 59.570 52.632 0.00 0.00 0.00 3.85
115 116 2.474612 GGGCGTGTTTGGTTGTCGT 61.475 57.895 0.00 0.00 0.00 4.34
116 117 1.720694 AAGGGCGTGTTTGGTTGTCG 61.721 55.000 0.00 0.00 0.00 4.35
117 118 1.265905 CTAAGGGCGTGTTTGGTTGTC 59.734 52.381 0.00 0.00 0.00 3.18
118 119 1.314730 CTAAGGGCGTGTTTGGTTGT 58.685 50.000 0.00 0.00 0.00 3.32
119 120 1.001815 CACTAAGGGCGTGTTTGGTTG 60.002 52.381 0.00 0.00 0.00 3.77
120 121 1.134037 TCACTAAGGGCGTGTTTGGTT 60.134 47.619 0.00 0.00 34.14 3.67
121 122 0.470766 TCACTAAGGGCGTGTTTGGT 59.529 50.000 0.00 0.00 34.14 3.67
122 123 1.535462 CTTCACTAAGGGCGTGTTTGG 59.465 52.381 0.00 0.00 34.14 3.28
123 124 2.969443 CTTCACTAAGGGCGTGTTTG 57.031 50.000 0.00 0.00 34.14 2.93
133 134 2.168728 GGCAGGTACCTCCTTCACTAAG 59.831 54.545 12.84 0.00 45.67 2.18
134 135 2.185387 GGCAGGTACCTCCTTCACTAA 58.815 52.381 12.84 0.00 45.67 2.24
135 136 1.621622 GGGCAGGTACCTCCTTCACTA 60.622 57.143 12.84 0.00 45.67 2.74
136 137 0.910088 GGGCAGGTACCTCCTTCACT 60.910 60.000 12.84 0.00 45.67 3.41
137 138 1.198759 TGGGCAGGTACCTCCTTCAC 61.199 60.000 12.84 3.34 45.67 3.18
138 139 0.909610 CTGGGCAGGTACCTCCTTCA 60.910 60.000 12.84 9.68 45.67 3.02
483 529 2.432146 ACTGCAGAGTGAAGTGAAGTGA 59.568 45.455 23.35 0.00 34.21 3.41
484 530 2.831333 ACTGCAGAGTGAAGTGAAGTG 58.169 47.619 23.35 0.00 34.21 3.16
546 592 0.391597 ACGGCTATGGTGGTAATCCG 59.608 55.000 0.00 0.00 40.98 4.18
609 656 1.143305 CTGCATATGTAGGACTGCGC 58.857 55.000 12.62 0.00 37.44 6.09
668 715 1.905215 AGGAGACCTGTGAATCTGTGG 59.095 52.381 0.00 0.00 29.57 4.17
762 1764 2.644992 GGCAACGGCAGAAACAGG 59.355 61.111 0.00 0.00 43.71 4.00
790 1792 2.808919 AGTGCTGGAAGAGTAGCTGTA 58.191 47.619 0.00 0.00 40.52 2.74
870 1872 4.735578 GCACTCATGGCGATGAATTCATTT 60.736 41.667 21.57 1.38 38.17 2.32
871 1873 3.243301 GCACTCATGGCGATGAATTCATT 60.243 43.478 21.57 6.27 38.17 2.57
997 2003 2.398554 CCACCGCTTCCACCATTCG 61.399 63.158 0.00 0.00 0.00 3.34
1018 2024 1.946475 GCGCCTCTTCTCGGGTAAGT 61.946 60.000 0.00 0.00 0.00 2.24
1184 2261 5.394883 CCAAGCAATATCTGTTCCAAATGCT 60.395 40.000 0.00 0.00 44.12 3.79
1281 2364 6.504398 CATGTAGGCTAGTTCGAAATACTCA 58.496 40.000 0.00 0.00 0.00 3.41
1332 2415 3.562176 GGGAGGAAGCAATGGGTATATGG 60.562 52.174 0.00 0.00 0.00 2.74
1364 2447 6.165700 TGATTAGCTAGATGATCTTGTGCA 57.834 37.500 13.20 0.00 0.00 4.57
1365 2448 5.120519 GCTGATTAGCTAGATGATCTTGTGC 59.879 44.000 13.20 3.57 46.57 4.57
1366 2449 6.709145 GCTGATTAGCTAGATGATCTTGTG 57.291 41.667 13.20 3.72 46.57 3.33
1413 2502 0.537143 ATGAGCGAACCAGGCACAAA 60.537 50.000 0.00 0.00 34.77 2.83
1476 2568 1.825090 TCACGGCGTACTCCTTAAGA 58.175 50.000 14.22 0.00 0.00 2.10
1491 2583 2.027625 GTTGACGAGGGCCTTCACG 61.028 63.158 16.07 9.90 0.00 4.35
1633 2725 6.992063 ACAAGGATATTACTGCTGAACTTG 57.008 37.500 0.00 0.00 38.85 3.16
1649 2742 8.784043 GTTAATCCGAAAGCATATTACAAGGAT 58.216 33.333 0.00 0.00 37.55 3.24
1676 2773 2.435069 TCTGAAACCAACCACCTCGTTA 59.565 45.455 0.00 0.00 0.00 3.18
1677 2774 1.210967 TCTGAAACCAACCACCTCGTT 59.789 47.619 0.00 0.00 0.00 3.85
1678 2775 0.834612 TCTGAAACCAACCACCTCGT 59.165 50.000 0.00 0.00 0.00 4.18
1679 2776 1.070134 TCTCTGAAACCAACCACCTCG 59.930 52.381 0.00 0.00 0.00 4.63
1726 2823 0.673644 GCTGCGTCAGGCCTTCTTTA 60.674 55.000 0.00 0.00 42.61 1.85
1728 2825 2.359230 GCTGCGTCAGGCCTTCTT 60.359 61.111 0.00 0.00 42.61 2.52
1801 2898 7.332182 GCACCAAGATATCTTATGGCTACTTAC 59.668 40.741 19.38 4.23 34.28 2.34
1802 2899 7.386851 GCACCAAGATATCTTATGGCTACTTA 58.613 38.462 19.38 0.00 34.28 2.24
1803 2900 6.234177 GCACCAAGATATCTTATGGCTACTT 58.766 40.000 19.38 1.66 34.28 2.24
1804 2901 5.280215 GGCACCAAGATATCTTATGGCTACT 60.280 44.000 29.69 11.18 40.52 2.57
1823 2924 0.398318 AGAGTCACAGGAAAGGCACC 59.602 55.000 0.00 0.00 0.00 5.01
2126 3238 1.490621 CTTTTTGTTTGAGCTGCGGG 58.509 50.000 0.00 0.00 0.00 6.13
2371 3483 9.295825 TCAGTTGTTGATTGGACTTATTACAAT 57.704 29.630 0.00 0.00 37.52 2.71
2373 3485 8.729756 CATCAGTTGTTGATTGGACTTATTACA 58.270 33.333 0.00 0.00 44.14 2.41
2438 3616 6.714810 ACAAAATTGGCTACAGAACATCAGTA 59.285 34.615 0.00 0.00 0.00 2.74
2439 3617 5.536161 ACAAAATTGGCTACAGAACATCAGT 59.464 36.000 0.00 0.00 0.00 3.41
2442 3620 6.088085 CGAAACAAAATTGGCTACAGAACATC 59.912 38.462 0.00 0.00 0.00 3.06
2452 3630 3.810310 TTCACCGAAACAAAATTGGCT 57.190 38.095 0.00 0.00 0.00 4.75
2467 3645 6.927294 ATCCGATCTTTTATCTGTTTCACC 57.073 37.500 0.00 0.00 0.00 4.02
2613 3791 4.102996 TGCTGTAAGGCATATCATTCCTGA 59.897 41.667 0.00 0.00 37.29 3.86
2756 3935 5.041191 TGAGGAACTTCTTGCTCTTCTTT 57.959 39.130 3.98 0.00 43.53 2.52
3009 4213 0.472898 GGGAAACCGGATAAGGGGAG 59.527 60.000 9.46 0.00 43.64 4.30
3045 4249 1.948834 CGGCCAAGTCATGATGCATAA 59.051 47.619 2.24 0.00 0.00 1.90
3046 4250 1.134128 ACGGCCAAGTCATGATGCATA 60.134 47.619 2.24 0.00 0.00 3.14
3058 4262 1.507141 GAGTGACCACAACGGCCAAG 61.507 60.000 2.24 0.00 39.03 3.61
3080 4284 3.807553 TGCTGATTGCCAAGATTATCGA 58.192 40.909 0.00 0.00 42.00 3.59
3090 4294 4.486125 TTCTGTATACTGCTGATTGCCA 57.514 40.909 4.17 0.00 42.00 4.92
3091 4295 4.878397 AGTTTCTGTATACTGCTGATTGCC 59.122 41.667 4.17 0.00 42.00 4.52
3179 4383 5.600908 TGACAAAATACTTGAACGCTACC 57.399 39.130 0.00 0.00 0.00 3.18
3184 4388 7.113404 CCAAAGTGATGACAAAATACTTGAACG 59.887 37.037 0.00 0.00 32.42 3.95
3361 4570 4.454161 AGCTGTGCGTTTTGTGTATCATAA 59.546 37.500 0.00 0.00 0.00 1.90
3374 4583 1.827681 TCTCTCTCTAGCTGTGCGTT 58.172 50.000 0.00 0.00 0.00 4.84
3384 4593 4.402474 TGTTCGATTGGCATTCTCTCTCTA 59.598 41.667 7.69 0.00 0.00 2.43
3475 4688 9.109393 GCATGTTTTGTATTCCAGATAGTAAGA 57.891 33.333 0.00 0.00 0.00 2.10
3504 4717 5.637810 CGGTTGAGCTGACAACTAGAAATTA 59.362 40.000 15.56 0.00 46.17 1.40
3511 4724 0.320421 GCCGGTTGAGCTGACAACTA 60.320 55.000 15.56 0.00 46.17 2.24
3517 4730 0.461548 CTCATAGCCGGTTGAGCTGA 59.538 55.000 15.19 6.44 41.71 4.26
3569 4782 8.085296 TCCAAATTGCAAACTTGTATACGAAAT 58.915 29.630 18.23 0.00 0.00 2.17
3661 5037 7.882271 AGCTAATCAGAAGTTCAGAATTCTTGT 59.118 33.333 4.86 0.00 33.51 3.16
3802 5208 3.517612 AGTTGTACTAAGCTTGAGGGGA 58.482 45.455 9.86 0.00 0.00 4.81
3803 5209 3.983044 AGTTGTACTAAGCTTGAGGGG 57.017 47.619 9.86 0.00 0.00 4.79
3804 5210 5.063880 ACAAAGTTGTACTAAGCTTGAGGG 58.936 41.667 9.86 0.00 40.16 4.30


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

AutoCloner maintained by Alex Coulton.