Multiple sequence alignment - TraesCS1A01G438500

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 TraesCS1A01G438500 chr1A 100.000 3866 0 0 1 3866 588121093 588117228 0.000000e+00 7140.0
1 TraesCS1A01G438500 chr1A 95.693 2020 58 11 1858 3863 588019270 588017266 0.000000e+00 3221.0
2 TraesCS1A01G438500 chr1A 91.701 723 46 3 168 878 574215176 574215896 0.000000e+00 990.0
3 TraesCS1A01G438500 chr1A 92.857 140 10 0 1205 1344 588019575 588019436 1.820000e-48 204.0
4 TraesCS1A01G438500 chr1A 82.439 205 18 8 925 1126 588019763 588019574 3.090000e-36 163.0
5 TraesCS1A01G438500 chr1A 76.961 204 29 11 495 697 579824559 579824373 2.460000e-17 100.0
6 TraesCS1A01G438500 chr1D 92.036 1783 70 22 1633 3381 488777708 488775964 0.000000e+00 2440.0
7 TraesCS1A01G438500 chr1D 89.158 1900 116 41 1336 3197 489105870 489107717 0.000000e+00 2285.0
8 TraesCS1A01G438500 chr1D 91.434 1004 50 17 1772 2754 490104985 490105973 0.000000e+00 1345.0
9 TraesCS1A01G438500 chr1D 86.977 622 37 11 2752 3345 490118465 490119070 0.000000e+00 660.0
10 TraesCS1A01G438500 chr1D 87.593 540 43 14 3343 3865 490119151 490119683 4.270000e-169 604.0
11 TraesCS1A01G438500 chr1D 88.063 444 19 15 909 1344 489105432 489105849 2.680000e-136 496.0
12 TraesCS1A01G438500 chr1D 87.417 302 22 6 1336 1637 488779554 488779269 2.230000e-87 333.0
13 TraesCS1A01G438500 chr1D 84.400 250 32 7 613 858 472293702 472293456 4.990000e-59 239.0
14 TraesCS1A01G438500 chr1D 85.577 208 14 11 923 1126 490104551 490104746 1.820000e-48 204.0
15 TraesCS1A01G438500 chr1D 92.143 140 11 0 1205 1344 490104745 490104884 8.470000e-47 198.0
16 TraesCS1A01G438500 chr1D 80.189 212 25 5 475 686 53251358 53251164 4.030000e-30 143.0
17 TraesCS1A01G438500 chr1D 91.176 68 6 0 2949 3016 488951315 488951382 4.110000e-15 93.5
18 TraesCS1A01G438500 chr1B 94.909 1159 35 8 2242 3400 680977714 680978848 0.000000e+00 1792.0
19 TraesCS1A01G438500 chr1B 94.659 337 8 5 3528 3863 680980340 680980667 7.410000e-142 514.0
20 TraesCS1A01G438500 chr1B 92.012 338 21 5 1733 2065 680977320 680977656 1.630000e-128 470.0
21 TraesCS1A01G438500 chr1B 88.856 341 20 6 1336 1675 680976980 680977303 1.670000e-108 403.0
22 TraesCS1A01G438500 chr1B 90.868 219 12 4 886 1096 680976271 680976489 1.760000e-73 287.0
23 TraesCS1A01G438500 chr1B 90.960 177 10 1 1168 1344 680976784 680976954 2.320000e-57 233.0
24 TraesCS1A01G438500 chr1B 100.000 52 0 0 3488 3539 680978847 680978898 3.180000e-16 97.1
25 TraesCS1A01G438500 chr1B 94.828 58 2 1 2086 2143 680977654 680977710 5.320000e-14 89.8
26 TraesCS1A01G438500 chr7D 91.563 723 43 8 171 880 388967898 388967181 0.000000e+00 981.0
27 TraesCS1A01G438500 chr3A 91.425 723 44 9 166 877 174295604 174294889 0.000000e+00 976.0
28 TraesCS1A01G438500 chr3A 81.699 153 21 6 319 464 130831365 130831517 1.890000e-23 121.0
29 TraesCS1A01G438500 chr7A 90.247 728 53 8 166 880 543810264 543809542 0.000000e+00 935.0
30 TraesCS1A01G438500 chr7A 91.196 443 35 4 168 609 676423005 676422566 1.990000e-167 599.0
31 TraesCS1A01G438500 chr7A 88.940 217 20 3 666 880 676422620 676422406 8.240000e-67 265.0
32 TraesCS1A01G438500 chr6B 91.449 690 40 5 170 847 411238612 411237930 0.000000e+00 929.0
33 TraesCS1A01G438500 chr5D 83.984 256 37 4 625 877 301100564 301100310 3.860000e-60 243.0
34 TraesCS1A01G438500 chr5B 84.375 224 28 6 657 877 89028932 89029151 3.030000e-51 213.0
35 TraesCS1A01G438500 chr5B 85.235 149 20 2 28 174 541628269 541628121 6.690000e-33 152.0
36 TraesCS1A01G438500 chr5A 80.000 105 15 6 365 464 476340351 476340454 5.360000e-09 73.1


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 TraesCS1A01G438500 chr1A 588117228 588121093 3865 True 7140.000000 7140 100.000000 1 3866 1 chr1A.!!$R2 3865
1 TraesCS1A01G438500 chr1A 588017266 588019763 2497 True 1196.000000 3221 90.329667 925 3863 3 chr1A.!!$R3 2938
2 TraesCS1A01G438500 chr1A 574215176 574215896 720 False 990.000000 990 91.701000 168 878 1 chr1A.!!$F1 710
3 TraesCS1A01G438500 chr1D 489105432 489107717 2285 False 1390.500000 2285 88.610500 909 3197 2 chr1D.!!$F2 2288
4 TraesCS1A01G438500 chr1D 488775964 488779554 3590 True 1386.500000 2440 89.726500 1336 3381 2 chr1D.!!$R3 2045
5 TraesCS1A01G438500 chr1D 490118465 490119683 1218 False 632.000000 660 87.285000 2752 3865 2 chr1D.!!$F4 1113
6 TraesCS1A01G438500 chr1D 490104551 490105973 1422 False 582.333333 1345 89.718000 923 2754 3 chr1D.!!$F3 1831
7 TraesCS1A01G438500 chr1B 680976271 680980667 4396 False 485.737500 1792 93.386500 886 3863 8 chr1B.!!$F1 2977
8 TraesCS1A01G438500 chr7D 388967181 388967898 717 True 981.000000 981 91.563000 171 880 1 chr7D.!!$R1 709
9 TraesCS1A01G438500 chr3A 174294889 174295604 715 True 976.000000 976 91.425000 166 877 1 chr3A.!!$R1 711
10 TraesCS1A01G438500 chr7A 543809542 543810264 722 True 935.000000 935 90.247000 166 880 1 chr7A.!!$R1 714
11 TraesCS1A01G438500 chr7A 676422406 676423005 599 True 432.000000 599 90.068000 168 880 2 chr7A.!!$R2 712
12 TraesCS1A01G438500 chr6B 411237930 411238612 682 True 929.000000 929 91.449000 170 847 1 chr6B.!!$R1 677

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
452 454 0.034089 CCACCACCATCTTTCCTCCC 60.034 60.0 0.00 0.0 0.00 4.30 F
453 455 0.034089 CACCACCATCTTTCCTCCCC 60.034 60.0 0.00 0.0 0.00 4.81 F
1429 1732 0.396060 CTATCCTTGGAGGCTCAGGC 59.604 60.0 17.69 0.0 34.61 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1441 1744 0.043940 AGGTCCTGAAGCCTCCAGAT 59.956 55.0 0.0 0.0 33.65 2.90 R
1442 1745 0.616111 GAGGTCCTGAAGCCTCCAGA 60.616 60.0 0.0 0.0 44.06 3.86 R
2911 4843 0.102481 CAGAGCAATGGCAAGATGGC 59.898 55.0 0.0 0.0 44.61 4.40 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
44 45 3.636282 TTCATGAGTTGAAGACGTCGA 57.364 42.857 10.46 0.00 39.44 4.20
45 46 3.636282 TCATGAGTTGAAGACGTCGAA 57.364 42.857 10.46 1.64 0.00 3.71
46 47 3.305964 TCATGAGTTGAAGACGTCGAAC 58.694 45.455 10.46 13.92 0.00 3.95
47 48 3.004419 TCATGAGTTGAAGACGTCGAACT 59.996 43.478 22.59 22.59 33.20 3.01
48 49 4.214758 TCATGAGTTGAAGACGTCGAACTA 59.785 41.667 22.50 14.74 31.71 2.24
49 50 4.761235 TGAGTTGAAGACGTCGAACTAT 57.239 40.909 22.50 9.09 31.71 2.12
50 51 4.473199 TGAGTTGAAGACGTCGAACTATG 58.527 43.478 22.50 0.00 31.71 2.23
51 52 4.214758 TGAGTTGAAGACGTCGAACTATGA 59.785 41.667 22.50 12.08 31.71 2.15
52 53 5.117355 AGTTGAAGACGTCGAACTATGAA 57.883 39.130 21.65 3.33 30.55 2.57
53 54 4.916249 AGTTGAAGACGTCGAACTATGAAC 59.084 41.667 21.65 12.58 30.55 3.18
54 55 3.829948 TGAAGACGTCGAACTATGAACC 58.170 45.455 10.46 0.00 0.00 3.62
55 56 3.504906 TGAAGACGTCGAACTATGAACCT 59.495 43.478 10.46 0.00 0.00 3.50
56 57 4.022589 TGAAGACGTCGAACTATGAACCTT 60.023 41.667 10.46 0.00 0.00 3.50
57 58 5.181811 TGAAGACGTCGAACTATGAACCTTA 59.818 40.000 10.46 0.00 0.00 2.69
58 59 5.831702 AGACGTCGAACTATGAACCTTAT 57.168 39.130 10.46 0.00 0.00 1.73
59 60 5.579718 AGACGTCGAACTATGAACCTTATG 58.420 41.667 10.46 0.00 0.00 1.90
60 61 5.125097 AGACGTCGAACTATGAACCTTATGT 59.875 40.000 10.46 0.00 0.00 2.29
61 62 6.317140 AGACGTCGAACTATGAACCTTATGTA 59.683 38.462 10.46 0.00 0.00 2.29
62 63 6.261118 ACGTCGAACTATGAACCTTATGTAC 58.739 40.000 0.00 0.00 0.00 2.90
63 64 6.094603 ACGTCGAACTATGAACCTTATGTACT 59.905 38.462 0.00 0.00 0.00 2.73
64 65 7.280876 ACGTCGAACTATGAACCTTATGTACTA 59.719 37.037 0.00 0.00 0.00 1.82
65 66 7.797587 CGTCGAACTATGAACCTTATGTACTAG 59.202 40.741 0.00 0.00 0.00 2.57
66 67 7.590689 GTCGAACTATGAACCTTATGTACTAGC 59.409 40.741 0.00 0.00 0.00 3.42
67 68 7.501559 TCGAACTATGAACCTTATGTACTAGCT 59.498 37.037 0.00 0.00 0.00 3.32
68 69 8.781196 CGAACTATGAACCTTATGTACTAGCTA 58.219 37.037 0.00 0.00 0.00 3.32
70 71 9.643735 AACTATGAACCTTATGTACTAGCTAGT 57.356 33.333 28.50 28.50 40.24 2.57
74 75 7.883217 TGAACCTTATGTACTAGCTAGTATGC 58.117 38.462 31.04 21.31 40.55 3.14
75 76 7.504574 TGAACCTTATGTACTAGCTAGTATGCA 59.495 37.037 31.04 25.34 40.55 3.96
76 77 7.216973 ACCTTATGTACTAGCTAGTATGCAC 57.783 40.000 31.04 22.72 40.55 4.57
77 78 7.005296 ACCTTATGTACTAGCTAGTATGCACT 58.995 38.462 31.04 18.00 40.55 4.40
78 79 7.506261 ACCTTATGTACTAGCTAGTATGCACTT 59.494 37.037 31.04 21.62 40.55 3.16
79 80 8.361139 CCTTATGTACTAGCTAGTATGCACTTT 58.639 37.037 31.04 16.93 40.55 2.66
80 81 9.400638 CTTATGTACTAGCTAGTATGCACTTTC 57.599 37.037 31.04 18.26 40.55 2.62
81 82 6.145338 TGTACTAGCTAGTATGCACTTTCC 57.855 41.667 31.04 17.66 40.55 3.13
82 83 4.674281 ACTAGCTAGTATGCACTTTCCC 57.326 45.455 24.97 0.00 36.14 3.97
83 84 4.290942 ACTAGCTAGTATGCACTTTCCCT 58.709 43.478 24.97 0.00 36.14 4.20
84 85 5.455872 ACTAGCTAGTATGCACTTTCCCTA 58.544 41.667 24.97 0.00 36.14 3.53
85 86 5.897824 ACTAGCTAGTATGCACTTTCCCTAA 59.102 40.000 24.97 0.00 36.14 2.69
86 87 5.693769 AGCTAGTATGCACTTTCCCTAAA 57.306 39.130 0.00 0.00 36.14 1.85
87 88 6.253946 AGCTAGTATGCACTTTCCCTAAAT 57.746 37.500 0.00 0.00 36.14 1.40
88 89 6.663734 AGCTAGTATGCACTTTCCCTAAATT 58.336 36.000 0.00 0.00 36.14 1.82
89 90 6.543831 AGCTAGTATGCACTTTCCCTAAATTG 59.456 38.462 0.00 0.00 36.14 2.32
90 91 6.238759 GCTAGTATGCACTTTCCCTAAATTGG 60.239 42.308 0.00 0.00 36.14 3.16
91 92 6.126409 TAGTATGCACTTTCCCTAAATTGGG 58.874 40.000 0.00 0.00 41.20 4.12
92 93 6.862247 TAGTATGCACTTTCCCTAAATTGGGG 60.862 42.308 8.27 8.27 40.70 4.96
98 99 3.633137 CCCTAAATTGGGGCCACAT 57.367 52.632 9.55 0.00 43.45 3.21
99 100 1.122227 CCCTAAATTGGGGCCACATG 58.878 55.000 9.55 0.00 43.45 3.21
100 101 1.622173 CCCTAAATTGGGGCCACATGT 60.622 52.381 9.55 0.00 43.45 3.21
101 102 1.481772 CCTAAATTGGGGCCACATGTG 59.518 52.381 19.31 19.31 0.00 3.21
102 103 2.178580 CTAAATTGGGGCCACATGTGT 58.821 47.619 23.79 0.00 0.00 3.72
103 104 0.686224 AAATTGGGGCCACATGTGTG 59.314 50.000 23.79 15.96 45.23 3.82
111 112 3.672293 CACATGTGTGGCTGGGTC 58.328 61.111 18.03 0.00 42.10 4.46
112 113 1.228215 CACATGTGTGGCTGGGTCA 60.228 57.895 18.03 0.00 42.10 4.02
113 114 1.073722 ACATGTGTGGCTGGGTCAG 59.926 57.895 0.00 0.00 34.12 3.51
125 126 2.111878 GGTCAGCCCCATGATCCG 59.888 66.667 0.00 0.00 0.00 4.18
126 127 2.111878 GTCAGCCCCATGATCCGG 59.888 66.667 0.00 0.00 0.00 5.14
127 128 2.366837 TCAGCCCCATGATCCGGT 60.367 61.111 0.00 0.00 0.00 5.28
128 129 2.000701 TCAGCCCCATGATCCGGTT 61.001 57.895 0.00 0.00 0.00 4.44
129 130 1.825191 CAGCCCCATGATCCGGTTG 60.825 63.158 0.00 0.00 0.00 3.77
130 131 2.275418 GCCCCATGATCCGGTTGT 59.725 61.111 0.00 0.00 0.00 3.32
131 132 1.379843 GCCCCATGATCCGGTTGTT 60.380 57.895 0.00 0.00 0.00 2.83
132 133 0.970427 GCCCCATGATCCGGTTGTTT 60.970 55.000 0.00 0.00 0.00 2.83
133 134 1.555967 CCCCATGATCCGGTTGTTTT 58.444 50.000 0.00 0.00 0.00 2.43
134 135 2.729194 CCCCATGATCCGGTTGTTTTA 58.271 47.619 0.00 0.00 0.00 1.52
135 136 3.295973 CCCCATGATCCGGTTGTTTTAT 58.704 45.455 0.00 0.00 0.00 1.40
136 137 3.317993 CCCCATGATCCGGTTGTTTTATC 59.682 47.826 0.00 0.00 0.00 1.75
137 138 4.207165 CCCATGATCCGGTTGTTTTATCT 58.793 43.478 0.00 0.00 0.00 1.98
138 139 4.036734 CCCATGATCCGGTTGTTTTATCTG 59.963 45.833 0.00 0.00 0.00 2.90
139 140 4.640201 CCATGATCCGGTTGTTTTATCTGT 59.360 41.667 0.00 0.00 0.00 3.41
140 141 5.125417 CCATGATCCGGTTGTTTTATCTGTT 59.875 40.000 0.00 0.00 0.00 3.16
141 142 6.350110 CCATGATCCGGTTGTTTTATCTGTTT 60.350 38.462 0.00 0.00 0.00 2.83
142 143 6.642707 TGATCCGGTTGTTTTATCTGTTTT 57.357 33.333 0.00 0.00 0.00 2.43
143 144 7.045126 TGATCCGGTTGTTTTATCTGTTTTT 57.955 32.000 0.00 0.00 0.00 1.94
144 145 6.920758 TGATCCGGTTGTTTTATCTGTTTTTG 59.079 34.615 0.00 0.00 0.00 2.44
145 146 6.210287 TCCGGTTGTTTTATCTGTTTTTGT 57.790 33.333 0.00 0.00 0.00 2.83
146 147 6.037098 TCCGGTTGTTTTATCTGTTTTTGTG 58.963 36.000 0.00 0.00 0.00 3.33
147 148 6.037098 CCGGTTGTTTTATCTGTTTTTGTGA 58.963 36.000 0.00 0.00 0.00 3.58
148 149 6.531948 CCGGTTGTTTTATCTGTTTTTGTGAA 59.468 34.615 0.00 0.00 0.00 3.18
149 150 7.387945 CGGTTGTTTTATCTGTTTTTGTGAAC 58.612 34.615 0.00 0.00 0.00 3.18
150 151 7.274686 CGGTTGTTTTATCTGTTTTTGTGAACT 59.725 33.333 0.00 0.00 0.00 3.01
151 152 8.931775 GGTTGTTTTATCTGTTTTTGTGAACTT 58.068 29.630 0.00 0.00 0.00 2.66
154 155 9.698309 TGTTTTATCTGTTTTTGTGAACTTTGA 57.302 25.926 0.00 0.00 0.00 2.69
191 192 3.660343 TGATTGAAATCACCCGGCA 57.340 47.368 0.00 0.00 40.32 5.69
276 277 1.270465 ACCTTCCCGAAACAACTACCG 60.270 52.381 0.00 0.00 0.00 4.02
309 311 6.496911 TCGTTCTCCATGATAATCCCATCTTA 59.503 38.462 0.00 0.00 0.00 2.10
452 454 0.034089 CCACCACCATCTTTCCTCCC 60.034 60.000 0.00 0.00 0.00 4.30
453 455 0.034089 CACCACCATCTTTCCTCCCC 60.034 60.000 0.00 0.00 0.00 4.81
520 522 0.827368 AAGAAGATGACCTCCGCTCC 59.173 55.000 0.00 0.00 0.00 4.70
585 587 5.577945 CACTTCTGTTGCAACAAACAAATCT 59.422 36.000 30.62 7.43 39.47 2.40
609 611 4.084223 GCAACATGAACTCCATTGCAAAAG 60.084 41.667 1.71 4.20 38.34 2.27
648 663 3.761311 AAAACCGCAACAAGACGTTTA 57.239 38.095 0.00 0.00 34.86 2.01
860 878 1.828979 TTTAAAAAGATCCGCCGGCT 58.171 45.000 26.68 5.36 0.00 5.52
880 898 1.325355 GACGTGTAGCAGCCCCTATA 58.675 55.000 0.00 0.00 0.00 1.31
881 899 1.684983 GACGTGTAGCAGCCCCTATAA 59.315 52.381 0.00 0.00 0.00 0.98
882 900 2.101917 GACGTGTAGCAGCCCCTATAAA 59.898 50.000 0.00 0.00 0.00 1.40
883 901 2.102588 ACGTGTAGCAGCCCCTATAAAG 59.897 50.000 0.00 0.00 0.00 1.85
884 902 2.102588 CGTGTAGCAGCCCCTATAAAGT 59.897 50.000 0.00 0.00 0.00 2.66
889 907 5.427481 TGTAGCAGCCCCTATAAAGTAAAGT 59.573 40.000 0.00 0.00 0.00 2.66
908 930 9.884636 AGTAAAGTAAAGCAGGTTTTGAAAAAT 57.115 25.926 2.23 0.00 0.00 1.82
955 983 4.039730 TGTCTTGTTTCCTCTCCTCTTCTG 59.960 45.833 0.00 0.00 0.00 3.02
1126 1161 1.876416 GCCTCTTTCACAGCACGGTAA 60.876 52.381 0.00 0.00 0.00 2.85
1127 1162 2.069273 CCTCTTTCACAGCACGGTAAG 58.931 52.381 0.00 0.00 0.00 2.34
1128 1163 1.461127 CTCTTTCACAGCACGGTAAGC 59.539 52.381 0.00 0.00 0.00 3.09
1129 1164 1.202592 TCTTTCACAGCACGGTAAGCA 60.203 47.619 0.00 0.00 0.00 3.91
1130 1165 0.941542 TTTCACAGCACGGTAAGCAC 59.058 50.000 0.00 0.00 0.00 4.40
1131 1166 0.882927 TTCACAGCACGGTAAGCACC 60.883 55.000 0.00 0.00 41.93 5.01
1132 1167 2.032071 ACAGCACGGTAAGCACCC 59.968 61.111 0.00 0.00 42.43 4.61
1133 1168 2.746277 CAGCACGGTAAGCACCCC 60.746 66.667 0.00 0.00 42.43 4.95
1134 1169 2.928396 AGCACGGTAAGCACCCCT 60.928 61.111 0.00 0.00 42.43 4.79
1135 1170 2.436115 GCACGGTAAGCACCCCTC 60.436 66.667 0.00 0.00 42.43 4.30
1136 1171 2.267961 CACGGTAAGCACCCCTCC 59.732 66.667 0.00 0.00 42.43 4.30
1137 1172 2.122056 ACGGTAAGCACCCCTCCT 59.878 61.111 0.00 0.00 42.43 3.69
1182 1440 4.944372 CGGACGGCGGCCATAGAC 62.944 72.222 33.90 2.90 0.00 2.59
1248 1512 3.569491 CATCGTAGGAACCCTAACCCTA 58.431 50.000 0.00 0.00 37.91 3.53
1249 1513 3.756082 TCGTAGGAACCCTAACCCTAA 57.244 47.619 0.00 0.00 37.91 2.69
1250 1514 3.365472 TCGTAGGAACCCTAACCCTAAC 58.635 50.000 0.00 0.00 37.91 2.34
1251 1515 2.432146 CGTAGGAACCCTAACCCTAACC 59.568 54.545 0.00 0.00 37.91 2.85
1252 1516 1.976915 AGGAACCCTAACCCTAACCC 58.023 55.000 0.00 0.00 28.47 4.11
1253 1517 0.543277 GGAACCCTAACCCTAACCCG 59.457 60.000 0.00 0.00 0.00 5.28
1261 1525 3.708121 CCTAACCCTAACCCGAGTAATGT 59.292 47.826 0.00 0.00 0.00 2.71
1320 1584 4.133078 CTGTTCTATTCTGGAAGGATGCC 58.867 47.826 0.00 0.00 29.38 4.40
1342 1645 2.238521 GGGAACAAGATGGTTTGCTGA 58.761 47.619 0.00 0.00 0.00 4.26
1429 1732 0.396060 CTATCCTTGGAGGCTCAGGC 59.604 60.000 17.69 0.00 34.61 4.85
1445 1748 6.251655 GCTCAGGCCTTGAATTAATATCTG 57.748 41.667 0.00 0.00 34.81 2.90
1446 1749 5.182760 GCTCAGGCCTTGAATTAATATCTGG 59.817 44.000 0.00 0.00 34.81 3.86
1447 1750 6.514012 TCAGGCCTTGAATTAATATCTGGA 57.486 37.500 0.00 0.00 31.34 3.86
1448 1751 6.537355 TCAGGCCTTGAATTAATATCTGGAG 58.463 40.000 0.00 0.00 31.34 3.86
1490 1793 3.414700 GAACAGTGTGCGGCTCGG 61.415 66.667 0.00 0.00 0.00 4.63
1708 3580 3.567478 AGAGGAGGCGCTTTGATATTT 57.433 42.857 7.64 0.00 0.00 1.40
1714 3586 3.873952 GAGGCGCTTTGATATTTGAGAGT 59.126 43.478 7.64 0.00 0.00 3.24
1746 3623 1.657594 CTGCTGTGTGATGATGACGTC 59.342 52.381 9.11 9.11 0.00 4.34
1865 3753 6.154192 GGATCTACCTGAGATGATGAGCAATA 59.846 42.308 0.00 0.00 45.48 1.90
1949 3847 6.619801 TCTGGAAGCAAAGAAACTAGAAAC 57.380 37.500 0.00 0.00 0.00 2.78
2059 3969 6.071984 TGATCTATCTGACTTCCTAACCTCC 58.928 44.000 0.00 0.00 0.00 4.30
2061 3971 5.450453 TCTATCTGACTTCCTAACCTCCTG 58.550 45.833 0.00 0.00 0.00 3.86
2172 4083 5.605540 AGGCATAATAATCCTGGGTTCAT 57.394 39.130 0.00 0.00 0.00 2.57
2277 4188 6.883217 AGACTCAAGTGCTGAATGACATTATT 59.117 34.615 0.00 0.00 32.17 1.40
2321 4236 1.474077 GATTGCACGCCTCTTGGAATT 59.526 47.619 0.00 0.00 35.39 2.17
2322 4237 1.327303 TTGCACGCCTCTTGGAATTT 58.673 45.000 0.00 0.00 34.57 1.82
2507 4437 3.096092 CAGGTCAAAGAGGAGCTCTACT 58.904 50.000 14.64 10.31 43.32 2.57
2909 4841 4.534897 ACTAACCCCAGCACTTTATGTAGT 59.465 41.667 0.00 0.00 0.00 2.73
2910 4842 4.382386 AACCCCAGCACTTTATGTAGTT 57.618 40.909 0.00 0.00 0.00 2.24
2911 4843 3.686016 ACCCCAGCACTTTATGTAGTTG 58.314 45.455 0.00 0.00 0.00 3.16
2912 4844 2.423538 CCCCAGCACTTTATGTAGTTGC 59.576 50.000 0.00 0.00 0.00 4.17
2913 4845 2.423538 CCCAGCACTTTATGTAGTTGCC 59.576 50.000 0.00 0.00 0.00 4.52
2914 4846 3.081061 CCAGCACTTTATGTAGTTGCCA 58.919 45.455 0.00 0.00 0.00 4.92
2915 4847 3.696051 CCAGCACTTTATGTAGTTGCCAT 59.304 43.478 0.00 0.00 0.00 4.40
2916 4848 4.201950 CCAGCACTTTATGTAGTTGCCATC 60.202 45.833 0.00 0.00 0.00 3.51
2987 4932 5.748630 TCTGTCATGTTCAGTGCGATTATAC 59.251 40.000 15.84 0.00 34.86 1.47
3085 5030 6.017605 GTGAGAATATTGGCTCAAGTGGTATG 60.018 42.308 8.10 0.00 42.27 2.39
3152 5097 8.931775 GTTGATTGGTTCTTTGTTTGTTTAAGT 58.068 29.630 0.00 0.00 0.00 2.24
3192 5137 5.651172 TCACACTGTATTTCGTTTGTCTG 57.349 39.130 0.00 0.00 0.00 3.51
3264 5259 4.137116 ACTCTGCTGTGTTCTGTAACAA 57.863 40.909 0.00 0.00 46.84 2.83
3270 5265 4.814234 TGCTGTGTTCTGTAACAAGTAAGG 59.186 41.667 0.00 0.00 46.84 2.69
3345 5423 7.062371 GTGACTTAGCAGTACAGTTTCATGTAG 59.938 40.741 0.00 0.00 36.36 2.74
3421 5499 4.098914 ACTTTAAATCCAGTCACAGCCA 57.901 40.909 0.00 0.00 0.00 4.75
3422 5500 4.666512 ACTTTAAATCCAGTCACAGCCAT 58.333 39.130 0.00 0.00 0.00 4.40
3423 5501 4.460382 ACTTTAAATCCAGTCACAGCCATG 59.540 41.667 0.00 0.00 0.00 3.66
3424 5502 2.592102 AAATCCAGTCACAGCCATGT 57.408 45.000 0.00 0.00 41.57 3.21
3425 5503 3.719268 AAATCCAGTCACAGCCATGTA 57.281 42.857 0.00 0.00 37.65 2.29
3440 5518 7.013178 CACAGCCATGTAATGTATGAACCAATA 59.987 37.037 0.00 0.00 44.81 1.90
3485 5563 8.324306 TCTTTTCTGACCTCTTGTATGATCATT 58.676 33.333 14.65 0.00 0.00 2.57
3539 7070 6.189859 ACAGCCATCAAAAGGAATCATTAGA 58.810 36.000 0.00 0.00 0.00 2.10
3583 7114 2.038164 TGCTCATCTTAGCCTGCTATGG 59.962 50.000 10.93 3.63 42.05 2.74
3707 7238 3.001736 GCAAAGCCGATGAGTATCTTCAC 59.998 47.826 0.00 0.00 39.06 3.18
3724 7255 3.378911 TCACGAGTACAATGACAAGCA 57.621 42.857 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 8.567948 ACGTCTTCAACTCATGAATAAAAACAT 58.432 29.630 0.00 0.00 46.62 2.71
16 17 7.925993 ACGTCTTCAACTCATGAATAAAAACA 58.074 30.769 0.00 0.00 46.62 2.83
17 18 7.266335 CGACGTCTTCAACTCATGAATAAAAAC 59.734 37.037 14.70 0.00 46.62 2.43
18 19 7.170151 TCGACGTCTTCAACTCATGAATAAAAA 59.830 33.333 14.70 0.00 46.62 1.94
19 20 6.643360 TCGACGTCTTCAACTCATGAATAAAA 59.357 34.615 14.70 0.00 46.62 1.52
20 21 6.153756 TCGACGTCTTCAACTCATGAATAAA 58.846 36.000 14.70 0.00 46.62 1.40
21 22 5.705902 TCGACGTCTTCAACTCATGAATAA 58.294 37.500 14.70 0.00 46.62 1.40
22 23 5.305139 TCGACGTCTTCAACTCATGAATA 57.695 39.130 14.70 0.00 46.62 1.75
23 24 4.174411 TCGACGTCTTCAACTCATGAAT 57.826 40.909 14.70 0.00 46.62 2.57
24 25 3.636282 TCGACGTCTTCAACTCATGAA 57.364 42.857 14.70 0.00 45.71 2.57
25 26 3.004419 AGTTCGACGTCTTCAACTCATGA 59.996 43.478 14.70 0.00 35.85 3.07
26 27 3.309388 AGTTCGACGTCTTCAACTCATG 58.691 45.455 14.70 0.00 0.00 3.07
27 28 3.644884 AGTTCGACGTCTTCAACTCAT 57.355 42.857 14.70 0.00 0.00 2.90
28 29 4.214758 TCATAGTTCGACGTCTTCAACTCA 59.785 41.667 21.01 12.16 31.80 3.41
29 30 4.720090 TCATAGTTCGACGTCTTCAACTC 58.280 43.478 21.01 4.41 31.80 3.01
30 31 4.761235 TCATAGTTCGACGTCTTCAACT 57.239 40.909 21.10 21.10 33.14 3.16
31 32 4.089636 GGTTCATAGTTCGACGTCTTCAAC 59.910 45.833 14.70 12.96 0.00 3.18
32 33 4.022589 AGGTTCATAGTTCGACGTCTTCAA 60.023 41.667 14.70 0.54 0.00 2.69
33 34 3.504906 AGGTTCATAGTTCGACGTCTTCA 59.495 43.478 14.70 0.00 0.00 3.02
34 35 4.094090 AGGTTCATAGTTCGACGTCTTC 57.906 45.455 14.70 3.80 0.00 2.87
35 36 4.516365 AAGGTTCATAGTTCGACGTCTT 57.484 40.909 14.70 0.00 0.00 3.01
36 37 5.125097 ACATAAGGTTCATAGTTCGACGTCT 59.875 40.000 14.70 0.00 0.00 4.18
37 38 5.338365 ACATAAGGTTCATAGTTCGACGTC 58.662 41.667 5.18 5.18 0.00 4.34
38 39 5.320549 ACATAAGGTTCATAGTTCGACGT 57.679 39.130 0.00 0.00 0.00 4.34
39 40 6.493116 AGTACATAAGGTTCATAGTTCGACG 58.507 40.000 0.00 0.00 0.00 5.12
40 41 7.590689 GCTAGTACATAAGGTTCATAGTTCGAC 59.409 40.741 0.00 0.00 0.00 4.20
41 42 7.501559 AGCTAGTACATAAGGTTCATAGTTCGA 59.498 37.037 0.00 0.00 0.00 3.71
42 43 7.649973 AGCTAGTACATAAGGTTCATAGTTCG 58.350 38.462 0.00 0.00 0.00 3.95
44 45 9.643735 ACTAGCTAGTACATAAGGTTCATAGTT 57.356 33.333 24.97 0.00 34.13 2.24
48 49 8.524487 GCATACTAGCTAGTACATAAGGTTCAT 58.476 37.037 31.06 12.60 41.18 2.57
49 50 7.504574 TGCATACTAGCTAGTACATAAGGTTCA 59.495 37.037 31.06 14.31 41.18 3.18
50 51 7.808856 GTGCATACTAGCTAGTACATAAGGTTC 59.191 40.741 31.06 12.14 41.18 3.62
51 52 7.506261 AGTGCATACTAGCTAGTACATAAGGTT 59.494 37.037 31.06 13.47 41.18 3.50
52 53 7.005296 AGTGCATACTAGCTAGTACATAAGGT 58.995 38.462 31.06 14.15 41.18 3.50
53 54 7.455641 AGTGCATACTAGCTAGTACATAAGG 57.544 40.000 31.06 16.51 41.18 2.69
54 55 9.400638 GAAAGTGCATACTAGCTAGTACATAAG 57.599 37.037 31.06 19.89 41.18 1.73
55 56 8.358148 GGAAAGTGCATACTAGCTAGTACATAA 58.642 37.037 31.06 14.89 41.18 1.90
56 57 7.039923 GGGAAAGTGCATACTAGCTAGTACATA 60.040 40.741 31.06 18.64 41.18 2.29
57 58 6.239345 GGGAAAGTGCATACTAGCTAGTACAT 60.239 42.308 31.06 17.80 41.18 2.29
58 59 5.068723 GGGAAAGTGCATACTAGCTAGTACA 59.931 44.000 31.06 23.17 41.18 2.90
59 60 5.302313 AGGGAAAGTGCATACTAGCTAGTAC 59.698 44.000 31.06 22.31 41.18 2.73
60 61 5.455872 AGGGAAAGTGCATACTAGCTAGTA 58.544 41.667 30.67 30.67 42.43 1.82
61 62 4.290942 AGGGAAAGTGCATACTAGCTAGT 58.709 43.478 28.50 28.50 35.69 2.57
62 63 4.946478 AGGGAAAGTGCATACTAGCTAG 57.054 45.455 19.44 19.44 35.69 3.42
63 64 6.801718 TTTAGGGAAAGTGCATACTAGCTA 57.198 37.500 0.00 0.00 35.69 3.32
64 65 5.693769 TTTAGGGAAAGTGCATACTAGCT 57.306 39.130 0.00 0.00 35.69 3.32
65 66 6.238759 CCAATTTAGGGAAAGTGCATACTAGC 60.239 42.308 0.00 0.00 38.91 3.42
66 67 7.264373 CCAATTTAGGGAAAGTGCATACTAG 57.736 40.000 0.00 0.00 38.91 2.57
81 82 1.481772 CACATGTGGCCCCAATTTAGG 59.518 52.381 18.51 0.00 0.00 2.69
82 83 2.094078 CACACATGTGGCCCCAATTTAG 60.094 50.000 28.64 0.02 42.10 1.85
83 84 1.898472 CACACATGTGGCCCCAATTTA 59.102 47.619 28.64 0.00 42.10 1.40
84 85 0.686224 CACACATGTGGCCCCAATTT 59.314 50.000 28.64 2.30 42.10 1.82
85 86 2.364353 CACACATGTGGCCCCAATT 58.636 52.632 28.64 3.06 42.10 2.32
86 87 4.116926 CACACATGTGGCCCCAAT 57.883 55.556 28.64 3.84 42.10 3.16
94 95 1.228215 TGACCCAGCCACACATGTG 60.228 57.895 24.25 24.25 45.23 3.21
95 96 1.073722 CTGACCCAGCCACACATGT 59.926 57.895 0.00 0.00 0.00 3.21
96 97 3.991999 CTGACCCAGCCACACATG 58.008 61.111 0.00 0.00 0.00 3.21
108 109 2.111878 CGGATCATGGGGCTGACC 59.888 66.667 0.00 0.00 39.11 4.02
109 110 2.111878 CCGGATCATGGGGCTGAC 59.888 66.667 0.00 0.00 0.00 3.51
110 111 2.000701 AACCGGATCATGGGGCTGA 61.001 57.895 9.46 0.00 0.00 4.26
111 112 1.825191 CAACCGGATCATGGGGCTG 60.825 63.158 9.46 0.00 0.00 4.85
112 113 1.863155 AACAACCGGATCATGGGGCT 61.863 55.000 9.46 0.00 0.00 5.19
113 114 0.970427 AAACAACCGGATCATGGGGC 60.970 55.000 9.46 0.00 0.00 5.80
114 115 1.555967 AAAACAACCGGATCATGGGG 58.444 50.000 9.46 2.77 0.00 4.96
115 116 4.036734 CAGATAAAACAACCGGATCATGGG 59.963 45.833 9.46 2.10 0.00 4.00
116 117 4.640201 ACAGATAAAACAACCGGATCATGG 59.360 41.667 9.46 0.00 0.00 3.66
117 118 5.818136 ACAGATAAAACAACCGGATCATG 57.182 39.130 9.46 3.91 0.00 3.07
118 119 6.834168 AAACAGATAAAACAACCGGATCAT 57.166 33.333 9.46 0.00 0.00 2.45
119 120 6.642707 AAAACAGATAAAACAACCGGATCA 57.357 33.333 9.46 0.00 0.00 2.92
120 121 6.921307 ACAAAAACAGATAAAACAACCGGATC 59.079 34.615 9.46 0.00 0.00 3.36
121 122 6.699642 CACAAAAACAGATAAAACAACCGGAT 59.300 34.615 9.46 0.00 0.00 4.18
122 123 6.037098 CACAAAAACAGATAAAACAACCGGA 58.963 36.000 9.46 0.00 0.00 5.14
123 124 6.037098 TCACAAAAACAGATAAAACAACCGG 58.963 36.000 0.00 0.00 0.00 5.28
124 125 7.274686 AGTTCACAAAAACAGATAAAACAACCG 59.725 33.333 0.00 0.00 0.00 4.44
125 126 8.474006 AGTTCACAAAAACAGATAAAACAACC 57.526 30.769 0.00 0.00 0.00 3.77
128 129 9.698309 TCAAAGTTCACAAAAACAGATAAAACA 57.302 25.926 0.00 0.00 0.00 2.83
143 144 8.792633 CCCTTACTTTATTGATCAAAGTTCACA 58.207 33.333 13.09 0.00 42.18 3.58
144 145 9.010029 TCCCTTACTTTATTGATCAAAGTTCAC 57.990 33.333 13.09 0.00 42.18 3.18
145 146 9.581289 TTCCCTTACTTTATTGATCAAAGTTCA 57.419 29.630 13.09 1.93 42.18 3.18
160 161 8.314021 GGTGATTTCAATCATTTCCCTTACTTT 58.686 33.333 5.53 0.00 46.17 2.66
161 162 7.093333 GGGTGATTTCAATCATTTCCCTTACTT 60.093 37.037 15.11 0.00 46.17 2.24
162 163 6.381133 GGGTGATTTCAATCATTTCCCTTACT 59.619 38.462 15.11 0.00 46.17 2.24
163 164 6.573434 GGGTGATTTCAATCATTTCCCTTAC 58.427 40.000 15.11 0.00 46.17 2.34
164 165 5.359576 CGGGTGATTTCAATCATTTCCCTTA 59.640 40.000 18.10 0.00 46.17 2.69
191 192 1.732732 CGGACGAAAAGAGCGTGATCT 60.733 52.381 0.00 0.00 42.77 2.75
238 239 4.148825 GGAGACGTGCGAGCCCAT 62.149 66.667 0.00 0.00 0.00 4.00
276 277 3.475566 TCATGGAGAACGATTGGATCC 57.524 47.619 4.20 4.20 0.00 3.36
309 311 3.134442 GGATGAAGGAGAGATGCAAGAGT 59.866 47.826 0.00 0.00 0.00 3.24
357 359 4.641645 CAGCTGGGGTGTTCGGCA 62.642 66.667 5.57 0.00 38.87 5.69
425 427 2.858476 ATGGTGGTGGTGGAGGCA 60.858 61.111 0.00 0.00 0.00 4.75
452 454 1.071385 CCATCAATCGAGAAGAGGGGG 59.929 57.143 7.19 0.00 30.03 5.40
453 455 1.542108 GCCATCAATCGAGAAGAGGGG 60.542 57.143 14.41 8.30 34.03 4.79
575 577 5.176223 GGAGTTCATGTTGCAGATTTGTTTG 59.824 40.000 0.00 0.00 0.00 2.93
585 587 1.962100 TGCAATGGAGTTCATGTTGCA 59.038 42.857 8.13 8.13 43.40 4.08
631 645 1.944032 ACTAAACGTCTTGTTGCGGT 58.056 45.000 0.00 0.00 40.84 5.68
632 646 2.285756 TCAACTAAACGTCTTGTTGCGG 59.714 45.455 10.74 0.00 40.84 5.69
699 717 7.361713 CGGAATATTTTTGCAACAGAGGTCTTA 60.362 37.037 0.00 0.00 0.00 2.10
795 813 3.616821 CGGATCTGACACAAATTTAGCGA 59.383 43.478 0.00 0.00 0.00 4.93
860 878 0.686441 ATAGGGGCTGCTACACGTCA 60.686 55.000 0.00 0.00 0.00 4.35
865 883 5.427481 ACTTTACTTTATAGGGGCTGCTACA 59.573 40.000 0.00 0.00 0.00 2.74
880 898 9.713713 TTTTCAAAACCTGCTTTACTTTACTTT 57.286 25.926 0.00 0.00 0.00 2.66
881 899 9.713713 TTTTTCAAAACCTGCTTTACTTTACTT 57.286 25.926 0.00 0.00 0.00 2.24
882 900 9.884636 ATTTTTCAAAACCTGCTTTACTTTACT 57.115 25.926 0.00 0.00 0.00 2.24
908 930 2.206750 GCTCCACGCCGATTTTACATA 58.793 47.619 0.00 0.00 0.00 2.29
1128 1163 4.825679 GGAGGGGGAGGAGGGGTG 62.826 77.778 0.00 0.00 0.00 4.61
1133 1168 4.179599 GAGGGGGAGGGGGAGGAG 62.180 77.778 0.00 0.00 0.00 3.69
1148 1183 1.443872 CGTTCGGACGTTGAGGGAG 60.444 63.158 8.45 0.00 44.08 4.30
1248 1512 4.138487 GAGAATCCACATTACTCGGGTT 57.862 45.455 0.00 0.00 0.00 4.11
1249 1513 3.821421 GAGAATCCACATTACTCGGGT 57.179 47.619 0.00 0.00 0.00 5.28
1285 1549 0.603707 AGAACAGTGTCACCGGCATG 60.604 55.000 0.00 0.00 0.00 4.06
1320 1584 2.029649 CAGCAAACCATCTTGTTCCCAG 60.030 50.000 0.00 0.00 0.00 4.45
1342 1645 4.728772 CTGGACTGAGAGATACTCCTGAT 58.271 47.826 0.00 0.00 44.34 2.90
1429 1732 7.000472 TGAAGCCTCCAGATATTAATTCAAGG 59.000 38.462 0.00 2.47 0.00 3.61
1430 1733 7.174599 CCTGAAGCCTCCAGATATTAATTCAAG 59.825 40.741 0.00 0.00 33.65 3.02
1431 1734 7.000472 CCTGAAGCCTCCAGATATTAATTCAA 59.000 38.462 0.00 0.00 33.65 2.69
1432 1735 6.329986 TCCTGAAGCCTCCAGATATTAATTCA 59.670 38.462 0.00 0.00 33.65 2.57
1433 1736 6.652900 GTCCTGAAGCCTCCAGATATTAATTC 59.347 42.308 0.00 0.00 33.65 2.17
1434 1737 6.466470 GGTCCTGAAGCCTCCAGATATTAATT 60.466 42.308 0.00 0.00 33.65 1.40
1435 1738 5.013599 GGTCCTGAAGCCTCCAGATATTAAT 59.986 44.000 0.00 0.00 33.65 1.40
1436 1739 4.348168 GGTCCTGAAGCCTCCAGATATTAA 59.652 45.833 0.00 0.00 33.65 1.40
1437 1740 3.904339 GGTCCTGAAGCCTCCAGATATTA 59.096 47.826 0.00 0.00 33.65 0.98
1438 1741 2.708325 GGTCCTGAAGCCTCCAGATATT 59.292 50.000 0.00 0.00 33.65 1.28
1439 1742 2.090267 AGGTCCTGAAGCCTCCAGATAT 60.090 50.000 0.00 0.00 33.65 1.63
1440 1743 1.292242 AGGTCCTGAAGCCTCCAGATA 59.708 52.381 0.00 0.00 33.65 1.98
1441 1744 0.043940 AGGTCCTGAAGCCTCCAGAT 59.956 55.000 0.00 0.00 33.65 2.90
1442 1745 0.616111 GAGGTCCTGAAGCCTCCAGA 60.616 60.000 0.00 0.00 44.06 3.86
1443 1746 1.904032 GAGGTCCTGAAGCCTCCAG 59.096 63.158 0.00 0.00 44.06 3.86
1444 1747 4.136978 GAGGTCCTGAAGCCTCCA 57.863 61.111 0.00 0.00 44.06 3.86
1447 1750 1.283321 GATTTGGAGGTCCTGAAGCCT 59.717 52.381 0.00 0.00 37.91 4.58
1448 1751 1.004745 TGATTTGGAGGTCCTGAAGCC 59.995 52.381 0.00 0.00 36.82 4.35
1490 1793 3.217626 CAATAATCAGGACTCCAAGGCC 58.782 50.000 0.00 0.00 46.64 5.19
1708 3580 3.517100 AGCAGGCAAGAAAGATACTCTCA 59.483 43.478 0.00 0.00 0.00 3.27
1714 3586 3.076621 CACACAGCAGGCAAGAAAGATA 58.923 45.455 0.00 0.00 0.00 1.98
1746 3623 3.053831 AGGTGTATGGTGGTTTCTTCG 57.946 47.619 0.00 0.00 0.00 3.79
1838 3720 4.676109 CTCATCATCTCAGGTAGATCCCT 58.324 47.826 0.00 0.00 43.42 4.20
1842 3724 6.725369 AGTATTGCTCATCATCTCAGGTAGAT 59.275 38.462 0.00 0.00 46.36 1.98
1865 3753 2.722201 GCGGCCAGGTAGTAGCAGT 61.722 63.158 2.24 0.00 0.00 4.40
1874 3762 1.476488 GAACAATTTATGCGGCCAGGT 59.524 47.619 2.24 0.00 0.00 4.00
1949 3847 3.131709 AGGAGTCACACCATCAAAGTG 57.868 47.619 0.00 0.00 41.15 3.16
2059 3969 6.149308 TGCAGAGTACAATGGAATTTACACAG 59.851 38.462 0.00 0.00 31.22 3.66
2061 3971 6.494893 TGCAGAGTACAATGGAATTTACAC 57.505 37.500 0.00 0.00 31.22 2.90
2150 4060 5.605540 ATGAACCCAGGATTATTATGCCT 57.394 39.130 0.00 0.00 0.00 4.75
2172 4083 5.506151 CCAGCAGCATATCAAGCGAATTTTA 60.506 40.000 0.00 0.00 37.01 1.52
2507 4437 1.811965 CCTGTTTTCGGACATCATGCA 59.188 47.619 0.00 0.00 0.00 3.96
2911 4843 0.102481 CAGAGCAATGGCAAGATGGC 59.898 55.000 0.00 0.00 44.61 4.40
2912 4844 1.471119 ACAGAGCAATGGCAAGATGG 58.529 50.000 0.00 0.00 44.61 3.51
2913 4845 3.250744 CAAACAGAGCAATGGCAAGATG 58.749 45.455 0.00 0.00 44.61 2.90
2914 4846 2.232941 CCAAACAGAGCAATGGCAAGAT 59.767 45.455 0.00 0.00 44.61 2.40
2915 4847 1.614903 CCAAACAGAGCAATGGCAAGA 59.385 47.619 0.00 0.00 44.61 3.02
2916 4848 1.614903 TCCAAACAGAGCAATGGCAAG 59.385 47.619 0.00 0.00 44.61 4.01
2987 4932 3.802685 GCTAGTTCAGCCTTACCATAACG 59.197 47.826 0.00 0.00 45.23 3.18
3068 5013 3.523564 AGTACCATACCACTTGAGCCAAT 59.476 43.478 0.00 0.00 0.00 3.16
3085 5030 7.773690 AGACCCAAATAACATCAACATAGTACC 59.226 37.037 0.00 0.00 0.00 3.34
3192 5137 2.096496 AGCACGTTTTCAGCTATGCATC 59.904 45.455 0.19 0.00 36.73 3.91
3345 5423 6.260936 TCTTCATTCCCTCGAAAGATTAATGC 59.739 38.462 0.00 0.00 40.84 3.56
3357 5435 2.697751 ACTCCTGATCTTCATTCCCTCG 59.302 50.000 0.00 0.00 0.00 4.63
3485 5563 4.222810 TCAATGTTGGCTTGCTAGACTAGA 59.777 41.667 13.91 0.00 0.00 2.43
3583 7114 5.701290 AGATGGCACTAAAGACAGTTACAAC 59.299 40.000 0.00 0.00 0.00 3.32
3636 7167 5.039333 GGATTTTTCGAAGATGATGCTTGG 58.961 41.667 0.00 0.00 35.04 3.61
3637 7168 5.643664 TGGATTTTTCGAAGATGATGCTTG 58.356 37.500 0.00 0.00 35.04 4.01
3638 7169 5.902613 TGGATTTTTCGAAGATGATGCTT 57.097 34.783 0.00 0.00 35.04 3.91
3707 7238 4.905866 CAGTTTTGCTTGTCATTGTACTCG 59.094 41.667 0.00 0.00 0.00 4.18
3724 7255 5.032327 AGACTAAACGAACTCCCAGTTTT 57.968 39.130 0.00 0.00 38.80 2.43


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

AutoCloner maintained by Alex Coulton.