Multiple sequence alignment - TraesCS5B01G248400

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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 TraesCS5B01G248400 chr5B 100.000 2788 0 0 1 2788 430681432 430678645 0.000000e+00 5149
1 TraesCS5B01G248400 chr5B 92.157 357 14 4 2445 2788 477493403 477493048 2.500000e-135 492
2 TraesCS5B01G248400 chr5B 97.015 201 4 2 2039 2237 54502966 54502766 1.240000e-88 337
3 TraesCS5B01G248400 chr5D 95.080 2053 53 18 3 2045 364672126 364670112 0.000000e+00 3188
4 TraesCS5B01G248400 chr5A 94.436 2067 61 24 3 2045 465998212 465996176 0.000000e+00 3131
5 TraesCS5B01G248400 chr5A 95.989 349 4 5 2450 2788 673535828 673535480 2.430000e-155 558
6 TraesCS5B01G248400 chr4A 92.414 580 15 8 2236 2788 686573843 686574420 0.000000e+00 800
7 TraesCS5B01G248400 chr4A 90.572 594 11 8 2237 2788 703405355 703405945 0.000000e+00 745
8 TraesCS5B01G248400 chr7B 94.217 415 8 6 2041 2454 228145940 228146339 1.100000e-173 619
9 TraesCS5B01G248400 chr7B 94.215 363 7 3 2440 2788 653371950 653372312 2.440000e-150 542
10 TraesCS5B01G248400 chr7B 97.436 195 5 0 2043 2237 135516917 135516723 1.600000e-87 333
11 TraesCS5B01G248400 chr7B 84.470 264 39 1 1392 1653 99130816 99130553 2.750000e-65 259
12 TraesCS5B01G248400 chr2A 98.240 341 4 1 2450 2788 463728042 463727702 1.850000e-166 595
13 TraesCS5B01G248400 chr2A 91.990 412 18 7 2043 2454 758958755 758959151 5.210000e-157 564
14 TraesCS5B01G248400 chr2A 98.630 219 2 1 2236 2454 139865876 139865659 1.210000e-103 387
15 TraesCS5B01G248400 chr3A 97.361 341 7 1 2450 2788 34586895 34587235 1.860000e-161 579
16 TraesCS5B01G248400 chr3A 98.636 220 2 1 2235 2454 34586894 34587112 3.370000e-104 388
17 TraesCS5B01G248400 chr3A 98.454 194 3 0 2044 2237 686703758 686703565 2.660000e-90 342
18 TraesCS5B01G248400 chr3A 84.211 171 6 6 2435 2586 466057326 466057494 2.240000e-31 147
19 TraesCS5B01G248400 chr3B 95.055 364 5 3 2437 2788 274890943 274891305 6.740000e-156 560
20 TraesCS5B01G248400 chr3B 93.447 351 9 4 2440 2776 530729139 530729489 2.480000e-140 508
21 TraesCS5B01G248400 chr3B 98.206 223 3 1 2232 2454 169351372 169351593 3.370000e-104 388
22 TraesCS5B01G248400 chr3B 98.630 219 2 1 2236 2454 274890955 274891172 1.210000e-103 387
23 TraesCS5B01G248400 chr3B 97.949 195 4 0 2043 2237 742562351 742562157 3.440000e-89 339
24 TraesCS5B01G248400 chr3B 97.000 200 4 2 2039 2237 776516211 776516013 4.450000e-88 335
25 TraesCS5B01G248400 chr3B 86.463 229 11 5 2423 2632 784592816 784592589 1.670000e-57 233
26 TraesCS5B01G248400 chr1A 96.471 340 11 1 2450 2788 2804086 2803747 6.740000e-156 560
27 TraesCS5B01G248400 chr1A 93.855 358 4 6 2449 2788 346456242 346455885 8.850000e-145 523
28 TraesCS5B01G248400 chr6B 95.265 359 4 5 2443 2788 640398262 640397904 8.720000e-155 556
29 TraesCS5B01G248400 chr6B 93.855 358 5 6 2448 2788 138808541 138808898 8.850000e-145 523
30 TraesCS5B01G248400 chr6B 97.000 200 5 1 2039 2237 556793463 556793264 4.450000e-88 335
31 TraesCS5B01G248400 chr6A 97.980 297 6 0 2492 2788 71109811 71109515 1.480000e-142 516
32 TraesCS5B01G248400 chr6A 96.117 206 5 2 2035 2237 58741672 58741877 1.600000e-87 333
33 TraesCS5B01G248400 chr1B 97.643 297 7 0 2492 2788 362521968 362522264 6.890000e-141 510
34 TraesCS5B01G248400 chr2B 98.630 219 2 1 2236 2454 683015549 683015766 1.210000e-103 387
35 TraesCS5B01G248400 chr7A 97.449 196 5 0 2042 2237 666798384 666798579 4.450000e-88 335
36 TraesCS5B01G248400 chr7A 84.921 252 32 6 1405 1653 135901495 135901247 1.660000e-62 250
37 TraesCS5B01G248400 chr4B 97.449 196 4 1 2043 2237 621711907 621711712 1.600000e-87 333
38 TraesCS5B01G248400 chr7D 84.420 276 41 2 1405 1679 136253355 136253081 1.270000e-68 270


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 TraesCS5B01G248400 chr5B 430678645 430681432 2787 True 5149 5149 100.000 1 2788 1 chr5B.!!$R2 2787
1 TraesCS5B01G248400 chr5D 364670112 364672126 2014 True 3188 3188 95.080 3 2045 1 chr5D.!!$R1 2042
2 TraesCS5B01G248400 chr5A 465996176 465998212 2036 True 3131 3131 94.436 3 2045 1 chr5A.!!$R1 2042
3 TraesCS5B01G248400 chr4A 686573843 686574420 577 False 800 800 92.414 2236 2788 1 chr4A.!!$F1 552
4 TraesCS5B01G248400 chr4A 703405355 703405945 590 False 745 745 90.572 2237 2788 1 chr4A.!!$F2 551

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
204 205 0.182061 ATGCATGCATCCTTCCTCGT 59.818 50.0 27.46 1.89 29.42 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2171 2215 0.038526 GCCGGTCAGACGAGAAAAGA 60.039 55.0 1.9 0.0 35.47 2.52 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
49 50 1.379527 GGATTGTGCCTAACCCTTCG 58.620 55.000 0.00 0.00 0.00 3.79
98 99 2.249139 GCGTCCCTCCTGAATATACCT 58.751 52.381 0.00 0.00 0.00 3.08
140 141 9.046296 TCCGATCAAGATCTAGCTTTAATTTTC 57.954 33.333 8.30 0.00 35.72 2.29
167 168 4.021632 TCGGAAATCAGATGCAGGAGATAG 60.022 45.833 0.00 0.00 0.00 2.08
192 193 0.894141 TACCAAACCACCATGCATGC 59.106 50.000 21.69 11.82 0.00 4.06
193 194 1.120184 ACCAAACCACCATGCATGCA 61.120 50.000 25.04 25.04 0.00 3.96
194 195 0.250793 CCAAACCACCATGCATGCAT 59.749 50.000 27.46 27.46 37.08 3.96
195 196 1.647346 CAAACCACCATGCATGCATC 58.353 50.000 30.07 0.00 33.90 3.91
196 197 0.538118 AAACCACCATGCATGCATCC 59.462 50.000 30.07 0.00 33.90 3.51
197 198 0.324923 AACCACCATGCATGCATCCT 60.325 50.000 30.07 15.00 33.90 3.24
198 199 0.324923 ACCACCATGCATGCATCCTT 60.325 50.000 30.07 14.22 33.90 3.36
199 200 0.387929 CCACCATGCATGCATCCTTC 59.612 55.000 30.07 0.00 33.90 3.46
200 201 0.387929 CACCATGCATGCATCCTTCC 59.612 55.000 30.07 0.00 33.90 3.46
201 202 0.260816 ACCATGCATGCATCCTTCCT 59.739 50.000 30.07 5.99 33.90 3.36
202 203 0.959553 CCATGCATGCATCCTTCCTC 59.040 55.000 30.07 0.00 33.90 3.71
203 204 0.591659 CATGCATGCATCCTTCCTCG 59.408 55.000 30.07 12.75 33.90 4.63
204 205 0.182061 ATGCATGCATCCTTCCTCGT 59.818 50.000 27.46 1.89 29.42 4.18
205 206 0.829990 TGCATGCATCCTTCCTCGTA 59.170 50.000 18.46 0.00 0.00 3.43
206 207 1.202568 TGCATGCATCCTTCCTCGTAG 60.203 52.381 18.46 0.00 0.00 3.51
207 208 1.875576 GCATGCATCCTTCCTCGTAGG 60.876 57.143 14.21 0.00 36.46 3.18
234 251 2.357009 CACCATGCTAGTGATCCAAAGC 59.643 50.000 3.92 3.92 37.42 3.51
288 305 3.608506 CGAACAAACTCATAGGTGTCGAG 59.391 47.826 0.00 0.00 0.00 4.04
335 352 1.605457 CGCTAATCTAATGGCCGAGCA 60.605 52.381 0.00 0.00 0.00 4.26
384 401 6.640518 TCTAGTGGCCTAACTATTTCTGTTG 58.359 40.000 3.32 0.00 32.32 3.33
434 451 3.181448 TGGTGTCCATCATCATCCATCAG 60.181 47.826 0.00 0.00 31.53 2.90
493 510 1.975660 AACTGGGCGCAAGAGTTTAA 58.024 45.000 10.83 0.00 43.02 1.52
541 558 2.231721 GGTGACGAGAAAAGCTAGAGGT 59.768 50.000 0.00 0.00 0.00 3.85
578 595 2.449464 TGGGCCACTGATTGATGAAAG 58.551 47.619 0.00 0.00 0.00 2.62
579 596 2.041485 TGGGCCACTGATTGATGAAAGA 59.959 45.455 0.00 0.00 0.00 2.52
601 618 4.429854 AAAATTAAAGCAGGGTTTGGCA 57.570 36.364 6.71 0.00 0.00 4.92
678 695 2.079158 AGTCAAGTCATGGAATGTGCG 58.921 47.619 0.00 0.00 46.80 5.34
682 699 1.086067 AGTCATGGAATGTGCGAGCG 61.086 55.000 0.00 0.00 46.80 5.03
715 732 7.222031 GGAGAAAATAAATTAACCCGCAATGTC 59.778 37.037 0.00 0.00 0.00 3.06
716 733 7.607250 AGAAAATAAATTAACCCGCAATGTCA 58.393 30.769 0.00 0.00 0.00 3.58
717 734 8.091449 AGAAAATAAATTAACCCGCAATGTCAA 58.909 29.630 0.00 0.00 0.00 3.18
718 735 7.826260 AAATAAATTAACCCGCAATGTCAAG 57.174 32.000 0.00 0.00 0.00 3.02
719 736 6.767524 ATAAATTAACCCGCAATGTCAAGA 57.232 33.333 0.00 0.00 0.00 3.02
720 737 4.434713 AATTAACCCGCAATGTCAAGAC 57.565 40.909 0.00 0.00 0.00 3.01
721 738 2.851263 TAACCCGCAATGTCAAGACT 57.149 45.000 1.53 0.00 0.00 3.24
722 739 2.851263 AACCCGCAATGTCAAGACTA 57.149 45.000 1.53 0.00 0.00 2.59
765 782 9.057089 GGTTAACTGATGGAGGATTAGTTTATG 57.943 37.037 5.42 0.00 40.45 1.90
801 818 2.963101 GTTTTGGATATAGTTGGCCCCC 59.037 50.000 0.00 0.00 0.00 5.40
832 849 1.377987 GTGGTGGTGGTGTGTGTGT 60.378 57.895 0.00 0.00 0.00 3.72
833 850 1.377856 TGGTGGTGGTGTGTGTGTG 60.378 57.895 0.00 0.00 0.00 3.82
939 956 2.583520 CCTCTGGACTGAGGCAGC 59.416 66.667 11.56 0.00 45.84 5.25
940 957 1.988956 CCTCTGGACTGAGGCAGCT 60.989 63.158 11.56 0.00 45.84 4.24
941 958 0.685785 CCTCTGGACTGAGGCAGCTA 60.686 60.000 11.56 0.00 45.84 3.32
942 959 1.412079 CTCTGGACTGAGGCAGCTAT 58.588 55.000 0.00 0.00 34.37 2.97
943 960 2.591923 CTCTGGACTGAGGCAGCTATA 58.408 52.381 0.00 0.00 34.37 1.31
944 961 2.557924 CTCTGGACTGAGGCAGCTATAG 59.442 54.545 0.00 0.00 34.37 1.31
945 962 1.000731 CTGGACTGAGGCAGCTATAGC 59.999 57.143 17.33 17.33 42.49 2.97
1050 1075 3.741476 CAGCAAGCAAGCCCGTCC 61.741 66.667 0.00 0.00 34.23 4.79
1070 1095 2.668550 AAGCGAAACCGAGCCACC 60.669 61.111 0.00 0.00 0.00 4.61
1118 1150 0.689080 GCTCTCTCCACTCCCCATCA 60.689 60.000 0.00 0.00 0.00 3.07
1123 1155 2.776536 CTCTCCACTCCCCATCAATCTT 59.223 50.000 0.00 0.00 0.00 2.40
1124 1156 3.192944 TCTCCACTCCCCATCAATCTTT 58.807 45.455 0.00 0.00 0.00 2.52
1125 1157 3.054139 TCTCCACTCCCCATCAATCTTTG 60.054 47.826 0.00 0.00 0.00 2.77
1283 1315 1.376037 CTTCCACTTCTCACCGGCC 60.376 63.158 0.00 0.00 0.00 6.13
1705 1740 1.745232 TGCGAGAAAAACACCACTGT 58.255 45.000 0.00 0.00 0.00 3.55
2028 2072 0.670546 CGCTCGAAACCAGTGTGGAT 60.671 55.000 0.00 0.00 40.96 3.41
2045 2089 6.375455 AGTGTGGATTGAGAAACCATACAATC 59.625 38.462 12.74 0.00 44.33 2.67
2046 2090 6.375455 GTGTGGATTGAGAAACCATACAATCT 59.625 38.462 1.27 0.00 44.24 2.40
2047 2091 6.599244 TGTGGATTGAGAAACCATACAATCTC 59.401 38.462 1.27 0.00 44.24 2.75
2048 2092 6.825721 GTGGATTGAGAAACCATACAATCTCT 59.174 38.462 1.27 0.00 44.24 3.10
2049 2093 7.987458 GTGGATTGAGAAACCATACAATCTCTA 59.013 37.037 1.27 0.00 44.24 2.43
2050 2094 7.987458 TGGATTGAGAAACCATACAATCTCTAC 59.013 37.037 1.27 0.00 44.24 2.59
2051 2095 8.207545 GGATTGAGAAACCATACAATCTCTACT 58.792 37.037 1.27 0.00 44.24 2.57
2052 2096 9.255304 GATTGAGAAACCATACAATCTCTACTC 57.745 37.037 0.00 0.00 42.66 2.59
2053 2097 7.113658 TGAGAAACCATACAATCTCTACTCC 57.886 40.000 0.00 0.00 39.21 3.85
2054 2098 6.897966 TGAGAAACCATACAATCTCTACTCCT 59.102 38.462 0.00 0.00 39.21 3.69
2055 2099 8.059461 TGAGAAACCATACAATCTCTACTCCTA 58.941 37.037 0.00 0.00 39.21 2.94
2056 2100 8.840200 AGAAACCATACAATCTCTACTCCTAA 57.160 34.615 0.00 0.00 0.00 2.69
2057 2101 9.440761 AGAAACCATACAATCTCTACTCCTAAT 57.559 33.333 0.00 0.00 0.00 1.73
2058 2102 9.482627 GAAACCATACAATCTCTACTCCTAATG 57.517 37.037 0.00 0.00 0.00 1.90
2059 2103 7.546250 ACCATACAATCTCTACTCCTAATGG 57.454 40.000 0.00 0.00 36.93 3.16
2060 2104 7.306013 ACCATACAATCTCTACTCCTAATGGA 58.694 38.462 0.00 0.00 40.69 3.41
2061 2105 7.233757 ACCATACAATCTCTACTCCTAATGGAC 59.766 40.741 0.00 0.00 37.46 4.02
2062 2106 5.776173 ACAATCTCTACTCCTAATGGACG 57.224 43.478 0.00 0.00 37.46 4.79
2063 2107 5.446860 ACAATCTCTACTCCTAATGGACGA 58.553 41.667 0.00 0.00 37.46 4.20
2064 2108 5.892119 ACAATCTCTACTCCTAATGGACGAA 59.108 40.000 0.00 0.00 37.46 3.85
2065 2109 6.551601 ACAATCTCTACTCCTAATGGACGAAT 59.448 38.462 0.00 0.00 37.46 3.34
2066 2110 7.070074 ACAATCTCTACTCCTAATGGACGAATT 59.930 37.037 0.00 0.00 37.46 2.17
2067 2111 6.392625 TCTCTACTCCTAATGGACGAATTG 57.607 41.667 0.00 0.00 37.46 2.32
2068 2112 5.302059 TCTCTACTCCTAATGGACGAATTGG 59.698 44.000 0.00 0.00 37.46 3.16
2069 2113 4.960469 TCTACTCCTAATGGACGAATTGGT 59.040 41.667 0.00 0.00 37.46 3.67
2070 2114 4.569719 ACTCCTAATGGACGAATTGGTT 57.430 40.909 0.00 0.00 37.46 3.67
2071 2115 4.261801 ACTCCTAATGGACGAATTGGTTG 58.738 43.478 0.00 0.00 37.46 3.77
2072 2116 4.019681 ACTCCTAATGGACGAATTGGTTGA 60.020 41.667 0.00 0.00 37.46 3.18
2073 2117 4.912586 TCCTAATGGACGAATTGGTTGAA 58.087 39.130 0.00 0.00 37.46 2.69
2074 2118 5.505780 TCCTAATGGACGAATTGGTTGAAT 58.494 37.500 0.00 0.00 37.46 2.57
2075 2119 6.654959 TCCTAATGGACGAATTGGTTGAATA 58.345 36.000 0.00 0.00 37.46 1.75
2076 2120 6.765989 TCCTAATGGACGAATTGGTTGAATAG 59.234 38.462 0.00 0.00 37.46 1.73
2077 2121 6.542370 CCTAATGGACGAATTGGTTGAATAGT 59.458 38.462 0.00 0.00 34.57 2.12
2078 2122 6.436843 AATGGACGAATTGGTTGAATAGTC 57.563 37.500 0.00 0.00 33.96 2.59
2079 2123 4.258543 TGGACGAATTGGTTGAATAGTCC 58.741 43.478 0.00 0.00 44.47 3.85
2080 2124 3.626217 GGACGAATTGGTTGAATAGTCCC 59.374 47.826 0.00 0.00 41.56 4.46
2081 2125 3.617284 ACGAATTGGTTGAATAGTCCCC 58.383 45.455 0.00 0.00 0.00 4.81
2082 2126 2.949644 CGAATTGGTTGAATAGTCCCCC 59.050 50.000 0.00 0.00 0.00 5.40
2097 2141 3.356814 CCCCCACTTTCAATCGGTT 57.643 52.632 0.00 0.00 0.00 4.44
2098 2142 1.627864 CCCCCACTTTCAATCGGTTT 58.372 50.000 0.00 0.00 0.00 3.27
2099 2143 2.797786 CCCCCACTTTCAATCGGTTTA 58.202 47.619 0.00 0.00 0.00 2.01
2100 2144 3.361786 CCCCCACTTTCAATCGGTTTAT 58.638 45.455 0.00 0.00 0.00 1.40
2101 2145 3.767131 CCCCCACTTTCAATCGGTTTATT 59.233 43.478 0.00 0.00 0.00 1.40
2102 2146 4.221924 CCCCCACTTTCAATCGGTTTATTT 59.778 41.667 0.00 0.00 0.00 1.40
2103 2147 5.279758 CCCCCACTTTCAATCGGTTTATTTT 60.280 40.000 0.00 0.00 0.00 1.82
2104 2148 5.867174 CCCCACTTTCAATCGGTTTATTTTC 59.133 40.000 0.00 0.00 0.00 2.29
2105 2149 6.451393 CCCACTTTCAATCGGTTTATTTTCA 58.549 36.000 0.00 0.00 0.00 2.69
2106 2150 6.926272 CCCACTTTCAATCGGTTTATTTTCAA 59.074 34.615 0.00 0.00 0.00 2.69
2107 2151 7.095816 CCCACTTTCAATCGGTTTATTTTCAAC 60.096 37.037 0.00 0.00 0.00 3.18
2108 2152 7.095816 CCACTTTCAATCGGTTTATTTTCAACC 60.096 37.037 0.00 0.00 40.46 3.77
2120 2164 9.043079 GGTTTATTTTCAACCGGTTTATTTTCA 57.957 29.630 19.55 0.00 34.59 2.69
2123 2167 9.819267 TTATTTTCAACCGGTTTATTTTCAACT 57.181 25.926 19.55 0.00 0.00 3.16
2124 2168 7.527084 TTTTCAACCGGTTTATTTTCAACTG 57.473 32.000 19.55 2.13 0.00 3.16
2130 2174 6.912203 CCGGTTTATTTTCAACTGGTTTTT 57.088 33.333 0.00 0.00 43.32 1.94
2131 2175 6.939627 CCGGTTTATTTTCAACTGGTTTTTC 58.060 36.000 0.00 0.00 43.32 2.29
2132 2176 6.759356 CCGGTTTATTTTCAACTGGTTTTTCT 59.241 34.615 0.00 0.00 43.32 2.52
2133 2177 7.279090 CCGGTTTATTTTCAACTGGTTTTTCTT 59.721 33.333 0.00 0.00 43.32 2.52
2134 2178 8.325282 CGGTTTATTTTCAACTGGTTTTTCTTC 58.675 33.333 0.00 0.00 0.00 2.87
2135 2179 8.325282 GGTTTATTTTCAACTGGTTTTTCTTCG 58.675 33.333 0.00 0.00 0.00 3.79
2136 2180 8.865978 GTTTATTTTCAACTGGTTTTTCTTCGT 58.134 29.630 0.00 0.00 0.00 3.85
2137 2181 8.623310 TTATTTTCAACTGGTTTTTCTTCGTC 57.377 30.769 0.00 0.00 0.00 4.20
2138 2182 4.625972 TTCAACTGGTTTTTCTTCGTCC 57.374 40.909 0.00 0.00 0.00 4.79
2139 2183 2.946990 TCAACTGGTTTTTCTTCGTCCC 59.053 45.455 0.00 0.00 0.00 4.46
2140 2184 2.685897 CAACTGGTTTTTCTTCGTCCCA 59.314 45.455 0.00 0.00 0.00 4.37
2141 2185 2.294979 ACTGGTTTTTCTTCGTCCCAC 58.705 47.619 0.00 0.00 0.00 4.61
2142 2186 1.607148 CTGGTTTTTCTTCGTCCCACC 59.393 52.381 0.00 0.00 0.00 4.61
2143 2187 1.213430 TGGTTTTTCTTCGTCCCACCT 59.787 47.619 0.00 0.00 0.00 4.00
2144 2188 1.878088 GGTTTTTCTTCGTCCCACCTC 59.122 52.381 0.00 0.00 0.00 3.85
2145 2189 2.486727 GGTTTTTCTTCGTCCCACCTCT 60.487 50.000 0.00 0.00 0.00 3.69
2146 2190 2.806818 GTTTTTCTTCGTCCCACCTCTC 59.193 50.000 0.00 0.00 0.00 3.20
2147 2191 1.712056 TTTCTTCGTCCCACCTCTCA 58.288 50.000 0.00 0.00 0.00 3.27
2148 2192 0.966920 TTCTTCGTCCCACCTCTCAC 59.033 55.000 0.00 0.00 0.00 3.51
2149 2193 0.898789 TCTTCGTCCCACCTCTCACC 60.899 60.000 0.00 0.00 0.00 4.02
2150 2194 1.152419 TTCGTCCCACCTCTCACCA 60.152 57.895 0.00 0.00 0.00 4.17
2151 2195 1.185618 TTCGTCCCACCTCTCACCAG 61.186 60.000 0.00 0.00 0.00 4.00
2152 2196 2.665603 GTCCCACCTCTCACCAGC 59.334 66.667 0.00 0.00 0.00 4.85
2153 2197 2.607750 TCCCACCTCTCACCAGCC 60.608 66.667 0.00 0.00 0.00 4.85
2154 2198 3.721706 CCCACCTCTCACCAGCCC 61.722 72.222 0.00 0.00 0.00 5.19
2155 2199 3.721706 CCACCTCTCACCAGCCCC 61.722 72.222 0.00 0.00 0.00 5.80
2156 2200 2.608988 CACCTCTCACCAGCCCCT 60.609 66.667 0.00 0.00 0.00 4.79
2157 2201 2.284995 ACCTCTCACCAGCCCCTC 60.285 66.667 0.00 0.00 0.00 4.30
2158 2202 3.086600 CCTCTCACCAGCCCCTCC 61.087 72.222 0.00 0.00 0.00 4.30
2159 2203 3.086600 CTCTCACCAGCCCCTCCC 61.087 72.222 0.00 0.00 0.00 4.30
2160 2204 3.931631 CTCTCACCAGCCCCTCCCA 62.932 68.421 0.00 0.00 0.00 4.37
2161 2205 3.721706 CTCACCAGCCCCTCCCAC 61.722 72.222 0.00 0.00 0.00 4.61
2168 2212 4.295199 GCCCCTCCCACCGGTTTT 62.295 66.667 2.97 0.00 0.00 2.43
2169 2213 2.524044 CCCCTCCCACCGGTTTTT 59.476 61.111 2.97 0.00 0.00 1.94
2170 2214 1.605451 CCCCTCCCACCGGTTTTTC 60.605 63.158 2.97 0.00 0.00 2.29
2171 2215 1.458927 CCCTCCCACCGGTTTTTCT 59.541 57.895 2.97 0.00 0.00 2.52
2172 2216 0.608308 CCCTCCCACCGGTTTTTCTC 60.608 60.000 2.97 0.00 0.00 2.87
2173 2217 0.400594 CCTCCCACCGGTTTTTCTCT 59.599 55.000 2.97 0.00 0.00 3.10
2174 2218 1.202891 CCTCCCACCGGTTTTTCTCTT 60.203 52.381 2.97 0.00 0.00 2.85
2175 2219 2.583143 CTCCCACCGGTTTTTCTCTTT 58.417 47.619 2.97 0.00 0.00 2.52
2176 2220 2.956333 CTCCCACCGGTTTTTCTCTTTT 59.044 45.455 2.97 0.00 0.00 2.27
2177 2221 2.953648 TCCCACCGGTTTTTCTCTTTTC 59.046 45.455 2.97 0.00 0.00 2.29
2178 2222 2.956333 CCCACCGGTTTTTCTCTTTTCT 59.044 45.455 2.97 0.00 0.00 2.52
2179 2223 3.004419 CCCACCGGTTTTTCTCTTTTCTC 59.996 47.826 2.97 0.00 0.00 2.87
2180 2224 3.303791 CCACCGGTTTTTCTCTTTTCTCG 60.304 47.826 2.97 0.00 0.00 4.04
2181 2225 3.311596 CACCGGTTTTTCTCTTTTCTCGT 59.688 43.478 2.97 0.00 0.00 4.18
2182 2226 3.558829 ACCGGTTTTTCTCTTTTCTCGTC 59.441 43.478 0.00 0.00 0.00 4.20
2183 2227 3.808174 CCGGTTTTTCTCTTTTCTCGTCT 59.192 43.478 0.00 0.00 0.00 4.18
2184 2228 4.318831 CCGGTTTTTCTCTTTTCTCGTCTG 60.319 45.833 0.00 0.00 0.00 3.51
2185 2229 4.506654 CGGTTTTTCTCTTTTCTCGTCTGA 59.493 41.667 0.00 0.00 0.00 3.27
2186 2230 5.556570 CGGTTTTTCTCTTTTCTCGTCTGAC 60.557 44.000 0.00 0.00 0.00 3.51
2187 2231 5.277393 GGTTTTTCTCTTTTCTCGTCTGACC 60.277 44.000 1.55 0.00 0.00 4.02
2188 2232 2.991434 TCTCTTTTCTCGTCTGACCG 57.009 50.000 1.55 0.00 0.00 4.79
2189 2233 1.540267 TCTCTTTTCTCGTCTGACCGG 59.460 52.381 0.00 0.00 0.00 5.28
2190 2234 0.038526 TCTTTTCTCGTCTGACCGGC 60.039 55.000 0.00 0.00 0.00 6.13
2191 2235 0.319555 CTTTTCTCGTCTGACCGGCA 60.320 55.000 0.00 0.00 0.00 5.69
2192 2236 0.105224 TTTTCTCGTCTGACCGGCAA 59.895 50.000 0.00 0.00 0.00 4.52
2193 2237 0.320374 TTTCTCGTCTGACCGGCAAT 59.680 50.000 0.00 0.00 0.00 3.56
2194 2238 1.179152 TTCTCGTCTGACCGGCAATA 58.821 50.000 0.00 0.00 0.00 1.90
2195 2239 0.454600 TCTCGTCTGACCGGCAATAC 59.545 55.000 0.00 1.40 0.00 1.89
2196 2240 0.866061 CTCGTCTGACCGGCAATACG 60.866 60.000 18.65 18.65 37.32 3.06
2197 2241 2.514013 CGTCTGACCGGCAATACGC 61.514 63.158 0.00 0.00 41.28 4.42
2198 2242 1.447140 GTCTGACCGGCAATACGCA 60.447 57.895 0.00 0.00 45.17 5.24
2199 2243 1.017177 GTCTGACCGGCAATACGCAA 61.017 55.000 0.00 0.00 45.17 4.85
2200 2244 1.017177 TCTGACCGGCAATACGCAAC 61.017 55.000 0.00 0.00 45.17 4.17
2201 2245 2.291508 CTGACCGGCAATACGCAACG 62.292 60.000 0.00 0.00 45.17 4.10
2202 2246 2.357760 ACCGGCAATACGCAACGT 60.358 55.556 0.00 0.00 45.17 3.99
2203 2247 1.077645 GACCGGCAATACGCAACGTA 61.078 55.000 0.00 1.95 46.28 3.57
2217 2261 6.665474 ACGCAACGTATTTATGGTAATCAA 57.335 33.333 0.00 0.00 38.73 2.57
2218 2262 7.254227 ACGCAACGTATTTATGGTAATCAAT 57.746 32.000 0.00 0.00 38.73 2.57
2219 2263 7.349711 ACGCAACGTATTTATGGTAATCAATC 58.650 34.615 0.00 0.00 38.73 2.67
2220 2264 7.011576 ACGCAACGTATTTATGGTAATCAATCA 59.988 33.333 0.00 0.00 38.73 2.57
2221 2265 8.015087 CGCAACGTATTTATGGTAATCAATCAT 58.985 33.333 0.00 0.00 0.00 2.45
2234 2278 9.567776 TGGTAATCAATCATAATTAATCCACGT 57.432 29.630 0.00 0.00 0.00 4.49
2270 2314 6.436843 AATGGACGAATTGGTTGAATAGTC 57.563 37.500 0.00 0.00 33.96 2.59
2301 2346 6.754675 CACTTTCAACCGGTTTATTTTCAACT 59.245 34.615 19.55 0.00 0.00 3.16
2374 2434 0.866061 CTCGTCTGACCGGCAATACG 60.866 60.000 18.65 18.65 37.32 3.06
2720 2808 2.590821 CCCAAAGGCTATCAATCCAGG 58.409 52.381 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 6.039829 AGCATTTTAGGGCTTATTTAGACAGC 59.960 38.462 0.00 0.00 36.92 4.40
98 99 6.367374 TGATCGGATTTGCCATATACCTTA 57.633 37.500 0.00 0.00 35.94 2.69
167 168 6.446318 CATGCATGGTGGTTTGGTATATTAC 58.554 40.000 19.40 0.00 0.00 1.89
192 193 0.312416 CGAGCCTACGAGGAAGGATG 59.688 60.000 5.24 0.00 37.67 3.51
193 194 0.183014 TCGAGCCTACGAGGAAGGAT 59.817 55.000 5.24 0.00 37.67 3.24
194 195 0.747283 GTCGAGCCTACGAGGAAGGA 60.747 60.000 5.24 0.00 42.88 3.36
195 196 1.030488 TGTCGAGCCTACGAGGAAGG 61.030 60.000 5.24 0.15 42.88 3.46
196 197 0.099082 GTGTCGAGCCTACGAGGAAG 59.901 60.000 5.24 0.00 42.88 3.46
197 198 1.310933 GGTGTCGAGCCTACGAGGAA 61.311 60.000 5.24 0.00 42.88 3.36
198 199 1.748122 GGTGTCGAGCCTACGAGGA 60.748 63.158 5.24 0.00 42.88 3.71
199 200 1.384989 ATGGTGTCGAGCCTACGAGG 61.385 60.000 7.38 0.00 42.88 4.63
200 201 0.248661 CATGGTGTCGAGCCTACGAG 60.249 60.000 7.38 0.00 42.88 4.18
201 202 1.807226 CATGGTGTCGAGCCTACGA 59.193 57.895 7.38 0.00 40.00 3.43
202 203 1.878522 GCATGGTGTCGAGCCTACG 60.879 63.158 7.38 0.00 0.00 3.51
203 204 0.744874 TAGCATGGTGTCGAGCCTAC 59.255 55.000 7.89 0.00 0.00 3.18
204 205 1.032794 CTAGCATGGTGTCGAGCCTA 58.967 55.000 7.89 0.00 0.00 3.93
205 206 0.972983 ACTAGCATGGTGTCGAGCCT 60.973 55.000 7.89 0.00 0.00 4.58
206 207 0.807667 CACTAGCATGGTGTCGAGCC 60.808 60.000 7.89 0.00 43.23 4.70
207 208 2.670635 CACTAGCATGGTGTCGAGC 58.329 57.895 7.89 0.00 43.23 5.03
234 251 5.648092 CAGGTCCTTTGATTAGTAAACCCAG 59.352 44.000 0.00 0.00 0.00 4.45
288 305 2.049156 GTTTCGGGCCTTGCAAGC 60.049 61.111 21.43 15.56 0.00 4.01
335 352 3.367498 GCCAGTGAAGTAGATCAACTCGT 60.367 47.826 0.00 0.00 0.00 4.18
384 401 2.215942 AGCCACTGTGGGAATAAACC 57.784 50.000 27.02 8.66 38.19 3.27
493 510 6.768381 GCATTAGTTTAGCTTAGGGACAGAAT 59.232 38.462 0.00 0.00 0.00 2.40
541 558 1.672854 CCAACTAGATGCCCGGTCGA 61.673 60.000 0.00 0.00 0.00 4.20
578 595 4.819088 TGCCAAACCCTGCTTTAATTTTTC 59.181 37.500 0.00 0.00 0.00 2.29
579 596 4.786425 TGCCAAACCCTGCTTTAATTTTT 58.214 34.783 0.00 0.00 0.00 1.94
633 650 2.095532 CCGAGTAGTCTTGTCTACCGTG 59.904 54.545 0.00 0.00 40.56 4.94
678 695 2.700722 ATTTTCTCCCCTCTTCGCTC 57.299 50.000 0.00 0.00 0.00 5.03
682 699 7.201794 CGGGTTAATTTATTTTCTCCCCTCTTC 60.202 40.741 0.00 0.00 0.00 2.87
716 733 4.706842 TTGCTTTCCCAAGAGTAGTCTT 57.293 40.909 7.02 7.02 44.40 3.01
717 734 4.505742 CCTTTGCTTTCCCAAGAGTAGTCT 60.506 45.833 0.00 0.00 30.57 3.24
718 735 3.753797 CCTTTGCTTTCCCAAGAGTAGTC 59.246 47.826 0.00 0.00 30.57 2.59
719 736 3.138468 ACCTTTGCTTTCCCAAGAGTAGT 59.862 43.478 0.00 0.00 30.57 2.73
720 737 3.756117 ACCTTTGCTTTCCCAAGAGTAG 58.244 45.455 0.00 0.00 30.57 2.57
721 738 3.876309 ACCTTTGCTTTCCCAAGAGTA 57.124 42.857 0.00 0.00 30.57 2.59
722 739 2.755952 ACCTTTGCTTTCCCAAGAGT 57.244 45.000 0.00 0.00 30.57 3.24
765 782 0.175531 AAAACAATGCTATGCCCGCC 59.824 50.000 0.00 0.00 0.00 6.13
801 818 1.202770 ACCACCACCTTTCTCCTTTCG 60.203 52.381 0.00 0.00 0.00 3.46
1050 1075 1.667830 TGGCTCGGTTTCGCTTCTG 60.668 57.895 0.00 0.00 36.13 3.02
1070 1095 1.093159 GAGCCAGAAAGCAGATGGTG 58.907 55.000 0.00 0.00 36.43 4.17
1118 1150 1.398390 GTCGCTTGATCGGCAAAGATT 59.602 47.619 10.36 0.00 35.74 2.40
1123 1155 1.078497 ATGGTCGCTTGATCGGCAA 60.078 52.632 10.36 0.00 35.49 4.52
1124 1156 1.815003 CATGGTCGCTTGATCGGCA 60.815 57.895 10.36 0.00 35.49 5.69
1125 1157 3.017323 CATGGTCGCTTGATCGGC 58.983 61.111 1.03 1.03 0.00 5.54
1283 1315 0.235144 CGTCCTCATACTCGTAGGCG 59.765 60.000 0.00 0.00 39.92 5.52
1367 1399 0.106569 GGCCATGGATGTCATCACCA 60.107 55.000 18.40 5.48 38.09 4.17
1368 1400 0.106569 TGGCCATGGATGTCATCACC 60.107 55.000 18.40 3.90 32.92 4.02
1369 1401 1.315690 CTGGCCATGGATGTCATCAC 58.684 55.000 18.40 4.98 32.92 3.06
1767 1811 6.144080 CACGCCTTATTTGAGTATACTACAGC 59.856 42.308 5.09 4.24 0.00 4.40
2028 2072 7.400339 AGGAGTAGAGATTGTATGGTTTCTCAA 59.600 37.037 0.00 0.00 37.63 3.02
2045 2089 5.069251 ACCAATTCGTCCATTAGGAGTAGAG 59.931 44.000 0.00 0.00 46.92 2.43
2046 2090 4.960469 ACCAATTCGTCCATTAGGAGTAGA 59.040 41.667 0.00 0.00 46.92 2.59
2047 2091 5.277857 ACCAATTCGTCCATTAGGAGTAG 57.722 43.478 0.00 0.00 46.92 2.57
2048 2092 5.188163 TCAACCAATTCGTCCATTAGGAGTA 59.812 40.000 0.00 0.00 46.92 2.59
2049 2093 4.019681 TCAACCAATTCGTCCATTAGGAGT 60.020 41.667 0.00 0.00 46.92 3.85
2050 2094 4.513442 TCAACCAATTCGTCCATTAGGAG 58.487 43.478 0.00 0.00 46.92 3.69
2051 2095 4.561500 TCAACCAATTCGTCCATTAGGA 57.438 40.909 0.00 0.00 43.21 2.94
2052 2096 5.835113 ATTCAACCAATTCGTCCATTAGG 57.165 39.130 0.00 0.00 0.00 2.69
2053 2097 7.254795 GGACTATTCAACCAATTCGTCCATTAG 60.255 40.741 0.00 0.00 40.39 1.73
2054 2098 6.540914 GGACTATTCAACCAATTCGTCCATTA 59.459 38.462 0.00 0.00 40.39 1.90
2055 2099 5.357032 GGACTATTCAACCAATTCGTCCATT 59.643 40.000 0.00 0.00 40.39 3.16
2056 2100 4.881850 GGACTATTCAACCAATTCGTCCAT 59.118 41.667 0.00 0.00 40.39 3.41
2057 2101 4.258543 GGACTATTCAACCAATTCGTCCA 58.741 43.478 0.00 0.00 40.39 4.02
2058 2102 3.626217 GGGACTATTCAACCAATTCGTCC 59.374 47.826 0.00 0.00 40.18 4.79
2059 2103 3.626217 GGGGACTATTCAACCAATTCGTC 59.374 47.826 0.00 0.00 0.00 4.20
2060 2104 3.617284 GGGGACTATTCAACCAATTCGT 58.383 45.455 0.00 0.00 0.00 3.85
2061 2105 2.949644 GGGGGACTATTCAACCAATTCG 59.050 50.000 0.00 0.00 0.00 3.34
2079 2123 1.627864 AAACCGATTGAAAGTGGGGG 58.372 50.000 0.00 0.00 0.00 5.40
2080 2124 5.400066 AAATAAACCGATTGAAAGTGGGG 57.600 39.130 0.00 0.00 0.00 4.96
2081 2125 6.451393 TGAAAATAAACCGATTGAAAGTGGG 58.549 36.000 0.00 0.00 0.00 4.61
2082 2126 7.095816 GGTTGAAAATAAACCGATTGAAAGTGG 60.096 37.037 0.00 0.00 37.90 4.00
2083 2127 7.783209 GGTTGAAAATAAACCGATTGAAAGTG 58.217 34.615 0.00 0.00 37.90 3.16
2084 2128 7.940178 GGTTGAAAATAAACCGATTGAAAGT 57.060 32.000 0.00 0.00 37.90 2.66
2094 2138 9.043079 TGAAAATAAACCGGTTGAAAATAAACC 57.957 29.630 23.08 4.41 43.11 3.27
2097 2141 9.819267 AGTTGAAAATAAACCGGTTGAAAATAA 57.181 25.926 23.08 8.64 0.00 1.40
2098 2142 9.250624 CAGTTGAAAATAAACCGGTTGAAAATA 57.749 29.630 23.08 9.55 0.00 1.40
2099 2143 7.225734 CCAGTTGAAAATAAACCGGTTGAAAAT 59.774 33.333 23.08 7.21 0.00 1.82
2100 2144 6.535508 CCAGTTGAAAATAAACCGGTTGAAAA 59.464 34.615 23.08 7.52 0.00 2.29
2101 2145 6.043411 CCAGTTGAAAATAAACCGGTTGAAA 58.957 36.000 23.08 10.29 0.00 2.69
2102 2146 5.127356 ACCAGTTGAAAATAAACCGGTTGAA 59.873 36.000 23.08 13.11 35.26 2.69
2103 2147 4.645588 ACCAGTTGAAAATAAACCGGTTGA 59.354 37.500 23.08 15.22 35.26 3.18
2104 2148 4.939271 ACCAGTTGAAAATAAACCGGTTG 58.061 39.130 23.08 5.72 35.26 3.77
2105 2149 5.601583 AACCAGTTGAAAATAAACCGGTT 57.398 34.783 15.86 15.86 41.38 4.44
2106 2150 5.601583 AAACCAGTTGAAAATAAACCGGT 57.398 34.783 0.00 0.00 39.47 5.28
2107 2151 6.759356 AGAAAAACCAGTTGAAAATAAACCGG 59.241 34.615 0.00 0.00 32.35 5.28
2108 2152 7.764695 AGAAAAACCAGTTGAAAATAAACCG 57.235 32.000 0.00 0.00 0.00 4.44
2109 2153 8.325282 CGAAGAAAAACCAGTTGAAAATAAACC 58.675 33.333 0.00 0.00 0.00 3.27
2110 2154 8.865978 ACGAAGAAAAACCAGTTGAAAATAAAC 58.134 29.630 0.00 0.00 0.00 2.01
2111 2155 8.989653 ACGAAGAAAAACCAGTTGAAAATAAA 57.010 26.923 0.00 0.00 0.00 1.40
2112 2156 7.703197 GGACGAAGAAAAACCAGTTGAAAATAA 59.297 33.333 0.00 0.00 0.00 1.40
2113 2157 7.197703 GGACGAAGAAAAACCAGTTGAAAATA 58.802 34.615 0.00 0.00 0.00 1.40
2114 2158 6.040247 GGACGAAGAAAAACCAGTTGAAAAT 58.960 36.000 0.00 0.00 0.00 1.82
2115 2159 5.404096 GGACGAAGAAAAACCAGTTGAAAA 58.596 37.500 0.00 0.00 0.00 2.29
2116 2160 4.142337 GGGACGAAGAAAAACCAGTTGAAA 60.142 41.667 0.00 0.00 0.00 2.69
2117 2161 3.379057 GGGACGAAGAAAAACCAGTTGAA 59.621 43.478 0.00 0.00 0.00 2.69
2118 2162 2.946990 GGGACGAAGAAAAACCAGTTGA 59.053 45.455 0.00 0.00 0.00 3.18
2119 2163 2.685897 TGGGACGAAGAAAAACCAGTTG 59.314 45.455 0.00 0.00 0.00 3.16
2120 2164 2.686405 GTGGGACGAAGAAAAACCAGTT 59.314 45.455 0.00 0.00 0.00 3.16
2121 2165 2.294979 GTGGGACGAAGAAAAACCAGT 58.705 47.619 0.00 0.00 0.00 4.00
2122 2166 1.607148 GGTGGGACGAAGAAAAACCAG 59.393 52.381 0.00 0.00 0.00 4.00
2123 2167 1.213430 AGGTGGGACGAAGAAAAACCA 59.787 47.619 0.00 0.00 0.00 3.67
2124 2168 1.878088 GAGGTGGGACGAAGAAAAACC 59.122 52.381 0.00 0.00 0.00 3.27
2125 2169 2.806818 GAGAGGTGGGACGAAGAAAAAC 59.193 50.000 0.00 0.00 0.00 2.43
2126 2170 2.436542 TGAGAGGTGGGACGAAGAAAAA 59.563 45.455 0.00 0.00 0.00 1.94
2127 2171 2.043992 TGAGAGGTGGGACGAAGAAAA 58.956 47.619 0.00 0.00 0.00 2.29
2128 2172 1.343465 GTGAGAGGTGGGACGAAGAAA 59.657 52.381 0.00 0.00 0.00 2.52
2129 2173 0.966920 GTGAGAGGTGGGACGAAGAA 59.033 55.000 0.00 0.00 0.00 2.52
2130 2174 0.898789 GGTGAGAGGTGGGACGAAGA 60.899 60.000 0.00 0.00 0.00 2.87
2131 2175 1.185618 TGGTGAGAGGTGGGACGAAG 61.186 60.000 0.00 0.00 0.00 3.79
2132 2176 1.152419 TGGTGAGAGGTGGGACGAA 60.152 57.895 0.00 0.00 0.00 3.85
2133 2177 1.606601 CTGGTGAGAGGTGGGACGA 60.607 63.158 0.00 0.00 0.00 4.20
2134 2178 2.973899 CTGGTGAGAGGTGGGACG 59.026 66.667 0.00 0.00 0.00 4.79
2135 2179 2.665603 GCTGGTGAGAGGTGGGAC 59.334 66.667 0.00 0.00 0.00 4.46
2136 2180 2.607750 GGCTGGTGAGAGGTGGGA 60.608 66.667 0.00 0.00 0.00 4.37
2137 2181 3.721706 GGGCTGGTGAGAGGTGGG 61.722 72.222 0.00 0.00 0.00 4.61
2138 2182 3.721706 GGGGCTGGTGAGAGGTGG 61.722 72.222 0.00 0.00 0.00 4.61
2139 2183 2.608988 AGGGGCTGGTGAGAGGTG 60.609 66.667 0.00 0.00 0.00 4.00
2140 2184 2.284995 GAGGGGCTGGTGAGAGGT 60.285 66.667 0.00 0.00 0.00 3.85
2141 2185 3.086600 GGAGGGGCTGGTGAGAGG 61.087 72.222 0.00 0.00 0.00 3.69
2142 2186 3.086600 GGGAGGGGCTGGTGAGAG 61.087 72.222 0.00 0.00 0.00 3.20
2143 2187 3.940480 TGGGAGGGGCTGGTGAGA 61.940 66.667 0.00 0.00 0.00 3.27
2144 2188 3.721706 GTGGGAGGGGCTGGTGAG 61.722 72.222 0.00 0.00 0.00 3.51
2151 2195 3.820825 AAAAACCGGTGGGAGGGGC 62.821 63.158 8.52 0.00 36.97 5.80
2152 2196 1.605451 GAAAAACCGGTGGGAGGGG 60.605 63.158 8.52 0.00 36.97 4.79
2153 2197 0.608308 GAGAAAAACCGGTGGGAGGG 60.608 60.000 8.52 0.00 36.97 4.30
2154 2198 0.400594 AGAGAAAAACCGGTGGGAGG 59.599 55.000 8.52 0.00 36.97 4.30
2155 2199 2.271944 AAGAGAAAAACCGGTGGGAG 57.728 50.000 8.52 0.00 36.97 4.30
2156 2200 2.740506 AAAGAGAAAAACCGGTGGGA 57.259 45.000 8.52 0.00 36.97 4.37
2157 2201 2.956333 AGAAAAGAGAAAAACCGGTGGG 59.044 45.455 8.52 0.00 40.11 4.61
2158 2202 3.303791 CGAGAAAAGAGAAAAACCGGTGG 60.304 47.826 8.52 0.00 0.00 4.61
2159 2203 3.311596 ACGAGAAAAGAGAAAAACCGGTG 59.688 43.478 8.52 0.00 0.00 4.94
2160 2204 3.538591 ACGAGAAAAGAGAAAAACCGGT 58.461 40.909 0.00 0.00 0.00 5.28
2161 2205 3.808174 AGACGAGAAAAGAGAAAAACCGG 59.192 43.478 0.00 0.00 0.00 5.28
2162 2206 4.506654 TCAGACGAGAAAAGAGAAAAACCG 59.493 41.667 0.00 0.00 0.00 4.44
2163 2207 5.277393 GGTCAGACGAGAAAAGAGAAAAACC 60.277 44.000 0.00 0.00 0.00 3.27
2164 2208 5.556570 CGGTCAGACGAGAAAAGAGAAAAAC 60.557 44.000 0.00 0.00 35.47 2.43
2165 2209 4.506654 CGGTCAGACGAGAAAAGAGAAAAA 59.493 41.667 0.00 0.00 35.47 1.94
2166 2210 4.049186 CGGTCAGACGAGAAAAGAGAAAA 58.951 43.478 0.00 0.00 35.47 2.29
2167 2211 3.552273 CCGGTCAGACGAGAAAAGAGAAA 60.552 47.826 0.00 0.00 35.47 2.52
2168 2212 2.030185 CCGGTCAGACGAGAAAAGAGAA 60.030 50.000 0.00 0.00 35.47 2.87
2169 2213 1.540267 CCGGTCAGACGAGAAAAGAGA 59.460 52.381 0.00 0.00 35.47 3.10
2170 2214 1.983972 CCGGTCAGACGAGAAAAGAG 58.016 55.000 0.00 0.00 35.47 2.85
2171 2215 0.038526 GCCGGTCAGACGAGAAAAGA 60.039 55.000 1.90 0.00 35.47 2.52
2172 2216 0.319555 TGCCGGTCAGACGAGAAAAG 60.320 55.000 1.90 0.00 35.47 2.27
2173 2217 0.105224 TTGCCGGTCAGACGAGAAAA 59.895 50.000 1.90 0.00 35.47 2.29
2174 2218 0.320374 ATTGCCGGTCAGACGAGAAA 59.680 50.000 1.90 0.00 35.47 2.52
2175 2219 1.135199 GTATTGCCGGTCAGACGAGAA 60.135 52.381 1.90 0.00 35.47 2.87
2176 2220 0.454600 GTATTGCCGGTCAGACGAGA 59.545 55.000 1.90 0.00 35.47 4.04
2177 2221 0.866061 CGTATTGCCGGTCAGACGAG 60.866 60.000 20.36 0.00 37.78 4.18
2178 2222 1.138036 CGTATTGCCGGTCAGACGA 59.862 57.895 20.36 0.23 37.78 4.20
2179 2223 2.514013 GCGTATTGCCGGTCAGACG 61.514 63.158 20.53 20.53 38.27 4.18
2180 2224 1.017177 TTGCGTATTGCCGGTCAGAC 61.017 55.000 1.90 3.44 45.60 3.51
2181 2225 1.017177 GTTGCGTATTGCCGGTCAGA 61.017 55.000 1.90 0.00 45.60 3.27
2182 2226 1.423845 GTTGCGTATTGCCGGTCAG 59.576 57.895 1.90 0.00 45.60 3.51
2183 2227 2.384309 CGTTGCGTATTGCCGGTCA 61.384 57.895 1.90 0.00 45.60 4.02
2184 2228 1.077645 TACGTTGCGTATTGCCGGTC 61.078 55.000 1.90 0.00 45.60 4.79
2185 2229 1.079956 TACGTTGCGTATTGCCGGT 60.080 52.632 1.90 0.00 45.60 5.28
2186 2230 3.783393 TACGTTGCGTATTGCCGG 58.217 55.556 0.00 0.00 45.60 6.13
2193 2237 7.767745 TTGATTACCATAAATACGTTGCGTA 57.232 32.000 0.00 3.85 46.28 4.42
2194 2238 6.665474 TTGATTACCATAAATACGTTGCGT 57.335 33.333 0.00 0.00 44.35 5.24
2195 2239 7.348956 TGATTGATTACCATAAATACGTTGCG 58.651 34.615 0.00 0.00 0.00 4.85
2208 2252 9.567776 ACGTGGATTAATTATGATTGATTACCA 57.432 29.630 0.00 0.00 0.00 3.25
2219 2263 9.790389 GGAGTAGAGATACGTGGATTAATTATG 57.210 37.037 0.00 0.00 0.00 1.90
2220 2264 9.756571 AGGAGTAGAGATACGTGGATTAATTAT 57.243 33.333 0.00 0.00 0.00 1.28
2222 2266 9.584008 TTAGGAGTAGAGATACGTGGATTAATT 57.416 33.333 0.00 0.00 0.00 1.40
2223 2267 9.756571 ATTAGGAGTAGAGATACGTGGATTAAT 57.243 33.333 0.00 0.00 0.00 1.40
2224 2268 9.011095 CATTAGGAGTAGAGATACGTGGATTAA 57.989 37.037 0.00 0.00 0.00 1.40
2225 2269 7.610692 CCATTAGGAGTAGAGATACGTGGATTA 59.389 40.741 0.00 0.00 36.89 1.75
2226 2270 6.434652 CCATTAGGAGTAGAGATACGTGGATT 59.565 42.308 0.00 0.00 36.89 3.01
2227 2271 5.946972 CCATTAGGAGTAGAGATACGTGGAT 59.053 44.000 0.00 0.00 36.89 3.41
2228 2272 5.072736 TCCATTAGGAGTAGAGATACGTGGA 59.927 44.000 0.00 0.00 39.61 4.02
2229 2273 5.181622 GTCCATTAGGAGTAGAGATACGTGG 59.818 48.000 0.00 0.00 46.92 4.94
2230 2274 5.107026 CGTCCATTAGGAGTAGAGATACGTG 60.107 48.000 0.00 0.00 46.92 4.49
2231 2275 4.996122 CGTCCATTAGGAGTAGAGATACGT 59.004 45.833 0.00 0.00 46.92 3.57
2232 2276 5.236282 TCGTCCATTAGGAGTAGAGATACG 58.764 45.833 0.00 0.00 46.92 3.06
2233 2277 7.690952 ATTCGTCCATTAGGAGTAGAGATAC 57.309 40.000 0.00 0.00 46.92 2.24
2234 2278 7.176865 CCAATTCGTCCATTAGGAGTAGAGATA 59.823 40.741 0.00 0.00 46.92 1.98
2301 2346 1.213430 AGGTGGGACGAAGAAAAACCA 59.787 47.619 0.00 0.00 0.00 3.67
2421 2481 6.069088 TGACCTTACCATACCTGGATTGATTT 60.069 38.462 0.00 0.00 46.37 2.17
2422 2482 5.431731 TGACCTTACCATACCTGGATTGATT 59.568 40.000 0.00 0.00 46.37 2.57
2633 2710 6.069088 TGACCTTACCATACCTGGATTGATTT 60.069 38.462 0.00 0.00 46.37 2.17
2634 2711 5.431731 TGACCTTACCATACCTGGATTGATT 59.568 40.000 0.00 0.00 46.37 2.57


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

AutoCloner maintained by Alex Coulton.