Multiple sequence alignment - TraesCS4A01G430200

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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 TraesCS4A01G430200 chr4A 100.000 4375 0 0 1 4375 701565359 701560985 0.000000e+00 8080.0
1 TraesCS4A01G430200 chr4A 90.751 3049 207 27 775 3759 701479768 701482805 0.000000e+00 3999.0
2 TraesCS4A01G430200 chr4A 90.623 3050 210 31 775 3759 701411922 701408884 0.000000e+00 3978.0
3 TraesCS4A01G430200 chr4A 89.514 1564 121 16 775 2307 701526534 701524983 0.000000e+00 1940.0
4 TraesCS4A01G430200 chr4A 88.338 746 62 10 3036 3759 701424680 701425422 0.000000e+00 872.0
5 TraesCS4A01G430200 chr4A 93.382 544 26 4 3832 4372 701482801 701483337 0.000000e+00 797.0
6 TraesCS4A01G430200 chr4A 92.139 547 29 4 3832 4375 701408888 701408353 0.000000e+00 760.0
7 TraesCS4A01G430200 chr4A 92.279 544 28 4 3832 4372 701425418 701425950 0.000000e+00 760.0
8 TraesCS4A01G430200 chr4A 80.779 770 113 22 1127 1892 702070366 702071104 1.770000e-158 569.0
9 TraesCS4A01G430200 chr4A 79.302 831 99 37 2853 3641 702072395 702073194 8.390000e-142 514.0
10 TraesCS4A01G430200 chr4A 89.453 256 19 3 279 526 701574987 701574732 2.540000e-82 316.0
11 TraesCS4A01G430200 chr7D 94.004 3252 124 21 872 4084 27974991 27971772 0.000000e+00 4859.0
12 TraesCS4A01G430200 chr7D 79.143 1611 197 79 2256 3809 28401462 28402990 0.000000e+00 985.0
13 TraesCS4A01G430200 chr7D 79.848 1052 123 54 868 1886 28400085 28401080 0.000000e+00 686.0
14 TraesCS4A01G430200 chr7D 91.373 255 13 3 279 526 27981970 27981718 1.510000e-89 340.0
15 TraesCS4A01G430200 chr7D 86.397 272 8 7 472 733 27975358 27975106 2.010000e-68 270.0
16 TraesCS4A01G430200 chr7D 89.952 209 20 1 1 209 511939756 511939963 7.210000e-68 268.0
17 TraesCS4A01G430200 chr7D 94.074 135 7 1 278 412 27975496 27975363 2.060000e-48 204.0
18 TraesCS4A01G430200 chr7D 92.754 69 4 1 665 733 27980918 27980851 1.000000e-16 99.0
19 TraesCS4A01G430200 chr7A 93.459 3088 105 26 775 3825 28350410 28347383 0.000000e+00 4494.0
20 TraesCS4A01G430200 chr7A 90.275 1820 124 17 775 2545 28274300 28272485 0.000000e+00 2331.0
21 TraesCS4A01G430200 chr7A 91.975 785 39 9 3078 3842 28271835 28271055 0.000000e+00 1079.0
22 TraesCS4A01G430200 chr7A 93.648 488 23 3 3890 4375 28271040 28270559 0.000000e+00 723.0
23 TraesCS4A01G430200 chr7A 90.650 492 40 5 2586 3075 28272484 28271997 0.000000e+00 649.0
24 TraesCS4A01G430200 chr7A 95.113 266 10 2 3872 4134 28347198 28346933 2.430000e-112 416.0
25 TraesCS4A01G430200 chr7A 95.669 254 11 0 4122 4375 28346878 28346625 4.070000e-110 409.0
26 TraesCS4A01G430200 chr7A 92.395 263 17 2 4116 4375 28310743 28310481 5.340000e-99 372.0
27 TraesCS4A01G430200 chr7A 91.566 249 12 3 279 520 28409896 28409650 7.010000e-88 335.0
28 TraesCS4A01G430200 chr7A 91.818 220 8 4 390 599 28350949 28350730 9.200000e-77 298.0
29 TraesCS4A01G430200 chr7A 92.754 69 5 0 665 733 28350644 28350576 2.780000e-17 100.0
30 TraesCS4A01G430200 chr7A 97.826 46 1 0 730 775 28350562 28350517 3.630000e-11 80.5
31 TraesCS4A01G430200 chrUn 90.247 1743 124 24 838 2545 50266278 50264547 0.000000e+00 2235.0
32 TraesCS4A01G430200 chrUn 90.338 1035 77 9 2586 3600 50264546 50263515 0.000000e+00 1336.0
33 TraesCS4A01G430200 chrUn 92.663 368 23 2 3765 4128 50263476 50263109 1.080000e-145 527.0
34 TraesCS4A01G430200 chrUn 92.308 286 16 2 3832 4115 479267830 479267549 6.820000e-108 401.0
35 TraesCS4A01G430200 chrUn 90.756 119 8 2 3644 3759 479267944 479267826 5.860000e-34 156.0
36 TraesCS4A01G430200 chr2D 89.202 213 17 3 1 209 143495643 143495853 1.210000e-65 261.0
37 TraesCS4A01G430200 chr3B 88.995 209 22 1 1 209 120407384 120407177 1.560000e-64 257.0
38 TraesCS4A01G430200 chr1D 88.571 210 22 2 1 209 236080117 236080325 2.020000e-63 254.0
39 TraesCS4A01G430200 chr1D 83.094 278 35 9 1 275 253350084 253349816 4.370000e-60 243.0
40 TraesCS4A01G430200 chr2B 83.032 277 40 5 1 276 690225511 690225241 1.220000e-60 244.0
41 TraesCS4A01G430200 chr2B 82.374 278 37 10 1 275 619938871 619938603 9.460000e-57 231.0
42 TraesCS4A01G430200 chr5A 84.711 242 31 5 1 240 645417577 645417814 2.030000e-58 237.0
43 TraesCS4A01G430200 chr4B 81.949 277 42 6 1 275 172325350 172325080 1.220000e-55 228.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G430200 chr4A 701560985 701565359 4374 True 8080.000000 8080 100.000000 1 4375 1 chr4A.!!$R2 4374
1 TraesCS4A01G430200 chr4A 701479768 701483337 3569 False 2398.000000 3999 92.066500 775 4372 2 chr4A.!!$F2 3597
2 TraesCS4A01G430200 chr4A 701408353 701411922 3569 True 2369.000000 3978 91.381000 775 4375 2 chr4A.!!$R4 3600
3 TraesCS4A01G430200 chr4A 701524983 701526534 1551 True 1940.000000 1940 89.514000 775 2307 1 chr4A.!!$R1 1532
4 TraesCS4A01G430200 chr4A 701424680 701425950 1270 False 816.000000 872 90.308500 3036 4372 2 chr4A.!!$F1 1336
5 TraesCS4A01G430200 chr4A 702070366 702073194 2828 False 541.500000 569 80.040500 1127 3641 2 chr4A.!!$F3 2514
6 TraesCS4A01G430200 chr7D 27971772 27975496 3724 True 1777.666667 4859 91.491667 278 4084 3 chr7D.!!$R1 3806
7 TraesCS4A01G430200 chr7D 28400085 28402990 2905 False 835.500000 985 79.495500 868 3809 2 chr7D.!!$F2 2941
8 TraesCS4A01G430200 chr7D 27980851 27981970 1119 True 219.500000 340 92.063500 279 733 2 chr7D.!!$R2 454
9 TraesCS4A01G430200 chr7A 28270559 28274300 3741 True 1195.500000 2331 91.637000 775 4375 4 chr7A.!!$R3 3600
10 TraesCS4A01G430200 chr7A 28346625 28350949 4324 True 966.250000 4494 94.439833 390 4375 6 chr7A.!!$R4 3985
11 TraesCS4A01G430200 chrUn 50263109 50266278 3169 True 1366.000000 2235 91.082667 838 4128 3 chrUn.!!$R1 3290

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
274 275 0.106708 TTGCTCGTTGGAGTTGCTCT 59.893 50.0 0.00 0.00 42.53 4.09 F
581 1328 0.194587 AGGCTGCCTATATGGGGTCT 59.805 55.0 21.98 0.00 36.00 3.85 F
1219 2150 0.032678 CAGGCTGTATCTACGCCAGG 59.967 60.0 18.57 10.65 43.40 4.45 F
1504 2444 0.181114 TGACAGTCTATGGGGCATGC 59.819 55.0 9.90 9.90 0.00 4.06 F
2099 3129 0.991920 GGACCTGGTCTCCCAAATCA 59.008 55.0 25.01 0.00 41.27 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1184 2115 0.031585 CCTGTCGACGTTCACCTTGA 59.968 55.000 11.62 0.0 0.00 3.02 R
1504 2444 0.524862 GCCATTCTCAGCAGTGGTTG 59.475 55.000 0.00 0.0 34.23 3.77 R
3174 4845 0.179936 CCTCTCTGAGCCCCATTGAC 59.820 60.000 0.00 0.0 0.00 3.18 R
3214 4885 2.280628 GGGTGGTGACGATCTCAAATC 58.719 52.381 0.00 0.0 0.00 2.17 R
3437 5110 3.561503 GGAAACGGGAAGAAATCAAACG 58.438 45.455 0.00 0.0 0.00 3.60 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
31 32 2.177531 GCGCCAGCATGAACTGTG 59.822 61.111 0.00 0.00 44.35 3.66
32 33 2.872557 CGCCAGCATGAACTGTGG 59.127 61.111 0.00 0.00 39.69 4.17
33 34 1.968017 CGCCAGCATGAACTGTGGT 60.968 57.895 0.00 0.00 39.69 4.16
34 35 1.582968 GCCAGCATGAACTGTGGTG 59.417 57.895 0.00 0.00 42.92 4.17
35 36 0.890542 GCCAGCATGAACTGTGGTGA 60.891 55.000 0.00 0.00 45.32 4.02
36 37 1.830279 CCAGCATGAACTGTGGTGAT 58.170 50.000 0.00 0.00 45.32 3.06
37 38 2.940971 GCCAGCATGAACTGTGGTGATA 60.941 50.000 0.00 0.00 45.32 2.15
38 39 3.548770 CCAGCATGAACTGTGGTGATAT 58.451 45.455 0.00 0.00 45.32 1.63
39 40 3.949754 CCAGCATGAACTGTGGTGATATT 59.050 43.478 0.00 0.00 45.32 1.28
40 41 4.400251 CCAGCATGAACTGTGGTGATATTT 59.600 41.667 0.00 0.00 45.32 1.40
41 42 5.105635 CCAGCATGAACTGTGGTGATATTTT 60.106 40.000 0.00 0.00 45.32 1.82
42 43 6.392354 CAGCATGAACTGTGGTGATATTTTT 58.608 36.000 0.00 0.00 45.32 1.94
59 60 3.951775 TTTTTGAAGCCGGCATTGTAT 57.048 38.095 31.54 2.66 0.00 2.29
61 62 4.364415 TTTTGAAGCCGGCATTGTATAC 57.636 40.909 31.54 3.70 0.00 1.47
62 63 1.961793 TGAAGCCGGCATTGTATACC 58.038 50.000 31.54 2.85 0.00 2.73
63 64 0.865769 GAAGCCGGCATTGTATACCG 59.134 55.000 31.54 0.00 46.50 4.02
66 67 3.240203 CGGCATTGTATACCGGCG 58.760 61.111 15.21 15.21 43.23 6.46
67 68 2.943653 GGCATTGTATACCGGCGC 59.056 61.111 0.00 0.00 0.00 6.53
68 69 1.597027 GGCATTGTATACCGGCGCT 60.597 57.895 7.64 0.00 0.00 5.92
69 70 1.569493 GCATTGTATACCGGCGCTG 59.431 57.895 9.96 9.96 0.00 5.18
70 71 1.841663 GCATTGTATACCGGCGCTGG 61.842 60.000 33.73 33.73 0.00 4.85
71 72 1.597027 ATTGTATACCGGCGCTGGC 60.597 57.895 35.17 19.02 38.90 4.85
72 73 2.318519 ATTGTATACCGGCGCTGGCA 62.319 55.000 35.17 24.41 42.47 4.92
73 74 2.030562 GTATACCGGCGCTGGCAT 59.969 61.111 35.17 29.39 42.47 4.40
74 75 2.030412 TATACCGGCGCTGGCATG 59.970 61.111 35.17 12.15 42.47 4.06
75 76 3.529341 TATACCGGCGCTGGCATGG 62.529 63.158 35.17 15.45 42.47 3.66
87 88 3.896133 GCATGGTGCCGGCATGAG 61.896 66.667 35.23 22.88 37.42 2.90
88 89 2.124612 CATGGTGCCGGCATGAGA 60.125 61.111 35.23 17.09 0.00 3.27
89 90 2.124570 ATGGTGCCGGCATGAGAC 60.125 61.111 35.23 19.50 0.00 3.36
90 91 2.970379 ATGGTGCCGGCATGAGACA 61.970 57.895 35.23 24.88 0.00 3.41
91 92 2.124570 GGTGCCGGCATGAGACAT 60.125 61.111 35.23 0.00 0.00 3.06
92 93 2.182842 GGTGCCGGCATGAGACATC 61.183 63.158 35.23 17.01 0.00 3.06
93 94 2.202919 TGCCGGCATGAGACATCG 60.203 61.111 29.03 0.00 0.00 3.84
94 95 3.643978 GCCGGCATGAGACATCGC 61.644 66.667 24.80 0.00 0.00 4.58
95 96 2.969238 CCGGCATGAGACATCGCC 60.969 66.667 0.00 0.00 41.30 5.54
97 98 3.643978 GGCATGAGACATCGCCGC 61.644 66.667 0.00 0.00 34.26 6.53
98 99 2.587194 GCATGAGACATCGCCGCT 60.587 61.111 0.00 0.00 0.00 5.52
99 100 2.879070 GCATGAGACATCGCCGCTG 61.879 63.158 0.00 0.00 0.00 5.18
100 101 2.107750 ATGAGACATCGCCGCTGG 59.892 61.111 0.00 0.00 0.00 4.85
101 102 4.819761 TGAGACATCGCCGCTGGC 62.820 66.667 9.20 9.20 46.75 4.85
111 112 3.017323 CCGCTGGCAATGATCGTC 58.983 61.111 0.00 0.00 0.00 4.20
112 113 2.537560 CCGCTGGCAATGATCGTCC 61.538 63.158 0.00 0.00 0.00 4.79
113 114 2.874694 CGCTGGCAATGATCGTCCG 61.875 63.158 0.00 0.00 0.00 4.79
114 115 3.017323 CTGGCAATGATCGTCCGC 58.983 61.111 0.00 1.51 0.00 5.54
115 116 2.874694 CTGGCAATGATCGTCCGCG 61.875 63.158 0.00 0.00 39.92 6.46
116 117 3.640000 GGCAATGATCGTCCGCGG 61.640 66.667 22.12 22.12 38.89 6.46
117 118 3.640000 GCAATGATCGTCCGCGGG 61.640 66.667 27.83 10.69 38.89 6.13
118 119 3.640000 CAATGATCGTCCGCGGGC 61.640 66.667 27.83 25.32 38.89 6.13
119 120 4.910585 AATGATCGTCCGCGGGCC 62.911 66.667 26.58 15.02 38.89 5.80
122 123 4.832608 GATCGTCCGCGGGCCTTT 62.833 66.667 26.58 9.09 38.89 3.11
123 124 4.404098 ATCGTCCGCGGGCCTTTT 62.404 61.111 26.58 2.96 38.89 2.27
124 125 2.911332 GATCGTCCGCGGGCCTTTTA 62.911 60.000 26.58 4.89 38.89 1.52
125 126 2.524951 ATCGTCCGCGGGCCTTTTAA 62.525 55.000 26.58 0.00 38.89 1.52
126 127 2.326589 CGTCCGCGGGCCTTTTAAA 61.327 57.895 26.58 0.00 0.00 1.52
127 128 1.854163 CGTCCGCGGGCCTTTTAAAA 61.854 55.000 26.58 0.00 0.00 1.52
128 129 0.314618 GTCCGCGGGCCTTTTAAAAA 59.685 50.000 27.83 0.00 0.00 1.94
152 153 7.935338 AAAAGTTGAGTGCAGACATAAAATG 57.065 32.000 0.00 0.00 0.00 2.32
153 154 6.882610 AAGTTGAGTGCAGACATAAAATGA 57.117 33.333 0.00 0.00 0.00 2.57
154 155 6.492007 AGTTGAGTGCAGACATAAAATGAG 57.508 37.500 0.00 0.00 0.00 2.90
155 156 6.000219 AGTTGAGTGCAGACATAAAATGAGT 59.000 36.000 0.00 0.00 0.00 3.41
156 157 6.148480 AGTTGAGTGCAGACATAAAATGAGTC 59.852 38.462 0.00 0.00 0.00 3.36
157 158 4.627035 TGAGTGCAGACATAAAATGAGTCG 59.373 41.667 0.00 0.00 37.36 4.18
158 159 4.820897 AGTGCAGACATAAAATGAGTCGA 58.179 39.130 0.00 0.00 37.36 4.20
159 160 4.627467 AGTGCAGACATAAAATGAGTCGAC 59.373 41.667 7.70 7.70 37.36 4.20
160 161 3.612423 TGCAGACATAAAATGAGTCGACG 59.388 43.478 10.46 0.00 37.36 5.12
161 162 3.542291 GCAGACATAAAATGAGTCGACGC 60.542 47.826 12.80 12.80 37.36 5.19
162 163 3.612423 CAGACATAAAATGAGTCGACGCA 59.388 43.478 24.19 24.19 37.36 5.24
163 164 4.268644 CAGACATAAAATGAGTCGACGCAT 59.731 41.667 26.42 26.42 38.00 4.73
164 165 4.870426 AGACATAAAATGAGTCGACGCATT 59.130 37.500 33.15 33.15 45.88 3.56
165 166 4.897224 ACATAAAATGAGTCGACGCATTG 58.103 39.130 37.00 29.27 43.76 2.82
166 167 4.629634 ACATAAAATGAGTCGACGCATTGA 59.370 37.500 37.00 29.47 43.76 2.57
167 168 3.729526 AAAATGAGTCGACGCATTGAG 57.270 42.857 37.00 0.00 43.76 3.02
168 169 1.002366 AATGAGTCGACGCATTGAGC 58.998 50.000 36.26 10.99 43.11 4.26
184 185 3.430862 GCGCACTGCCGATCCAAA 61.431 61.111 0.30 0.00 37.76 3.28
185 186 2.764314 GCGCACTGCCGATCCAAAT 61.764 57.895 0.30 0.00 37.76 2.32
186 187 1.353103 CGCACTGCCGATCCAAATC 59.647 57.895 0.00 0.00 0.00 2.17
187 188 1.091771 CGCACTGCCGATCCAAATCT 61.092 55.000 0.00 0.00 0.00 2.40
188 189 1.806247 CGCACTGCCGATCCAAATCTA 60.806 52.381 0.00 0.00 0.00 1.98
189 190 2.288666 GCACTGCCGATCCAAATCTAA 58.711 47.619 0.00 0.00 0.00 2.10
190 191 2.682856 GCACTGCCGATCCAAATCTAAA 59.317 45.455 0.00 0.00 0.00 1.85
191 192 3.128589 GCACTGCCGATCCAAATCTAAAA 59.871 43.478 0.00 0.00 0.00 1.52
192 193 4.662145 CACTGCCGATCCAAATCTAAAAC 58.338 43.478 0.00 0.00 0.00 2.43
193 194 4.155826 CACTGCCGATCCAAATCTAAAACA 59.844 41.667 0.00 0.00 0.00 2.83
194 195 4.396166 ACTGCCGATCCAAATCTAAAACAG 59.604 41.667 0.00 0.00 0.00 3.16
195 196 3.694072 TGCCGATCCAAATCTAAAACAGG 59.306 43.478 0.00 0.00 0.00 4.00
196 197 3.066760 GCCGATCCAAATCTAAAACAGGG 59.933 47.826 0.00 0.00 0.00 4.45
197 198 3.066760 CCGATCCAAATCTAAAACAGGGC 59.933 47.826 0.00 0.00 0.00 5.19
198 199 3.694072 CGATCCAAATCTAAAACAGGGCA 59.306 43.478 0.00 0.00 0.00 5.36
199 200 4.201950 CGATCCAAATCTAAAACAGGGCAG 60.202 45.833 0.00 0.00 0.00 4.85
200 201 4.380843 TCCAAATCTAAAACAGGGCAGA 57.619 40.909 0.00 0.00 0.00 4.26
201 202 4.934356 TCCAAATCTAAAACAGGGCAGAT 58.066 39.130 0.00 0.00 0.00 2.90
202 203 4.706476 TCCAAATCTAAAACAGGGCAGATG 59.294 41.667 0.00 0.00 0.00 2.90
203 204 4.427312 CAAATCTAAAACAGGGCAGATGC 58.573 43.478 0.00 0.00 41.14 3.91
204 205 3.659183 ATCTAAAACAGGGCAGATGCT 57.341 42.857 4.59 0.00 41.70 3.79
205 206 2.715046 TCTAAAACAGGGCAGATGCTG 58.285 47.619 4.59 0.00 41.70 4.41
206 207 1.747355 CTAAAACAGGGCAGATGCTGG 59.253 52.381 4.59 0.00 41.70 4.85
207 208 0.901580 AAAACAGGGCAGATGCTGGG 60.902 55.000 4.59 0.00 41.70 4.45
208 209 3.951769 AACAGGGCAGATGCTGGGC 62.952 63.158 4.59 0.00 41.70 5.36
212 213 4.764771 GGCAGATGCTGGGCCCAA 62.765 66.667 28.29 13.30 41.90 4.12
213 214 2.681064 GCAGATGCTGGGCCCAAA 60.681 61.111 28.29 18.12 38.21 3.28
214 215 2.062177 GCAGATGCTGGGCCCAAAT 61.062 57.895 28.29 22.32 38.21 2.32
215 216 1.820581 CAGATGCTGGGCCCAAATG 59.179 57.895 28.29 16.15 0.00 2.32
216 217 1.382146 AGATGCTGGGCCCAAATGG 60.382 57.895 28.29 15.73 37.09 3.16
217 218 1.381599 GATGCTGGGCCCAAATGGA 60.382 57.895 28.29 16.72 37.39 3.41
218 219 1.679559 GATGCTGGGCCCAAATGGAC 61.680 60.000 28.29 11.51 44.14 4.02
225 226 1.522668 GGCCCAAATGGACAAAAAGC 58.477 50.000 0.00 0.00 44.36 3.51
226 227 1.522668 GCCCAAATGGACAAAAAGCC 58.477 50.000 0.00 0.00 37.39 4.35
227 228 1.794512 CCCAAATGGACAAAAAGCCG 58.205 50.000 0.00 0.00 37.39 5.52
228 229 1.342819 CCCAAATGGACAAAAAGCCGA 59.657 47.619 0.00 0.00 37.39 5.54
229 230 2.224161 CCCAAATGGACAAAAAGCCGAA 60.224 45.455 0.00 0.00 37.39 4.30
230 231 3.462021 CCAAATGGACAAAAAGCCGAAA 58.538 40.909 0.00 0.00 37.39 3.46
231 232 3.873952 CCAAATGGACAAAAAGCCGAAAA 59.126 39.130 0.00 0.00 37.39 2.29
232 233 4.333926 CCAAATGGACAAAAAGCCGAAAAA 59.666 37.500 0.00 0.00 37.39 1.94
233 234 5.008514 CCAAATGGACAAAAAGCCGAAAAAT 59.991 36.000 0.00 0.00 37.39 1.82
234 235 6.459435 CCAAATGGACAAAAAGCCGAAAAATT 60.459 34.615 0.00 0.00 37.39 1.82
235 236 5.922739 ATGGACAAAAAGCCGAAAAATTC 57.077 34.783 0.00 0.00 0.00 2.17
244 245 3.127864 CGAAAAATTCGCCGGATCG 57.872 52.632 5.05 0.00 46.97 3.69
256 257 2.267961 GGATCGGCCGTTGGAGTT 59.732 61.111 27.15 2.13 0.00 3.01
257 258 2.106683 GGATCGGCCGTTGGAGTTG 61.107 63.158 27.15 0.00 0.00 3.16
258 259 2.746277 ATCGGCCGTTGGAGTTGC 60.746 61.111 27.15 0.00 0.00 4.17
259 260 3.254024 ATCGGCCGTTGGAGTTGCT 62.254 57.895 27.15 0.00 0.00 3.91
260 261 3.423154 CGGCCGTTGGAGTTGCTC 61.423 66.667 19.50 0.00 0.00 4.26
261 262 3.423154 GGCCGTTGGAGTTGCTCG 61.423 66.667 0.00 0.00 0.00 5.03
262 263 2.665185 GCCGTTGGAGTTGCTCGT 60.665 61.111 0.00 0.00 0.00 4.18
263 264 2.251642 GCCGTTGGAGTTGCTCGTT 61.252 57.895 0.00 0.00 0.00 3.85
264 265 1.569493 CCGTTGGAGTTGCTCGTTG 59.431 57.895 0.00 0.00 0.00 4.10
265 266 1.569493 CGTTGGAGTTGCTCGTTGG 59.431 57.895 0.00 0.00 0.00 3.77
266 267 0.878523 CGTTGGAGTTGCTCGTTGGA 60.879 55.000 0.00 0.00 0.00 3.53
267 268 0.868406 GTTGGAGTTGCTCGTTGGAG 59.132 55.000 0.00 0.00 43.46 3.86
268 269 0.468226 TTGGAGTTGCTCGTTGGAGT 59.532 50.000 0.00 0.00 42.53 3.85
269 270 0.468226 TGGAGTTGCTCGTTGGAGTT 59.532 50.000 0.00 0.00 42.53 3.01
270 271 0.868406 GGAGTTGCTCGTTGGAGTTG 59.132 55.000 0.00 0.00 42.53 3.16
271 272 0.235926 GAGTTGCTCGTTGGAGTTGC 59.764 55.000 0.00 0.00 42.53 4.17
272 273 0.179045 AGTTGCTCGTTGGAGTTGCT 60.179 50.000 0.00 0.00 42.53 3.91
273 274 0.235926 GTTGCTCGTTGGAGTTGCTC 59.764 55.000 0.00 0.00 42.53 4.26
274 275 0.106708 TTGCTCGTTGGAGTTGCTCT 59.893 50.000 0.00 0.00 42.53 4.09
275 276 0.966179 TGCTCGTTGGAGTTGCTCTA 59.034 50.000 0.00 0.00 42.53 2.43
276 277 1.067565 TGCTCGTTGGAGTTGCTCTAG 60.068 52.381 0.00 0.00 42.53 2.43
338 339 1.678970 AAGTGGCCCGCAATTCTCC 60.679 57.895 0.00 0.00 0.00 3.71
369 370 1.616159 ACAAATAAACAGTGCCGGCT 58.384 45.000 29.70 8.67 0.00 5.52
385 386 1.580845 GGCTCACTGACATGTGGCAC 61.581 60.000 11.55 11.55 38.23 5.01
417 418 7.826252 TGTGTATAGACTCCTACTTTACGTCTT 59.174 37.037 0.00 0.00 36.46 3.01
520 528 4.155280 TGATACACGATCGACTTTGTCTCA 59.845 41.667 24.34 18.97 37.38 3.27
579 1326 0.401979 ACAGGCTGCCTATATGGGGT 60.402 55.000 22.90 10.42 36.00 4.95
580 1327 0.326264 CAGGCTGCCTATATGGGGTC 59.674 60.000 22.90 0.00 36.00 4.46
581 1328 0.194587 AGGCTGCCTATATGGGGTCT 59.805 55.000 21.98 0.00 36.00 3.85
582 1329 0.326264 GGCTGCCTATATGGGGTCTG 59.674 60.000 12.43 0.00 36.00 3.51
583 1330 0.322008 GCTGCCTATATGGGGTCTGC 60.322 60.000 7.30 3.38 36.00 4.26
584 1331 1.356124 CTGCCTATATGGGGTCTGCT 58.644 55.000 7.30 0.00 36.00 4.24
585 1332 1.277557 CTGCCTATATGGGGTCTGCTC 59.722 57.143 7.30 0.00 36.00 4.26
586 1333 1.352083 GCCTATATGGGGTCTGCTCA 58.648 55.000 7.30 0.00 36.00 4.26
587 1334 1.002544 GCCTATATGGGGTCTGCTCAC 59.997 57.143 7.30 0.00 36.00 3.51
588 1335 2.614259 CCTATATGGGGTCTGCTCACT 58.386 52.381 0.00 0.00 0.00 3.41
589 1336 2.301296 CCTATATGGGGTCTGCTCACTG 59.699 54.545 0.00 0.00 0.00 3.66
590 1337 1.885049 ATATGGGGTCTGCTCACTGT 58.115 50.000 0.00 0.00 0.00 3.55
591 1338 2.543037 TATGGGGTCTGCTCACTGTA 57.457 50.000 0.00 0.00 0.00 2.74
592 1339 1.198713 ATGGGGTCTGCTCACTGTAG 58.801 55.000 0.00 0.00 0.00 2.74
593 1340 0.904865 TGGGGTCTGCTCACTGTAGG 60.905 60.000 0.00 0.00 0.00 3.18
594 1341 1.617947 GGGGTCTGCTCACTGTAGGG 61.618 65.000 0.00 0.00 0.00 3.53
595 1342 1.617947 GGGTCTGCTCACTGTAGGGG 61.618 65.000 0.00 0.00 0.00 4.79
612 1359 1.219393 GGGTCTGCTCACTGTAGGC 59.781 63.158 0.00 0.00 32.05 3.93
640 1387 3.964875 CACGCACACCACCTTGCC 61.965 66.667 0.00 0.00 35.14 4.52
660 1407 3.242739 GCCCTATATCTTTGTGCGTGTTG 60.243 47.826 0.00 0.00 0.00 3.33
661 1408 4.188462 CCCTATATCTTTGTGCGTGTTGA 58.812 43.478 0.00 0.00 0.00 3.18
663 1410 5.296780 CCCTATATCTTTGTGCGTGTTGAAT 59.703 40.000 0.00 0.00 0.00 2.57
700 1486 1.301244 CACGACTCCTGTTGCTGCT 60.301 57.895 0.00 0.00 0.00 4.24
786 1699 2.753055 TCACTTTACACATGGCGCTA 57.247 45.000 7.64 0.00 0.00 4.26
921 1838 5.756195 AAATAGGAGTACGTACGCACATA 57.244 39.130 27.07 19.55 0.00 2.29
954 1876 9.678260 ATCAGCTTTCATAGAAAGACAACTTAT 57.322 29.630 20.30 5.21 35.05 1.73
1009 1934 2.042686 CTAGCTAGCAATGGCCACAA 57.957 50.000 18.83 0.00 42.56 3.33
1184 2115 1.445582 GTGGAATCGCGGAGAACGT 60.446 57.895 6.13 0.00 46.52 3.99
1219 2150 0.032678 CAGGCTGTATCTACGCCAGG 59.967 60.000 18.57 10.65 43.40 4.45
1359 2290 2.103340 GTTGCCAAAACGCACGGT 59.897 55.556 0.00 0.00 38.83 4.83
1374 2305 0.250295 ACGGTATGCACACACTTGCT 60.250 50.000 0.00 0.00 43.41 3.91
1395 2326 2.106166 TGGCAAATGGAGCAATTGGTTT 59.894 40.909 12.13 0.00 0.00 3.27
1504 2444 0.181114 TGACAGTCTATGGGGCATGC 59.819 55.000 9.90 9.90 0.00 4.06
1942 2923 5.009811 GGACCGCTACTATCATGTTAGTCTT 59.990 44.000 17.70 0.00 34.35 3.01
2012 3014 3.075432 AGCCTGTAAATACAAACCCCACT 59.925 43.478 0.00 0.00 35.50 4.00
2099 3129 0.991920 GGACCTGGTCTCCCAAATCA 59.008 55.000 25.01 0.00 41.27 2.57
2101 3131 1.630878 GACCTGGTCTCCCAAATCACT 59.369 52.381 19.53 0.00 41.27 3.41
2103 3133 1.406069 CCTGGTCTCCCAAATCACTCG 60.406 57.143 0.00 0.00 41.27 4.18
2149 3180 3.463944 GTGGAGGACTCTTCGTTTTTGA 58.536 45.455 0.00 0.00 0.00 2.69
2151 3182 3.134081 TGGAGGACTCTTCGTTTTTGACT 59.866 43.478 0.00 0.00 0.00 3.41
2394 3506 5.009210 TGAAGGGTTTCAATTTTCCTACGTG 59.991 40.000 0.00 0.00 40.26 4.49
2403 3515 3.947910 TTTTCCTACGTGGACGAAGAT 57.052 42.857 6.12 0.00 46.14 2.40
2545 3658 4.814234 TGTTATAGTTTATGCCTGGCTTCG 59.186 41.667 21.03 0.00 0.00 3.79
2583 3697 6.374333 GGTGCAAATCTATGTTTGGTTAGAGA 59.626 38.462 0.00 0.00 39.03 3.10
2613 3727 9.877178 ACTAACCTAAACTTGACATCAATCTAG 57.123 33.333 0.00 0.00 35.02 2.43
2720 3841 6.147164 ACTCACCACATTTTTACATGTCGTAG 59.853 38.462 0.00 0.00 35.03 3.51
3174 4845 4.797275 GCCCATCAGAGTTTGTGAAAAAGG 60.797 45.833 0.00 0.00 0.00 3.11
3214 4885 2.435586 CGAGGGCTGGCTGTCAAG 60.436 66.667 0.00 0.00 0.00 3.02
3317 4988 3.300765 GACGAGACGGTGGTGGGT 61.301 66.667 0.00 0.00 0.00 4.51
3325 4996 0.753848 ACGGTGGTGGGTTTCTTTGG 60.754 55.000 0.00 0.00 0.00 3.28
3437 5110 4.098349 TGCATGTCCCTTTTAATCATCAGC 59.902 41.667 0.00 0.00 0.00 4.26
3462 5143 2.027929 TGATTTCTTCCCGTTTCCGCTA 60.028 45.455 0.00 0.00 0.00 4.26
4036 5939 0.321122 CAGGCAGCTTCGTCTTCCTT 60.321 55.000 0.00 0.00 26.91 3.36
4039 5942 1.609072 GGCAGCTTCGTCTTCCTTTTT 59.391 47.619 0.00 0.00 0.00 1.94
4065 5970 1.960689 TGGCTACATCTATGCACGCTA 59.039 47.619 0.00 0.00 0.00 4.26
4070 5975 4.795795 GCTACATCTATGCACGCTATGTAG 59.204 45.833 23.22 23.22 46.60 2.74
4123 6028 4.162131 TCTGGCACACTCAAATAGCTCATA 59.838 41.667 0.00 0.00 0.00 2.15
4124 6029 5.039920 TGGCACACTCAAATAGCTCATAT 57.960 39.130 0.00 0.00 0.00 1.78
4125 6030 6.041979 TCTGGCACACTCAAATAGCTCATATA 59.958 38.462 0.00 0.00 0.00 0.86
4126 6031 6.772605 TGGCACACTCAAATAGCTCATATAT 58.227 36.000 0.00 0.00 0.00 0.86
4127 6032 7.906327 TGGCACACTCAAATAGCTCATATATA 58.094 34.615 0.00 0.00 0.00 0.86
4128 6033 8.542926 TGGCACACTCAAATAGCTCATATATAT 58.457 33.333 0.00 0.00 0.00 0.86
4215 6196 0.454620 GTGAGTACGTGACAGCCTCG 60.455 60.000 0.00 0.00 37.73 4.63
4313 6295 0.036164 AGCCCTTTGTCATACGCACA 59.964 50.000 0.00 0.00 0.00 4.57
4325 6307 0.521291 TACGCACAATCAAGCAAGGC 59.479 50.000 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.177531 CACAGTTCATGCTGGCGC 59.822 61.111 0.00 0.00 40.59 6.53
16 17 0.890542 TCACCACAGTTCATGCTGGC 60.891 55.000 5.48 0.00 40.59 4.85
18 19 5.571784 AAATATCACCACAGTTCATGCTG 57.428 39.130 0.00 0.00 41.92 4.41
19 20 6.594788 AAAAATATCACCACAGTTCATGCT 57.405 33.333 0.00 0.00 0.00 3.79
39 40 3.951775 ATACAATGCCGGCTTCAAAAA 57.048 38.095 29.70 5.17 0.00 1.94
40 41 3.129638 GGTATACAATGCCGGCTTCAAAA 59.870 43.478 29.70 6.08 0.00 2.44
41 42 2.685897 GGTATACAATGCCGGCTTCAAA 59.314 45.455 29.70 7.00 0.00 2.69
42 43 2.294074 GGTATACAATGCCGGCTTCAA 58.706 47.619 29.70 7.47 0.00 2.69
43 44 1.961793 GGTATACAATGCCGGCTTCA 58.038 50.000 29.70 7.94 0.00 3.02
50 51 1.597027 AGCGCCGGTATACAATGCC 60.597 57.895 2.29 0.00 0.00 4.40
51 52 1.569493 CAGCGCCGGTATACAATGC 59.431 57.895 2.29 3.03 0.00 3.56
52 53 1.841663 GCCAGCGCCGGTATACAATG 61.842 60.000 12.13 0.00 0.00 2.82
53 54 1.597027 GCCAGCGCCGGTATACAAT 60.597 57.895 12.13 0.00 0.00 2.71
54 55 2.202960 GCCAGCGCCGGTATACAA 60.203 61.111 12.13 0.00 0.00 2.41
55 56 2.802724 ATGCCAGCGCCGGTATACA 61.803 57.895 11.92 0.41 28.36 2.29
56 57 2.030562 ATGCCAGCGCCGGTATAC 59.969 61.111 11.92 0.00 28.36 1.47
57 58 2.030412 CATGCCAGCGCCGGTATA 59.970 61.111 13.22 0.00 29.20 1.47
58 59 4.935495 CCATGCCAGCGCCGGTAT 62.935 66.667 12.13 9.80 0.00 2.73
70 71 3.896133 CTCATGCCGGCACCATGC 61.896 66.667 35.50 0.00 44.08 4.06
71 72 2.124612 TCTCATGCCGGCACCATG 60.125 61.111 35.50 26.75 41.03 3.66
72 73 2.124570 GTCTCATGCCGGCACCAT 60.125 61.111 35.50 14.65 0.00 3.55
73 74 2.874648 GATGTCTCATGCCGGCACCA 62.875 60.000 35.50 22.60 0.00 4.17
74 75 2.124570 ATGTCTCATGCCGGCACC 60.125 61.111 35.50 17.52 0.00 5.01
75 76 2.528743 CGATGTCTCATGCCGGCAC 61.529 63.158 35.50 19.90 0.00 5.01
76 77 2.202919 CGATGTCTCATGCCGGCA 60.203 61.111 34.80 34.80 0.00 5.69
77 78 3.643978 GCGATGTCTCATGCCGGC 61.644 66.667 22.73 22.73 0.00 6.13
78 79 2.969238 GGCGATGTCTCATGCCGG 60.969 66.667 0.00 0.00 37.81 6.13
80 81 3.643978 GCGGCGATGTCTCATGCC 61.644 66.667 12.98 10.70 44.09 4.40
81 82 2.587194 AGCGGCGATGTCTCATGC 60.587 61.111 12.98 0.00 0.00 4.06
82 83 2.242572 CCAGCGGCGATGTCTCATG 61.243 63.158 24.41 3.22 0.00 3.07
83 84 2.107750 CCAGCGGCGATGTCTCAT 59.892 61.111 24.41 0.00 0.00 2.90
84 85 4.819761 GCCAGCGGCGATGTCTCA 62.820 66.667 24.41 0.00 39.62 3.27
94 95 2.537560 GGACGATCATTGCCAGCGG 61.538 63.158 0.00 0.00 0.00 5.52
95 96 2.874694 CGGACGATCATTGCCAGCG 61.875 63.158 0.00 0.00 0.00 5.18
96 97 3.017323 CGGACGATCATTGCCAGC 58.983 61.111 0.00 0.00 0.00 4.85
97 98 2.874694 CGCGGACGATCATTGCCAG 61.875 63.158 0.00 0.00 43.93 4.85
98 99 2.889988 CGCGGACGATCATTGCCA 60.890 61.111 0.00 0.00 43.93 4.92
99 100 3.640000 CCGCGGACGATCATTGCC 61.640 66.667 24.07 0.00 43.93 4.52
100 101 3.640000 CCCGCGGACGATCATTGC 61.640 66.667 30.73 0.00 43.93 3.56
101 102 3.640000 GCCCGCGGACGATCATTG 61.640 66.667 30.73 7.40 43.93 2.82
102 103 4.910585 GGCCCGCGGACGATCATT 62.911 66.667 30.73 0.00 43.93 2.57
105 106 2.911332 TAAAAGGCCCGCGGACGATC 62.911 60.000 30.73 10.84 43.93 3.69
106 107 2.524951 TTAAAAGGCCCGCGGACGAT 62.525 55.000 30.73 3.81 43.93 3.73
107 108 2.728443 TTTAAAAGGCCCGCGGACGA 62.728 55.000 30.73 0.63 43.93 4.20
108 109 1.854163 TTTTAAAAGGCCCGCGGACG 61.854 55.000 30.73 12.70 34.63 4.79
109 110 0.314618 TTTTTAAAAGGCCCGCGGAC 59.685 50.000 30.73 17.28 0.00 4.79
110 111 2.729692 TTTTTAAAAGGCCCGCGGA 58.270 47.368 30.73 0.00 0.00 5.54
127 128 8.196771 TCATTTTATGTCTGCACTCAACTTTTT 58.803 29.630 0.00 0.00 0.00 1.94
128 129 7.715657 TCATTTTATGTCTGCACTCAACTTTT 58.284 30.769 0.00 0.00 0.00 2.27
129 130 7.013655 ACTCATTTTATGTCTGCACTCAACTTT 59.986 33.333 0.00 0.00 0.00 2.66
130 131 6.488006 ACTCATTTTATGTCTGCACTCAACTT 59.512 34.615 0.00 0.00 0.00 2.66
131 132 6.000219 ACTCATTTTATGTCTGCACTCAACT 59.000 36.000 0.00 0.00 0.00 3.16
132 133 6.246420 ACTCATTTTATGTCTGCACTCAAC 57.754 37.500 0.00 0.00 0.00 3.18
133 134 5.120674 CGACTCATTTTATGTCTGCACTCAA 59.879 40.000 0.00 0.00 0.00 3.02
134 135 4.627035 CGACTCATTTTATGTCTGCACTCA 59.373 41.667 0.00 0.00 0.00 3.41
135 136 4.864806 TCGACTCATTTTATGTCTGCACTC 59.135 41.667 0.00 0.00 0.00 3.51
136 137 4.627467 GTCGACTCATTTTATGTCTGCACT 59.373 41.667 8.70 0.00 0.00 4.40
137 138 4.490959 CGTCGACTCATTTTATGTCTGCAC 60.491 45.833 14.70 0.00 0.00 4.57
138 139 3.612423 CGTCGACTCATTTTATGTCTGCA 59.388 43.478 14.70 0.00 0.00 4.41
139 140 3.542291 GCGTCGACTCATTTTATGTCTGC 60.542 47.826 14.70 0.08 0.00 4.26
140 141 3.612423 TGCGTCGACTCATTTTATGTCTG 59.388 43.478 14.70 0.00 0.00 3.51
141 142 3.845178 TGCGTCGACTCATTTTATGTCT 58.155 40.909 14.70 0.00 0.00 3.41
142 143 4.778842 ATGCGTCGACTCATTTTATGTC 57.221 40.909 15.09 0.00 0.00 3.06
143 144 4.629634 TCAATGCGTCGACTCATTTTATGT 59.370 37.500 26.66 6.67 29.73 2.29
144 145 5.142635 TCAATGCGTCGACTCATTTTATG 57.857 39.130 26.66 18.11 29.73 1.90
145 146 4.260375 GCTCAATGCGTCGACTCATTTTAT 60.260 41.667 26.66 7.71 29.73 1.40
146 147 3.062099 GCTCAATGCGTCGACTCATTTTA 59.938 43.478 26.66 17.98 29.73 1.52
147 148 2.159653 GCTCAATGCGTCGACTCATTTT 60.160 45.455 26.66 9.49 29.73 1.82
148 149 1.394917 GCTCAATGCGTCGACTCATTT 59.605 47.619 26.66 12.61 29.73 2.32
149 150 1.002366 GCTCAATGCGTCGACTCATT 58.998 50.000 24.27 24.27 32.10 2.57
150 151 2.670635 GCTCAATGCGTCGACTCAT 58.329 52.632 15.09 15.09 0.00 2.90
151 152 4.169102 GCTCAATGCGTCGACTCA 57.831 55.556 11.15 11.15 0.00 3.41
161 162 2.370824 GATCGGCAGTGCGCTCAATG 62.371 60.000 9.73 0.00 40.91 2.82
162 163 2.124983 ATCGGCAGTGCGCTCAAT 60.125 55.556 9.73 0.00 41.91 2.57
163 164 2.815211 GATCGGCAGTGCGCTCAA 60.815 61.111 9.73 0.00 41.91 3.02
164 165 4.819761 GGATCGGCAGTGCGCTCA 62.820 66.667 9.73 0.00 41.91 4.26
165 166 4.819761 TGGATCGGCAGTGCGCTC 62.820 66.667 9.73 4.74 41.91 5.03
166 167 3.899981 TTTGGATCGGCAGTGCGCT 62.900 57.895 9.73 0.00 41.91 5.92
167 168 2.652893 GATTTGGATCGGCAGTGCGC 62.653 60.000 9.45 0.00 41.28 6.09
168 169 1.091771 AGATTTGGATCGGCAGTGCG 61.092 55.000 9.45 4.79 37.37 5.34
169 170 1.953559 TAGATTTGGATCGGCAGTGC 58.046 50.000 6.55 6.55 37.37 4.40
170 171 4.155826 TGTTTTAGATTTGGATCGGCAGTG 59.844 41.667 0.00 0.00 37.37 3.66
171 172 4.331968 TGTTTTAGATTTGGATCGGCAGT 58.668 39.130 0.00 0.00 37.37 4.40
172 173 4.201950 CCTGTTTTAGATTTGGATCGGCAG 60.202 45.833 0.00 0.00 37.37 4.85
173 174 3.694072 CCTGTTTTAGATTTGGATCGGCA 59.306 43.478 0.00 0.00 37.37 5.69
174 175 3.066760 CCCTGTTTTAGATTTGGATCGGC 59.933 47.826 0.00 0.00 37.37 5.54
175 176 3.066760 GCCCTGTTTTAGATTTGGATCGG 59.933 47.826 0.00 0.00 37.37 4.18
176 177 3.694072 TGCCCTGTTTTAGATTTGGATCG 59.306 43.478 0.00 0.00 37.37 3.69
177 178 4.949856 TCTGCCCTGTTTTAGATTTGGATC 59.050 41.667 0.00 0.00 0.00 3.36
178 179 4.934356 TCTGCCCTGTTTTAGATTTGGAT 58.066 39.130 0.00 0.00 0.00 3.41
179 180 4.380843 TCTGCCCTGTTTTAGATTTGGA 57.619 40.909 0.00 0.00 0.00 3.53
180 181 4.678840 GCATCTGCCCTGTTTTAGATTTGG 60.679 45.833 0.00 0.00 34.31 3.28
181 182 4.159135 AGCATCTGCCCTGTTTTAGATTTG 59.841 41.667 0.00 0.00 43.38 2.32
182 183 4.159135 CAGCATCTGCCCTGTTTTAGATTT 59.841 41.667 0.00 0.00 43.38 2.17
183 184 3.698040 CAGCATCTGCCCTGTTTTAGATT 59.302 43.478 0.00 0.00 43.38 2.40
184 185 3.285484 CAGCATCTGCCCTGTTTTAGAT 58.715 45.455 0.00 0.00 43.38 1.98
185 186 2.618816 CCAGCATCTGCCCTGTTTTAGA 60.619 50.000 0.00 0.00 43.38 2.10
186 187 1.747355 CCAGCATCTGCCCTGTTTTAG 59.253 52.381 0.00 0.00 43.38 1.85
187 188 1.616725 CCCAGCATCTGCCCTGTTTTA 60.617 52.381 0.00 0.00 43.38 1.52
188 189 0.901580 CCCAGCATCTGCCCTGTTTT 60.902 55.000 0.00 0.00 43.38 2.43
189 190 1.304713 CCCAGCATCTGCCCTGTTT 60.305 57.895 0.00 0.00 43.38 2.83
190 191 2.357836 CCCAGCATCTGCCCTGTT 59.642 61.111 0.00 0.00 43.38 3.16
191 192 4.437587 GCCCAGCATCTGCCCTGT 62.438 66.667 0.00 0.00 43.38 4.00
195 196 4.764771 TTGGGCCCAGCATCTGCC 62.765 66.667 26.87 0.00 44.59 4.85
196 197 2.062177 ATTTGGGCCCAGCATCTGC 61.062 57.895 26.87 0.00 42.49 4.26
197 198 1.682451 CCATTTGGGCCCAGCATCTG 61.682 60.000 26.87 17.67 0.00 2.90
198 199 1.382146 CCATTTGGGCCCAGCATCT 60.382 57.895 26.87 6.18 0.00 2.90
199 200 1.381599 TCCATTTGGGCCCAGCATC 60.382 57.895 26.87 0.00 36.21 3.91
200 201 1.686800 GTCCATTTGGGCCCAGCAT 60.687 57.895 26.87 18.51 36.21 3.79
201 202 2.283821 GTCCATTTGGGCCCAGCA 60.284 61.111 26.87 16.86 36.21 4.41
202 203 1.479368 TTTGTCCATTTGGGCCCAGC 61.479 55.000 26.87 12.45 39.61 4.85
203 204 1.055040 TTTTGTCCATTTGGGCCCAG 58.945 50.000 26.87 14.08 39.61 4.45
204 205 1.419387 CTTTTTGTCCATTTGGGCCCA 59.581 47.619 24.45 24.45 39.61 5.36
205 206 1.881925 GCTTTTTGTCCATTTGGGCCC 60.882 52.381 17.59 17.59 39.61 5.80
206 207 1.522668 GCTTTTTGTCCATTTGGGCC 58.477 50.000 0.00 0.00 39.61 5.80
207 208 1.522668 GGCTTTTTGTCCATTTGGGC 58.477 50.000 0.00 0.00 41.09 5.36
208 209 1.342819 TCGGCTTTTTGTCCATTTGGG 59.657 47.619 0.00 0.00 35.41 4.12
209 210 2.810439 TCGGCTTTTTGTCCATTTGG 57.190 45.000 0.00 0.00 0.00 3.28
210 211 5.476752 TTTTTCGGCTTTTTGTCCATTTG 57.523 34.783 0.00 0.00 0.00 2.32
211 212 6.691754 AATTTTTCGGCTTTTTGTCCATTT 57.308 29.167 0.00 0.00 0.00 2.32
212 213 6.299023 GAATTTTTCGGCTTTTTGTCCATT 57.701 33.333 0.00 0.00 0.00 3.16
213 214 5.922739 GAATTTTTCGGCTTTTTGTCCAT 57.077 34.783 0.00 0.00 0.00 3.41
227 228 3.526825 CCGATCCGGCGAATTTTTC 57.473 52.632 9.30 0.00 41.17 2.29
239 240 2.106683 CAACTCCAACGGCCGATCC 61.107 63.158 35.90 0.00 0.00 3.36
240 241 2.750888 GCAACTCCAACGGCCGATC 61.751 63.158 35.90 1.39 0.00 3.69
241 242 2.746277 GCAACTCCAACGGCCGAT 60.746 61.111 35.90 19.90 0.00 4.18
242 243 3.876589 GAGCAACTCCAACGGCCGA 62.877 63.158 35.90 8.44 0.00 5.54
243 244 3.423154 GAGCAACTCCAACGGCCG 61.423 66.667 26.86 26.86 0.00 6.13
244 245 3.423154 CGAGCAACTCCAACGGCC 61.423 66.667 0.00 0.00 0.00 6.13
245 246 2.251642 AACGAGCAACTCCAACGGC 61.252 57.895 0.00 0.00 0.00 5.68
246 247 1.569493 CAACGAGCAACTCCAACGG 59.431 57.895 0.00 0.00 0.00 4.44
247 248 0.878523 TCCAACGAGCAACTCCAACG 60.879 55.000 0.00 0.00 0.00 4.10
248 249 0.868406 CTCCAACGAGCAACTCCAAC 59.132 55.000 0.00 0.00 0.00 3.77
249 250 0.468226 ACTCCAACGAGCAACTCCAA 59.532 50.000 0.00 0.00 40.03 3.53
250 251 0.468226 AACTCCAACGAGCAACTCCA 59.532 50.000 0.00 0.00 40.03 3.86
251 252 0.868406 CAACTCCAACGAGCAACTCC 59.132 55.000 0.00 0.00 40.03 3.85
252 253 0.235926 GCAACTCCAACGAGCAACTC 59.764 55.000 0.00 0.00 40.03 3.01
253 254 0.179045 AGCAACTCCAACGAGCAACT 60.179 50.000 0.00 0.00 40.03 3.16
254 255 0.235926 GAGCAACTCCAACGAGCAAC 59.764 55.000 0.00 0.00 40.03 4.17
255 256 0.106708 AGAGCAACTCCAACGAGCAA 59.893 50.000 0.00 0.00 40.03 3.91
256 257 0.966179 TAGAGCAACTCCAACGAGCA 59.034 50.000 0.00 0.00 40.03 4.26
257 258 1.634702 CTAGAGCAACTCCAACGAGC 58.365 55.000 0.00 0.00 40.03 5.03
258 259 1.546476 ACCTAGAGCAACTCCAACGAG 59.454 52.381 0.00 0.00 42.32 4.18
259 260 1.272490 CACCTAGAGCAACTCCAACGA 59.728 52.381 0.00 0.00 0.00 3.85
260 261 1.714794 CACCTAGAGCAACTCCAACG 58.285 55.000 0.00 0.00 0.00 4.10
261 262 1.443802 GCACCTAGAGCAACTCCAAC 58.556 55.000 0.00 0.00 0.00 3.77
262 263 0.037326 CGCACCTAGAGCAACTCCAA 60.037 55.000 7.71 0.00 0.00 3.53
263 264 1.591703 CGCACCTAGAGCAACTCCA 59.408 57.895 7.71 0.00 0.00 3.86
264 265 1.811679 GCGCACCTAGAGCAACTCC 60.812 63.158 0.30 0.00 43.16 3.85
265 266 2.161486 CGCGCACCTAGAGCAACTC 61.161 63.158 8.75 0.00 43.95 3.01
266 267 2.125912 CGCGCACCTAGAGCAACT 60.126 61.111 8.75 0.00 43.95 3.16
267 268 3.854459 GCGCGCACCTAGAGCAAC 61.854 66.667 29.10 0.00 43.95 4.17
319 320 1.508088 GAGAATTGCGGGCCACTTG 59.492 57.895 4.39 0.00 0.00 3.16
338 339 4.355437 TGTTTATTTGTTTGTGAGTGGCG 58.645 39.130 0.00 0.00 0.00 5.69
369 370 0.879839 CACGTGCCACATGTCAGTGA 60.880 55.000 0.82 0.00 42.05 3.41
385 386 4.634883 AGTAGGAGTCTATACACACACACG 59.365 45.833 8.23 0.00 0.00 4.49
417 418 4.062293 CGAAAGTTGTGTCATAACCTCCA 58.938 43.478 8.68 0.00 0.00 3.86
465 466 2.877786 TGTTTCACGACATGCAGACATT 59.122 40.909 0.00 0.00 32.87 2.71
520 528 8.546597 AAAAAGCAAATAAAGTTGTGTCAGTT 57.453 26.923 0.00 0.00 0.00 3.16
579 1326 0.614979 GACCCCCTACAGTGAGCAGA 60.615 60.000 0.00 0.00 0.00 4.26
580 1327 0.616111 AGACCCCCTACAGTGAGCAG 60.616 60.000 0.00 0.00 0.00 4.24
581 1328 0.904865 CAGACCCCCTACAGTGAGCA 60.905 60.000 0.00 0.00 0.00 4.26
582 1329 1.901085 CAGACCCCCTACAGTGAGC 59.099 63.158 0.00 0.00 0.00 4.26
583 1330 0.616111 AGCAGACCCCCTACAGTGAG 60.616 60.000 0.00 0.00 0.00 3.51
584 1331 0.614979 GAGCAGACCCCCTACAGTGA 60.615 60.000 0.00 0.00 0.00 3.41
585 1332 0.904865 TGAGCAGACCCCCTACAGTG 60.905 60.000 0.00 0.00 0.00 3.66
586 1333 0.905337 GTGAGCAGACCCCCTACAGT 60.905 60.000 0.00 0.00 0.00 3.55
587 1334 0.616111 AGTGAGCAGACCCCCTACAG 60.616 60.000 0.00 0.00 0.00 2.74
588 1335 0.904865 CAGTGAGCAGACCCCCTACA 60.905 60.000 0.00 0.00 0.00 2.74
589 1336 0.905337 ACAGTGAGCAGACCCCCTAC 60.905 60.000 0.00 0.00 0.00 3.18
590 1337 0.708209 TACAGTGAGCAGACCCCCTA 59.292 55.000 0.00 0.00 0.00 3.53
591 1338 0.616111 CTACAGTGAGCAGACCCCCT 60.616 60.000 0.00 0.00 0.00 4.79
592 1339 1.617947 CCTACAGTGAGCAGACCCCC 61.618 65.000 0.00 0.00 0.00 5.40
593 1340 1.901085 CCTACAGTGAGCAGACCCC 59.099 63.158 0.00 0.00 0.00 4.95
594 1341 1.219393 GCCTACAGTGAGCAGACCC 59.781 63.158 0.00 0.00 0.00 4.46
595 1342 1.153745 CGCCTACAGTGAGCAGACC 60.154 63.158 0.00 0.00 0.00 3.85
640 1387 5.794687 TTCAACACGCACAAAGATATAGG 57.205 39.130 0.00 0.00 0.00 2.57
641 1388 7.224753 ACCTATTCAACACGCACAAAGATATAG 59.775 37.037 0.00 0.00 0.00 1.31
691 1477 1.428448 GTGTATCACGAGCAGCAACA 58.572 50.000 0.00 0.00 0.00 3.33
954 1876 3.068448 TGCGGTACTTGACTCAACTTGTA 59.932 43.478 0.00 0.00 0.00 2.41
1009 1934 1.423794 ATGGTGGGTTCTTCGGTGGT 61.424 55.000 0.00 0.00 0.00 4.16
1184 2115 0.031585 CCTGTCGACGTTCACCTTGA 59.968 55.000 11.62 0.00 0.00 3.02
1219 2150 2.125106 GTCCCAGCCCGTCATGAC 60.125 66.667 16.21 16.21 0.00 3.06
1374 2305 1.350071 ACCAATTGCTCCATTTGCCA 58.650 45.000 0.00 0.00 0.00 4.92
1395 2326 1.071814 GACCACAAACGCCAGGGTA 59.928 57.895 0.00 0.00 30.55 3.69
1471 2408 5.372343 AGACTGTCATGTATTATTGGCCA 57.628 39.130 0.00 0.00 0.00 5.36
1488 2425 1.027357 GTTGCATGCCCCATAGACTG 58.973 55.000 16.68 0.00 0.00 3.51
1504 2444 0.524862 GCCATTCTCAGCAGTGGTTG 59.475 55.000 0.00 0.00 34.23 3.77
1874 2852 7.703621 CCAACAATGAGCTCGATTTGAAATAAT 59.296 33.333 22.97 0.86 0.00 1.28
1942 2923 7.533083 ACAGGACCTACTAGGCTATGTAATTA 58.467 38.462 1.55 0.00 39.63 1.40
2012 3014 3.460825 AGGAGCTACAAATGGACCCTTA 58.539 45.455 0.00 0.00 0.00 2.69
2099 3129 2.238898 CCCTCAACCCCTTTTATCGAGT 59.761 50.000 0.00 0.00 0.00 4.18
2101 3131 2.504175 CTCCCTCAACCCCTTTTATCGA 59.496 50.000 0.00 0.00 0.00 3.59
2103 3133 2.850568 TCCTCCCTCAACCCCTTTTATC 59.149 50.000 0.00 0.00 0.00 1.75
2149 3180 6.041523 GGAGAGAGCCAAATAGAGTCATAAGT 59.958 42.308 0.00 0.00 0.00 2.24
2151 3182 6.139671 AGGAGAGAGCCAAATAGAGTCATAA 58.860 40.000 0.00 0.00 0.00 1.90
2394 3506 1.940613 CGGATTTTCCCATCTTCGTCC 59.059 52.381 0.00 0.00 31.13 4.79
2403 3515 0.893270 CAGTGGTGCGGATTTTCCCA 60.893 55.000 0.00 0.00 31.13 4.37
2481 3593 1.340211 CCCCACATGCATGGCAAAATT 60.340 47.619 29.41 4.72 43.62 1.82
2545 3658 1.234821 TTGCACCGTCCTTTCATGAC 58.765 50.000 0.00 0.00 0.00 3.06
2613 3727 9.063615 AGTCATACCGTTTGATAATATTTTCCC 57.936 33.333 0.00 0.00 0.00 3.97
2701 3820 9.872757 AAAACTACTACGACATGTAAAAATGTG 57.127 29.630 0.00 0.00 40.87 3.21
2903 4393 6.994221 TCTCTTCTTTTATTTCAGAGGTCGT 58.006 36.000 0.00 0.00 33.18 4.34
3034 4536 2.172082 GGTACAAACTCCATACCTCCCC 59.828 54.545 0.00 0.00 36.26 4.81
3174 4845 0.179936 CCTCTCTGAGCCCCATTGAC 59.820 60.000 0.00 0.00 0.00 3.18
3214 4885 2.280628 GGGTGGTGACGATCTCAAATC 58.719 52.381 0.00 0.00 0.00 2.17
3266 4937 5.417580 GGTATAACTGAAATTTGGAGTGCCA 59.582 40.000 0.00 0.00 44.17 4.92
3317 4988 9.883142 AAAATGTTATCAGTGTTTCCAAAGAAA 57.117 25.926 0.00 0.00 39.70 2.52
3325 4996 7.352739 AGTGACGAAAATGTTATCAGTGTTTC 58.647 34.615 0.00 0.00 0.00 2.78
3421 5094 5.309323 TCAAACGCTGATGATTAAAAGGG 57.691 39.130 0.00 0.00 0.00 3.95
3437 5110 3.561503 GGAAACGGGAAGAAATCAAACG 58.438 45.455 0.00 0.00 0.00 3.60
3462 5143 4.077822 GCTAGCCATCTTATTGCTGGAAT 58.922 43.478 2.29 0.00 35.84 3.01
4039 5942 4.136796 GTGCATAGATGTAGCCATGGAAA 58.863 43.478 18.40 0.00 0.00 3.13
4065 5970 6.623986 GCGCTACTATATCTCTTGTGCTACAT 60.624 42.308 0.00 0.00 0.00 2.29
4070 5975 3.902150 TGCGCTACTATATCTCTTGTGC 58.098 45.455 9.73 0.00 0.00 4.57
4210 6191 6.246420 ACATATTCTAAAATCATGCGAGGC 57.754 37.500 0.00 0.00 0.00 4.70
4313 6295 1.305549 CCTGGGGCCTTGCTTGATT 60.306 57.895 0.84 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.