Multiple sequence alignment - TraesCS4B01G357300

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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 TraesCS4B01G357300 chr4B 100.000 2777 0 0 1 2777 647760375 647757599 0.000000e+00 5129.0
1 TraesCS4B01G357300 chr4B 92.237 1855 88 24 146 1949 648065682 648067531 0.000000e+00 2577.0
2 TraesCS4B01G357300 chr4B 79.459 813 125 19 1001 1783 658613404 658612604 3.150000e-149 538.0
3 TraesCS4B01G357300 chr4B 79.459 813 125 19 1001 1783 658644379 658643579 3.150000e-149 538.0
4 TraesCS4B01G357300 chr4B 75.261 1055 178 48 816 1827 644484645 644483631 2.560000e-115 425.0
5 TraesCS4B01G357300 chr4B 73.226 620 107 38 1239 1827 644491654 644491063 1.320000e-38 171.0
6 TraesCS4B01G357300 chr4B 73.696 441 83 21 1407 1827 644354929 644355356 1.040000e-29 141.0
7 TraesCS4B01G357300 chr4B 100.000 30 0 0 2531 2560 185230584 185230555 3.860000e-04 56.5
8 TraesCS4B01G357300 chr4D 89.460 1907 123 36 249 2103 503144291 503146171 0.000000e+00 2337.0
9 TraesCS4B01G357300 chr4D 78.465 808 139 18 1000 1779 508938138 508938938 1.920000e-136 496.0
10 TraesCS4B01G357300 chr4D 76.810 815 139 25 991 1782 500680014 500679227 1.990000e-111 412.0
11 TraesCS4B01G357300 chr4D 92.672 232 17 0 1 232 503143569 503143800 4.430000e-88 335.0
12 TraesCS4B01G357300 chr4D 87.544 281 30 5 250 529 53881468 53881744 1.240000e-83 320.0
13 TraesCS4B01G357300 chr4D 86.879 282 31 4 250 530 468358611 468358887 7.470000e-81 311.0
14 TraesCS4B01G357300 chr4D 87.004 277 32 4 250 525 20134022 20134295 2.690000e-80 309.0
15 TraesCS4B01G357300 chr4D 91.710 193 15 1 2585 2777 503148844 503149035 1.640000e-67 267.0
16 TraesCS4B01G357300 chr4D 85.253 217 25 2 2238 2453 503146180 503146390 1.670000e-52 217.0
17 TraesCS4B01G357300 chr4D 73.824 489 89 25 1363 1827 500551530 500551057 1.030000e-34 158.0
18 TraesCS4B01G357300 chr4D 95.238 42 2 0 1798 1839 503149262 503149221 1.780000e-07 67.6
19 TraesCS4B01G357300 chr4D 100.000 30 0 0 2531 2560 122196856 122196827 3.860000e-04 56.5
20 TraesCS4B01G357300 chr5A 89.087 1008 56 17 312 1276 687363192 687362196 0.000000e+00 1203.0
21 TraesCS4B01G357300 chr5A 89.542 851 64 10 1268 2103 687353469 687352629 0.000000e+00 1055.0
22 TraesCS4B01G357300 chr5A 77.975 1185 161 40 710 1824 696849419 696850573 0.000000e+00 651.0
23 TraesCS4B01G357300 chr5A 77.929 1178 160 40 710 1817 696888532 696889679 0.000000e+00 643.0
24 TraesCS4B01G357300 chr5A 76.796 1267 183 55 668 1852 696477225 696478462 2.360000e-170 608.0
25 TraesCS4B01G357300 chr5A 75.725 1034 174 46 838 1827 681546699 681545699 5.460000e-122 448.0
26 TraesCS4B01G357300 chr5A 89.198 324 23 4 1 313 687363808 687363486 7.210000e-106 394.0
27 TraesCS4B01G357300 chr5A 86.071 280 33 5 253 531 28234311 28234037 2.090000e-76 296.0
28 TraesCS4B01G357300 chr5A 88.934 244 22 1 2534 2777 687352369 687352131 2.090000e-76 296.0
29 TraesCS4B01G357300 chr5A 87.330 221 22 1 2244 2464 687352618 687352404 5.940000e-62 248.0
30 TraesCS4B01G357300 chrUn 87.737 579 41 13 312 869 359681013 359681582 0.000000e+00 649.0
31 TraesCS4B01G357300 chrUn 87.565 579 42 13 312 869 446000703 446001272 0.000000e+00 643.0
32 TraesCS4B01G357300 chrUn 74.529 1115 200 49 756 1827 10164050 10162977 2.570000e-110 409.0
33 TraesCS4B01G357300 chrUn 89.198 324 23 4 1 313 332578875 332578553 7.210000e-106 394.0
34 TraesCS4B01G357300 chrUn 89.198 324 23 4 1 313 359680401 359680723 7.210000e-106 394.0
35 TraesCS4B01G357300 chr3D 75.894 1174 173 52 684 1778 529903372 529904514 1.490000e-137 499.0
36 TraesCS4B01G357300 chr3D 75.676 592 97 26 1000 1566 530418168 530418737 4.590000e-63 252.0
37 TraesCS4B01G357300 chr3D 91.111 45 4 0 2517 2561 417470011 417469967 8.300000e-06 62.1
38 TraesCS4B01G357300 chr3A 75.340 1176 175 52 684 1778 664102274 664103415 2.520000e-125 459.0
39 TraesCS4B01G357300 chr3A 74.650 572 87 29 1000 1546 664139875 664140413 1.690000e-47 200.0
40 TraesCS4B01G357300 chr3A 81.429 210 27 9 1625 1824 664140456 664140663 7.960000e-36 161.0
41 TraesCS4B01G357300 chr1B 87.594 266 29 3 253 518 580112195 580111934 3.470000e-79 305.0
42 TraesCS4B01G357300 chr7D 92.857 42 3 0 2517 2558 58171314 58171355 8.300000e-06 62.1
43 TraesCS4B01G357300 chr1D 93.023 43 0 3 2523 2563 31839491 31839450 2.990000e-05 60.2


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 TraesCS4B01G357300 chr4B 647757599 647760375 2776 True 5129.0 5129 100.00000 1 2777 1 chr4B.!!$R4 2776
1 TraesCS4B01G357300 chr4B 648065682 648067531 1849 False 2577.0 2577 92.23700 146 1949 1 chr4B.!!$F2 1803
2 TraesCS4B01G357300 chr4B 658612604 658613404 800 True 538.0 538 79.45900 1001 1783 1 chr4B.!!$R5 782
3 TraesCS4B01G357300 chr4B 658643579 658644379 800 True 538.0 538 79.45900 1001 1783 1 chr4B.!!$R6 782
4 TraesCS4B01G357300 chr4B 644483631 644484645 1014 True 425.0 425 75.26100 816 1827 1 chr4B.!!$R2 1011
5 TraesCS4B01G357300 chr4D 503143569 503149035 5466 False 789.0 2337 89.77375 1 2777 4 chr4D.!!$F5 2776
6 TraesCS4B01G357300 chr4D 508938138 508938938 800 False 496.0 496 78.46500 1000 1779 1 chr4D.!!$F4 779
7 TraesCS4B01G357300 chr4D 500679227 500680014 787 True 412.0 412 76.81000 991 1782 1 chr4D.!!$R3 791
8 TraesCS4B01G357300 chr5A 687362196 687363808 1612 True 798.5 1203 89.14250 1 1276 2 chr5A.!!$R4 1275
9 TraesCS4B01G357300 chr5A 696849419 696850573 1154 False 651.0 651 77.97500 710 1824 1 chr5A.!!$F2 1114
10 TraesCS4B01G357300 chr5A 696888532 696889679 1147 False 643.0 643 77.92900 710 1817 1 chr5A.!!$F3 1107
11 TraesCS4B01G357300 chr5A 696477225 696478462 1237 False 608.0 608 76.79600 668 1852 1 chr5A.!!$F1 1184
12 TraesCS4B01G357300 chr5A 687352131 687353469 1338 True 533.0 1055 88.60200 1268 2777 3 chr5A.!!$R3 1509
13 TraesCS4B01G357300 chr5A 681545699 681546699 1000 True 448.0 448 75.72500 838 1827 1 chr5A.!!$R2 989
14 TraesCS4B01G357300 chrUn 446000703 446001272 569 False 643.0 643 87.56500 312 869 1 chrUn.!!$F1 557
15 TraesCS4B01G357300 chrUn 359680401 359681582 1181 False 521.5 649 88.46750 1 869 2 chrUn.!!$F2 868
16 TraesCS4B01G357300 chrUn 10162977 10164050 1073 True 409.0 409 74.52900 756 1827 1 chrUn.!!$R1 1071
17 TraesCS4B01G357300 chr3D 529903372 529904514 1142 False 499.0 499 75.89400 684 1778 1 chr3D.!!$F1 1094
18 TraesCS4B01G357300 chr3D 530418168 530418737 569 False 252.0 252 75.67600 1000 1566 1 chr3D.!!$F2 566
19 TraesCS4B01G357300 chr3A 664102274 664103415 1141 False 459.0 459 75.34000 684 1778 1 chr3A.!!$F1 1094

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
452 1225 0.107654 AAGCTAAGGACCCACGCATC 60.108 55.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2346 3405 0.030504 TGGTTGCATGCACGAAACAG 59.969 50.0 22.58 0.0 0.0 3.16 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
23 24 5.584253 AGTCTACAAGATACAGTTGCGAT 57.416 39.130 0.00 0.00 0.00 4.58
33 34 7.907214 AGATACAGTTGCGATTTCTTAAACT 57.093 32.000 0.00 0.00 0.00 2.66
39 40 8.015658 ACAGTTGCGATTTCTTAAACTATTGAC 58.984 33.333 0.00 0.00 30.20 3.18
82 83 6.871492 ACAAACGAAATTGGACTCTTTTGTTT 59.129 30.769 6.63 7.30 44.19 2.83
101 102 5.141182 TGTTTGGGCATAAAAGTACTCCAA 58.859 37.500 5.98 5.98 0.00 3.53
185 186 6.414732 CATCATTGGTGGTCCTAACTAGAAA 58.585 40.000 0.00 0.00 34.23 2.52
227 228 5.661458 AGAGTCCACACCAAATAAGTATCG 58.339 41.667 0.00 0.00 0.00 2.92
247 723 0.676466 TTAGGCCGTGCTTCATGGTG 60.676 55.000 0.00 0.00 42.15 4.17
251 727 0.953471 GCCGTGCTTCATGGTGTGTA 60.953 55.000 6.89 0.00 42.15 2.90
257 733 4.566004 GTGCTTCATGGTGTGTACTAAGA 58.434 43.478 0.00 0.00 0.00 2.10
263 739 1.271379 TGGTGTGTACTAAGAGTGCCG 59.729 52.381 0.00 0.00 29.18 5.69
305 783 4.021981 GTGGCAAAGCAATTAAAGAGGAGT 60.022 41.667 0.00 0.00 0.00 3.85
318 1091 5.337578 AAAGAGGAGTGAGAGAGCATTAC 57.662 43.478 0.00 0.00 0.00 1.89
360 1133 0.529992 GCTAAGCGCGTGGACCTATT 60.530 55.000 11.44 0.00 0.00 1.73
375 1148 7.334921 CGTGGACCTATTTAAAATGACTACCAA 59.665 37.037 0.00 0.00 0.00 3.67
445 1218 5.123502 GCTTAACTACAAAAGCTAAGGACCC 59.876 44.000 0.00 0.00 43.77 4.46
447 1220 4.017177 ACTACAAAAGCTAAGGACCCAC 57.983 45.455 0.00 0.00 0.00 4.61
452 1225 0.107654 AAGCTAAGGACCCACGCATC 60.108 55.000 0.00 0.00 0.00 3.91
506 1281 2.739885 AGCATCTCATCTACGCATCC 57.260 50.000 0.00 0.00 0.00 3.51
649 1474 2.627791 GGCAACAAAATTGGCCACC 58.372 52.632 3.88 0.00 45.70 4.61
1287 2228 1.153901 ATACGCCGAGTTCACCACG 60.154 57.895 0.00 0.00 0.00 4.94
1460 2428 0.179073 CACCTCCAGGATCGCGATTT 60.179 55.000 24.55 12.12 38.94 2.17
1674 2702 1.738099 GAAGCGTCGTCATGGCTGT 60.738 57.895 0.00 0.00 37.06 4.40
1899 2944 1.069906 CAGAACTGTTTTTCGCTCCCG 60.070 52.381 0.00 0.00 0.00 5.14
1981 3030 8.851541 TGTTGGTCGGAAATAACTTTATACTT 57.148 30.769 0.00 0.00 0.00 2.24
1984 3033 7.049754 TGGTCGGAAATAACTTTATACTTCCC 58.950 38.462 6.78 0.00 31.08 3.97
2007 3061 6.266103 CCCCCGTAACTGAATATAAGACACTA 59.734 42.308 0.00 0.00 0.00 2.74
2064 3118 6.491403 ACAAAGGTAGTGAGAATTTGCAAGAT 59.509 34.615 0.00 0.00 34.90 2.40
2103 3162 8.810041 ACATATTTTCCTTGAAGAGCTGAAAAT 58.190 29.630 17.55 17.55 43.88 1.82
2104 3163 9.649167 CATATTTTCCTTGAAGAGCTGAAAATT 57.351 29.630 18.26 8.42 40.73 1.82
2107 3166 8.871686 TTTTCCTTGAAGAGCTGAAAATTTAC 57.128 30.769 0.00 0.00 31.90 2.01
2108 3167 7.823745 TTCCTTGAAGAGCTGAAAATTTACT 57.176 32.000 0.00 0.00 0.00 2.24
2109 3168 8.918202 TTCCTTGAAGAGCTGAAAATTTACTA 57.082 30.769 0.00 0.00 0.00 1.82
2111 3170 8.784043 TCCTTGAAGAGCTGAAAATTTACTAAC 58.216 33.333 0.00 0.00 0.00 2.34
2112 3171 8.023706 CCTTGAAGAGCTGAAAATTTACTAACC 58.976 37.037 0.00 0.00 0.00 2.85
2113 3172 8.691661 TTGAAGAGCTGAAAATTTACTAACCT 57.308 30.769 0.00 0.00 0.00 3.50
2114 3173 8.099364 TGAAGAGCTGAAAATTTACTAACCTG 57.901 34.615 0.00 0.00 0.00 4.00
2115 3174 7.174946 TGAAGAGCTGAAAATTTACTAACCTGG 59.825 37.037 0.00 0.00 0.00 4.45
2116 3175 5.946377 AGAGCTGAAAATTTACTAACCTGGG 59.054 40.000 0.00 0.00 0.00 4.45
2117 3176 5.887754 AGCTGAAAATTTACTAACCTGGGA 58.112 37.500 0.00 0.00 0.00 4.37
2118 3177 5.946377 AGCTGAAAATTTACTAACCTGGGAG 59.054 40.000 0.00 0.00 0.00 4.30
2119 3178 5.944007 GCTGAAAATTTACTAACCTGGGAGA 59.056 40.000 0.00 0.00 0.00 3.71
2120 3179 6.094186 GCTGAAAATTTACTAACCTGGGAGAG 59.906 42.308 0.00 0.00 0.00 3.20
2121 3180 7.324388 TGAAAATTTACTAACCTGGGAGAGA 57.676 36.000 0.00 0.00 0.00 3.10
2122 3181 7.394816 TGAAAATTTACTAACCTGGGAGAGAG 58.605 38.462 0.00 0.00 0.00 3.20
2123 3182 7.236847 TGAAAATTTACTAACCTGGGAGAGAGA 59.763 37.037 0.00 0.00 0.00 3.10
2124 3183 6.800072 AATTTACTAACCTGGGAGAGAGAG 57.200 41.667 0.00 0.00 0.00 3.20
2125 3184 2.838637 ACTAACCTGGGAGAGAGAGG 57.161 55.000 0.00 0.00 0.00 3.69
2126 3185 1.289530 ACTAACCTGGGAGAGAGAGGG 59.710 57.143 0.00 0.00 0.00 4.30
2127 3186 1.571457 CTAACCTGGGAGAGAGAGGGA 59.429 57.143 0.00 0.00 0.00 4.20
2128 3187 0.338120 AACCTGGGAGAGAGAGGGAG 59.662 60.000 0.00 0.00 0.00 4.30
2129 3188 0.553862 ACCTGGGAGAGAGAGGGAGA 60.554 60.000 0.00 0.00 0.00 3.71
2130 3189 0.185901 CCTGGGAGAGAGAGGGAGAG 59.814 65.000 0.00 0.00 0.00 3.20
2131 3190 0.185901 CTGGGAGAGAGAGGGAGAGG 59.814 65.000 0.00 0.00 0.00 3.69
2132 3191 1.292941 TGGGAGAGAGAGGGAGAGGG 61.293 65.000 0.00 0.00 0.00 4.30
2133 3192 0.996762 GGGAGAGAGAGGGAGAGGGA 60.997 65.000 0.00 0.00 0.00 4.20
2134 3193 1.158007 GGAGAGAGAGGGAGAGGGAT 58.842 60.000 0.00 0.00 0.00 3.85
2135 3194 1.203050 GGAGAGAGAGGGAGAGGGATG 60.203 61.905 0.00 0.00 0.00 3.51
2136 3195 0.859760 AGAGAGAGGGAGAGGGATGG 59.140 60.000 0.00 0.00 0.00 3.51
2137 3196 0.178935 GAGAGAGGGAGAGGGATGGG 60.179 65.000 0.00 0.00 0.00 4.00
2138 3197 1.841103 GAGAGGGAGAGGGATGGGC 60.841 68.421 0.00 0.00 0.00 5.36
2139 3198 3.237741 GAGGGAGAGGGATGGGCG 61.238 72.222 0.00 0.00 0.00 6.13
2140 3199 3.758133 GAGGGAGAGGGATGGGCGA 62.758 68.421 0.00 0.00 0.00 5.54
2141 3200 2.768344 GGGAGAGGGATGGGCGAA 60.768 66.667 0.00 0.00 0.00 4.70
2142 3201 2.150051 GGGAGAGGGATGGGCGAAT 61.150 63.158 0.00 0.00 0.00 3.34
2143 3202 1.709994 GGGAGAGGGATGGGCGAATT 61.710 60.000 0.00 0.00 0.00 2.17
2144 3203 0.536006 GGAGAGGGATGGGCGAATTG 60.536 60.000 0.00 0.00 0.00 2.32
2145 3204 0.181350 GAGAGGGATGGGCGAATTGT 59.819 55.000 0.00 0.00 0.00 2.71
2146 3205 0.181350 AGAGGGATGGGCGAATTGTC 59.819 55.000 0.00 0.00 0.00 3.18
2160 3219 4.741754 CGAATTGTCGCTTCTAAATCTCG 58.258 43.478 0.00 0.00 41.08 4.04
2161 3220 4.509891 GAATTGTCGCTTCTAAATCTCGC 58.490 43.478 0.00 0.00 0.00 5.03
2162 3221 2.941453 TGTCGCTTCTAAATCTCGCT 57.059 45.000 0.00 0.00 0.00 4.93
2163 3222 3.232213 TGTCGCTTCTAAATCTCGCTT 57.768 42.857 0.00 0.00 0.00 4.68
2164 3223 3.179830 TGTCGCTTCTAAATCTCGCTTC 58.820 45.455 0.00 0.00 0.00 3.86
2165 3224 3.179830 GTCGCTTCTAAATCTCGCTTCA 58.820 45.455 0.00 0.00 0.00 3.02
2166 3225 3.799420 GTCGCTTCTAAATCTCGCTTCAT 59.201 43.478 0.00 0.00 0.00 2.57
2167 3226 4.268884 GTCGCTTCTAAATCTCGCTTCATT 59.731 41.667 0.00 0.00 0.00 2.57
2168 3227 4.268644 TCGCTTCTAAATCTCGCTTCATTG 59.731 41.667 0.00 0.00 0.00 2.82
2169 3228 4.268644 CGCTTCTAAATCTCGCTTCATTGA 59.731 41.667 0.00 0.00 0.00 2.57
2170 3229 5.220472 CGCTTCTAAATCTCGCTTCATTGAA 60.220 40.000 0.00 0.00 0.00 2.69
2171 3230 6.510799 CGCTTCTAAATCTCGCTTCATTGAAT 60.511 38.462 0.00 0.00 0.00 2.57
2172 3231 6.850317 GCTTCTAAATCTCGCTTCATTGAATC 59.150 38.462 0.00 0.00 0.00 2.52
2173 3232 7.254727 GCTTCTAAATCTCGCTTCATTGAATCT 60.255 37.037 0.00 0.00 0.00 2.40
2174 3233 7.706281 TCTAAATCTCGCTTCATTGAATCTC 57.294 36.000 0.00 0.00 0.00 2.75
2175 3234 5.747951 AAATCTCGCTTCATTGAATCTCC 57.252 39.130 0.00 0.00 0.00 3.71
2176 3235 4.686191 ATCTCGCTTCATTGAATCTCCT 57.314 40.909 0.00 0.00 0.00 3.69
2177 3236 3.790091 TCTCGCTTCATTGAATCTCCTG 58.210 45.455 0.00 0.00 0.00 3.86
2178 3237 2.283298 TCGCTTCATTGAATCTCCTGC 58.717 47.619 0.00 0.00 0.00 4.85
2179 3238 2.093288 TCGCTTCATTGAATCTCCTGCT 60.093 45.455 0.00 0.00 0.00 4.24
2180 3239 2.287373 CGCTTCATTGAATCTCCTGCTC 59.713 50.000 0.00 0.00 0.00 4.26
2181 3240 2.617774 GCTTCATTGAATCTCCTGCTCC 59.382 50.000 0.00 0.00 0.00 4.70
2182 3241 3.882444 CTTCATTGAATCTCCTGCTCCA 58.118 45.455 0.00 0.00 0.00 3.86
2183 3242 4.267536 CTTCATTGAATCTCCTGCTCCAA 58.732 43.478 0.00 0.00 0.00 3.53
2184 3243 3.882444 TCATTGAATCTCCTGCTCCAAG 58.118 45.455 0.00 0.00 0.00 3.61
2185 3244 3.265221 TCATTGAATCTCCTGCTCCAAGT 59.735 43.478 0.00 0.00 0.00 3.16
2186 3245 4.471025 TCATTGAATCTCCTGCTCCAAGTA 59.529 41.667 0.00 0.00 0.00 2.24
2187 3246 4.908601 TTGAATCTCCTGCTCCAAGTAA 57.091 40.909 0.00 0.00 0.00 2.24
2188 3247 5.441718 TTGAATCTCCTGCTCCAAGTAAT 57.558 39.130 0.00 0.00 0.00 1.89
2189 3248 6.560003 TTGAATCTCCTGCTCCAAGTAATA 57.440 37.500 0.00 0.00 0.00 0.98
2190 3249 6.560003 TGAATCTCCTGCTCCAAGTAATAA 57.440 37.500 0.00 0.00 0.00 1.40
2191 3250 7.141758 TGAATCTCCTGCTCCAAGTAATAAT 57.858 36.000 0.00 0.00 0.00 1.28
2192 3251 7.577303 TGAATCTCCTGCTCCAAGTAATAATT 58.423 34.615 0.00 0.00 0.00 1.40
2193 3252 8.055181 TGAATCTCCTGCTCCAAGTAATAATTT 58.945 33.333 0.00 0.00 0.00 1.82
2194 3253 8.457238 AATCTCCTGCTCCAAGTAATAATTTC 57.543 34.615 0.00 0.00 0.00 2.17
2195 3254 6.357367 TCTCCTGCTCCAAGTAATAATTTCC 58.643 40.000 0.00 0.00 0.00 3.13
2196 3255 6.069673 TCTCCTGCTCCAAGTAATAATTTCCA 60.070 38.462 0.00 0.00 0.00 3.53
2197 3256 6.122277 TCCTGCTCCAAGTAATAATTTCCAG 58.878 40.000 0.00 0.00 0.00 3.86
2198 3257 5.300286 CCTGCTCCAAGTAATAATTTCCAGG 59.700 44.000 0.00 0.00 0.00 4.45
2199 3258 4.644685 TGCTCCAAGTAATAATTTCCAGGC 59.355 41.667 0.00 0.00 0.00 4.85
2200 3259 4.261197 GCTCCAAGTAATAATTTCCAGGCG 60.261 45.833 0.00 0.00 0.00 5.52
2201 3260 5.105567 TCCAAGTAATAATTTCCAGGCGA 57.894 39.130 0.00 0.00 0.00 5.54
2202 3261 4.879545 TCCAAGTAATAATTTCCAGGCGAC 59.120 41.667 0.00 0.00 0.00 5.19
2203 3262 4.638421 CCAAGTAATAATTTCCAGGCGACA 59.362 41.667 0.00 0.00 0.00 4.35
2204 3263 5.124776 CCAAGTAATAATTTCCAGGCGACAA 59.875 40.000 0.00 0.00 0.00 3.18
2205 3264 6.258160 CAAGTAATAATTTCCAGGCGACAAG 58.742 40.000 0.00 0.00 0.00 3.16
2206 3265 5.741011 AGTAATAATTTCCAGGCGACAAGA 58.259 37.500 0.00 0.00 0.00 3.02
2207 3266 4.965119 AATAATTTCCAGGCGACAAGAC 57.035 40.909 0.00 0.00 0.00 3.01
2208 3267 2.270352 AATTTCCAGGCGACAAGACA 57.730 45.000 0.00 0.00 0.00 3.41
2209 3268 1.523758 ATTTCCAGGCGACAAGACAC 58.476 50.000 0.00 0.00 0.00 3.67
2210 3269 0.179234 TTTCCAGGCGACAAGACACA 59.821 50.000 0.00 0.00 0.00 3.72
2211 3270 0.249868 TTCCAGGCGACAAGACACAG 60.250 55.000 0.00 0.00 0.00 3.66
2212 3271 1.069765 CCAGGCGACAAGACACAGT 59.930 57.895 0.00 0.00 0.00 3.55
2213 3272 0.317160 CCAGGCGACAAGACACAGTA 59.683 55.000 0.00 0.00 0.00 2.74
2214 3273 1.670087 CCAGGCGACAAGACACAGTAG 60.670 57.143 0.00 0.00 0.00 2.57
2215 3274 1.269723 CAGGCGACAAGACACAGTAGA 59.730 52.381 0.00 0.00 0.00 2.59
2216 3275 1.961394 AGGCGACAAGACACAGTAGAA 59.039 47.619 0.00 0.00 0.00 2.10
2217 3276 2.059541 GGCGACAAGACACAGTAGAAC 58.940 52.381 0.00 0.00 0.00 3.01
2218 3277 2.288273 GGCGACAAGACACAGTAGAACT 60.288 50.000 0.00 0.00 0.00 3.01
2227 3286 2.827604 CAGTAGAACTGTGCACGGG 58.172 57.895 28.65 17.95 41.19 5.28
2228 3287 0.317160 CAGTAGAACTGTGCACGGGA 59.683 55.000 28.65 8.99 41.19 5.14
2229 3288 1.066858 CAGTAGAACTGTGCACGGGAT 60.067 52.381 28.65 17.43 41.19 3.85
2230 3289 1.623811 AGTAGAACTGTGCACGGGATT 59.376 47.619 28.65 15.42 0.00 3.01
2231 3290 2.000447 GTAGAACTGTGCACGGGATTC 59.000 52.381 28.65 22.33 0.00 2.52
2232 3291 0.670546 AGAACTGTGCACGGGATTCG 60.671 55.000 28.65 5.78 45.88 3.34
2247 3306 4.682320 CGGGATTCGTTTTGGGATAGAGAA 60.682 45.833 0.00 0.00 0.00 2.87
2277 3336 0.515127 CAGGCACGCACATTTACGAA 59.485 50.000 0.00 0.00 0.00 3.85
2278 3337 0.515564 AGGCACGCACATTTACGAAC 59.484 50.000 0.00 0.00 0.00 3.95
2279 3338 0.236187 GGCACGCACATTTACGAACA 59.764 50.000 0.00 0.00 0.00 3.18
2280 3339 1.135803 GGCACGCACATTTACGAACAT 60.136 47.619 0.00 0.00 0.00 2.71
2281 3340 1.904412 GCACGCACATTTACGAACATG 59.096 47.619 0.00 0.00 0.00 3.21
2282 3341 1.904412 CACGCACATTTACGAACATGC 59.096 47.619 0.00 0.00 0.00 4.06
2318 3377 4.209911 CCATGTACGAACATCAGTGCATAG 59.790 45.833 0.00 0.00 44.70 2.23
2346 3405 2.175878 ATGTCTCTGTGTGCTCCAAC 57.824 50.000 0.00 0.00 0.00 3.77
2353 3412 1.003545 CTGTGTGCTCCAACTGTTTCG 60.004 52.381 0.00 0.00 0.00 3.46
2359 3418 1.664016 GCTCCAACTGTTTCGTGCATG 60.664 52.381 0.00 0.00 0.00 4.06
2367 3426 1.882623 TGTTTCGTGCATGCAACCATA 59.117 42.857 24.58 4.78 0.00 2.74
2377 3436 5.968886 GCATGCAACCATAGCACGCTATG 62.969 52.174 25.54 25.54 46.50 2.23
2420 3479 4.465660 ACATGTGCACCTGCCATTTATTTA 59.534 37.500 20.42 0.00 41.18 1.40
2430 3490 9.561069 CACCTGCCATTTATTTAGTACTATTCT 57.439 33.333 2.79 0.00 0.00 2.40
2440 3500 7.748691 ATTTAGTACTATTCTCTCCGTCTCC 57.251 40.000 2.79 0.00 0.00 3.71
2453 3513 5.877491 TCTCCGTCTCCTAATATAAGAGCA 58.123 41.667 0.00 0.00 0.00 4.26
2459 3519 9.706691 CCGTCTCCTAATATAAGAGCATTTTTA 57.293 33.333 0.00 0.00 0.00 1.52
2472 3532 5.048013 AGAGCATTTTTAACACCTTACAGCC 60.048 40.000 0.00 0.00 0.00 4.85
2473 3533 4.586841 AGCATTTTTAACACCTTACAGCCA 59.413 37.500 0.00 0.00 0.00 4.75
2474 3534 4.923281 GCATTTTTAACACCTTACAGCCAG 59.077 41.667 0.00 0.00 0.00 4.85
2477 3537 7.653647 CATTTTTAACACCTTACAGCCAGTAA 58.346 34.615 0.17 0.17 40.30 2.24
2478 3538 7.642082 TTTTTAACACCTTACAGCCAGTAAA 57.358 32.000 1.62 0.00 41.89 2.01
2479 3539 6.870971 TTTAACACCTTACAGCCAGTAAAG 57.129 37.500 1.62 0.00 41.89 1.85
2483 3543 3.746492 CACCTTACAGCCAGTAAAGTGTC 59.254 47.826 15.25 0.00 44.52 3.67
2484 3544 3.389983 ACCTTACAGCCAGTAAAGTGTCA 59.610 43.478 1.37 0.00 41.89 3.58
2485 3545 4.141574 ACCTTACAGCCAGTAAAGTGTCAA 60.142 41.667 1.37 0.00 41.89 3.18
2489 3549 5.852282 ACAGCCAGTAAAGTGTCAAAAAT 57.148 34.783 0.00 0.00 0.00 1.82
2490 3550 6.952773 ACAGCCAGTAAAGTGTCAAAAATA 57.047 33.333 0.00 0.00 0.00 1.40
2492 3552 7.951591 ACAGCCAGTAAAGTGTCAAAAATATT 58.048 30.769 0.00 0.00 0.00 1.28
2495 3555 9.297037 AGCCAGTAAAGTGTCAAAAATATTAGT 57.703 29.630 0.00 0.00 0.00 2.24
2557 3617 2.097110 TTATGGCACGGAGGGAGTAT 57.903 50.000 0.00 0.00 0.00 2.12
2563 3623 3.181458 TGGCACGGAGGGAGTATATTTTC 60.181 47.826 0.00 0.00 0.00 2.29
2566 3626 3.314541 CGGAGGGAGTATATTTTCCGG 57.685 52.381 0.00 0.00 42.74 5.14
2567 3627 2.895404 CGGAGGGAGTATATTTTCCGGA 59.105 50.000 0.00 0.00 42.74 5.14
2605 6013 8.267620 TCTTCATTGACTGTAATACATGTTGG 57.732 34.615 2.30 0.00 0.00 3.77
2652 6060 3.142951 ACCGTGCATGTTTAAAGCTACA 58.857 40.909 4.96 0.00 0.00 2.74
2718 6126 3.993736 GCAACCATTAATCCACCACAAAC 59.006 43.478 0.00 0.00 0.00 2.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 8.324163 AGTTTAAGAAATCGCAACTGTATCTT 57.676 30.769 0.00 0.00 0.00 2.40
39 40 9.719279 TTCGTTTGTTAAAATGTAAGTTACCAG 57.281 29.630 10.51 0.00 34.46 4.00
51 52 9.594478 AAAGAGTCCAATTTCGTTTGTTAAAAT 57.406 25.926 0.00 0.00 0.00 1.82
82 83 5.437060 GAGATTGGAGTACTTTTATGCCCA 58.563 41.667 0.00 0.00 0.00 5.36
101 102 7.380423 AACTTGTAACATATAGCCTGGAGAT 57.620 36.000 0.00 0.00 0.00 2.75
185 186 9.147732 TGGACTCTATGTGTATGTTCTGATAAT 57.852 33.333 0.00 0.00 0.00 1.28
227 228 0.676782 ACCATGAAGCACGGCCTAAC 60.677 55.000 0.00 0.00 0.00 2.34
247 723 2.295253 ATGCGGCACTCTTAGTACAC 57.705 50.000 4.03 0.00 0.00 2.90
305 783 1.476891 GGTCACCGTAATGCTCTCTCA 59.523 52.381 0.00 0.00 0.00 3.27
318 1091 1.139058 CATTCTTCCTAGGGGTCACCG 59.861 57.143 9.46 0.00 46.96 4.94
360 1133 6.656632 TGCATTGGTTGGTAGTCATTTTAA 57.343 33.333 0.00 0.00 0.00 1.52
375 1148 6.014327 ACAATTAAACTCCTTCATGCATTGGT 60.014 34.615 0.00 0.00 0.00 3.67
426 1199 3.556423 CGTGGGTCCTTAGCTTTTGTAGT 60.556 47.826 0.00 0.00 0.00 2.73
445 1218 1.018148 ACTAGTCTCCTCGATGCGTG 58.982 55.000 0.00 0.00 0.00 5.34
447 1220 1.862008 GCAACTAGTCTCCTCGATGCG 60.862 57.143 0.00 0.00 0.00 4.73
452 1225 5.508200 AATCTTAGCAACTAGTCTCCTCG 57.492 43.478 0.00 0.00 0.00 4.63
491 1266 2.445565 GCATGGATGCGTAGATGAGA 57.554 50.000 0.00 0.00 44.67 3.27
506 1281 5.733620 ATATAGGCCTTTTCCAATGCATG 57.266 39.130 12.58 0.00 0.00 4.06
649 1474 5.163933 GCATGCACATACACTGGAAAATTTG 60.164 40.000 14.21 0.00 0.00 2.32
652 1477 3.765511 AGCATGCACATACACTGGAAAAT 59.234 39.130 21.98 0.00 0.00 1.82
707 1532 7.321153 AGCGTACATGTCTAGATGTTTACTTT 58.679 34.615 0.00 0.00 37.70 2.66
1287 2228 1.222113 GCTACCCTGAAGCTGGACC 59.778 63.158 0.00 0.00 37.01 4.46
1441 2409 0.179073 AAATCGCGATCCTGGAGGTG 60.179 55.000 23.92 3.67 36.34 4.00
1460 2428 0.184211 CCCCATGATGTGCATCTCCA 59.816 55.000 12.64 0.00 38.60 3.86
1674 2702 4.141981 ACCACTGCACAAACATTCAAATCA 60.142 37.500 0.00 0.00 0.00 2.57
1868 2910 8.365938 GCGAAAAACAGTTCTGCTTAATAATTC 58.634 33.333 0.00 0.00 0.00 2.17
1879 2924 1.069906 CGGGAGCGAAAAACAGTTCTG 60.070 52.381 0.00 0.00 0.00 3.02
1981 3030 5.069516 GTGTCTTATATTCAGTTACGGGGGA 59.930 44.000 0.00 0.00 0.00 4.81
1984 3033 8.027771 GGATAGTGTCTTATATTCAGTTACGGG 58.972 40.741 0.00 0.00 0.00 5.28
2038 3092 6.321181 TCTTGCAAATTCTCACTACCTTTGTT 59.679 34.615 0.00 0.00 0.00 2.83
2103 3162 4.572223 CCCTCTCTCTCCCAGGTTAGTAAA 60.572 50.000 0.00 0.00 0.00 2.01
2104 3163 3.052793 CCCTCTCTCTCCCAGGTTAGTAA 60.053 52.174 0.00 0.00 0.00 2.24
2105 3164 2.514582 CCCTCTCTCTCCCAGGTTAGTA 59.485 54.545 0.00 0.00 0.00 1.82
2107 3166 1.571457 TCCCTCTCTCTCCCAGGTTAG 59.429 57.143 0.00 0.00 0.00 2.34
2108 3167 1.571457 CTCCCTCTCTCTCCCAGGTTA 59.429 57.143 0.00 0.00 0.00 2.85
2109 3168 0.338120 CTCCCTCTCTCTCCCAGGTT 59.662 60.000 0.00 0.00 0.00 3.50
2111 3170 0.185901 CTCTCCCTCTCTCTCCCAGG 59.814 65.000 0.00 0.00 0.00 4.45
2112 3171 0.185901 CCTCTCCCTCTCTCTCCCAG 59.814 65.000 0.00 0.00 0.00 4.45
2113 3172 1.292941 CCCTCTCCCTCTCTCTCCCA 61.293 65.000 0.00 0.00 0.00 4.37
2114 3173 0.996762 TCCCTCTCCCTCTCTCTCCC 60.997 65.000 0.00 0.00 0.00 4.30
2115 3174 1.158007 ATCCCTCTCCCTCTCTCTCC 58.842 60.000 0.00 0.00 0.00 3.71
2116 3175 1.203050 CCATCCCTCTCCCTCTCTCTC 60.203 61.905 0.00 0.00 0.00 3.20
2117 3176 0.859760 CCATCCCTCTCCCTCTCTCT 59.140 60.000 0.00 0.00 0.00 3.10
2118 3177 0.178935 CCCATCCCTCTCCCTCTCTC 60.179 65.000 0.00 0.00 0.00 3.20
2119 3178 1.945447 CCCATCCCTCTCCCTCTCT 59.055 63.158 0.00 0.00 0.00 3.10
2120 3179 1.841103 GCCCATCCCTCTCCCTCTC 60.841 68.421 0.00 0.00 0.00 3.20
2121 3180 2.288643 GCCCATCCCTCTCCCTCT 59.711 66.667 0.00 0.00 0.00 3.69
2122 3181 3.237741 CGCCCATCCCTCTCCCTC 61.238 72.222 0.00 0.00 0.00 4.30
2123 3182 2.628187 ATTCGCCCATCCCTCTCCCT 62.628 60.000 0.00 0.00 0.00 4.20
2124 3183 1.709994 AATTCGCCCATCCCTCTCCC 61.710 60.000 0.00 0.00 0.00 4.30
2125 3184 0.536006 CAATTCGCCCATCCCTCTCC 60.536 60.000 0.00 0.00 0.00 3.71
2126 3185 0.181350 ACAATTCGCCCATCCCTCTC 59.819 55.000 0.00 0.00 0.00 3.20
2127 3186 0.181350 GACAATTCGCCCATCCCTCT 59.819 55.000 0.00 0.00 0.00 3.69
2128 3187 1.160329 CGACAATTCGCCCATCCCTC 61.160 60.000 0.00 0.00 38.71 4.30
2129 3188 1.153168 CGACAATTCGCCCATCCCT 60.153 57.895 0.00 0.00 38.71 4.20
2130 3189 3.420943 CGACAATTCGCCCATCCC 58.579 61.111 0.00 0.00 38.71 3.85
2139 3198 4.268884 AGCGAGATTTAGAAGCGACAATTC 59.731 41.667 0.00 0.00 0.00 2.17
2140 3199 4.184629 AGCGAGATTTAGAAGCGACAATT 58.815 39.130 0.00 0.00 0.00 2.32
2141 3200 3.786635 AGCGAGATTTAGAAGCGACAAT 58.213 40.909 0.00 0.00 0.00 2.71
2142 3201 3.232213 AGCGAGATTTAGAAGCGACAA 57.768 42.857 0.00 0.00 0.00 3.18
2143 3202 2.941453 AGCGAGATTTAGAAGCGACA 57.059 45.000 0.00 0.00 0.00 4.35
2144 3203 3.179830 TGAAGCGAGATTTAGAAGCGAC 58.820 45.455 0.00 0.00 0.00 5.19
2145 3204 3.503827 TGAAGCGAGATTTAGAAGCGA 57.496 42.857 0.00 0.00 0.00 4.93
2146 3205 4.268644 TCAATGAAGCGAGATTTAGAAGCG 59.731 41.667 0.00 0.00 0.00 4.68
2147 3206 5.725110 TCAATGAAGCGAGATTTAGAAGC 57.275 39.130 0.00 0.00 0.00 3.86
2148 3207 8.140677 AGATTCAATGAAGCGAGATTTAGAAG 57.859 34.615 5.55 0.00 32.82 2.85
2149 3208 7.225538 GGAGATTCAATGAAGCGAGATTTAGAA 59.774 37.037 5.55 0.00 32.82 2.10
2150 3209 6.703607 GGAGATTCAATGAAGCGAGATTTAGA 59.296 38.462 5.55 0.00 32.82 2.10
2151 3210 6.705381 AGGAGATTCAATGAAGCGAGATTTAG 59.295 38.462 5.55 0.00 32.82 1.85
2152 3211 6.481313 CAGGAGATTCAATGAAGCGAGATTTA 59.519 38.462 5.55 0.00 32.82 1.40
2153 3212 5.296283 CAGGAGATTCAATGAAGCGAGATTT 59.704 40.000 5.55 0.00 32.82 2.17
2154 3213 4.815308 CAGGAGATTCAATGAAGCGAGATT 59.185 41.667 5.55 0.00 32.82 2.40
2155 3214 4.378774 CAGGAGATTCAATGAAGCGAGAT 58.621 43.478 5.55 0.00 32.82 2.75
2156 3215 3.790091 CAGGAGATTCAATGAAGCGAGA 58.210 45.455 5.55 0.00 32.82 4.04
2157 3216 2.287373 GCAGGAGATTCAATGAAGCGAG 59.713 50.000 5.55 0.00 32.82 5.03
2158 3217 2.093288 AGCAGGAGATTCAATGAAGCGA 60.093 45.455 5.55 0.00 32.82 4.93
2159 3218 2.286872 AGCAGGAGATTCAATGAAGCG 58.713 47.619 5.55 0.00 32.82 4.68
2160 3219 2.617774 GGAGCAGGAGATTCAATGAAGC 59.382 50.000 2.61 2.61 0.00 3.86
2161 3220 3.882444 TGGAGCAGGAGATTCAATGAAG 58.118 45.455 1.10 0.00 0.00 3.02
2162 3221 4.263639 ACTTGGAGCAGGAGATTCAATGAA 60.264 41.667 0.00 0.00 0.00 2.57
2163 3222 3.265221 ACTTGGAGCAGGAGATTCAATGA 59.735 43.478 0.00 0.00 0.00 2.57
2164 3223 3.618351 ACTTGGAGCAGGAGATTCAATG 58.382 45.455 0.00 0.00 0.00 2.82
2165 3224 5.441718 TTACTTGGAGCAGGAGATTCAAT 57.558 39.130 0.00 0.00 0.00 2.57
2166 3225 4.908601 TTACTTGGAGCAGGAGATTCAA 57.091 40.909 0.00 0.00 0.00 2.69
2167 3226 6.560003 TTATTACTTGGAGCAGGAGATTCA 57.440 37.500 0.00 0.00 0.00 2.57
2168 3227 8.457238 AAATTATTACTTGGAGCAGGAGATTC 57.543 34.615 0.00 0.00 0.00 2.52
2169 3228 7.503902 GGAAATTATTACTTGGAGCAGGAGATT 59.496 37.037 0.00 0.00 0.00 2.40
2170 3229 7.001073 GGAAATTATTACTTGGAGCAGGAGAT 58.999 38.462 0.00 0.00 0.00 2.75
2171 3230 6.069673 TGGAAATTATTACTTGGAGCAGGAGA 60.070 38.462 0.00 0.00 0.00 3.71
2172 3231 6.122277 TGGAAATTATTACTTGGAGCAGGAG 58.878 40.000 0.00 0.00 0.00 3.69
2173 3232 6.073447 TGGAAATTATTACTTGGAGCAGGA 57.927 37.500 0.00 0.00 0.00 3.86
2174 3233 5.300286 CCTGGAAATTATTACTTGGAGCAGG 59.700 44.000 0.00 0.00 0.00 4.85
2175 3234 5.221126 GCCTGGAAATTATTACTTGGAGCAG 60.221 44.000 0.00 0.00 0.00 4.24
2176 3235 4.644685 GCCTGGAAATTATTACTTGGAGCA 59.355 41.667 0.00 0.00 0.00 4.26
2177 3236 4.261197 CGCCTGGAAATTATTACTTGGAGC 60.261 45.833 0.00 0.00 0.00 4.70
2178 3237 5.007724 GTCGCCTGGAAATTATTACTTGGAG 59.992 44.000 0.00 0.00 0.00 3.86
2179 3238 4.879545 GTCGCCTGGAAATTATTACTTGGA 59.120 41.667 0.00 0.00 0.00 3.53
2180 3239 4.638421 TGTCGCCTGGAAATTATTACTTGG 59.362 41.667 0.00 0.00 0.00 3.61
2181 3240 5.811399 TGTCGCCTGGAAATTATTACTTG 57.189 39.130 0.00 0.00 0.00 3.16
2182 3241 6.093633 GTCTTGTCGCCTGGAAATTATTACTT 59.906 38.462 0.00 0.00 0.00 2.24
2183 3242 5.585047 GTCTTGTCGCCTGGAAATTATTACT 59.415 40.000 0.00 0.00 0.00 2.24
2184 3243 5.353123 TGTCTTGTCGCCTGGAAATTATTAC 59.647 40.000 0.00 0.00 0.00 1.89
2185 3244 5.353123 GTGTCTTGTCGCCTGGAAATTATTA 59.647 40.000 0.00 0.00 0.00 0.98
2186 3245 4.156008 GTGTCTTGTCGCCTGGAAATTATT 59.844 41.667 0.00 0.00 0.00 1.40
2187 3246 3.689649 GTGTCTTGTCGCCTGGAAATTAT 59.310 43.478 0.00 0.00 0.00 1.28
2188 3247 3.071479 GTGTCTTGTCGCCTGGAAATTA 58.929 45.455 0.00 0.00 0.00 1.40
2189 3248 1.880027 GTGTCTTGTCGCCTGGAAATT 59.120 47.619 0.00 0.00 0.00 1.82
2190 3249 1.202758 TGTGTCTTGTCGCCTGGAAAT 60.203 47.619 0.00 0.00 0.00 2.17
2191 3250 0.179234 TGTGTCTTGTCGCCTGGAAA 59.821 50.000 0.00 0.00 0.00 3.13
2192 3251 0.249868 CTGTGTCTTGTCGCCTGGAA 60.250 55.000 0.00 0.00 0.00 3.53
2193 3252 1.367471 CTGTGTCTTGTCGCCTGGA 59.633 57.895 0.00 0.00 0.00 3.86
2194 3253 0.317160 TACTGTGTCTTGTCGCCTGG 59.683 55.000 0.00 0.00 0.00 4.45
2195 3254 1.269723 TCTACTGTGTCTTGTCGCCTG 59.730 52.381 0.00 0.00 0.00 4.85
2196 3255 1.617322 TCTACTGTGTCTTGTCGCCT 58.383 50.000 0.00 0.00 0.00 5.52
2197 3256 2.059541 GTTCTACTGTGTCTTGTCGCC 58.940 52.381 0.00 0.00 0.00 5.54
2198 3257 2.726760 CAGTTCTACTGTGTCTTGTCGC 59.273 50.000 0.00 0.00 41.19 5.19
2210 3269 1.267121 ATCCCGTGCACAGTTCTACT 58.733 50.000 18.64 0.00 0.00 2.57
2211 3270 2.000447 GAATCCCGTGCACAGTTCTAC 59.000 52.381 18.64 0.00 0.00 2.59
2212 3271 1.403647 CGAATCCCGTGCACAGTTCTA 60.404 52.381 18.64 0.00 0.00 2.10
2213 3272 0.670546 CGAATCCCGTGCACAGTTCT 60.671 55.000 18.64 0.00 0.00 3.01
2214 3273 1.787847 CGAATCCCGTGCACAGTTC 59.212 57.895 18.64 12.92 0.00 3.01
2215 3274 3.966215 CGAATCCCGTGCACAGTT 58.034 55.556 18.64 5.19 0.00 3.16
2224 3283 3.131396 CTCTATCCCAAAACGAATCCCG 58.869 50.000 0.00 0.00 45.44 5.14
2225 3284 4.417426 TCTCTATCCCAAAACGAATCCC 57.583 45.455 0.00 0.00 0.00 3.85
2226 3285 5.183228 TGTTCTCTATCCCAAAACGAATCC 58.817 41.667 0.00 0.00 0.00 3.01
2227 3286 5.220681 GCTGTTCTCTATCCCAAAACGAATC 60.221 44.000 0.00 0.00 0.00 2.52
2228 3287 4.636206 GCTGTTCTCTATCCCAAAACGAAT 59.364 41.667 0.00 0.00 0.00 3.34
2229 3288 4.000988 GCTGTTCTCTATCCCAAAACGAA 58.999 43.478 0.00 0.00 0.00 3.85
2230 3289 3.260884 AGCTGTTCTCTATCCCAAAACGA 59.739 43.478 0.00 0.00 0.00 3.85
2231 3290 3.600388 AGCTGTTCTCTATCCCAAAACG 58.400 45.455 0.00 0.00 0.00 3.60
2232 3291 6.852858 GATAGCTGTTCTCTATCCCAAAAC 57.147 41.667 0.00 0.00 37.50 2.43
2271 3330 2.299013 AGGTGAGTCTGCATGTTCGTAA 59.701 45.455 0.00 0.00 0.00 3.18
2277 3336 1.002868 GCCAGGTGAGTCTGCATGT 60.003 57.895 0.00 0.00 33.64 3.21
2278 3337 1.748122 GGCCAGGTGAGTCTGCATG 60.748 63.158 0.00 0.00 33.64 4.06
2279 3338 1.569030 ATGGCCAGGTGAGTCTGCAT 61.569 55.000 13.05 0.00 33.64 3.96
2280 3339 2.226315 ATGGCCAGGTGAGTCTGCA 61.226 57.895 13.05 0.00 33.64 4.41
2281 3340 1.748122 CATGGCCAGGTGAGTCTGC 60.748 63.158 13.05 0.00 33.64 4.26
2282 3341 0.904649 TACATGGCCAGGTGAGTCTG 59.095 55.000 32.34 15.10 34.70 3.51
2318 3377 4.214971 AGCACACAGAGACATTCAATGTTC 59.785 41.667 4.04 4.74 45.03 3.18
2346 3405 0.030504 TGGTTGCATGCACGAAACAG 59.969 50.000 22.58 0.00 0.00 3.16
2353 3412 3.334078 GTGCTATGGTTGCATGCAC 57.666 52.632 22.58 15.35 45.23 4.57
2367 3426 6.426937 CCAAATAAATAGTACCATAGCGTGCT 59.573 38.462 0.00 0.00 33.01 4.40
2377 3436 5.828299 TGTGCAGCCAAATAAATAGTACC 57.172 39.130 0.00 0.00 0.00 3.34
2408 3467 9.998106 GGAGAGAATAGTACTAAATAAATGGCA 57.002 33.333 6.70 0.00 0.00 4.92
2420 3479 6.497624 TTAGGAGACGGAGAGAATAGTACT 57.502 41.667 0.00 0.00 0.00 2.73
2430 3490 5.877491 TGCTCTTATATTAGGAGACGGAGA 58.123 41.667 0.00 0.00 34.12 3.71
2453 3513 7.826918 TTACTGGCTGTAAGGTGTTAAAAAT 57.173 32.000 12.29 0.00 36.33 1.82
2459 3519 4.432980 ACTTTACTGGCTGTAAGGTGTT 57.567 40.909 24.26 6.69 45.63 3.32
2464 3524 6.371809 TTTTGACACTTTACTGGCTGTAAG 57.628 37.500 15.19 12.30 41.55 2.34
2465 3525 6.761099 TTTTTGACACTTTACTGGCTGTAA 57.239 33.333 12.29 12.29 39.17 2.41
2466 3526 6.952773 ATTTTTGACACTTTACTGGCTGTA 57.047 33.333 0.00 0.00 0.00 2.74
2467 3527 5.852282 ATTTTTGACACTTTACTGGCTGT 57.148 34.783 1.74 1.74 0.00 4.40
2468 3528 9.559958 CTAATATTTTTGACACTTTACTGGCTG 57.440 33.333 0.00 0.00 0.00 4.85
2469 3529 9.297037 ACTAATATTTTTGACACTTTACTGGCT 57.703 29.630 0.00 0.00 0.00 4.75
2477 3537 9.569122 ACCACTACACTAATATTTTTGACACTT 57.431 29.630 0.00 0.00 0.00 3.16
2523 3583 9.877178 TCCGTGCCATAATATAAAAATGTTTTT 57.123 25.926 8.36 8.36 42.51 1.94
2524 3584 9.528018 CTCCGTGCCATAATATAAAAATGTTTT 57.472 29.630 0.00 0.00 0.00 2.43
2525 3585 8.141268 CCTCCGTGCCATAATATAAAAATGTTT 58.859 33.333 0.00 0.00 0.00 2.83
2526 3586 7.255801 CCCTCCGTGCCATAATATAAAAATGTT 60.256 37.037 0.00 0.00 0.00 2.71
2527 3587 6.208599 CCCTCCGTGCCATAATATAAAAATGT 59.791 38.462 0.00 0.00 0.00 2.71
2528 3588 6.432783 TCCCTCCGTGCCATAATATAAAAATG 59.567 38.462 0.00 0.00 0.00 2.32
2529 3589 6.548321 TCCCTCCGTGCCATAATATAAAAAT 58.452 36.000 0.00 0.00 0.00 1.82
2530 3590 5.942961 TCCCTCCGTGCCATAATATAAAAA 58.057 37.500 0.00 0.00 0.00 1.94
2537 3597 2.097110 TACTCCCTCCGTGCCATAAT 57.903 50.000 0.00 0.00 0.00 1.28
2544 3604 3.554337 CCGGAAAATATACTCCCTCCGTG 60.554 52.174 0.00 0.00 43.33 4.94
2589 5997 7.394816 AGCTAGTTTCCAACATGTATTACAGT 58.605 34.615 0.00 0.00 0.00 3.55
2593 6001 9.953565 AGTTTAGCTAGTTTCCAACATGTATTA 57.046 29.630 0.00 0.00 0.00 0.98
2595 6003 8.863872 AAGTTTAGCTAGTTTCCAACATGTAT 57.136 30.769 0.00 0.00 0.00 2.29
2598 6006 8.547967 TCTAAGTTTAGCTAGTTTCCAACATG 57.452 34.615 6.52 0.00 0.00 3.21
2609 6017 9.148104 ACGGTTACAAATTCTAAGTTTAGCTAG 57.852 33.333 0.00 0.00 0.00 3.42
2614 6022 7.493743 TGCACGGTTACAAATTCTAAGTTTA 57.506 32.000 0.00 0.00 0.00 2.01
2652 6060 4.207165 ACACTTGCAGAAGTTGGTTGTAT 58.793 39.130 0.00 0.00 40.68 2.29
2738 6146 5.395990 GGTGGTGCCTACTTTAAGCTGTATA 60.396 44.000 0.00 0.00 0.00 1.47


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

AutoCloner maintained by Alex Coulton.