Multiple sequence alignment - TraesCS5B01G472900

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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 TraesCS5B01G472900 chr5B 100.000 4179 0 0 1 4179 646476089 646480267 0.000000e+00 7718.0
1 TraesCS5B01G472900 chr5B 92.903 944 35 11 917 1844 645545948 645545021 0.000000e+00 1343.0
2 TraesCS5B01G472900 chr5B 91.184 828 40 8 1144 1960 645942541 645941736 0.000000e+00 1094.0
3 TraesCS5B01G472900 chr5B 90.235 809 66 8 362 1159 645945397 645944591 0.000000e+00 1044.0
4 TraesCS5B01G472900 chr5B 90.110 364 8 3 496 857 645546319 645545982 8.240000e-122 448.0
5 TraesCS5B01G472900 chr5B 94.332 247 13 1 2413 2658 645924357 645924111 1.100000e-100 377.0
6 TraesCS5B01G472900 chr5B 94.783 230 10 2 2654 2882 645923827 645923599 1.430000e-94 357.0
7 TraesCS5B01G472900 chr5B 83.636 385 38 11 1588 1960 646631030 646631401 5.180000e-89 339.0
8 TraesCS5B01G472900 chr5B 89.268 205 22 0 3454 3658 645544763 645544559 1.490000e-64 257.0
9 TraesCS5B01G472900 chr5B 99.174 121 1 0 1841 1961 645544928 645544808 7.030000e-53 219.0
10 TraesCS5B01G472900 chr5B 90.385 156 15 0 4024 4179 645544357 645544202 5.480000e-49 206.0
11 TraesCS5B01G472900 chr5B 86.310 168 9 1 2075 2242 645941737 645941584 2.000000e-38 171.0
12 TraesCS5B01G472900 chr5B 87.970 133 16 0 1959 2091 653230190 653230058 1.560000e-34 158.0
13 TraesCS5B01G472900 chr5B 79.825 228 28 4 3447 3663 645991031 645990811 2.600000e-32 150.0
14 TraesCS5B01G472900 chr5B 92.929 99 3 3 3732 3826 645544563 645544465 1.570000e-29 141.0
15 TraesCS5B01G472900 chr5B 78.696 230 31 5 3447 3663 646268956 646269180 2.030000e-28 137.0
16 TraesCS5B01G472900 chr5B 88.785 107 9 3 1991 2095 34822170 34822065 1.220000e-25 128.0
17 TraesCS5B01G472900 chr5B 87.368 95 12 0 2666 2760 647341446 647341540 4.420000e-20 110.0
18 TraesCS5B01G472900 chr5B 87.368 95 12 0 2666 2760 647347175 647347269 4.420000e-20 110.0
19 TraesCS5B01G472900 chr5B 96.825 63 2 0 2952 3014 645923599 645923537 5.710000e-19 106.0
20 TraesCS5B01G472900 chr5B 100.000 31 0 0 3122 3152 646268671 646268701 1.620000e-04 58.4
21 TraesCS5B01G472900 chr5A 92.778 1980 60 25 6 1961 642653908 642655828 0.000000e+00 2787.0
22 TraesCS5B01G472900 chr5A 92.982 798 33 13 2072 2868 642655823 642656598 0.000000e+00 1142.0
23 TraesCS5B01G472900 chr5A 90.824 752 26 15 2870 3589 642656690 642657430 0.000000e+00 966.0
24 TraesCS5B01G472900 chr5A 85.961 406 38 6 3727 4128 642657476 642657866 2.320000e-112 416.0
25 TraesCS5B01G472900 chr5A 88.043 92 11 0 2666 2757 642909283 642909374 4.420000e-20 110.0
26 TraesCS5B01G472900 chr5A 85.577 104 15 0 1988 2091 645629908 645629805 4.420000e-20 110.0
27 TraesCS5B01G472900 chr5A 86.813 91 11 1 3715 3804 642505051 642505141 2.660000e-17 100.0
28 TraesCS5B01G472900 chr5A 100.000 45 0 0 4135 4179 642693699 642693743 2.680000e-12 84.2
29 TraesCS5B01G472900 chr5D 94.238 1805 65 17 194 1961 514456832 514458634 0.000000e+00 2721.0
30 TraesCS5B01G472900 chr5D 94.645 803 37 6 2069 2868 514458625 514459424 0.000000e+00 1240.0
31 TraesCS5B01G472900 chr5D 88.107 824 45 21 2870 3663 514459522 514460322 0.000000e+00 929.0
32 TraesCS5B01G472900 chr5D 85.239 481 40 11 3715 4179 514460308 514460773 2.280000e-127 466.0
33 TraesCS5B01G472900 chr5D 86.486 259 29 3 1588 1840 514519496 514519754 3.180000e-71 279.0
34 TraesCS5B01G472900 chr5D 90.580 138 10 3 1959 2095 12925250 12925385 3.320000e-41 180.0
35 TraesCS5B01G472900 chr5D 85.276 163 12 1 3229 3379 514517189 514517351 1.560000e-34 158.0
36 TraesCS5B01G472900 chr5D 89.474 95 10 0 2666 2760 514520239 514520333 2.040000e-23 121.0
37 TraesCS5B01G472900 chr5D 89.474 95 10 0 2666 2760 514860617 514860711 2.040000e-23 121.0
38 TraesCS5B01G472900 chr5D 89.231 65 7 0 3123 3187 514432801 514432737 9.630000e-12 82.4
39 TraesCS5B01G472900 chr5D 100.000 42 0 0 4132 4173 514485400 514485441 1.250000e-10 78.7
40 TraesCS5B01G472900 chr2B 96.748 123 4 0 1959 2081 518048325 518048447 5.480000e-49 206.0
41 TraesCS5B01G472900 chr3D 97.458 118 3 0 1959 2076 14846788 14846671 7.080000e-48 202.0
42 TraesCS5B01G472900 chr3D 95.902 122 5 0 1957 2078 445035252 445035131 9.160000e-47 198.0
43 TraesCS5B01G472900 chr4D 96.667 120 4 0 1957 2076 367720889 367720770 2.550000e-47 200.0
44 TraesCS5B01G472900 chr2D 96.667 120 4 0 1959 2078 12692240 12692359 2.550000e-47 200.0
45 TraesCS5B01G472900 chr2D 93.182 44 3 0 3664 3707 640240511 640240554 9.700000e-07 65.8
46 TraesCS5B01G472900 chr6B 95.238 126 4 2 1960 2085 187836886 187836763 9.160000e-47 198.0
47 TraesCS5B01G472900 chr2A 95.902 122 5 0 1959 2080 729162120 729161999 9.160000e-47 198.0
48 TraesCS5B01G472900 chr1D 95.122 123 6 0 1955 2077 116548336 116548458 1.190000e-45 195.0
49 TraesCS5B01G472900 chr3B 94.444 126 6 1 1952 2077 658489544 658489668 4.260000e-45 193.0
50 TraesCS5B01G472900 chr3B 90.000 140 9 4 1959 2094 661840292 661840430 4.290000e-40 176.0
51 TraesCS5B01G472900 chr3A 90.511 137 7 5 1962 2093 272727 272592 4.290000e-40 176.0
52 TraesCS5B01G472900 chr3A 90.756 119 8 2 1959 2077 595973480 595973595 5.590000e-34 156.0
53 TraesCS5B01G472900 chr7B 86.986 146 11 5 1962 2102 489828244 489828102 1.560000e-34 158.0
54 TraesCS5B01G472900 chr7A 94.444 90 5 0 1988 2077 347252502 347252591 5.630000e-29 139.0
55 TraesCS5B01G472900 chr4B 91.228 57 4 1 3661 3716 369730723 369730779 4.480000e-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 TraesCS5B01G472900 chr5B 646476089 646480267 4178 False 7718.000000 7718 100.000000 1 4179 1 chr5B.!!$F1 4178
1 TraesCS5B01G472900 chr5B 645941584 645945397 3813 True 769.666667 1094 89.243000 362 2242 3 chr5B.!!$R6 1880
2 TraesCS5B01G472900 chr5B 645544202 645546319 2117 True 435.666667 1343 92.461500 496 4179 6 chr5B.!!$R4 3683
3 TraesCS5B01G472900 chr5B 645923537 645924357 820 True 280.000000 377 95.313333 2413 3014 3 chr5B.!!$R5 601
4 TraesCS5B01G472900 chr5A 642653908 642657866 3958 False 1327.750000 2787 90.636250 6 4128 4 chr5A.!!$F4 4122
5 TraesCS5B01G472900 chr5D 514456832 514460773 3941 False 1339.000000 2721 90.557250 194 4179 4 chr5D.!!$F4 3985

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
81 83 0.030603 TGGGGGCTTTGAAAACCCTT 60.031 50.0 15.43 0.0 43.68 3.95 F
1975 4196 0.038744 ACTACTCCCTCCGTCCGAAA 59.961 55.0 0.00 0.0 0.00 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2045 4266 0.036306 TCCGGAAAAGCTTGTCCCTC 59.964 55.0 26.94 5.77 0.00 4.30 R
3468 6108 0.590481 AAAAACGTCGACGGCAAAGC 60.590 50.0 37.89 0.00 44.95 3.51 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
38 39 2.915349 AGAGGTGATTGTAGCAGCATG 58.085 47.619 0.00 0.00 36.28 4.06
66 67 2.568509 AGCTCAAACCAAATTGATGGGG 59.431 45.455 0.00 0.00 45.18 4.96
81 83 0.030603 TGGGGGCTTTGAAAACCCTT 60.031 50.000 15.43 0.00 43.68 3.95
154 156 4.335315 TGGATTTATGGTGCAATCTTCGAC 59.665 41.667 0.00 0.00 31.16 4.20
176 178 7.018826 CGACCGTTCATTTAATTTTGAGCTAA 58.981 34.615 0.00 0.00 0.00 3.09
371 382 0.531974 ACGTGCGTGAATGTGGAACT 60.532 50.000 0.00 0.00 38.04 3.01
718 747 2.863740 TGTTTTCGCACAGTACACAGAG 59.136 45.455 0.00 0.00 0.00 3.35
790 820 3.709141 ACACCAACCTTGCCTGTATTTTT 59.291 39.130 0.00 0.00 0.00 1.94
813 843 3.540314 TTTGCCACAAATTTGACTGCT 57.460 38.095 24.64 0.00 0.00 4.24
829 859 6.012658 TGACTGCTCAATAACCAATTTGAC 57.987 37.500 0.00 0.00 0.00 3.18
1098 1138 2.258591 CGATATCAGCGACCGGGG 59.741 66.667 6.32 0.00 0.00 5.73
1308 3417 2.936912 CGGAGCATCGAGGGGGATC 61.937 68.421 0.00 0.00 34.37 3.36
1470 3581 2.863704 GCTGTGGTTTCATTGGAACTGC 60.864 50.000 7.73 4.41 31.35 4.40
1516 3627 6.146510 TGTTTAAGGTAGTTGTGAACTATGCG 59.853 38.462 0.00 0.00 45.05 4.73
1621 3737 1.130938 TGCTCGCATACAAGTGCATTG 59.869 47.619 0.00 0.00 45.30 2.82
1745 3867 1.745141 GCCGATGTCTCCATTGAAGCT 60.745 52.381 0.00 0.00 34.81 3.74
1840 3962 2.926200 CTCCGAGTGAGTGCATACTTTG 59.074 50.000 0.00 0.00 37.25 2.77
1958 4179 2.121992 CTTCCCCTGCACAGCTGACT 62.122 60.000 23.35 0.00 0.00 3.41
1959 4180 0.835971 TTCCCCTGCACAGCTGACTA 60.836 55.000 23.35 4.51 0.00 2.59
1960 4181 1.078848 CCCCTGCACAGCTGACTAC 60.079 63.158 23.35 6.90 0.00 2.73
1961 4182 1.548357 CCCCTGCACAGCTGACTACT 61.548 60.000 23.35 0.00 0.00 2.57
1962 4183 0.108424 CCCTGCACAGCTGACTACTC 60.108 60.000 23.35 2.88 0.00 2.59
1963 4184 0.108424 CCTGCACAGCTGACTACTCC 60.108 60.000 23.35 0.63 0.00 3.85
1964 4185 0.108424 CTGCACAGCTGACTACTCCC 60.108 60.000 23.35 0.00 0.00 4.30
1965 4186 0.542938 TGCACAGCTGACTACTCCCT 60.543 55.000 23.35 0.00 0.00 4.20
1966 4187 0.174617 GCACAGCTGACTACTCCCTC 59.825 60.000 23.35 0.00 0.00 4.30
1967 4188 0.820871 CACAGCTGACTACTCCCTCC 59.179 60.000 23.35 0.00 0.00 4.30
1968 4189 0.681564 ACAGCTGACTACTCCCTCCG 60.682 60.000 23.35 0.00 0.00 4.63
1969 4190 0.681564 CAGCTGACTACTCCCTCCGT 60.682 60.000 8.42 0.00 0.00 4.69
1970 4191 0.394625 AGCTGACTACTCCCTCCGTC 60.395 60.000 0.00 0.00 0.00 4.79
1971 4192 1.385756 GCTGACTACTCCCTCCGTCC 61.386 65.000 0.00 0.00 0.00 4.79
1972 4193 1.077930 TGACTACTCCCTCCGTCCG 60.078 63.158 0.00 0.00 0.00 4.79
1973 4194 1.222936 GACTACTCCCTCCGTCCGA 59.777 63.158 0.00 0.00 0.00 4.55
1974 4195 0.393537 GACTACTCCCTCCGTCCGAA 60.394 60.000 0.00 0.00 0.00 4.30
1975 4196 0.038744 ACTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
1976 4197 1.180029 CTACTCCCTCCGTCCGAAAA 58.820 55.000 0.00 0.00 0.00 2.29
1977 4198 1.547372 CTACTCCCTCCGTCCGAAAAA 59.453 52.381 0.00 0.00 0.00 1.94
1978 4199 0.320697 ACTCCCTCCGTCCGAAAAAG 59.679 55.000 0.00 0.00 0.00 2.27
1979 4200 1.004200 TCCCTCCGTCCGAAAAAGC 60.004 57.895 0.00 0.00 0.00 3.51
1980 4201 1.003718 CCCTCCGTCCGAAAAAGCT 60.004 57.895 0.00 0.00 0.00 3.74
1981 4202 0.605589 CCCTCCGTCCGAAAAAGCTT 60.606 55.000 0.00 0.00 0.00 3.74
1982 4203 0.517316 CCTCCGTCCGAAAAAGCTTG 59.483 55.000 0.00 0.00 0.00 4.01
1983 4204 1.226746 CTCCGTCCGAAAAAGCTTGT 58.773 50.000 0.00 0.00 0.00 3.16
1984 4205 1.194772 CTCCGTCCGAAAAAGCTTGTC 59.805 52.381 0.00 0.00 0.00 3.18
1985 4206 0.237498 CCGTCCGAAAAAGCTTGTCC 59.763 55.000 0.00 0.00 0.00 4.02
1986 4207 0.237498 CGTCCGAAAAAGCTTGTCCC 59.763 55.000 0.00 0.00 0.00 4.46
1987 4208 1.314730 GTCCGAAAAAGCTTGTCCCA 58.685 50.000 0.00 0.00 0.00 4.37
1988 4209 1.679153 GTCCGAAAAAGCTTGTCCCAA 59.321 47.619 0.00 0.00 0.00 4.12
1989 4210 1.953686 TCCGAAAAAGCTTGTCCCAAG 59.046 47.619 0.00 0.00 0.00 3.61
1990 4211 1.602920 CCGAAAAAGCTTGTCCCAAGC 60.603 52.381 18.69 18.69 43.31 4.01
1996 4217 1.959848 GCTTGTCCCAAGCTTGTCC 59.040 57.895 24.35 12.15 40.01 4.02
1997 4218 1.856265 GCTTGTCCCAAGCTTGTCCG 61.856 60.000 24.35 11.74 40.01 4.79
1998 4219 0.535102 CTTGTCCCAAGCTTGTCCGT 60.535 55.000 24.35 0.00 0.00 4.69
1999 4220 0.534203 TTGTCCCAAGCTTGTCCGTC 60.534 55.000 24.35 9.99 0.00 4.79
2000 4221 1.070786 GTCCCAAGCTTGTCCGTCA 59.929 57.895 24.35 0.00 0.00 4.35
2001 4222 0.534203 GTCCCAAGCTTGTCCGTCAA 60.534 55.000 24.35 0.00 34.61 3.18
2002 4223 0.181587 TCCCAAGCTTGTCCGTCAAA 59.818 50.000 24.35 0.00 35.48 2.69
2003 4224 1.202879 TCCCAAGCTTGTCCGTCAAAT 60.203 47.619 24.35 0.00 35.48 2.32
2004 4225 1.068333 CCCAAGCTTGTCCGTCAAATG 60.068 52.381 24.35 5.47 35.48 2.32
2005 4226 1.068333 CCAAGCTTGTCCGTCAAATGG 60.068 52.381 24.35 1.81 35.48 3.16
2006 4227 1.879380 CAAGCTTGTCCGTCAAATGGA 59.121 47.619 18.65 0.00 35.48 3.41
2007 4228 2.489329 CAAGCTTGTCCGTCAAATGGAT 59.511 45.455 18.65 0.00 35.40 3.41
2008 4229 2.086869 AGCTTGTCCGTCAAATGGATG 58.913 47.619 0.00 0.00 35.40 3.51
2009 4230 1.812571 GCTTGTCCGTCAAATGGATGT 59.187 47.619 0.00 0.00 35.40 3.06
2010 4231 3.006940 GCTTGTCCGTCAAATGGATGTA 58.993 45.455 0.00 0.00 35.40 2.29
2011 4232 3.627577 GCTTGTCCGTCAAATGGATGTAT 59.372 43.478 0.00 0.00 35.40 2.29
2012 4233 4.260784 GCTTGTCCGTCAAATGGATGTATC 60.261 45.833 0.00 0.00 35.40 2.24
2013 4234 4.753516 TGTCCGTCAAATGGATGTATCT 57.246 40.909 0.00 0.00 35.40 1.98
2014 4235 5.862678 TGTCCGTCAAATGGATGTATCTA 57.137 39.130 0.00 0.00 35.40 1.98
2015 4236 5.842907 TGTCCGTCAAATGGATGTATCTAG 58.157 41.667 0.00 0.00 35.40 2.43
2016 4237 4.686554 GTCCGTCAAATGGATGTATCTAGC 59.313 45.833 0.00 0.00 35.40 3.42
2017 4238 4.343814 TCCGTCAAATGGATGTATCTAGCA 59.656 41.667 0.00 0.00 0.00 3.49
2018 4239 4.449068 CCGTCAAATGGATGTATCTAGCAC 59.551 45.833 0.00 0.00 0.00 4.40
2019 4240 5.292765 CGTCAAATGGATGTATCTAGCACT 58.707 41.667 0.00 0.00 0.00 4.40
2020 4241 6.447162 CGTCAAATGGATGTATCTAGCACTA 58.553 40.000 0.00 0.00 0.00 2.74
2021 4242 6.923508 CGTCAAATGGATGTATCTAGCACTAA 59.076 38.462 0.00 0.00 0.00 2.24
2022 4243 7.096023 CGTCAAATGGATGTATCTAGCACTAAC 60.096 40.741 0.00 0.00 0.00 2.34
2023 4244 7.928706 GTCAAATGGATGTATCTAGCACTAACT 59.071 37.037 0.00 0.00 0.00 2.24
2024 4245 8.486210 TCAAATGGATGTATCTAGCACTAACTT 58.514 33.333 0.00 0.00 0.00 2.66
2025 4246 8.554528 CAAATGGATGTATCTAGCACTAACTTG 58.445 37.037 0.00 0.00 0.00 3.16
2026 4247 6.161855 TGGATGTATCTAGCACTAACTTGG 57.838 41.667 0.00 0.00 0.00 3.61
2027 4248 5.661312 TGGATGTATCTAGCACTAACTTGGT 59.339 40.000 0.00 0.00 0.00 3.67
2028 4249 5.986135 GGATGTATCTAGCACTAACTTGGTG 59.014 44.000 0.97 0.97 37.70 4.17
2040 4261 5.986135 CACTAACTTGGTGCTAGATACATCC 59.014 44.000 0.00 0.00 0.00 3.51
2041 4262 5.661312 ACTAACTTGGTGCTAGATACATCCA 59.339 40.000 0.00 0.00 0.00 3.41
2042 4263 5.636903 AACTTGGTGCTAGATACATCCAT 57.363 39.130 0.00 0.00 0.00 3.41
2043 4264 5.636903 ACTTGGTGCTAGATACATCCATT 57.363 39.130 0.00 0.00 0.00 3.16
2044 4265 6.006275 ACTTGGTGCTAGATACATCCATTT 57.994 37.500 0.00 0.00 0.00 2.32
2045 4266 5.824624 ACTTGGTGCTAGATACATCCATTTG 59.175 40.000 0.00 0.00 0.00 2.32
2046 4267 5.628797 TGGTGCTAGATACATCCATTTGA 57.371 39.130 0.00 0.00 0.00 2.69
2047 4268 5.614308 TGGTGCTAGATACATCCATTTGAG 58.386 41.667 0.00 0.00 0.00 3.02
2048 4269 4.999950 GGTGCTAGATACATCCATTTGAGG 59.000 45.833 0.00 0.00 0.00 3.86
2049 4270 4.999950 GTGCTAGATACATCCATTTGAGGG 59.000 45.833 0.00 0.00 0.00 4.30
2050 4271 4.907269 TGCTAGATACATCCATTTGAGGGA 59.093 41.667 0.00 0.00 39.14 4.20
2051 4272 5.221722 TGCTAGATACATCCATTTGAGGGAC 60.222 44.000 0.00 0.00 37.23 4.46
2052 4273 5.221722 GCTAGATACATCCATTTGAGGGACA 60.222 44.000 0.00 0.00 37.23 4.02
2053 4274 5.715439 AGATACATCCATTTGAGGGACAA 57.285 39.130 0.00 0.00 37.23 3.18
2054 4275 5.688807 AGATACATCCATTTGAGGGACAAG 58.311 41.667 0.00 0.00 39.77 3.16
2055 4276 2.450476 ACATCCATTTGAGGGACAAGC 58.550 47.619 0.00 0.00 39.77 4.01
2056 4277 2.042162 ACATCCATTTGAGGGACAAGCT 59.958 45.455 0.00 0.00 39.77 3.74
2057 4278 2.978156 TCCATTTGAGGGACAAGCTT 57.022 45.000 0.00 0.00 39.77 3.74
2058 4279 3.243359 TCCATTTGAGGGACAAGCTTT 57.757 42.857 0.00 0.00 39.77 3.51
2059 4280 3.575805 TCCATTTGAGGGACAAGCTTTT 58.424 40.909 0.00 0.00 39.77 2.27
2060 4281 3.573967 TCCATTTGAGGGACAAGCTTTTC 59.426 43.478 3.91 3.91 39.77 2.29
2061 4282 3.306294 CCATTTGAGGGACAAGCTTTTCC 60.306 47.826 21.34 21.34 39.77 3.13
2062 4283 1.604604 TTGAGGGACAAGCTTTTCCG 58.395 50.000 22.30 2.85 34.20 4.30
2063 4284 0.250727 TGAGGGACAAGCTTTTCCGG 60.251 55.000 22.30 0.00 32.00 5.14
2064 4285 0.036306 GAGGGACAAGCTTTTCCGGA 59.964 55.000 22.30 0.00 32.00 5.14
2065 4286 0.250770 AGGGACAAGCTTTTCCGGAC 60.251 55.000 22.30 11.02 32.00 4.79
2066 4287 1.574702 GGGACAAGCTTTTCCGGACG 61.575 60.000 22.30 0.00 32.00 4.79
2067 4288 1.574702 GGACAAGCTTTTCCGGACGG 61.575 60.000 15.65 3.96 0.00 4.79
2068 4289 0.601841 GACAAGCTTTTCCGGACGGA 60.602 55.000 1.83 9.76 43.52 4.69
2069 4290 0.602905 ACAAGCTTTTCCGGACGGAG 60.603 55.000 13.64 3.27 46.06 4.63
2070 4291 1.671379 AAGCTTTTCCGGACGGAGC 60.671 57.895 19.93 19.93 46.06 4.70
2071 4292 3.488090 GCTTTTCCGGACGGAGCG 61.488 66.667 13.64 7.46 46.06 5.03
2072 4293 2.260434 CTTTTCCGGACGGAGCGA 59.740 61.111 13.64 1.83 46.06 4.93
2073 4294 1.805945 CTTTTCCGGACGGAGCGAG 60.806 63.158 13.64 9.15 46.06 5.03
2121 4342 3.213506 TGACAGTGGGTTTTGATGTCTG 58.786 45.455 5.37 0.00 40.67 3.51
2152 4374 2.141011 CTTGGTGGGCAGGGATCACA 62.141 60.000 0.00 0.00 33.45 3.58
2181 4403 2.310309 TGCTAATGCGGATGAAGCG 58.690 52.632 16.28 0.00 43.34 4.68
2185 4407 2.601194 TAATGCGGATGAAGCGGGCA 62.601 55.000 0.00 0.00 38.09 5.36
2188 4410 2.745884 CGGATGAAGCGGGCACAA 60.746 61.111 0.00 0.00 0.00 3.33
2310 4532 7.492020 TGCATTGTGCTTGCCTATTATTTAAAG 59.508 33.333 3.41 0.00 45.31 1.85
2315 4537 8.840321 TGTGCTTGCCTATTATTTAAAGATCTC 58.160 33.333 0.00 0.00 0.00 2.75
2506 4731 0.107017 CCTCAGTTGCCGGGATGATT 60.107 55.000 2.18 0.00 0.00 2.57
2639 4864 5.366482 TGCCAACCTAGAATAAGCACATA 57.634 39.130 0.00 0.00 0.00 2.29
2660 5172 6.261826 ACATATTGATTAAAGTGCTGCTCCTC 59.738 38.462 0.00 0.00 0.00 3.71
2853 5366 8.291740 TGCATTGACTAAATTCCATATGAATCG 58.708 33.333 3.65 0.00 42.97 3.34
2927 5536 3.245048 CGCTTTGGTTTTACTGCCTTTTG 59.755 43.478 0.00 0.00 0.00 2.44
3073 5682 3.307379 GTCCTTCATATGGACGGCC 57.693 57.895 0.00 0.00 43.55 6.13
3082 5691 3.166434 TGGACGGCCCATTTGAGT 58.834 55.556 3.83 0.00 40.82 3.41
3083 5692 1.303236 TGGACGGCCCATTTGAGTG 60.303 57.895 3.83 0.00 40.82 3.51
3084 5693 1.303317 GGACGGCCCATTTGAGTGT 60.303 57.895 0.00 0.00 34.14 3.55
3085 5694 0.893727 GGACGGCCCATTTGAGTGTT 60.894 55.000 0.00 0.00 34.14 3.32
3086 5695 1.612199 GGACGGCCCATTTGAGTGTTA 60.612 52.381 0.00 0.00 34.14 2.41
3087 5696 2.365582 GACGGCCCATTTGAGTGTTAT 58.634 47.619 0.00 0.00 0.00 1.89
3088 5697 2.354821 GACGGCCCATTTGAGTGTTATC 59.645 50.000 0.00 0.00 0.00 1.75
3089 5698 2.026262 ACGGCCCATTTGAGTGTTATCT 60.026 45.455 0.00 0.00 0.00 1.98
3090 5699 2.355756 CGGCCCATTTGAGTGTTATCTG 59.644 50.000 0.00 0.00 0.00 2.90
3091 5700 3.356290 GGCCCATTTGAGTGTTATCTGT 58.644 45.455 0.00 0.00 0.00 3.41
3206 5815 1.623973 GAAACCGAACCGAAGCGAGG 61.624 60.000 0.00 0.00 0.00 4.63
3216 5825 0.600255 CGAAGCGAGGTGTGGAAACT 60.600 55.000 0.00 0.00 0.00 2.66
3218 5827 1.531578 GAAGCGAGGTGTGGAAACTTC 59.468 52.381 0.00 0.00 0.00 3.01
3308 5929 1.443802 GGCTTGTGGCTACTCTTGTC 58.556 55.000 0.64 0.00 41.46 3.18
3373 5994 7.284489 GGAAATTCAGTAGTATGTATTGGCCAA 59.716 37.037 23.00 23.00 0.00 4.52
3468 6108 5.594724 CCAAATGTAATGTTTTGGCTGTG 57.405 39.130 1.84 0.00 43.77 3.66
3474 6114 1.585297 ATGTTTTGGCTGTGCTTTGC 58.415 45.000 0.00 0.00 0.00 3.68
3498 6138 4.257933 CGTCGACGTTTTTATTTTGCATCG 60.258 41.667 29.08 0.00 34.11 3.84
3593 6233 4.451900 AGAATCGAGGTGTCAAAACTTGT 58.548 39.130 0.00 0.00 0.00 3.16
3643 6283 6.479972 TTCATTACGGGAACAGATCATACT 57.520 37.500 0.00 0.00 0.00 2.12
3647 6287 7.940688 TCATTACGGGAACAGATCATACTAGTA 59.059 37.037 4.77 4.77 0.00 1.82
3648 6288 8.573885 CATTACGGGAACAGATCATACTAGTAA 58.426 37.037 6.70 0.00 0.00 2.24
3649 6289 8.701908 TTACGGGAACAGATCATACTAGTAAT 57.298 34.615 6.70 0.00 0.00 1.89
3650 6290 7.598759 ACGGGAACAGATCATACTAGTAATT 57.401 36.000 6.70 0.00 0.00 1.40
3651 6291 7.659186 ACGGGAACAGATCATACTAGTAATTC 58.341 38.462 6.70 4.55 0.00 2.17
3652 6292 7.287005 ACGGGAACAGATCATACTAGTAATTCA 59.713 37.037 6.70 0.00 0.00 2.57
3653 6293 8.141909 CGGGAACAGATCATACTAGTAATTCAA 58.858 37.037 6.70 0.00 0.00 2.69
3654 6294 9.832445 GGGAACAGATCATACTAGTAATTCAAA 57.168 33.333 6.70 0.00 0.00 2.69
3660 6300 9.890629 AGATCATACTAGTAATTCAAAGTTGCA 57.109 29.630 6.70 0.00 0.00 4.08
3666 6306 8.630054 ACTAGTAATTCAAAGTTGCATTACCA 57.370 30.769 17.41 8.09 43.54 3.25
3667 6307 8.512138 ACTAGTAATTCAAAGTTGCATTACCAC 58.488 33.333 17.41 2.77 43.54 4.16
3668 6308 7.283625 AGTAATTCAAAGTTGCATTACCACA 57.716 32.000 17.41 0.00 43.54 4.17
3669 6309 7.895759 AGTAATTCAAAGTTGCATTACCACAT 58.104 30.769 17.41 3.09 43.54 3.21
3670 6310 7.814107 AGTAATTCAAAGTTGCATTACCACATG 59.186 33.333 17.41 0.00 43.54 3.21
3671 6311 5.781210 TTCAAAGTTGCATTACCACATGA 57.219 34.783 0.00 0.00 0.00 3.07
3672 6312 5.119931 TCAAAGTTGCATTACCACATGAC 57.880 39.130 0.00 0.00 0.00 3.06
3673 6313 4.582240 TCAAAGTTGCATTACCACATGACA 59.418 37.500 0.00 0.00 0.00 3.58
3674 6314 4.771590 AAGTTGCATTACCACATGACAG 57.228 40.909 0.00 0.00 0.00 3.51
3675 6315 4.019792 AGTTGCATTACCACATGACAGA 57.980 40.909 0.00 0.00 0.00 3.41
3676 6316 4.592942 AGTTGCATTACCACATGACAGAT 58.407 39.130 0.00 0.00 0.00 2.90
3677 6317 4.397103 AGTTGCATTACCACATGACAGATG 59.603 41.667 0.00 0.00 0.00 2.90
3678 6318 3.954200 TGCATTACCACATGACAGATGT 58.046 40.909 0.00 0.00 0.00 3.06
3679 6319 3.690628 TGCATTACCACATGACAGATGTG 59.309 43.478 0.00 7.66 46.49 3.21
3686 6326 3.337358 CACATGACAGATGTGGTAAGCA 58.663 45.455 0.00 0.00 44.04 3.91
3687 6327 3.752747 CACATGACAGATGTGGTAAGCAA 59.247 43.478 0.00 0.00 44.04 3.91
3688 6328 4.397103 CACATGACAGATGTGGTAAGCAAT 59.603 41.667 0.00 0.00 44.04 3.56
3689 6329 4.637534 ACATGACAGATGTGGTAAGCAATC 59.362 41.667 0.00 0.00 0.00 2.67
3690 6330 3.609853 TGACAGATGTGGTAAGCAATCC 58.390 45.455 0.00 0.00 0.00 3.01
3691 6331 3.008923 TGACAGATGTGGTAAGCAATCCA 59.991 43.478 0.00 0.00 0.00 3.41
3692 6332 4.009675 GACAGATGTGGTAAGCAATCCAA 58.990 43.478 0.00 0.00 35.38 3.53
3693 6333 4.406456 ACAGATGTGGTAAGCAATCCAAA 58.594 39.130 0.00 0.00 35.38 3.28
3694 6334 4.460382 ACAGATGTGGTAAGCAATCCAAAG 59.540 41.667 0.00 0.00 35.38 2.77
3695 6335 4.460382 CAGATGTGGTAAGCAATCCAAAGT 59.540 41.667 0.00 0.00 35.38 2.66
3696 6336 5.647658 CAGATGTGGTAAGCAATCCAAAGTA 59.352 40.000 0.00 0.00 35.38 2.24
3697 6337 6.319658 CAGATGTGGTAAGCAATCCAAAGTAT 59.680 38.462 0.00 0.00 35.38 2.12
3698 6338 6.891908 AGATGTGGTAAGCAATCCAAAGTATT 59.108 34.615 0.00 0.00 35.38 1.89
3699 6339 6.509418 TGTGGTAAGCAATCCAAAGTATTC 57.491 37.500 0.00 0.00 35.38 1.75
3700 6340 6.007076 TGTGGTAAGCAATCCAAAGTATTCA 58.993 36.000 0.00 0.00 35.38 2.57
3701 6341 6.491745 TGTGGTAAGCAATCCAAAGTATTCAA 59.508 34.615 0.00 0.00 35.38 2.69
3702 6342 7.014711 TGTGGTAAGCAATCCAAAGTATTCAAA 59.985 33.333 0.00 0.00 35.38 2.69
3703 6343 7.870445 GTGGTAAGCAATCCAAAGTATTCAAAA 59.130 33.333 0.00 0.00 35.38 2.44
3704 6344 8.424918 TGGTAAGCAATCCAAAGTATTCAAAAA 58.575 29.630 0.00 0.00 0.00 1.94
3869 6513 0.326927 CTCCCGGCCAGGTTTAGAAA 59.673 55.000 4.51 0.00 38.74 2.52
3906 6550 5.236911 TGGAAAATTTTGAGCACTCATTTGC 59.763 36.000 8.47 5.30 43.34 3.68
3963 6607 0.107831 ACACTACAGCGCCAGGAAAA 59.892 50.000 2.29 0.00 0.00 2.29
4002 6650 9.694520 CATTCAGTCAGATGTAAATAAACTTCG 57.305 33.333 0.00 0.00 0.00 3.79
4020 6668 7.829378 AACTTCGTAGTGAATCAACCTATTC 57.171 36.000 0.00 0.00 35.63 1.75
4021 6669 7.171630 ACTTCGTAGTGAATCAACCTATTCT 57.828 36.000 0.00 0.00 36.90 2.40
4022 6670 7.259161 ACTTCGTAGTGAATCAACCTATTCTC 58.741 38.462 0.00 0.00 36.90 2.87
4036 6684 3.783020 TATTCTCTTGCAGGCAGGCGG 62.783 57.143 0.00 0.00 36.28 6.13
4050 6698 2.279517 GCGGCCACTGTAGGATCG 60.280 66.667 2.24 4.95 0.00 3.69
4060 6708 2.695666 ACTGTAGGATCGCTAGCACATT 59.304 45.455 16.45 1.61 0.00 2.71
4070 6718 8.478066 AGGATCGCTAGCACATTATATTATTCA 58.522 33.333 16.45 0.00 0.00 2.57
4072 6720 9.307121 GATCGCTAGCACATTATATTATTCACT 57.693 33.333 16.45 0.00 0.00 3.41
4097 6745 9.559958 CTACACTTCAGGTATTTTGCATAAAAG 57.440 33.333 0.00 0.00 39.01 2.27
4122 6770 1.075374 ACAGGGCTGCACTTTATGGAA 59.925 47.619 0.00 0.00 0.00 3.53
4128 6776 3.696051 GGCTGCACTTTATGGAAATCAGA 59.304 43.478 0.50 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
126 128 8.084073 CGAAGATTGCACCATAAATCCATAAAT 58.916 33.333 0.00 0.00 34.02 1.40
127 129 7.284261 TCGAAGATTGCACCATAAATCCATAAA 59.716 33.333 0.00 0.00 34.02 1.40
128 130 6.770303 TCGAAGATTGCACCATAAATCCATAA 59.230 34.615 0.00 0.00 34.02 1.90
129 131 6.204688 GTCGAAGATTGCACCATAAATCCATA 59.795 38.462 0.00 0.00 40.67 2.74
130 132 5.009010 GTCGAAGATTGCACCATAAATCCAT 59.991 40.000 0.00 0.00 40.67 3.41
131 133 4.335315 GTCGAAGATTGCACCATAAATCCA 59.665 41.667 0.00 0.00 40.67 3.41
132 134 4.261197 GGTCGAAGATTGCACCATAAATCC 60.261 45.833 0.00 0.00 40.67 3.01
133 135 4.552767 CGGTCGAAGATTGCACCATAAATC 60.553 45.833 0.00 0.00 40.67 2.17
134 136 3.312421 CGGTCGAAGATTGCACCATAAAT 59.688 43.478 0.00 0.00 40.67 1.40
154 156 9.781834 TGTATTAGCTCAAAATTAAATGAACGG 57.218 29.630 0.00 0.00 0.00 4.44
295 297 9.331282 GAGAGAATAAATAGCAATACCTTGTGT 57.669 33.333 0.00 0.00 34.69 3.72
325 327 8.885494 AAAAACACACGGTTACTGTATAGTTA 57.115 30.769 0.00 0.00 39.29 2.24
326 328 7.495279 TGAAAAACACACGGTTACTGTATAGTT 59.505 33.333 0.00 0.00 39.29 2.24
327 329 6.985645 TGAAAAACACACGGTTACTGTATAGT 59.014 34.615 0.00 0.00 39.29 2.12
328 330 7.410800 TGAAAAACACACGGTTACTGTATAG 57.589 36.000 0.00 0.00 39.29 1.31
358 369 5.241506 TCAGAAATCCAAGTTCCACATTCAC 59.758 40.000 0.00 0.00 0.00 3.18
371 382 6.374053 TCAGTTTATGCGATTCAGAAATCCAA 59.626 34.615 0.00 0.00 38.07 3.53
718 747 1.084289 GTACCGCATGGGAAGTTGAC 58.916 55.000 12.02 0.00 40.75 3.18
790 820 3.870419 GCAGTCAAATTTGTGGCAAAAGA 59.130 39.130 17.47 0.00 0.00 2.52
813 843 4.530161 CCTTGGGGTCAAATTGGTTATTGA 59.470 41.667 0.00 0.00 33.37 2.57
829 859 4.580580 GCTGAAAATGTATCTACCTTGGGG 59.419 45.833 0.00 0.00 38.88 4.96
1098 1138 5.356190 TCAATTGCCTGATGAAATGAGAGTC 59.644 40.000 0.00 0.00 23.63 3.36
1308 3417 4.271816 ACAGCTATCGCTCGCCCG 62.272 66.667 0.00 0.00 45.15 6.13
1335 3444 1.616159 TTACCTTGCACCCTGCTTTC 58.384 50.000 0.00 0.00 45.31 2.62
1470 3581 7.760131 AACAAACAAAAGATGATGTTCAGTG 57.240 32.000 0.00 0.00 38.75 3.66
1516 3627 1.093159 CAGCTTCCATGCCTGACTTC 58.907 55.000 0.00 0.00 0.00 3.01
1621 3737 4.439289 GCATGGCATGAAAAGAAGAGGTAC 60.439 45.833 30.69 4.01 0.00 3.34
1672 3794 4.870991 CCTCGATCTGAATGGATCATGATG 59.129 45.833 14.30 0.00 41.37 3.07
1840 3962 4.398988 TGAGCCAACATCCAAATCATGTAC 59.601 41.667 0.00 0.00 33.12 2.90
1958 4179 1.547372 CTTTTTCGGACGGAGGGAGTA 59.453 52.381 0.00 0.00 0.00 2.59
1959 4180 0.320697 CTTTTTCGGACGGAGGGAGT 59.679 55.000 0.00 0.00 0.00 3.85
1960 4181 1.019805 GCTTTTTCGGACGGAGGGAG 61.020 60.000 0.00 0.00 0.00 4.30
1961 4182 1.004200 GCTTTTTCGGACGGAGGGA 60.004 57.895 0.00 0.00 0.00 4.20
1962 4183 0.605589 AAGCTTTTTCGGACGGAGGG 60.606 55.000 0.00 0.00 0.00 4.30
1963 4184 0.517316 CAAGCTTTTTCGGACGGAGG 59.483 55.000 0.00 0.00 0.00 4.30
1964 4185 1.194772 GACAAGCTTTTTCGGACGGAG 59.805 52.381 0.00 0.00 0.00 4.63
1965 4186 1.223187 GACAAGCTTTTTCGGACGGA 58.777 50.000 0.00 0.00 0.00 4.69
1966 4187 0.237498 GGACAAGCTTTTTCGGACGG 59.763 55.000 0.00 0.00 0.00 4.79
1967 4188 0.237498 GGGACAAGCTTTTTCGGACG 59.763 55.000 0.00 0.00 0.00 4.79
1968 4189 1.314730 TGGGACAAGCTTTTTCGGAC 58.685 50.000 0.00 0.00 31.92 4.79
1969 4190 3.811031 TGGGACAAGCTTTTTCGGA 57.189 47.368 0.00 0.00 31.92 4.55
1980 4201 4.649190 TTGACGGACAAGCTTGGGACAA 62.649 50.000 29.18 23.42 37.48 3.18
1981 4202 1.070786 GACGGACAAGCTTGGGACA 59.929 57.895 29.18 0.00 0.00 4.02
1982 4203 0.534203 TTGACGGACAAGCTTGGGAC 60.534 55.000 29.18 18.90 34.20 4.46
1983 4204 0.181587 TTTGACGGACAAGCTTGGGA 59.818 50.000 29.18 4.51 39.77 4.37
1984 4205 1.068333 CATTTGACGGACAAGCTTGGG 60.068 52.381 29.18 19.55 39.77 4.12
1985 4206 1.068333 CCATTTGACGGACAAGCTTGG 60.068 52.381 29.18 14.74 39.77 3.61
1986 4207 1.879380 TCCATTTGACGGACAAGCTTG 59.121 47.619 24.84 24.84 39.77 4.01
1987 4208 2.270352 TCCATTTGACGGACAAGCTT 57.730 45.000 0.00 0.00 39.77 3.74
1988 4209 2.086869 CATCCATTTGACGGACAAGCT 58.913 47.619 0.00 0.00 39.77 3.74
1989 4210 1.812571 ACATCCATTTGACGGACAAGC 59.187 47.619 0.00 0.00 39.77 4.01
1990 4211 5.118990 AGATACATCCATTTGACGGACAAG 58.881 41.667 0.00 0.00 39.77 3.16
1991 4212 5.097742 AGATACATCCATTTGACGGACAA 57.902 39.130 0.00 0.00 34.69 3.18
1992 4213 4.753516 AGATACATCCATTTGACGGACA 57.246 40.909 0.00 0.00 34.69 4.02
1993 4214 4.686554 GCTAGATACATCCATTTGACGGAC 59.313 45.833 0.00 0.00 34.69 4.79
1994 4215 4.343814 TGCTAGATACATCCATTTGACGGA 59.656 41.667 0.00 0.00 36.84 4.69
1995 4216 4.449068 GTGCTAGATACATCCATTTGACGG 59.551 45.833 0.00 0.00 0.00 4.79
1996 4217 5.292765 AGTGCTAGATACATCCATTTGACG 58.707 41.667 0.00 0.00 0.00 4.35
1997 4218 7.928706 AGTTAGTGCTAGATACATCCATTTGAC 59.071 37.037 0.00 0.00 0.00 3.18
1998 4219 8.023021 AGTTAGTGCTAGATACATCCATTTGA 57.977 34.615 0.00 0.00 0.00 2.69
1999 4220 8.554528 CAAGTTAGTGCTAGATACATCCATTTG 58.445 37.037 0.00 0.00 0.00 2.32
2000 4221 7.716998 CCAAGTTAGTGCTAGATACATCCATTT 59.283 37.037 0.00 0.00 0.00 2.32
2001 4222 7.147479 ACCAAGTTAGTGCTAGATACATCCATT 60.147 37.037 0.00 0.00 0.00 3.16
2002 4223 6.327626 ACCAAGTTAGTGCTAGATACATCCAT 59.672 38.462 0.00 0.00 0.00 3.41
2003 4224 5.661312 ACCAAGTTAGTGCTAGATACATCCA 59.339 40.000 0.00 0.00 0.00 3.41
2004 4225 5.986135 CACCAAGTTAGTGCTAGATACATCC 59.014 44.000 0.00 0.00 0.00 3.51
2016 4237 5.986135 GGATGTATCTAGCACCAAGTTAGTG 59.014 44.000 0.00 0.00 38.30 2.74
2017 4238 5.661312 TGGATGTATCTAGCACCAAGTTAGT 59.339 40.000 0.00 0.00 33.25 2.24
2018 4239 6.161855 TGGATGTATCTAGCACCAAGTTAG 57.838 41.667 0.00 0.00 32.79 2.34
2019 4240 6.747414 ATGGATGTATCTAGCACCAAGTTA 57.253 37.500 0.00 0.00 0.00 2.24
2020 4241 5.636903 ATGGATGTATCTAGCACCAAGTT 57.363 39.130 0.00 0.00 0.00 2.66
2021 4242 5.636903 AATGGATGTATCTAGCACCAAGT 57.363 39.130 0.00 0.00 0.00 3.16
2022 4243 6.057533 TCAAATGGATGTATCTAGCACCAAG 58.942 40.000 0.00 0.00 0.00 3.61
2023 4244 6.000246 TCAAATGGATGTATCTAGCACCAA 58.000 37.500 0.00 0.00 0.00 3.67
2024 4245 5.455183 CCTCAAATGGATGTATCTAGCACCA 60.455 44.000 0.00 0.00 0.00 4.17
2025 4246 4.999950 CCTCAAATGGATGTATCTAGCACC 59.000 45.833 0.00 0.00 0.00 5.01
2026 4247 4.999950 CCCTCAAATGGATGTATCTAGCAC 59.000 45.833 0.00 0.00 0.00 4.40
2027 4248 4.907269 TCCCTCAAATGGATGTATCTAGCA 59.093 41.667 0.00 0.00 0.00 3.49
2028 4249 5.221722 TGTCCCTCAAATGGATGTATCTAGC 60.222 44.000 0.00 0.00 33.65 3.42
2029 4250 6.425210 TGTCCCTCAAATGGATGTATCTAG 57.575 41.667 0.00 0.00 33.65 2.43
2030 4251 6.688922 GCTTGTCCCTCAAATGGATGTATCTA 60.689 42.308 0.00 0.00 35.48 1.98
2031 4252 5.688807 CTTGTCCCTCAAATGGATGTATCT 58.311 41.667 0.00 0.00 35.48 1.98
2032 4253 4.276926 GCTTGTCCCTCAAATGGATGTATC 59.723 45.833 0.00 0.00 35.48 2.24
2033 4254 4.079558 AGCTTGTCCCTCAAATGGATGTAT 60.080 41.667 0.00 0.00 35.48 2.29
2034 4255 3.266772 AGCTTGTCCCTCAAATGGATGTA 59.733 43.478 0.00 0.00 35.48 2.29
2035 4256 2.042162 AGCTTGTCCCTCAAATGGATGT 59.958 45.455 0.00 0.00 35.48 3.06
2036 4257 2.731572 AGCTTGTCCCTCAAATGGATG 58.268 47.619 0.00 0.00 35.48 3.51
2037 4258 3.463048 AAGCTTGTCCCTCAAATGGAT 57.537 42.857 0.00 0.00 35.48 3.41
2038 4259 2.978156 AAGCTTGTCCCTCAAATGGA 57.022 45.000 0.00 0.00 35.48 3.41
2039 4260 3.306294 GGAAAAGCTTGTCCCTCAAATGG 60.306 47.826 23.49 0.00 35.48 3.16
2040 4261 3.612479 CGGAAAAGCTTGTCCCTCAAATG 60.612 47.826 26.94 9.69 35.48 2.32
2041 4262 2.558359 CGGAAAAGCTTGTCCCTCAAAT 59.442 45.455 26.94 0.00 35.48 2.32
2042 4263 1.953686 CGGAAAAGCTTGTCCCTCAAA 59.046 47.619 26.94 0.00 35.48 2.69
2043 4264 1.604604 CGGAAAAGCTTGTCCCTCAA 58.395 50.000 26.94 0.00 34.61 3.02
2044 4265 0.250727 CCGGAAAAGCTTGTCCCTCA 60.251 55.000 26.94 0.00 0.00 3.86
2045 4266 0.036306 TCCGGAAAAGCTTGTCCCTC 59.964 55.000 26.94 5.77 0.00 4.30
2046 4267 0.250770 GTCCGGAAAAGCTTGTCCCT 60.251 55.000 26.94 0.00 0.00 4.20
2047 4268 1.574702 CGTCCGGAAAAGCTTGTCCC 61.575 60.000 26.94 13.97 0.00 4.46
2048 4269 1.574702 CCGTCCGGAAAAGCTTGTCC 61.575 60.000 24.00 24.00 37.50 4.02
2049 4270 0.601841 TCCGTCCGGAAAAGCTTGTC 60.602 55.000 5.23 8.23 42.05 3.18
2050 4271 0.602905 CTCCGTCCGGAAAAGCTTGT 60.603 55.000 5.23 0.00 44.66 3.16
2051 4272 1.912371 GCTCCGTCCGGAAAAGCTTG 61.912 60.000 20.92 5.10 44.66 4.01
2052 4273 1.671379 GCTCCGTCCGGAAAAGCTT 60.671 57.895 20.92 0.00 44.66 3.74
2053 4274 2.047179 GCTCCGTCCGGAAAAGCT 60.047 61.111 20.92 0.00 44.66 3.74
2054 4275 3.488090 CGCTCCGTCCGGAAAAGC 61.488 66.667 19.14 19.14 44.66 3.51
2055 4276 1.805945 CTCGCTCCGTCCGGAAAAG 60.806 63.158 5.23 5.04 44.66 2.27
2056 4277 1.243342 TACTCGCTCCGTCCGGAAAA 61.243 55.000 5.23 0.00 44.66 2.29
2057 4278 1.033746 ATACTCGCTCCGTCCGGAAA 61.034 55.000 5.23 0.00 44.66 3.13
2058 4279 1.452651 ATACTCGCTCCGTCCGGAA 60.453 57.895 5.23 0.00 44.66 4.30
2059 4280 2.184830 CATACTCGCTCCGTCCGGA 61.185 63.158 0.00 0.00 42.90 5.14
2060 4281 1.162181 TACATACTCGCTCCGTCCGG 61.162 60.000 0.00 0.00 0.00 5.14
2061 4282 0.659427 TTACATACTCGCTCCGTCCG 59.341 55.000 0.00 0.00 0.00 4.79
2062 4283 1.674962 ACTTACATACTCGCTCCGTCC 59.325 52.381 0.00 0.00 0.00 4.79
2063 4284 3.106672 CAACTTACATACTCGCTCCGTC 58.893 50.000 0.00 0.00 0.00 4.79
2064 4285 2.159282 CCAACTTACATACTCGCTCCGT 60.159 50.000 0.00 0.00 0.00 4.69
2065 4286 2.460918 CCAACTTACATACTCGCTCCG 58.539 52.381 0.00 0.00 0.00 4.63
2066 4287 2.202566 GCCAACTTACATACTCGCTCC 58.797 52.381 0.00 0.00 0.00 4.70
2067 4288 2.888594 TGCCAACTTACATACTCGCTC 58.111 47.619 0.00 0.00 0.00 5.03
2068 4289 3.543680 ATGCCAACTTACATACTCGCT 57.456 42.857 0.00 0.00 0.00 4.93
2069 4290 4.142687 ACAAATGCCAACTTACATACTCGC 60.143 41.667 0.00 0.00 0.00 5.03
2070 4291 5.545658 ACAAATGCCAACTTACATACTCG 57.454 39.130 0.00 0.00 0.00 4.18
2071 4292 7.345192 CGATACAAATGCCAACTTACATACTC 58.655 38.462 0.00 0.00 0.00 2.59
2072 4293 6.238374 GCGATACAAATGCCAACTTACATACT 60.238 38.462 0.00 0.00 0.00 2.12
2073 4294 5.907391 GCGATACAAATGCCAACTTACATAC 59.093 40.000 0.00 0.00 0.00 2.39
2130 4351 0.039618 GATCCCTGCCCACCAAGAAA 59.960 55.000 0.00 0.00 0.00 2.52
2180 4402 2.676121 TTCCTGCCATTGTGCCCG 60.676 61.111 0.00 0.00 0.00 6.13
2181 4403 0.323360 TACTTCCTGCCATTGTGCCC 60.323 55.000 0.00 0.00 0.00 5.36
2185 4407 1.985159 TCCACTACTTCCTGCCATTGT 59.015 47.619 0.00 0.00 0.00 2.71
2188 4410 0.537188 CGTCCACTACTTCCTGCCAT 59.463 55.000 0.00 0.00 0.00 4.40
2278 4500 6.653526 ATAGGCAAGCACAATGCATATTTA 57.346 33.333 0.00 0.00 45.40 1.40
2287 4509 9.971922 GATCTTTAAATAATAGGCAAGCACAAT 57.028 29.630 0.00 0.00 0.00 2.71
2310 4532 1.565305 CGCAGCCTGTAACAGAGATC 58.435 55.000 0.00 0.00 32.44 2.75
2315 4537 3.490759 CGCCGCAGCCTGTAACAG 61.491 66.667 0.00 0.00 34.57 3.16
2463 4686 3.354948 TGTTGATGATCCTTCCCTGTG 57.645 47.619 0.00 0.00 0.00 3.66
2464 4687 3.432749 CGATGTTGATGATCCTTCCCTGT 60.433 47.826 0.00 0.00 0.00 4.00
2473 4698 2.831333 ACTGAGGCGATGTTGATGATC 58.169 47.619 0.00 0.00 0.00 2.92
2581 4806 4.658071 CATTTATGTTTCTGCCACCGTAC 58.342 43.478 0.00 0.00 0.00 3.67
2639 4864 4.592942 TGAGGAGCAGCACTTTAATCAAT 58.407 39.130 0.00 0.00 0.00 2.57
2660 5172 7.140705 TGTCAGACAAGCTTAATGTTCAAATG 58.859 34.615 0.00 0.00 0.00 2.32
2764 5276 1.805539 CGCCTTTCGCTCGATGTCA 60.806 57.895 0.00 0.00 34.21 3.58
2822 5335 5.840243 TGGAATTTAGTCAATGCAGATGG 57.160 39.130 0.00 0.00 0.00 3.51
2834 5347 8.210946 TCTGTTCCGATTCATATGGAATTTAGT 58.789 33.333 2.13 0.00 46.17 2.24
2853 5366 3.006247 GCAAGAGTCCATCTTCTGTTCC 58.994 50.000 0.00 0.00 45.50 3.62
2927 5536 3.057946 GTCCTGAAGTTTCCATCAGCAAC 60.058 47.826 0.00 0.00 41.36 4.17
3070 5679 3.356290 ACAGATAACACTCAAATGGGCC 58.644 45.455 0.00 0.00 0.00 5.80
3071 5680 5.648092 ACTAACAGATAACACTCAAATGGGC 59.352 40.000 0.00 0.00 0.00 5.36
3072 5681 7.687941 AACTAACAGATAACACTCAAATGGG 57.312 36.000 0.00 0.00 0.00 4.00
3099 5708 7.203910 AGTCAAGTCTTCAAGTACACTAACAG 58.796 38.462 0.00 0.00 0.00 3.16
3216 5825 7.563906 ACCTTGTTTCTCATTGGAAAATTGAA 58.436 30.769 3.01 0.00 37.02 2.69
3218 5827 7.280652 ACAACCTTGTTTCTCATTGGAAAATTG 59.719 33.333 3.01 0.00 38.47 2.32
3282 5891 3.932580 TAGCCACAAGCCTGACGCG 62.933 63.158 3.53 3.53 45.47 6.01
3308 5929 3.583086 TCTCCAACCTCCCTGTAAAGAAG 59.417 47.826 0.00 0.00 0.00 2.85
3373 5994 4.546829 TCTGGTACTTTCGGTTATGCTT 57.453 40.909 0.00 0.00 0.00 3.91
3468 6108 0.590481 AAAAACGTCGACGGCAAAGC 60.590 50.000 37.89 0.00 44.95 3.51
3474 6114 3.289911 TGCAAAATAAAAACGTCGACGG 58.710 40.909 37.89 21.83 44.95 4.79
3476 6116 4.841841 TCGATGCAAAATAAAAACGTCGAC 59.158 37.500 5.18 5.18 42.10 4.20
3581 6221 4.261572 GCTAATCTGGCACAAGTTTTGACA 60.262 41.667 0.00 0.00 38.70 3.58
3593 6233 3.900971 TGAAATGGATGCTAATCTGGCA 58.099 40.909 0.00 0.00 44.05 4.92
3620 6260 6.479972 AGTATGATCTGTTCCCGTAATGAA 57.520 37.500 0.00 0.00 0.00 2.57
3622 6262 6.982852 ACTAGTATGATCTGTTCCCGTAATG 58.017 40.000 0.00 0.00 0.00 1.90
3643 6283 8.397575 TGTGGTAATGCAACTTTGAATTACTA 57.602 30.769 23.39 18.34 37.58 1.82
3647 6287 6.646240 GTCATGTGGTAATGCAACTTTGAATT 59.354 34.615 0.00 0.82 39.68 2.17
3648 6288 6.158598 GTCATGTGGTAATGCAACTTTGAAT 58.841 36.000 0.00 0.00 0.00 2.57
3649 6289 5.068329 TGTCATGTGGTAATGCAACTTTGAA 59.932 36.000 0.00 0.00 0.00 2.69
3650 6290 4.582240 TGTCATGTGGTAATGCAACTTTGA 59.418 37.500 0.00 0.00 0.00 2.69
3651 6291 4.869215 TGTCATGTGGTAATGCAACTTTG 58.131 39.130 0.00 0.00 0.00 2.77
3652 6292 4.826733 TCTGTCATGTGGTAATGCAACTTT 59.173 37.500 0.00 0.00 0.00 2.66
3653 6293 4.397420 TCTGTCATGTGGTAATGCAACTT 58.603 39.130 0.00 0.00 0.00 2.66
3654 6294 4.019792 TCTGTCATGTGGTAATGCAACT 57.980 40.909 0.00 0.00 0.00 3.16
3655 6295 4.156556 ACATCTGTCATGTGGTAATGCAAC 59.843 41.667 0.00 0.00 0.00 4.17
3656 6296 4.156373 CACATCTGTCATGTGGTAATGCAA 59.844 41.667 6.80 0.00 44.04 4.08
3657 6297 3.690628 CACATCTGTCATGTGGTAATGCA 59.309 43.478 6.80 0.00 44.04 3.96
3658 6298 4.282950 CACATCTGTCATGTGGTAATGC 57.717 45.455 6.80 0.00 44.04 3.56
3665 6305 3.337358 TGCTTACCACATCTGTCATGTG 58.663 45.455 7.61 7.61 46.49 3.21
3666 6306 3.701205 TGCTTACCACATCTGTCATGT 57.299 42.857 0.00 0.00 0.00 3.21
3667 6307 4.036027 GGATTGCTTACCACATCTGTCATG 59.964 45.833 0.00 0.00 0.00 3.07
3668 6308 4.202441 GGATTGCTTACCACATCTGTCAT 58.798 43.478 0.00 0.00 0.00 3.06
3669 6309 3.008923 TGGATTGCTTACCACATCTGTCA 59.991 43.478 0.00 0.00 0.00 3.58
3670 6310 3.609853 TGGATTGCTTACCACATCTGTC 58.390 45.455 0.00 0.00 0.00 3.51
3671 6311 3.719268 TGGATTGCTTACCACATCTGT 57.281 42.857 0.00 0.00 0.00 3.41
3672 6312 4.460382 ACTTTGGATTGCTTACCACATCTG 59.540 41.667 0.00 0.00 35.81 2.90
3673 6313 4.666512 ACTTTGGATTGCTTACCACATCT 58.333 39.130 0.00 0.00 35.81 2.90
3674 6314 6.699575 ATACTTTGGATTGCTTACCACATC 57.300 37.500 0.00 0.00 35.81 3.06
3675 6315 6.663093 TGAATACTTTGGATTGCTTACCACAT 59.337 34.615 0.00 0.00 35.81 3.21
3676 6316 6.007076 TGAATACTTTGGATTGCTTACCACA 58.993 36.000 0.00 0.00 35.81 4.17
3677 6317 6.509418 TGAATACTTTGGATTGCTTACCAC 57.491 37.500 0.00 0.00 35.81 4.16
3678 6318 7.531857 TTTGAATACTTTGGATTGCTTACCA 57.468 32.000 0.00 0.00 0.00 3.25
3679 6319 8.825667 TTTTTGAATACTTTGGATTGCTTACC 57.174 30.769 0.00 0.00 0.00 2.85
3711 6351 9.254133 TGAATTTCGAATGCAACTTTGAATTTA 57.746 25.926 0.00 0.00 36.56 1.40
3712 6352 8.140677 TGAATTTCGAATGCAACTTTGAATTT 57.859 26.923 0.00 6.68 36.56 1.82
3713 6353 7.652909 TCTGAATTTCGAATGCAACTTTGAATT 59.347 29.630 0.00 0.00 39.13 2.17
3721 6361 3.174375 GGCTCTGAATTTCGAATGCAAC 58.826 45.455 0.00 0.00 0.00 4.17
3730 6370 3.237628 GCAGTTTTCGGCTCTGAATTTC 58.762 45.455 0.00 0.00 37.97 2.17
3869 6513 9.415544 CTCAAAATTTTCCAAAATCTTCTCGAT 57.584 29.630 0.00 0.00 37.62 3.59
3935 6579 2.864343 GGCGCTGTAGTGTTACCTTATG 59.136 50.000 7.64 0.00 0.00 1.90
3938 6582 0.682852 TGGCGCTGTAGTGTTACCTT 59.317 50.000 7.64 0.00 0.00 3.50
3983 6627 9.917129 TTCACTACGAAGTTTATTTACATCTGA 57.083 29.630 0.00 0.00 37.78 3.27
4001 6649 6.019479 GCAAGAGAATAGGTTGATTCACTACG 60.019 42.308 0.00 0.00 36.22 3.51
4002 6650 6.818644 TGCAAGAGAATAGGTTGATTCACTAC 59.181 38.462 0.00 0.00 36.22 2.73
4013 6661 1.211457 CCTGCCTGCAAGAGAATAGGT 59.789 52.381 0.00 0.00 34.07 3.08
4036 6684 0.319125 GCTAGCGATCCTACAGTGGC 60.319 60.000 0.00 0.00 0.00 5.01
4070 6718 8.630054 TTTATGCAAAATACCTGAAGTGTAGT 57.370 30.769 0.00 0.00 0.00 2.73
4072 6720 9.073475 ACTTTTATGCAAAATACCTGAAGTGTA 57.927 29.630 0.00 0.00 33.27 2.90
4087 6735 5.163561 GCAGCCCTGTTATACTTTTATGCAA 60.164 40.000 0.00 0.00 0.00 4.08
4097 6745 4.275936 CCATAAAGTGCAGCCCTGTTATAC 59.724 45.833 0.00 0.00 0.00 1.47
4128 6776 8.183104 TCTCGAGTTTGGAGATATAACATCAT 57.817 34.615 13.13 0.00 35.70 2.45


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

AutoCloner maintained by Alex Coulton.