Multiple sequence alignment - TraesCS7A01G196900

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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 TraesCS7A01G196900 chr7A 100.000 3475 0 0 1 3475 156568496 156565022 0.000000e+00 6418.0
1 TraesCS7A01G196900 chr7A 80.123 815 112 24 1833 2637 156560493 156559719 2.340000e-156 562.0
2 TraesCS7A01G196900 chr7A 97.436 78 2 0 103 180 156568474 156568397 2.180000e-27 134.0
3 TraesCS7A01G196900 chr7D 94.275 2463 100 20 856 3284 154643871 154646326 0.000000e+00 3729.0
4 TraesCS7A01G196900 chr7D 90.369 488 36 9 193 671 154642153 154642638 6.330000e-177 630.0
5 TraesCS7A01G196900 chr7D 86.704 534 34 14 2972 3468 154646337 154646870 3.030000e-155 558.0
6 TraesCS7A01G196900 chr7D 82.549 510 72 11 2089 2594 154915045 154915541 1.920000e-117 433.0
7 TraesCS7A01G196900 chr7D 91.429 70 5 1 2005 2074 154914985 154915053 1.030000e-15 95.3
8 TraesCS7A01G196900 chr7D 89.855 69 6 1 3408 3475 601998054 601997986 1.720000e-13 87.9
9 TraesCS7A01G196900 chr7B 93.565 1989 107 11 1154 3133 117020133 117018157 0.000000e+00 2944.0
10 TraesCS7A01G196900 chr7B 83.165 891 108 17 1688 2565 116796628 116795767 0.000000e+00 776.0
11 TraesCS7A01G196900 chr7B 92.593 405 17 4 268 669 117022036 117021642 1.400000e-158 569.0
12 TraesCS7A01G196900 chr7B 94.485 272 10 2 888 1159 117020509 117020243 6.940000e-112 414.0
13 TraesCS7A01G196900 chr7B 89.109 101 8 3 1 100 117022159 117022061 4.710000e-24 122.0
14 TraesCS7A01G196900 chr7B 89.189 74 5 3 3405 3475 685378093 685378020 4.780000e-14 89.8
15 TraesCS7A01G196900 chr1D 90.411 73 5 2 3404 3475 416845228 416845157 1.030000e-15 95.3
16 TraesCS7A01G196900 chr1A 91.304 69 5 1 3408 3475 514139144 514139076 3.690000e-15 93.5
17 TraesCS7A01G196900 chr4D 89.855 69 6 1 3408 3475 310115564 310115632 1.720000e-13 87.9
18 TraesCS7A01G196900 chr4D 86.486 74 7 3 3403 3473 324234331 324234404 1.030000e-10 78.7
19 TraesCS7A01G196900 chr4D 96.970 33 1 0 2804 2836 316527791 316527823 4.850000e-04 56.5
20 TraesCS7A01G196900 chr4B 86.486 74 8 2 3404 3475 404777473 404777546 2.880000e-11 80.5
21 TraesCS7A01G196900 chr4B 96.970 33 1 0 2804 2836 394105251 394105283 4.850000e-04 56.5
22 TraesCS7A01G196900 chr2A 100.000 33 0 0 2797 2829 280610628 280610596 1.040000e-05 62.1
23 TraesCS7A01G196900 chr4A 97.059 34 1 0 2804 2837 158188571 158188538 1.350000e-04 58.4
24 TraesCS7A01G196900 chr2D 96.970 33 1 0 2797 2829 509940549 509940517 4.850000e-04 56.5


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 TraesCS7A01G196900 chr7A 156565022 156568496 3474 True 3276.00 6418 98.718000 1 3475 2 chr7A.!!$R2 3474
1 TraesCS7A01G196900 chr7A 156559719 156560493 774 True 562.00 562 80.123000 1833 2637 1 chr7A.!!$R1 804
2 TraesCS7A01G196900 chr7D 154642153 154646870 4717 False 1639.00 3729 90.449333 193 3468 3 chr7D.!!$F1 3275
3 TraesCS7A01G196900 chr7D 154914985 154915541 556 False 264.15 433 86.989000 2005 2594 2 chr7D.!!$F2 589
4 TraesCS7A01G196900 chr7B 117018157 117022159 4002 True 1012.25 2944 92.438000 1 3133 4 chr7B.!!$R3 3132
5 TraesCS7A01G196900 chr7B 116795767 116796628 861 True 776.00 776 83.165000 1688 2565 1 chr7B.!!$R1 877

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
934 2314 0.03659 TGGCAACACATCTGCTAGCA 59.963 50.0 18.22 18.22 46.17 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2664 4178 1.409427 GGAGGGAGTATCGTCCTGTTG 59.591 57.143 0.0 0.0 38.33 3.33 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
46 48 1.594021 GCTGGGGGCGTTTTGTTTG 60.594 57.895 0.00 0.00 0.00 2.93
78 80 7.043590 GCTATATGTACCAAACTCGTACTTGTG 60.044 40.741 0.00 0.00 37.55 3.33
79 81 3.125316 TGTACCAAACTCGTACTTGTGC 58.875 45.455 0.00 0.00 37.55 4.57
80 82 2.614829 ACCAAACTCGTACTTGTGCT 57.385 45.000 0.00 0.00 0.00 4.40
81 83 2.480845 ACCAAACTCGTACTTGTGCTC 58.519 47.619 0.00 0.00 0.00 4.26
82 84 2.102588 ACCAAACTCGTACTTGTGCTCT 59.897 45.455 0.00 0.00 0.00 4.09
83 85 3.319972 ACCAAACTCGTACTTGTGCTCTA 59.680 43.478 0.00 0.00 0.00 2.43
84 86 3.673809 CCAAACTCGTACTTGTGCTCTAC 59.326 47.826 0.00 0.00 0.00 2.59
85 87 3.572604 AACTCGTACTTGTGCTCTACC 57.427 47.619 0.00 0.00 0.00 3.18
86 88 1.467734 ACTCGTACTTGTGCTCTACCG 59.532 52.381 0.00 0.00 0.00 4.02
87 89 0.169672 TCGTACTTGTGCTCTACCGC 59.830 55.000 0.00 0.00 0.00 5.68
88 90 0.170561 CGTACTTGTGCTCTACCGCT 59.829 55.000 0.00 0.00 0.00 5.52
89 91 1.399440 CGTACTTGTGCTCTACCGCTA 59.601 52.381 0.00 0.00 0.00 4.26
90 92 2.539142 CGTACTTGTGCTCTACCGCTAG 60.539 54.545 0.00 0.00 0.00 3.42
91 93 1.835494 ACTTGTGCTCTACCGCTAGA 58.165 50.000 0.00 0.00 0.00 2.43
92 94 2.379972 ACTTGTGCTCTACCGCTAGAT 58.620 47.619 0.00 0.00 0.00 1.98
93 95 2.761208 ACTTGTGCTCTACCGCTAGATT 59.239 45.455 0.00 0.00 0.00 2.40
94 96 2.871182 TGTGCTCTACCGCTAGATTG 57.129 50.000 0.00 0.00 0.00 2.67
95 97 1.202417 TGTGCTCTACCGCTAGATTGC 60.202 52.381 0.00 0.00 0.00 3.56
96 98 0.389391 TGCTCTACCGCTAGATTGCC 59.611 55.000 0.00 0.00 0.00 4.52
97 99 0.319986 GCTCTACCGCTAGATTGCCC 60.320 60.000 0.00 0.00 0.00 5.36
98 100 1.040646 CTCTACCGCTAGATTGCCCA 58.959 55.000 0.00 0.00 0.00 5.36
99 101 0.750850 TCTACCGCTAGATTGCCCAC 59.249 55.000 0.00 0.00 0.00 4.61
100 102 0.753262 CTACCGCTAGATTGCCCACT 59.247 55.000 0.00 0.00 0.00 4.00
101 103 1.139058 CTACCGCTAGATTGCCCACTT 59.861 52.381 0.00 0.00 0.00 3.16
102 104 0.328258 ACCGCTAGATTGCCCACTTT 59.672 50.000 0.00 0.00 0.00 2.66
103 105 1.271926 ACCGCTAGATTGCCCACTTTT 60.272 47.619 0.00 0.00 0.00 2.27
104 106 1.818674 CCGCTAGATTGCCCACTTTTT 59.181 47.619 0.00 0.00 0.00 1.94
120 122 3.635510 TTTTTGCTGGGGGCGTTT 58.364 50.000 0.00 0.00 45.43 3.60
121 123 1.908483 TTTTTGCTGGGGGCGTTTT 59.092 47.368 0.00 0.00 45.43 2.43
122 124 0.462759 TTTTTGCTGGGGGCGTTTTG 60.463 50.000 0.00 0.00 45.43 2.44
123 125 1.617947 TTTTGCTGGGGGCGTTTTGT 61.618 50.000 0.00 0.00 45.43 2.83
124 126 1.617947 TTTGCTGGGGGCGTTTTGTT 61.618 50.000 0.00 0.00 45.43 2.83
125 127 1.617947 TTGCTGGGGGCGTTTTGTTT 61.618 50.000 0.00 0.00 45.43 2.83
126 128 1.594021 GCTGGGGGCGTTTTGTTTG 60.594 57.895 0.00 0.00 0.00 2.93
127 129 1.594021 CTGGGGGCGTTTTGTTTGC 60.594 57.895 0.00 0.00 0.00 3.68
128 130 2.026945 CTGGGGGCGTTTTGTTTGCT 62.027 55.000 0.00 0.00 0.00 3.91
129 131 1.145156 GGGGGCGTTTTGTTTGCTT 59.855 52.632 0.00 0.00 0.00 3.91
130 132 0.462937 GGGGGCGTTTTGTTTGCTTT 60.463 50.000 0.00 0.00 0.00 3.51
131 133 1.374560 GGGGCGTTTTGTTTGCTTTT 58.625 45.000 0.00 0.00 0.00 2.27
132 134 1.063321 GGGGCGTTTTGTTTGCTTTTG 59.937 47.619 0.00 0.00 0.00 2.44
150 152 6.192360 GCTTTTGCTATATGTACCAAACTCG 58.808 40.000 0.00 0.00 43.35 4.18
151 153 6.183360 GCTTTTGCTATATGTACCAAACTCGT 60.183 38.462 0.00 0.00 43.35 4.18
152 154 7.010738 GCTTTTGCTATATGTACCAAACTCGTA 59.989 37.037 0.00 0.00 43.35 3.43
153 155 8.774890 TTTTGCTATATGTACCAAACTCGTAA 57.225 30.769 0.00 0.00 0.00 3.18
154 156 8.951787 TTTGCTATATGTACCAAACTCGTAAT 57.048 30.769 0.00 0.00 0.00 1.89
155 157 8.951787 TTGCTATATGTACCAAACTCGTAATT 57.048 30.769 0.00 0.00 0.00 1.40
156 158 8.360325 TGCTATATGTACCAAACTCGTAATTG 57.640 34.615 0.00 0.00 0.00 2.32
157 159 7.982919 TGCTATATGTACCAAACTCGTAATTGT 59.017 33.333 0.00 0.00 0.00 2.71
184 186 1.944778 GCTAGATTGCGCACATCCC 59.055 57.895 11.12 4.92 0.00 3.85
198 200 4.081972 CGCACATCCCTATAGCTATTCTGT 60.082 45.833 12.39 6.11 0.00 3.41
214 216 7.662897 GCTATTCTGTTAGCTATTCTACTGGT 58.337 38.462 0.00 0.00 41.15 4.00
215 217 7.596995 GCTATTCTGTTAGCTATTCTACTGGTG 59.403 40.741 0.00 0.00 41.15 4.17
216 218 6.852420 TTCTGTTAGCTATTCTACTGGTGT 57.148 37.500 0.00 0.00 0.00 4.16
217 219 6.208988 TCTGTTAGCTATTCTACTGGTGTG 57.791 41.667 0.00 0.00 0.00 3.82
218 220 5.715279 TCTGTTAGCTATTCTACTGGTGTGT 59.285 40.000 0.00 0.00 0.00 3.72
219 221 5.720202 TGTTAGCTATTCTACTGGTGTGTG 58.280 41.667 0.00 0.00 0.00 3.82
220 222 5.245301 TGTTAGCTATTCTACTGGTGTGTGT 59.755 40.000 0.00 0.00 0.00 3.72
221 223 4.193826 AGCTATTCTACTGGTGTGTGTG 57.806 45.455 0.00 0.00 0.00 3.82
222 224 2.673368 GCTATTCTACTGGTGTGTGTGC 59.327 50.000 0.00 0.00 0.00 4.57
223 225 3.617531 GCTATTCTACTGGTGTGTGTGCT 60.618 47.826 0.00 0.00 0.00 4.40
224 226 2.238942 TTCTACTGGTGTGTGTGCTG 57.761 50.000 0.00 0.00 0.00 4.41
225 227 0.392706 TCTACTGGTGTGTGTGCTGG 59.607 55.000 0.00 0.00 0.00 4.85
226 228 0.106708 CTACTGGTGTGTGTGCTGGT 59.893 55.000 0.00 0.00 0.00 4.00
227 229 1.343142 CTACTGGTGTGTGTGCTGGTA 59.657 52.381 0.00 0.00 0.00 3.25
228 230 0.106708 ACTGGTGTGTGTGCTGGTAG 59.893 55.000 0.00 0.00 0.00 3.18
229 231 1.227823 TGGTGTGTGTGCTGGTAGC 60.228 57.895 0.00 0.00 42.82 3.58
240 242 2.262572 GCTGGTAGCAAATGGAAACG 57.737 50.000 0.00 0.00 41.89 3.60
241 243 1.135402 GCTGGTAGCAAATGGAAACGG 60.135 52.381 0.00 0.00 41.89 4.44
242 244 2.159382 CTGGTAGCAAATGGAAACGGT 58.841 47.619 0.00 0.00 0.00 4.83
243 245 2.156098 TGGTAGCAAATGGAAACGGTC 58.844 47.619 0.00 0.00 0.00 4.79
244 246 2.156098 GGTAGCAAATGGAAACGGTCA 58.844 47.619 0.00 0.00 0.00 4.02
245 247 2.554893 GGTAGCAAATGGAAACGGTCAA 59.445 45.455 0.00 0.00 0.00 3.18
246 248 3.004944 GGTAGCAAATGGAAACGGTCAAA 59.995 43.478 0.00 0.00 0.00 2.69
247 249 3.369546 AGCAAATGGAAACGGTCAAAG 57.630 42.857 0.00 0.00 0.00 2.77
248 250 2.955660 AGCAAATGGAAACGGTCAAAGA 59.044 40.909 0.00 0.00 0.00 2.52
249 251 3.383185 AGCAAATGGAAACGGTCAAAGAA 59.617 39.130 0.00 0.00 0.00 2.52
250 252 4.039124 AGCAAATGGAAACGGTCAAAGAAT 59.961 37.500 0.00 0.00 0.00 2.40
251 253 4.150451 GCAAATGGAAACGGTCAAAGAATG 59.850 41.667 0.00 0.00 0.00 2.67
252 254 4.519540 AATGGAAACGGTCAAAGAATGG 57.480 40.909 0.00 0.00 0.00 3.16
253 255 2.938838 TGGAAACGGTCAAAGAATGGT 58.061 42.857 0.00 0.00 0.00 3.55
254 256 2.621055 TGGAAACGGTCAAAGAATGGTG 59.379 45.455 0.00 0.00 0.00 4.17
255 257 2.030274 GGAAACGGTCAAAGAATGGTGG 60.030 50.000 0.00 0.00 0.00 4.61
256 258 0.958822 AACGGTCAAAGAATGGTGGC 59.041 50.000 0.00 0.00 0.00 5.01
257 259 0.110486 ACGGTCAAAGAATGGTGGCT 59.890 50.000 0.00 0.00 0.00 4.75
258 260 1.349688 ACGGTCAAAGAATGGTGGCTA 59.650 47.619 0.00 0.00 0.00 3.93
259 261 2.026262 ACGGTCAAAGAATGGTGGCTAT 60.026 45.455 0.00 0.00 0.00 2.97
260 262 2.614057 CGGTCAAAGAATGGTGGCTATC 59.386 50.000 0.00 0.00 0.00 2.08
261 263 2.952310 GGTCAAAGAATGGTGGCTATCC 59.048 50.000 0.00 0.00 0.00 2.59
262 264 3.620488 GTCAAAGAATGGTGGCTATCCA 58.380 45.455 0.00 0.00 40.85 3.41
275 277 5.957771 TGGCTATCCACTTCTTCTAATGT 57.042 39.130 0.00 0.00 37.47 2.71
316 318 1.644786 GACGGTCAAAGAATGGCGGG 61.645 60.000 2.62 0.00 38.21 6.13
324 388 3.882888 TCAAAGAATGGCGGGTATCAATC 59.117 43.478 0.00 0.00 0.00 2.67
378 443 1.767759 TCCATCGTCATGCTCTCTCA 58.232 50.000 0.00 0.00 0.00 3.27
597 667 7.970384 TGTTTATAATCTTGTAACGCTCCTTG 58.030 34.615 0.00 0.00 0.00 3.61
650 721 8.233692 TCCGTTTTGAAAAATGTATATTGTGC 57.766 30.769 6.91 0.00 33.99 4.57
680 802 8.706322 ACTTTCAATTGTACTATCCCTTTTGT 57.294 30.769 5.13 0.00 0.00 2.83
697 819 8.877195 TCCCTTTTGTCATTCCTACTATATACC 58.123 37.037 0.00 0.00 0.00 2.73
711 842 8.251721 CCTACTATATACCAAACATGACCTAGC 58.748 40.741 0.00 0.00 0.00 3.42
717 848 2.159198 CCAAACATGACCTAGCATTGCC 60.159 50.000 4.70 0.00 0.00 4.52
721 852 2.105477 ACATGACCTAGCATTGCCCTAG 59.895 50.000 4.70 1.52 33.64 3.02
727 858 3.209410 CCTAGCATTGCCCTAGACTTTG 58.791 50.000 4.70 0.00 35.41 2.77
744 875 4.879598 ACTTTGTAGGTTACGTGAAGGAG 58.120 43.478 0.00 0.00 0.00 3.69
745 876 3.947910 TTGTAGGTTACGTGAAGGAGG 57.052 47.619 0.00 0.00 0.00 4.30
746 877 3.159213 TGTAGGTTACGTGAAGGAGGA 57.841 47.619 0.00 0.00 0.00 3.71
747 878 2.821969 TGTAGGTTACGTGAAGGAGGAC 59.178 50.000 0.00 0.00 0.00 3.85
748 879 2.005370 AGGTTACGTGAAGGAGGACA 57.995 50.000 0.00 0.00 0.00 4.02
750 881 2.496470 AGGTTACGTGAAGGAGGACATC 59.504 50.000 0.00 0.00 0.00 3.06
752 883 3.698040 GGTTACGTGAAGGAGGACATCTA 59.302 47.826 0.00 0.00 0.00 1.98
753 884 4.341520 GGTTACGTGAAGGAGGACATCTAT 59.658 45.833 0.00 0.00 0.00 1.98
754 885 5.533903 GGTTACGTGAAGGAGGACATCTATA 59.466 44.000 0.00 0.00 0.00 1.31
755 886 6.437094 GTTACGTGAAGGAGGACATCTATAC 58.563 44.000 0.00 0.00 0.00 1.47
756 887 4.794334 ACGTGAAGGAGGACATCTATACT 58.206 43.478 0.00 0.00 0.00 2.12
757 888 5.938279 ACGTGAAGGAGGACATCTATACTA 58.062 41.667 0.00 0.00 0.00 1.82
758 889 5.998981 ACGTGAAGGAGGACATCTATACTAG 59.001 44.000 0.00 0.00 0.00 2.57
759 890 5.413213 CGTGAAGGAGGACATCTATACTAGG 59.587 48.000 0.00 0.00 0.00 3.02
760 891 6.308566 GTGAAGGAGGACATCTATACTAGGT 58.691 44.000 0.00 0.00 0.00 3.08
761 892 6.778559 GTGAAGGAGGACATCTATACTAGGTT 59.221 42.308 0.00 0.00 0.00 3.50
762 893 7.005296 TGAAGGAGGACATCTATACTAGGTTC 58.995 42.308 0.00 0.00 0.00 3.62
763 894 6.532119 AGGAGGACATCTATACTAGGTTCA 57.468 41.667 0.00 0.00 0.00 3.18
764 895 7.109901 AGGAGGACATCTATACTAGGTTCAT 57.890 40.000 0.00 0.00 0.00 2.57
765 896 7.540183 AGGAGGACATCTATACTAGGTTCATT 58.460 38.462 0.00 0.00 0.00 2.57
766 897 7.453126 AGGAGGACATCTATACTAGGTTCATTG 59.547 40.741 0.00 0.00 0.00 2.82
767 898 7.310113 GGAGGACATCTATACTAGGTTCATTGG 60.310 44.444 0.00 0.00 0.00 3.16
768 899 6.014156 AGGACATCTATACTAGGTTCATTGGC 60.014 42.308 0.00 0.00 0.00 4.52
769 900 6.239600 GGACATCTATACTAGGTTCATTGGCA 60.240 42.308 0.00 0.00 0.00 4.92
770 901 6.763355 ACATCTATACTAGGTTCATTGGCAG 58.237 40.000 0.00 0.00 0.00 4.85
771 902 6.554982 ACATCTATACTAGGTTCATTGGCAGA 59.445 38.462 0.00 0.00 0.00 4.26
772 903 7.071196 ACATCTATACTAGGTTCATTGGCAGAA 59.929 37.037 0.00 0.00 0.00 3.02
773 904 7.432148 TCTATACTAGGTTCATTGGCAGAAA 57.568 36.000 0.00 0.00 0.00 2.52
774 905 7.857456 TCTATACTAGGTTCATTGGCAGAAAA 58.143 34.615 0.00 0.00 0.00 2.29
775 906 8.494433 TCTATACTAGGTTCATTGGCAGAAAAT 58.506 33.333 0.00 0.00 0.00 1.82
776 907 9.778741 CTATACTAGGTTCATTGGCAGAAAATA 57.221 33.333 0.00 0.00 0.00 1.40
778 909 7.396540 ACTAGGTTCATTGGCAGAAAATAAG 57.603 36.000 0.00 0.00 0.00 1.73
779 910 5.665916 AGGTTCATTGGCAGAAAATAAGG 57.334 39.130 0.00 0.00 0.00 2.69
780 911 5.332743 AGGTTCATTGGCAGAAAATAAGGA 58.667 37.500 0.00 0.00 0.00 3.36
781 912 5.185828 AGGTTCATTGGCAGAAAATAAGGAC 59.814 40.000 0.00 0.00 0.00 3.85
782 913 5.410924 GTTCATTGGCAGAAAATAAGGACC 58.589 41.667 0.00 0.00 0.00 4.46
783 914 4.671831 TCATTGGCAGAAAATAAGGACCA 58.328 39.130 0.00 0.00 0.00 4.02
784 915 5.083122 TCATTGGCAGAAAATAAGGACCAA 58.917 37.500 0.00 0.00 39.79 3.67
785 916 4.864704 TTGGCAGAAAATAAGGACCAAC 57.135 40.909 0.00 0.00 31.05 3.77
786 917 3.161866 TGGCAGAAAATAAGGACCAACC 58.838 45.455 0.00 0.00 39.35 3.77
787 918 3.161866 GGCAGAAAATAAGGACCAACCA 58.838 45.455 0.00 0.00 42.04 3.67
788 919 3.576550 GGCAGAAAATAAGGACCAACCAA 59.423 43.478 0.00 0.00 42.04 3.67
789 920 4.222810 GGCAGAAAATAAGGACCAACCAAT 59.777 41.667 0.00 0.00 42.04 3.16
790 921 5.170748 GCAGAAAATAAGGACCAACCAATG 58.829 41.667 0.00 0.00 42.04 2.82
791 922 5.279456 GCAGAAAATAAGGACCAACCAATGT 60.279 40.000 0.00 0.00 42.04 2.71
792 923 6.071616 GCAGAAAATAAGGACCAACCAATGTA 60.072 38.462 0.00 0.00 42.04 2.29
793 924 7.312899 CAGAAAATAAGGACCAACCAATGTAC 58.687 38.462 0.00 0.00 42.04 2.90
794 925 6.436218 AGAAAATAAGGACCAACCAATGTACC 59.564 38.462 0.00 0.00 42.04 3.34
795 926 5.530176 AATAAGGACCAACCAATGTACCT 57.470 39.130 0.00 0.00 42.04 3.08
796 927 6.645884 AATAAGGACCAACCAATGTACCTA 57.354 37.500 0.00 0.00 42.04 3.08
797 928 6.841781 ATAAGGACCAACCAATGTACCTAT 57.158 37.500 0.00 0.00 42.04 2.57
798 929 4.503714 AGGACCAACCAATGTACCTATG 57.496 45.455 0.00 0.00 42.04 2.23
799 930 3.850173 AGGACCAACCAATGTACCTATGT 59.150 43.478 0.00 0.00 42.04 2.29
800 931 4.291249 AGGACCAACCAATGTACCTATGTT 59.709 41.667 0.00 0.00 42.04 2.71
801 932 4.638865 GGACCAACCAATGTACCTATGTTC 59.361 45.833 0.00 0.00 38.79 3.18
802 933 5.497474 GACCAACCAATGTACCTATGTTCT 58.503 41.667 0.00 0.00 0.00 3.01
803 934 5.497474 ACCAACCAATGTACCTATGTTCTC 58.503 41.667 0.00 0.00 0.00 2.87
845 2071 7.924358 AATTGTATACCCATGTGTAGTAGGA 57.076 36.000 0.00 0.00 0.00 2.94
847 2073 6.022107 TGTATACCCATGTGTAGTAGGAGT 57.978 41.667 0.00 0.00 0.00 3.85
850 2076 4.604784 ACCCATGTGTAGTAGGAGTAGT 57.395 45.455 0.00 0.00 0.00 2.73
851 2077 4.944177 ACCCATGTGTAGTAGGAGTAGTT 58.056 43.478 0.00 0.00 0.00 2.24
852 2078 4.710375 ACCCATGTGTAGTAGGAGTAGTTG 59.290 45.833 0.00 0.00 0.00 3.16
879 2128 1.972872 ACTCCAACCTCTTGTGCAAG 58.027 50.000 5.63 5.63 39.71 4.01
883 2132 1.808945 CCAACCTCTTGTGCAAGCTAG 59.191 52.381 7.03 1.21 38.28 3.42
934 2314 0.036590 TGGCAACACATCTGCTAGCA 59.963 50.000 18.22 18.22 46.17 3.49
935 2315 1.340308 TGGCAACACATCTGCTAGCAT 60.340 47.619 19.72 0.28 46.17 3.79
936 2316 2.093021 TGGCAACACATCTGCTAGCATA 60.093 45.455 19.72 12.17 46.17 3.14
937 2317 3.144506 GGCAACACATCTGCTAGCATAT 58.855 45.455 19.72 14.22 39.82 1.78
1102 2482 3.664107 TGAAGAAATAACTCACAGCGCT 58.336 40.909 2.64 2.64 0.00 5.92
1150 2530 1.720781 ATGCTGCCCTTGTTTCCTTT 58.279 45.000 0.00 0.00 0.00 3.11
1151 2531 2.373335 TGCTGCCCTTGTTTCCTTTA 57.627 45.000 0.00 0.00 0.00 1.85
1183 2678 0.684535 TCGACATTTCTGGCTCACCA 59.315 50.000 0.00 0.00 46.51 4.17
1205 2700 5.337571 CCAGAGCTGGTTACACTTTCTATCA 60.338 44.000 8.38 0.00 45.53 2.15
1262 2757 7.581213 TTTACCAGAAGAAAGCTTTGATTCA 57.419 32.000 24.83 10.13 33.61 2.57
1263 2758 7.581213 TTACCAGAAGAAAGCTTTGATTCAA 57.419 32.000 24.83 13.87 33.61 2.69
1421 2916 1.610038 CTGCAACCATGACAAGCTTCA 59.390 47.619 0.00 0.00 0.00 3.02
1432 2927 1.250328 CAAGCTTCATGGCAACCTCA 58.750 50.000 0.00 0.00 34.17 3.86
1464 2959 5.363939 CAAGTCTTCCTCAATGATCTACCC 58.636 45.833 0.00 0.00 0.00 3.69
1522 3017 5.376625 AGCAGTTCAAGGAGTCAATTACAA 58.623 37.500 0.00 0.00 0.00 2.41
1608 3103 3.181506 CCAAGCTTTTTCCTCGTCATAGC 60.182 47.826 0.00 0.00 0.00 2.97
1681 3176 2.162681 ACTGGCAAGCCACAGTTTATC 58.837 47.619 10.24 0.00 45.03 1.75
1728 3223 6.833041 TCAAGGTCCTACAACTATTGTTTGA 58.167 36.000 0.00 0.59 42.22 2.69
1774 3269 3.133901 TGCGGCCAAGAGAGAAATGTATA 59.866 43.478 2.24 0.00 0.00 1.47
2174 3673 2.374170 ACCCTTTTACGGTCCATCACTT 59.626 45.455 0.00 0.00 0.00 3.16
2177 3676 3.937079 CCTTTTACGGTCCATCACTTACC 59.063 47.826 0.00 0.00 0.00 2.85
2226 3732 6.873997 AGTGGACTATTCGACATAAATCACA 58.126 36.000 0.00 0.00 33.03 3.58
2354 3861 0.555769 TGGAGCCCCTTTTCACAAGT 59.444 50.000 0.00 0.00 0.00 3.16
2539 4051 9.868160 TCTCTCTATGAACTTAATCATCTACCA 57.132 33.333 0.00 0.00 40.44 3.25
2614 4127 1.071471 CCTCGGCTGTGTTCACCTT 59.929 57.895 0.37 0.00 0.00 3.50
2670 4184 8.362639 CCATATAAATTGGGAAGAATCAACAGG 58.637 37.037 0.00 0.00 0.00 4.00
2672 4186 5.728637 AAATTGGGAAGAATCAACAGGAC 57.271 39.130 0.00 0.00 0.00 3.85
2922 4438 6.211587 TGAGCAATAATAACTGCAGCATTT 57.788 33.333 15.27 7.23 41.17 2.32
3054 4926 2.487762 CCGTAGACATGCAACCAACAAT 59.512 45.455 0.00 0.00 0.00 2.71
3067 4939 6.092944 TGCAACCAACAATTACGTATAGAAGG 59.907 38.462 0.00 0.00 0.00 3.46
3134 5034 4.895889 CCAGAGAGAGAGAGAGAGAGAGTA 59.104 50.000 0.00 0.00 0.00 2.59
3135 5035 5.221342 CCAGAGAGAGAGAGAGAGAGAGTAC 60.221 52.000 0.00 0.00 0.00 2.73
3136 5036 4.896482 AGAGAGAGAGAGAGAGAGAGTACC 59.104 50.000 0.00 0.00 0.00 3.34
3137 5037 4.620723 AGAGAGAGAGAGAGAGAGTACCA 58.379 47.826 0.00 0.00 0.00 3.25
3138 5038 5.030147 AGAGAGAGAGAGAGAGAGTACCAA 58.970 45.833 0.00 0.00 0.00 3.67
3139 5039 5.099042 AGAGAGAGAGAGAGAGTACCAAC 57.901 47.826 0.00 0.00 0.00 3.77
3140 5040 4.080526 AGAGAGAGAGAGAGAGTACCAACC 60.081 50.000 0.00 0.00 0.00 3.77
3141 5041 3.589735 AGAGAGAGAGAGAGTACCAACCA 59.410 47.826 0.00 0.00 0.00 3.67
3144 5044 5.337788 AGAGAGAGAGAGTACCAACCATTT 58.662 41.667 0.00 0.00 0.00 2.32
3146 5046 6.954684 AGAGAGAGAGAGTACCAACCATTTTA 59.045 38.462 0.00 0.00 0.00 1.52
3147 5047 7.621683 AGAGAGAGAGAGTACCAACCATTTTAT 59.378 37.037 0.00 0.00 0.00 1.40
3148 5048 8.152023 AGAGAGAGAGTACCAACCATTTTATT 57.848 34.615 0.00 0.00 0.00 1.40
3149 5049 8.043710 AGAGAGAGAGTACCAACCATTTTATTG 58.956 37.037 0.00 0.00 0.00 1.90
3150 5050 7.918076 AGAGAGAGTACCAACCATTTTATTGA 58.082 34.615 0.00 0.00 0.00 2.57
3219 5120 2.558359 ACCTGTTGCCTTGCATTCTAAC 59.442 45.455 0.00 0.00 38.76 2.34
3255 5156 3.088532 TGTAGGTTCATGCATCCAAACC 58.911 45.455 20.25 20.25 41.20 3.27
3274 5175 6.262601 CAAACCTCACGTGTGTTAAAGAAAT 58.737 36.000 20.71 6.40 0.00 2.17
3278 5179 6.079763 CCTCACGTGTGTTAAAGAAATGATG 58.920 40.000 16.51 0.00 0.00 3.07
3311 5212 7.335924 GGCAGTTTATGATATTTATTAGCCGGA 59.664 37.037 5.05 0.00 0.00 5.14
3312 5213 8.893727 GCAGTTTATGATATTTATTAGCCGGAT 58.106 33.333 5.05 0.00 0.00 4.18
3315 5216 8.621286 GTTTATGATATTTATTAGCCGGATGGG 58.379 37.037 5.05 0.00 39.58 4.00
3381 5286 1.807226 CGTGGACGTGCTATCTGGA 59.193 57.895 8.99 0.00 34.11 3.86
3460 5366 4.953940 ATAATCAAGAGAGAGTGCCTCC 57.046 45.455 0.00 0.00 42.97 4.30
3468 5374 0.755698 GAGAGTGCCTCCCGGATACA 60.756 60.000 0.73 0.00 35.87 2.29
3469 5375 0.325296 AGAGTGCCTCCCGGATACAA 60.325 55.000 0.73 0.00 0.00 2.41
3470 5376 0.759346 GAGTGCCTCCCGGATACAAT 59.241 55.000 0.73 0.00 0.00 2.71
3471 5377 0.759346 AGTGCCTCCCGGATACAATC 59.241 55.000 0.73 0.00 0.00 2.67
3472 5378 0.250338 GTGCCTCCCGGATACAATCC 60.250 60.000 0.73 0.00 46.22 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 2.804421 AGCAAAAGCAAACAAAACGC 57.196 40.000 0.00 0.00 0.00 4.84
36 37 7.104326 ACATATAGCAAAAGCAAACAAAACG 57.896 32.000 0.00 0.00 0.00 3.60
78 80 0.319986 GGGCAATCTAGCGGTAGAGC 60.320 60.000 26.58 23.73 38.73 4.09
79 81 1.040646 TGGGCAATCTAGCGGTAGAG 58.959 55.000 26.58 16.45 38.73 2.43
80 82 0.750850 GTGGGCAATCTAGCGGTAGA 59.249 55.000 25.23 25.23 39.70 2.59
81 83 0.753262 AGTGGGCAATCTAGCGGTAG 59.247 55.000 15.51 15.51 34.64 3.18
82 84 1.200519 AAGTGGGCAATCTAGCGGTA 58.799 50.000 0.00 0.00 34.64 4.02
83 85 0.328258 AAAGTGGGCAATCTAGCGGT 59.672 50.000 0.00 0.00 34.64 5.68
84 86 1.463674 AAAAGTGGGCAATCTAGCGG 58.536 50.000 0.00 0.00 34.64 5.52
103 105 0.462759 CAAAACGCCCCCAGCAAAAA 60.463 50.000 0.00 0.00 44.04 1.94
104 106 1.144936 CAAAACGCCCCCAGCAAAA 59.855 52.632 0.00 0.00 44.04 2.44
105 107 1.617947 AACAAAACGCCCCCAGCAAA 61.618 50.000 0.00 0.00 44.04 3.68
106 108 1.617947 AAACAAAACGCCCCCAGCAA 61.618 50.000 0.00 0.00 44.04 3.91
107 109 2.060980 AAACAAAACGCCCCCAGCA 61.061 52.632 0.00 0.00 44.04 4.41
108 110 1.594021 CAAACAAAACGCCCCCAGC 60.594 57.895 0.00 0.00 38.52 4.85
109 111 1.594021 GCAAACAAAACGCCCCCAG 60.594 57.895 0.00 0.00 0.00 4.45
110 112 1.617947 AAGCAAACAAAACGCCCCCA 61.618 50.000 0.00 0.00 0.00 4.96
111 113 0.462937 AAAGCAAACAAAACGCCCCC 60.463 50.000 0.00 0.00 0.00 5.40
112 114 1.063321 CAAAAGCAAACAAAACGCCCC 59.937 47.619 0.00 0.00 0.00 5.80
113 115 1.530852 GCAAAAGCAAACAAAACGCCC 60.531 47.619 0.00 0.00 0.00 6.13
114 116 1.396648 AGCAAAAGCAAACAAAACGCC 59.603 42.857 0.00 0.00 0.00 5.68
115 117 2.804421 AGCAAAAGCAAACAAAACGC 57.196 40.000 0.00 0.00 0.00 4.84
116 118 7.104326 ACATATAGCAAAAGCAAACAAAACG 57.896 32.000 0.00 0.00 0.00 3.60
117 119 8.432359 GGTACATATAGCAAAAGCAAACAAAAC 58.568 33.333 0.00 0.00 0.00 2.43
118 120 8.144478 TGGTACATATAGCAAAAGCAAACAAAA 58.856 29.630 0.00 0.00 35.87 2.44
119 121 7.661968 TGGTACATATAGCAAAAGCAAACAAA 58.338 30.769 0.00 0.00 35.87 2.83
120 122 7.220741 TGGTACATATAGCAAAAGCAAACAA 57.779 32.000 0.00 0.00 35.87 2.83
121 123 6.825944 TGGTACATATAGCAAAAGCAAACA 57.174 33.333 0.00 0.00 35.87 2.83
130 132 8.822855 CAATTACGAGTTTGGTACATATAGCAA 58.177 33.333 0.00 0.00 44.93 3.91
131 133 7.982919 ACAATTACGAGTTTGGTACATATAGCA 59.017 33.333 0.00 0.00 39.30 3.49
132 134 8.273557 CACAATTACGAGTTTGGTACATATAGC 58.726 37.037 0.00 0.00 39.30 2.97
133 135 8.273557 GCACAATTACGAGTTTGGTACATATAG 58.726 37.037 0.00 0.00 39.30 1.31
134 136 7.982919 AGCACAATTACGAGTTTGGTACATATA 59.017 33.333 0.00 0.00 39.30 0.86
135 137 6.821665 AGCACAATTACGAGTTTGGTACATAT 59.178 34.615 0.00 0.00 39.30 1.78
136 138 6.167685 AGCACAATTACGAGTTTGGTACATA 58.832 36.000 0.00 0.00 39.30 2.29
137 139 5.001232 AGCACAATTACGAGTTTGGTACAT 58.999 37.500 0.00 0.00 39.30 2.29
138 140 4.382291 AGCACAATTACGAGTTTGGTACA 58.618 39.130 0.00 0.00 0.00 2.90
139 141 4.689345 AGAGCACAATTACGAGTTTGGTAC 59.311 41.667 0.00 0.00 0.00 3.34
140 142 4.890088 AGAGCACAATTACGAGTTTGGTA 58.110 39.130 0.00 0.00 0.00 3.25
141 143 3.740115 AGAGCACAATTACGAGTTTGGT 58.260 40.909 0.00 0.00 0.00 3.67
142 144 4.092968 GGTAGAGCACAATTACGAGTTTGG 59.907 45.833 0.00 0.00 0.00 3.28
143 145 4.201589 CGGTAGAGCACAATTACGAGTTTG 60.202 45.833 0.00 0.00 0.00 2.93
144 146 3.924686 CGGTAGAGCACAATTACGAGTTT 59.075 43.478 0.00 0.00 0.00 2.66
145 147 3.508762 CGGTAGAGCACAATTACGAGTT 58.491 45.455 0.00 0.00 0.00 3.01
146 148 2.734492 GCGGTAGAGCACAATTACGAGT 60.734 50.000 0.00 0.00 37.05 4.18
147 149 1.852895 GCGGTAGAGCACAATTACGAG 59.147 52.381 0.00 0.00 37.05 4.18
148 150 1.475280 AGCGGTAGAGCACAATTACGA 59.525 47.619 0.00 0.00 40.15 3.43
149 151 1.922570 AGCGGTAGAGCACAATTACG 58.077 50.000 0.00 0.00 40.15 3.18
150 152 4.303086 TCTAGCGGTAGAGCACAATTAC 57.697 45.455 19.97 0.00 40.15 1.89
151 153 5.289595 CAATCTAGCGGTAGAGCACAATTA 58.710 41.667 26.58 3.64 38.73 1.40
152 154 4.122776 CAATCTAGCGGTAGAGCACAATT 58.877 43.478 26.58 13.86 38.73 2.32
153 155 3.722147 CAATCTAGCGGTAGAGCACAAT 58.278 45.455 26.58 8.72 38.73 2.71
154 156 2.738643 GCAATCTAGCGGTAGAGCACAA 60.739 50.000 26.58 5.76 38.73 3.33
155 157 1.202417 GCAATCTAGCGGTAGAGCACA 60.202 52.381 26.58 6.47 38.73 4.57
156 158 1.492720 GCAATCTAGCGGTAGAGCAC 58.507 55.000 26.58 15.41 38.73 4.40
157 159 3.967886 GCAATCTAGCGGTAGAGCA 57.032 52.632 26.58 7.20 38.73 4.26
176 178 5.413309 ACAGAATAGCTATAGGGATGTGC 57.587 43.478 6.68 0.00 0.00 4.57
198 200 5.720202 CACACACACCAGTAGAATAGCTAA 58.280 41.667 0.00 0.00 0.00 3.09
221 223 1.135402 CCGTTTCCATTTGCTACCAGC 60.135 52.381 0.00 0.00 42.82 4.85
222 224 2.159382 ACCGTTTCCATTTGCTACCAG 58.841 47.619 0.00 0.00 0.00 4.00
223 225 2.156098 GACCGTTTCCATTTGCTACCA 58.844 47.619 0.00 0.00 0.00 3.25
224 226 2.156098 TGACCGTTTCCATTTGCTACC 58.844 47.619 0.00 0.00 0.00 3.18
225 227 3.907894 TTGACCGTTTCCATTTGCTAC 57.092 42.857 0.00 0.00 0.00 3.58
226 228 4.138290 TCTTTGACCGTTTCCATTTGCTA 58.862 39.130 0.00 0.00 0.00 3.49
227 229 2.955660 TCTTTGACCGTTTCCATTTGCT 59.044 40.909 0.00 0.00 0.00 3.91
228 230 3.363341 TCTTTGACCGTTTCCATTTGC 57.637 42.857 0.00 0.00 0.00 3.68
229 231 4.685628 CCATTCTTTGACCGTTTCCATTTG 59.314 41.667 0.00 0.00 0.00 2.32
230 232 4.343814 ACCATTCTTTGACCGTTTCCATTT 59.656 37.500 0.00 0.00 0.00 2.32
231 233 3.895041 ACCATTCTTTGACCGTTTCCATT 59.105 39.130 0.00 0.00 0.00 3.16
232 234 3.255642 CACCATTCTTTGACCGTTTCCAT 59.744 43.478 0.00 0.00 0.00 3.41
233 235 2.621055 CACCATTCTTTGACCGTTTCCA 59.379 45.455 0.00 0.00 0.00 3.53
234 236 2.030274 CCACCATTCTTTGACCGTTTCC 60.030 50.000 0.00 0.00 0.00 3.13
235 237 2.607038 GCCACCATTCTTTGACCGTTTC 60.607 50.000 0.00 0.00 0.00 2.78
236 238 1.339929 GCCACCATTCTTTGACCGTTT 59.660 47.619 0.00 0.00 0.00 3.60
237 239 0.958822 GCCACCATTCTTTGACCGTT 59.041 50.000 0.00 0.00 0.00 4.44
238 240 0.110486 AGCCACCATTCTTTGACCGT 59.890 50.000 0.00 0.00 0.00 4.83
239 241 2.107950 TAGCCACCATTCTTTGACCG 57.892 50.000 0.00 0.00 0.00 4.79
240 242 2.952310 GGATAGCCACCATTCTTTGACC 59.048 50.000 0.00 0.00 0.00 4.02
241 243 3.620488 TGGATAGCCACCATTCTTTGAC 58.380 45.455 0.00 0.00 39.92 3.18
253 255 5.957771 ACATTAGAAGAAGTGGATAGCCA 57.042 39.130 0.00 0.00 43.47 4.75
254 256 6.116126 ACAACATTAGAAGAAGTGGATAGCC 58.884 40.000 0.00 0.00 0.00 3.93
255 257 7.010923 CAGACAACATTAGAAGAAGTGGATAGC 59.989 40.741 0.00 0.00 0.00 2.97
256 258 7.010923 GCAGACAACATTAGAAGAAGTGGATAG 59.989 40.741 0.00 0.00 0.00 2.08
257 259 6.818644 GCAGACAACATTAGAAGAAGTGGATA 59.181 38.462 0.00 0.00 0.00 2.59
258 260 5.645497 GCAGACAACATTAGAAGAAGTGGAT 59.355 40.000 0.00 0.00 0.00 3.41
259 261 4.997395 GCAGACAACATTAGAAGAAGTGGA 59.003 41.667 0.00 0.00 0.00 4.02
260 262 4.154918 GGCAGACAACATTAGAAGAAGTGG 59.845 45.833 0.00 0.00 0.00 4.00
261 263 4.143030 CGGCAGACAACATTAGAAGAAGTG 60.143 45.833 0.00 0.00 0.00 3.16
262 264 3.997021 CGGCAGACAACATTAGAAGAAGT 59.003 43.478 0.00 0.00 0.00 3.01
263 265 3.372206 CCGGCAGACAACATTAGAAGAAG 59.628 47.826 0.00 0.00 0.00 2.85
264 266 3.244422 ACCGGCAGACAACATTAGAAGAA 60.244 43.478 0.00 0.00 0.00 2.52
265 267 2.301870 ACCGGCAGACAACATTAGAAGA 59.698 45.455 0.00 0.00 0.00 2.87
266 268 2.699954 ACCGGCAGACAACATTAGAAG 58.300 47.619 0.00 0.00 0.00 2.85
267 269 2.811431 CAACCGGCAGACAACATTAGAA 59.189 45.455 0.00 0.00 0.00 2.10
268 270 2.422597 CAACCGGCAGACAACATTAGA 58.577 47.619 0.00 0.00 0.00 2.10
269 271 1.135689 GCAACCGGCAGACAACATTAG 60.136 52.381 0.00 0.00 43.97 1.73
270 272 0.878416 GCAACCGGCAGACAACATTA 59.122 50.000 0.00 0.00 43.97 1.90
271 273 1.659794 GCAACCGGCAGACAACATT 59.340 52.632 0.00 0.00 43.97 2.71
272 274 3.354678 GCAACCGGCAGACAACAT 58.645 55.556 0.00 0.00 43.97 2.71
291 293 2.939103 CCATTCTTTGACCGTCTCCATC 59.061 50.000 0.00 0.00 0.00 3.51
316 318 3.054361 ACCAACCTCCACAGGATTGATAC 60.054 47.826 0.00 0.00 43.65 2.24
324 388 1.073199 GACCACCAACCTCCACAGG 59.927 63.158 0.00 0.00 46.87 4.00
378 443 3.075882 TCATTCCAAGTCTCCCAAACCAT 59.924 43.478 0.00 0.00 0.00 3.55
391 456 4.568152 ACACGGTTTTCTTCATTCCAAG 57.432 40.909 0.00 0.00 0.00 3.61
432 501 2.477396 GTTTTAGAACCGGCGGCG 59.523 61.111 28.71 26.12 0.00 6.46
523 593 3.368116 GGCGTTACACAATCCTACTCACT 60.368 47.826 0.00 0.00 0.00 3.41
590 660 3.694566 ACCCGTTTCATTAATCAAGGAGC 59.305 43.478 0.00 0.00 0.00 4.70
597 667 9.251792 ACAAAAAGTTTACCCGTTTCATTAATC 57.748 29.630 0.00 0.00 0.00 1.75
650 721 6.761714 AGGGATAGTACAATTGAAAGTTAGCG 59.238 38.462 13.59 0.00 0.00 4.26
678 800 9.996554 CATGTTTGGTATATAGTAGGAATGACA 57.003 33.333 0.00 0.00 0.00 3.58
696 818 2.159198 GGCAATGCTAGGTCATGTTTGG 60.159 50.000 4.82 0.00 0.00 3.28
697 819 2.159198 GGGCAATGCTAGGTCATGTTTG 60.159 50.000 4.82 0.00 0.00 2.93
699 821 1.285962 AGGGCAATGCTAGGTCATGTT 59.714 47.619 4.82 0.00 0.00 2.71
711 842 4.222124 ACCTACAAAGTCTAGGGCAATG 57.778 45.455 0.00 0.00 35.87 2.82
717 848 5.633830 TCACGTAACCTACAAAGTCTAGG 57.366 43.478 0.00 0.00 37.40 3.02
721 852 4.874970 TCCTTCACGTAACCTACAAAGTC 58.125 43.478 0.00 0.00 0.00 3.01
727 858 2.821969 TGTCCTCCTTCACGTAACCTAC 59.178 50.000 0.00 0.00 0.00 3.18
744 875 6.166982 GCCAATGAACCTAGTATAGATGTCC 58.833 44.000 0.00 0.00 42.77 4.02
745 876 6.759272 TGCCAATGAACCTAGTATAGATGTC 58.241 40.000 0.00 0.00 42.77 3.06
746 877 6.554982 TCTGCCAATGAACCTAGTATAGATGT 59.445 38.462 0.00 0.00 42.77 3.06
747 878 6.997655 TCTGCCAATGAACCTAGTATAGATG 58.002 40.000 0.00 0.00 42.77 2.90
748 879 7.618019 TTCTGCCAATGAACCTAGTATAGAT 57.382 36.000 0.00 0.00 42.77 1.98
750 881 8.682936 ATTTTCTGCCAATGAACCTAGTATAG 57.317 34.615 0.00 0.00 38.80 1.31
752 883 9.125026 CTTATTTTCTGCCAATGAACCTAGTAT 57.875 33.333 0.00 0.00 0.00 2.12
753 884 7.556275 CCTTATTTTCTGCCAATGAACCTAGTA 59.444 37.037 0.00 0.00 0.00 1.82
754 885 6.378280 CCTTATTTTCTGCCAATGAACCTAGT 59.622 38.462 0.00 0.00 0.00 2.57
755 886 6.603201 TCCTTATTTTCTGCCAATGAACCTAG 59.397 38.462 0.00 0.00 0.00 3.02
756 887 6.377146 GTCCTTATTTTCTGCCAATGAACCTA 59.623 38.462 0.00 0.00 0.00 3.08
757 888 5.185828 GTCCTTATTTTCTGCCAATGAACCT 59.814 40.000 0.00 0.00 0.00 3.50
758 889 5.410924 GTCCTTATTTTCTGCCAATGAACC 58.589 41.667 0.00 0.00 0.00 3.62
759 890 5.047377 TGGTCCTTATTTTCTGCCAATGAAC 60.047 40.000 0.00 0.00 0.00 3.18
760 891 5.083122 TGGTCCTTATTTTCTGCCAATGAA 58.917 37.500 0.00 0.00 0.00 2.57
761 892 4.671831 TGGTCCTTATTTTCTGCCAATGA 58.328 39.130 0.00 0.00 0.00 2.57
762 893 5.170748 GTTGGTCCTTATTTTCTGCCAATG 58.829 41.667 0.00 0.00 36.97 2.82
763 894 4.222810 GGTTGGTCCTTATTTTCTGCCAAT 59.777 41.667 0.00 0.00 36.97 3.16
764 895 3.576550 GGTTGGTCCTTATTTTCTGCCAA 59.423 43.478 0.00 0.00 32.85 4.52
765 896 3.161866 GGTTGGTCCTTATTTTCTGCCA 58.838 45.455 0.00 0.00 0.00 4.92
766 897 3.161866 TGGTTGGTCCTTATTTTCTGCC 58.838 45.455 0.00 0.00 37.07 4.85
767 898 4.864704 TTGGTTGGTCCTTATTTTCTGC 57.135 40.909 0.00 0.00 37.07 4.26
768 899 6.345096 ACATTGGTTGGTCCTTATTTTCTG 57.655 37.500 0.00 0.00 37.07 3.02
769 900 6.436218 GGTACATTGGTTGGTCCTTATTTTCT 59.564 38.462 0.00 0.00 37.07 2.52
770 901 6.436218 AGGTACATTGGTTGGTCCTTATTTTC 59.564 38.462 0.00 0.00 37.07 2.29
771 902 6.319715 AGGTACATTGGTTGGTCCTTATTTT 58.680 36.000 0.00 0.00 37.07 1.82
772 903 5.899278 AGGTACATTGGTTGGTCCTTATTT 58.101 37.500 0.00 0.00 37.07 1.40
773 904 5.530176 AGGTACATTGGTTGGTCCTTATT 57.470 39.130 0.00 0.00 37.07 1.40
774 905 6.159751 ACATAGGTACATTGGTTGGTCCTTAT 59.840 38.462 0.00 0.00 35.30 1.73
775 906 5.489637 ACATAGGTACATTGGTTGGTCCTTA 59.510 40.000 0.00 0.00 35.30 2.69
776 907 4.291249 ACATAGGTACATTGGTTGGTCCTT 59.709 41.667 0.00 0.00 35.30 3.36
777 908 3.850173 ACATAGGTACATTGGTTGGTCCT 59.150 43.478 0.00 0.00 36.77 3.85
778 909 4.230745 ACATAGGTACATTGGTTGGTCC 57.769 45.455 0.00 0.00 0.00 4.46
779 910 5.497474 AGAACATAGGTACATTGGTTGGTC 58.503 41.667 0.00 0.00 0.00 4.02
780 911 5.497474 GAGAACATAGGTACATTGGTTGGT 58.503 41.667 0.00 0.00 0.00 3.67
781 912 4.881850 GGAGAACATAGGTACATTGGTTGG 59.118 45.833 0.00 0.00 0.00 3.77
782 913 5.745227 AGGAGAACATAGGTACATTGGTTG 58.255 41.667 0.00 0.00 0.00 3.77
783 914 5.726793 AGAGGAGAACATAGGTACATTGGTT 59.273 40.000 0.00 0.00 0.00 3.67
784 915 5.281314 AGAGGAGAACATAGGTACATTGGT 58.719 41.667 0.00 0.00 0.00 3.67
785 916 5.878406 AGAGGAGAACATAGGTACATTGG 57.122 43.478 0.00 0.00 0.00 3.16
786 917 7.331026 TGAAAGAGGAGAACATAGGTACATTG 58.669 38.462 0.00 0.00 0.00 2.82
787 918 7.496346 TGAAAGAGGAGAACATAGGTACATT 57.504 36.000 0.00 0.00 0.00 2.71
788 919 7.496346 TTGAAAGAGGAGAACATAGGTACAT 57.504 36.000 0.00 0.00 0.00 2.29
789 920 6.928348 TTGAAAGAGGAGAACATAGGTACA 57.072 37.500 0.00 0.00 0.00 2.90
790 921 8.794335 ATTTTGAAAGAGGAGAACATAGGTAC 57.206 34.615 0.00 0.00 0.00 3.34
792 923 9.807921 TTTATTTTGAAAGAGGAGAACATAGGT 57.192 29.630 0.00 0.00 0.00 3.08
850 2076 4.503714 AGAGGTTGGAGTTGTTTCTCAA 57.496 40.909 0.00 0.00 36.30 3.02
851 2077 4.199310 CAAGAGGTTGGAGTTGTTTCTCA 58.801 43.478 0.00 0.00 36.30 3.27
852 2078 4.035675 CACAAGAGGTTGGAGTTGTTTCTC 59.964 45.833 0.00 0.00 38.07 2.87
883 2132 3.786635 CCCTGCTCAATATATAGGCGAC 58.213 50.000 0.00 0.00 0.00 5.19
1085 2465 5.212194 TGAAAAAGCGCTGTGAGTTATTTC 58.788 37.500 12.58 4.66 0.00 2.17
1102 2482 8.383318 TGTTGTGAATTTTGGTCTTTGAAAAA 57.617 26.923 0.00 0.00 0.00 1.94
1150 2530 8.297426 CCAGAAATGTCGATGCTAAGTACTATA 58.703 37.037 0.00 0.00 0.00 1.31
1151 2531 7.148641 CCAGAAATGTCGATGCTAAGTACTAT 58.851 38.462 0.00 0.00 0.00 2.12
1183 2678 6.360370 TTGATAGAAAGTGTAACCAGCTCT 57.640 37.500 0.00 0.00 37.80 4.09
1239 2734 7.581213 TTGAATCAAAGCTTTCTTCTGGTAA 57.419 32.000 22.33 11.81 0.00 2.85
1278 2773 3.244422 ACACTTCTATCACCGCCTTTTCA 60.244 43.478 0.00 0.00 0.00 2.69
1421 2916 0.106819 GAGCTCCATGAGGTTGCCAT 60.107 55.000 0.87 0.00 40.67 4.40
1432 2927 1.836802 GAGGAAGACTTGGAGCTCCAT 59.163 52.381 35.42 22.54 46.97 3.41
1464 2959 0.231279 CACGGTTGAAGTCGTTTCCG 59.769 55.000 0.00 0.00 42.94 4.30
1522 3017 5.461032 AGCGCTTCTAGCTTATGAGTTAT 57.539 39.130 2.64 0.00 43.24 1.89
1542 3037 4.261447 CCGGCAATATAAAAAGGTGGTAGC 60.261 45.833 0.00 0.00 0.00 3.58
1608 3103 5.791367 ATGATGAGTGAAACAGATGAACG 57.209 39.130 0.00 0.00 41.43 3.95
1647 3142 4.624125 GCTTGCCAGTTTAGTACCTCAGAT 60.624 45.833 0.00 0.00 0.00 2.90
1728 3223 1.349026 CCATCCGGGAGCTACATGATT 59.651 52.381 0.00 0.00 40.01 2.57
1784 3279 8.395633 GTGTAGTCCTCGCAATATAAATGTTTT 58.604 33.333 0.00 0.00 0.00 2.43
2174 3673 3.767131 TGATCACCATCTTGACTTCGGTA 59.233 43.478 0.00 0.00 0.00 4.02
2177 3676 3.063180 GCTTGATCACCATCTTGACTTCG 59.937 47.826 0.00 0.00 0.00 3.79
2354 3861 3.189080 CGAGCACAGATTCACCAAAATGA 59.811 43.478 0.00 0.00 0.00 2.57
2526 4038 8.822805 ACTAAACAAGACCTGGTAGATGATTAA 58.177 33.333 0.00 0.00 0.00 1.40
2539 4051 5.817816 CAGAGTCAACAACTAAACAAGACCT 59.182 40.000 0.00 0.00 38.74 3.85
2578 4091 4.026407 CGAGGACGACAAAACTTGAAAAC 58.974 43.478 0.00 0.00 42.66 2.43
2614 4127 6.119536 ACAAACACAAAAGAGTCTACATCCA 58.880 36.000 0.00 0.00 0.00 3.41
2664 4178 1.409427 GGAGGGAGTATCGTCCTGTTG 59.591 57.143 0.00 0.00 38.33 3.33
2667 4181 3.831651 AGGAGGGAGTATCGTCCTG 57.168 57.895 5.45 0.00 46.53 3.86
2669 4183 2.237643 GGTAAGGAGGGAGTATCGTCC 58.762 57.143 0.00 0.00 40.81 4.79
2670 4184 2.941480 TGGTAAGGAGGGAGTATCGTC 58.059 52.381 0.00 0.00 34.37 4.20
2672 4186 4.957684 ATTTGGTAAGGAGGGAGTATCG 57.042 45.455 0.00 0.00 34.37 2.92
2743 4257 9.688091 TGGTTAGGCATTGTAAGTGAATATAAA 57.312 29.630 0.00 0.00 0.00 1.40
2748 4264 6.627953 GCATTGGTTAGGCATTGTAAGTGAAT 60.628 38.462 0.00 0.00 0.00 2.57
2750 4266 4.157656 GCATTGGTTAGGCATTGTAAGTGA 59.842 41.667 0.00 0.00 0.00 3.41
2764 4280 9.194972 TGTTGATAAATCTAATGGCATTGGTTA 57.805 29.630 22.57 14.44 0.00 2.85
2922 4438 6.936900 AGCTAATTGTCTAACTGCAAGAAGAA 59.063 34.615 0.00 0.00 37.43 2.52
3054 4926 7.258441 GCATGCTATGATCCTTCTATACGTAA 58.742 38.462 11.37 0.00 0.00 3.18
3067 4939 8.500773 CCATTAAAAATTTGGCATGCTATGATC 58.499 33.333 18.92 0.00 0.00 2.92
3110 4982 2.435805 TCTCTCTCTCTCTCTCTCTGGC 59.564 54.545 0.00 0.00 0.00 4.85
3219 5120 6.156519 TGAACCTACATATGCATAAGCGTAG 58.843 40.000 22.42 22.42 44.86 3.51
3255 5156 6.079763 CCATCATTTCTTTAACACACGTGAG 58.920 40.000 25.01 18.00 0.00 3.51
3274 5175 0.687920 TAAACTGCCGGACACCATCA 59.312 50.000 5.05 0.00 0.00 3.07
3278 5179 2.038387 ATCATAAACTGCCGGACACC 57.962 50.000 5.05 0.00 0.00 4.16
3311 5212 4.721776 AGTACATATGAGTTGTGACCCCAT 59.278 41.667 10.38 0.00 0.00 4.00
3312 5213 4.101114 AGTACATATGAGTTGTGACCCCA 58.899 43.478 10.38 0.00 0.00 4.96
3315 5216 4.935205 TGCAAGTACATATGAGTTGTGACC 59.065 41.667 10.38 1.74 0.00 4.02
3363 5268 0.172578 TTCCAGATAGCACGTCCACG 59.827 55.000 0.00 0.00 46.33 4.94
3433 5338 7.441017 AGGCACTCTCTCTTGATTATATTGAC 58.559 38.462 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.