Multiple sequence alignment - TraesCS1A01G203300

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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 TraesCS1A01G203300 chr1A 100.000 2414 0 0 917 3330 364935446 364937859 0.000000e+00 4458.0
1 TraesCS1A01G203300 chr1A 100.000 511 0 0 1 511 364934530 364935040 0.000000e+00 944.0
2 TraesCS1A01G203300 chr1D 91.839 1936 81 30 925 2805 293290932 293292845 0.000000e+00 2628.0
3 TraesCS1A01G203300 chr1D 94.086 372 14 3 2957 3328 293292844 293293207 2.900000e-155 558.0
4 TraesCS1A01G203300 chr1D 84.698 281 24 11 1 275 293290322 293290589 2.550000e-66 263.0
5 TraesCS1A01G203300 chr1D 85.477 241 16 11 287 511 293290633 293290870 2.000000e-57 233.0
6 TraesCS1A01G203300 chr1D 91.837 98 8 0 2853 2950 298438765 298438668 1.610000e-28 137.0
7 TraesCS1A01G203300 chr1B 90.578 1921 97 29 925 2805 394116048 394117924 0.000000e+00 2468.0
8 TraesCS1A01G203300 chr1B 94.086 372 14 3 2957 3328 394117923 394118286 2.900000e-155 558.0
9 TraesCS1A01G203300 chr1B 88.261 230 10 11 1 226 394115451 394115667 3.300000e-65 259.0
10 TraesCS1A01G203300 chr1B 80.247 162 20 10 2808 2960 625466822 625466980 9.770000e-21 111.0
11 TraesCS1A01G203300 chr6D 85.143 175 15 3 2794 2958 437430519 437430692 5.710000e-38 169.0
12 TraesCS1A01G203300 chr6D 77.987 159 25 7 2808 2958 287021344 287021500 1.270000e-14 91.6
13 TraesCS1A01G203300 chr5B 84.375 160 16 2 2808 2958 676206725 676206566 7.440000e-32 148.0
14 TraesCS1A01G203300 chr5B 94.737 38 2 0 2800 2837 660485405 660485442 3.590000e-05 60.2
15 TraesCS1A01G203300 chr7B 83.750 160 17 4 2808 2958 540209724 540209565 3.460000e-30 143.0
16 TraesCS1A01G203300 chr7B 84.270 89 5 4 2808 2887 80240648 80240560 9.910000e-11 78.7
17 TraesCS1A01G203300 chr5A 83.019 159 16 5 2809 2958 74945342 74945186 2.080000e-27 134.0
18 TraesCS1A01G203300 chr5A 80.473 169 20 4 2804 2962 643555888 643555723 2.100000e-22 117.0
19 TraesCS1A01G203300 chr6B 83.448 145 13 4 2808 2943 1571762 1571904 1.250000e-24 124.0
20 TraesCS1A01G203300 chr6A 81.250 160 20 2 2808 2958 345867528 345867370 1.620000e-23 121.0
21 TraesCS1A01G203300 chr6A 85.981 107 15 0 2852 2958 26733862 26733968 7.550000e-22 115.0
22 TraesCS1A01G203300 chr4B 85.088 114 13 2 2851 2960 20587468 20587355 2.720000e-21 113.0
23 TraesCS1A01G203300 chr4B 84.270 89 5 3 2808 2887 574356555 574356643 9.910000e-11 78.7
24 TraesCS1A01G203300 chr4A 85.714 105 15 0 2854 2958 142446782 142446678 9.770000e-21 111.0
25 TraesCS1A01G203300 chr7A 85.149 101 14 1 1342 1442 51239428 51239527 5.880000e-18 102.0
26 TraesCS1A01G203300 chr7A 84.158 101 16 0 1342 1442 51055420 51055520 7.600000e-17 99.0
27 TraesCS1A01G203300 chr7A 84.158 101 15 1 1342 1442 51102686 51102785 2.730000e-16 97.1
28 TraesCS1A01G203300 chr7A 83.168 101 17 0 1342 1442 51175446 51175546 3.540000e-15 93.5
29 TraesCS1A01G203300 chr3B 78.750 160 24 5 2808 2959 414016184 414016027 7.600000e-17 99.0
30 TraesCS1A01G203300 chr2B 83.810 105 15 2 2854 2958 512624288 512624390 7.600000e-17 99.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G203300 chr1A 364934530 364937859 3329 False 2701.0 4458 100.000 1 3330 2 chr1A.!!$F1 3329
1 TraesCS1A01G203300 chr1D 293290322 293293207 2885 False 920.5 2628 89.025 1 3328 4 chr1D.!!$F1 3327
2 TraesCS1A01G203300 chr1B 394115451 394118286 2835 False 1095.0 2468 90.975 1 3328 3 chr1B.!!$F2 3327

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
330 381 0.168128 CTTTTCGTTGCTTAGCCCCG 59.832 55.0 0.29 3.92 0.00 5.73 F
1072 1165 0.036199 AGCTTCTCTCCAGCAAGCAG 60.036 55.0 5.73 0.00 44.24 4.24 F
1869 1966 0.516001 TGTCGTTCTCGTTCGAGGAG 59.484 55.0 19.65 8.77 36.76 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1869 1966 0.173708 CCTCCTCCTCGTTGCAGTAC 59.826 60.0 0.0 0.0 0.0 2.73 R
2034 2131 0.179012 GGGGAACACGGGAAAGAACA 60.179 55.0 0.0 0.0 0.0 3.18 R
2684 2837 0.766752 TAATTAGTTAGGGGCCGGGC 59.233 55.0 22.0 22.0 0.0 6.13 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 3.058639 CAGTTTACTCACTCCTTGCAAGC 60.059 47.826 21.43 2.63 0.00 4.01
68 69 3.146066 AGCATAAACAAGACAAGCCGAA 58.854 40.909 0.00 0.00 0.00 4.30
85 86 4.034048 AGCCGAAAAATGATTAGCGTGTAG 59.966 41.667 0.00 0.00 0.00 2.74
86 87 4.785341 GCCGAAAAATGATTAGCGTGTAGG 60.785 45.833 0.00 0.00 0.00 3.18
87 88 4.569162 CCGAAAAATGATTAGCGTGTAGGA 59.431 41.667 0.00 0.00 0.00 2.94
88 89 5.276868 CCGAAAAATGATTAGCGTGTAGGAG 60.277 44.000 0.00 0.00 0.00 3.69
89 90 5.485662 AAAAATGATTAGCGTGTAGGAGC 57.514 39.130 0.00 0.00 0.00 4.70
90 91 3.819564 AATGATTAGCGTGTAGGAGCA 57.180 42.857 0.00 0.00 35.48 4.26
91 92 4.342862 AATGATTAGCGTGTAGGAGCAT 57.657 40.909 0.00 0.00 35.48 3.79
92 93 5.468540 AATGATTAGCGTGTAGGAGCATA 57.531 39.130 0.00 0.00 35.48 3.14
93 94 5.667539 ATGATTAGCGTGTAGGAGCATAT 57.332 39.130 0.00 0.00 35.48 1.78
95 96 6.584185 TGATTAGCGTGTAGGAGCATATAA 57.416 37.500 0.00 0.00 35.48 0.98
97 98 7.611770 TGATTAGCGTGTAGGAGCATATAAAT 58.388 34.615 0.00 0.00 35.48 1.40
98 99 8.745590 TGATTAGCGTGTAGGAGCATATAAATA 58.254 33.333 0.00 0.00 35.48 1.40
99 100 9.582431 GATTAGCGTGTAGGAGCATATAAATAA 57.418 33.333 0.00 0.00 35.48 1.40
100 101 9.938280 ATTAGCGTGTAGGAGCATATAAATAAA 57.062 29.630 0.00 0.00 35.48 1.40
101 102 9.938280 TTAGCGTGTAGGAGCATATAAATAAAT 57.062 29.630 0.00 0.00 35.48 1.40
103 104 9.938280 AGCGTGTAGGAGCATATAAATAAATAA 57.062 29.630 0.00 0.00 35.48 1.40
149 153 2.361119 GACCATCAGTCCATGCGTACTA 59.639 50.000 0.00 0.00 39.84 1.82
152 156 0.744874 TCAGTCCATGCGTACTAGCC 59.255 55.000 0.00 0.00 36.02 3.93
161 165 4.323180 CCATGCGTACTAGCCCCATTATTA 60.323 45.833 0.00 0.00 36.02 0.98
163 167 5.080969 TGCGTACTAGCCCCATTATTATC 57.919 43.478 0.00 0.00 36.02 1.75
189 193 1.016130 CACATGACACGAGCCAGACC 61.016 60.000 0.00 0.00 0.00 3.85
226 230 2.224402 GGAGCTCCTGGATCATTGGTAC 60.224 54.545 26.25 0.00 30.93 3.34
227 231 2.435805 GAGCTCCTGGATCATTGGTACA 59.564 50.000 0.87 0.00 0.00 2.90
230 240 3.370953 GCTCCTGGATCATTGGTACACTT 60.371 47.826 0.00 0.00 39.29 3.16
241 251 5.825679 TCATTGGTACACTTGCTTAACTTGT 59.174 36.000 0.00 0.00 39.29 3.16
243 253 5.031066 TGGTACACTTGCTTAACTTGTCT 57.969 39.130 0.00 0.00 0.00 3.41
244 254 5.433526 TGGTACACTTGCTTAACTTGTCTT 58.566 37.500 0.00 0.00 0.00 3.01
247 257 3.947834 ACACTTGCTTAACTTGTCTTGCT 59.052 39.130 0.00 0.00 0.00 3.91
249 259 4.972440 CACTTGCTTAACTTGTCTTGCTTC 59.028 41.667 0.00 0.00 0.00 3.86
261 271 4.517285 TGTCTTGCTTCCAAGTATCATCC 58.483 43.478 3.66 0.00 46.74 3.51
265 275 2.846206 TGCTTCCAAGTATCATCCCACT 59.154 45.455 0.00 0.00 0.00 4.00
270 280 2.505407 CCAAGTATCATCCCACTGTCCA 59.495 50.000 0.00 0.00 0.00 4.02
275 285 2.859165 TCATCCCACTGTCCAAAGAC 57.141 50.000 0.00 0.00 43.83 3.01
284 294 1.527380 GTCCAAAGACAACGCCCCA 60.527 57.895 0.00 0.00 42.99 4.96
285 295 1.104577 GTCCAAAGACAACGCCCCAA 61.105 55.000 0.00 0.00 42.99 4.12
286 296 0.821711 TCCAAAGACAACGCCCCAAG 60.822 55.000 0.00 0.00 0.00 3.61
287 297 1.007387 CAAAGACAACGCCCCAAGC 60.007 57.895 0.00 0.00 38.52 4.01
288 298 1.152756 AAAGACAACGCCCCAAGCT 60.153 52.632 0.00 0.00 40.39 3.74
289 299 1.172812 AAAGACAACGCCCCAAGCTC 61.173 55.000 0.00 0.00 40.39 4.09
290 300 3.056328 GACAACGCCCCAAGCTCC 61.056 66.667 0.00 0.00 40.39 4.70
293 303 2.282462 AACGCCCCAAGCTCCAAG 60.282 61.111 0.00 0.00 40.39 3.61
330 381 0.168128 CTTTTCGTTGCTTAGCCCCG 59.832 55.000 0.29 3.92 0.00 5.73
345 396 3.882444 AGCCCCGTATAGTTTCCTTTTC 58.118 45.455 0.00 0.00 0.00 2.29
346 397 3.522343 AGCCCCGTATAGTTTCCTTTTCT 59.478 43.478 0.00 0.00 0.00 2.52
347 398 4.718276 AGCCCCGTATAGTTTCCTTTTCTA 59.282 41.667 0.00 0.00 0.00 2.10
348 399 5.055144 GCCCCGTATAGTTTCCTTTTCTAG 58.945 45.833 0.00 0.00 0.00 2.43
349 400 5.396101 GCCCCGTATAGTTTCCTTTTCTAGT 60.396 44.000 0.00 0.00 0.00 2.57
350 401 6.279123 CCCCGTATAGTTTCCTTTTCTAGTC 58.721 44.000 0.00 0.00 0.00 2.59
351 402 6.279123 CCCGTATAGTTTCCTTTTCTAGTCC 58.721 44.000 0.00 0.00 0.00 3.85
352 403 6.279123 CCGTATAGTTTCCTTTTCTAGTCCC 58.721 44.000 0.00 0.00 0.00 4.46
353 404 6.097981 CCGTATAGTTTCCTTTTCTAGTCCCT 59.902 42.308 0.00 0.00 0.00 4.20
354 405 7.364497 CCGTATAGTTTCCTTTTCTAGTCCCTT 60.364 40.741 0.00 0.00 0.00 3.95
355 406 7.705752 CGTATAGTTTCCTTTTCTAGTCCCTTC 59.294 40.741 0.00 0.00 0.00 3.46
356 407 5.244189 AGTTTCCTTTTCTAGTCCCTTCC 57.756 43.478 0.00 0.00 0.00 3.46
357 408 4.043059 AGTTTCCTTTTCTAGTCCCTTCCC 59.957 45.833 0.00 0.00 0.00 3.97
360 411 2.563406 CTTTTCTAGTCCCTTCCCCCT 58.437 52.381 0.00 0.00 0.00 4.79
440 523 3.618698 GTCAAGCCAACGAACTTCTTTC 58.381 45.455 0.00 0.00 0.00 2.62
474 565 1.745489 CCAAGCTAGCCAACCGACC 60.745 63.158 12.13 0.00 0.00 4.79
501 592 1.278637 CGCAGTCAAACGTGTTCCC 59.721 57.895 0.00 0.00 0.00 3.97
949 1040 0.737715 GCTCCACGTCACATCACTCC 60.738 60.000 0.00 0.00 0.00 3.85
950 1041 0.891373 CTCCACGTCACATCACTCCT 59.109 55.000 0.00 0.00 0.00 3.69
952 1043 0.456824 CCACGTCACATCACTCCTCG 60.457 60.000 0.00 0.00 0.00 4.63
955 1046 0.241213 CGTCACATCACTCCTCGTGT 59.759 55.000 0.00 0.00 44.16 4.49
957 1048 2.095415 CGTCACATCACTCCTCGTGTAA 60.095 50.000 0.00 0.00 44.16 2.41
958 1049 3.427638 CGTCACATCACTCCTCGTGTAAT 60.428 47.826 0.00 0.00 44.16 1.89
959 1050 4.201881 CGTCACATCACTCCTCGTGTAATA 60.202 45.833 0.00 0.00 44.16 0.98
960 1051 5.647589 GTCACATCACTCCTCGTGTAATAA 58.352 41.667 0.00 0.00 44.16 1.40
972 1063 9.245962 CTCCTCGTGTAATAAACCAGTATAAAG 57.754 37.037 0.00 0.00 0.00 1.85
977 1068 7.404203 GTGTAATAAACCAGTATAAAGCACCG 58.596 38.462 0.00 0.00 0.00 4.94
1010 1103 3.044305 GCAGCACACCGAGACCAC 61.044 66.667 0.00 0.00 0.00 4.16
1011 1104 2.357517 CAGCACACCGAGACCACC 60.358 66.667 0.00 0.00 0.00 4.61
1012 1105 3.991051 AGCACACCGAGACCACCG 61.991 66.667 0.00 0.00 0.00 4.94
1014 1107 4.293648 CACACCGAGACCACCGCA 62.294 66.667 0.00 0.00 0.00 5.69
1015 1108 3.311110 ACACCGAGACCACCGCAT 61.311 61.111 0.00 0.00 0.00 4.73
1020 1113 1.374125 CGAGACCACCGCATTCACA 60.374 57.895 0.00 0.00 0.00 3.58
1021 1114 0.740868 CGAGACCACCGCATTCACAT 60.741 55.000 0.00 0.00 0.00 3.21
1025 1118 0.960364 ACCACCGCATTCACATCCAC 60.960 55.000 0.00 0.00 0.00 4.02
1044 1137 0.740737 CATCCAAGGATCAAACGCCC 59.259 55.000 0.00 0.00 31.62 6.13
1045 1138 0.748005 ATCCAAGGATCAAACGCCCG 60.748 55.000 0.00 0.00 0.00 6.13
1047 1140 0.748005 CCAAGGATCAAACGCCCGAT 60.748 55.000 0.00 0.00 0.00 4.18
1048 1141 0.657840 CAAGGATCAAACGCCCGATC 59.342 55.000 0.00 0.00 37.83 3.69
1050 1143 1.227147 GGATCAAACGCCCGATCGA 60.227 57.895 18.66 0.00 39.16 3.59
1051 1144 0.808453 GGATCAAACGCCCGATCGAA 60.808 55.000 18.66 0.00 39.16 3.71
1052 1145 1.003851 GATCAAACGCCCGATCGAAA 58.996 50.000 18.66 0.00 0.00 3.46
1053 1146 1.395608 GATCAAACGCCCGATCGAAAA 59.604 47.619 18.66 0.00 0.00 2.29
1054 1147 0.793861 TCAAACGCCCGATCGAAAAG 59.206 50.000 18.66 7.46 0.00 2.27
1055 1148 0.793104 CAAACGCCCGATCGAAAAGC 60.793 55.000 18.66 12.55 0.00 3.51
1056 1149 0.953960 AAACGCCCGATCGAAAAGCT 60.954 50.000 18.66 1.80 0.00 3.74
1057 1150 0.953960 AACGCCCGATCGAAAAGCTT 60.954 50.000 18.66 4.67 0.00 3.74
1058 1151 1.348594 CGCCCGATCGAAAAGCTTC 59.651 57.895 18.66 0.00 0.00 3.86
1067 1160 1.344438 TCGAAAAGCTTCTCTCCAGCA 59.656 47.619 0.00 0.00 39.99 4.41
1072 1165 0.036199 AGCTTCTCTCCAGCAAGCAG 60.036 55.000 5.73 0.00 44.24 4.24
1075 1168 0.612229 TTCTCTCCAGCAAGCAGAGG 59.388 55.000 10.84 2.89 32.68 3.69
1076 1169 1.449956 CTCTCCAGCAAGCAGAGGC 60.450 63.158 10.84 0.00 41.61 4.70
1077 1170 2.181445 CTCTCCAGCAAGCAGAGGCA 62.181 60.000 10.84 0.00 44.61 4.75
1078 1171 1.303074 CTCCAGCAAGCAGAGGCAA 60.303 57.895 0.00 0.00 44.61 4.52
1079 1172 0.680280 CTCCAGCAAGCAGAGGCAAT 60.680 55.000 0.00 0.00 44.61 3.56
1080 1173 0.679002 TCCAGCAAGCAGAGGCAATC 60.679 55.000 0.00 0.00 44.61 2.67
1084 1177 0.679002 GCAAGCAGAGGCAATCAGGA 60.679 55.000 0.00 0.00 44.61 3.86
1459 1556 2.032681 ACTTCCACGGCTGCTTCC 59.967 61.111 0.00 0.00 0.00 3.46
1824 1921 2.665000 CCGATGTGGCTGGTGACT 59.335 61.111 0.00 0.00 0.00 3.41
1869 1966 0.516001 TGTCGTTCTCGTTCGAGGAG 59.484 55.000 19.65 8.77 36.76 3.69
1974 2071 4.065281 GGCGAGCAGGTGTACCGT 62.065 66.667 0.00 0.00 42.08 4.83
2032 2129 1.374252 ACGCCCACATTCTGACGAC 60.374 57.895 0.00 0.00 0.00 4.34
2034 2131 1.296715 GCCCACATTCTGACGACCT 59.703 57.895 0.00 0.00 0.00 3.85
2051 2148 1.235724 CCTGTTCTTTCCCGTGTTCC 58.764 55.000 0.00 0.00 0.00 3.62
2057 2154 0.109723 CTTTCCCGTGTTCCCCTTCA 59.890 55.000 0.00 0.00 0.00 3.02
2058 2155 0.179012 TTTCCCGTGTTCCCCTTCAC 60.179 55.000 0.00 0.00 0.00 3.18
2062 2159 0.605589 CCGTGTTCCCCTTCACCTTC 60.606 60.000 0.00 0.00 0.00 3.46
2064 2161 1.605753 GTGTTCCCCTTCACCTTCAC 58.394 55.000 0.00 0.00 0.00 3.18
2072 2169 1.543429 CCTTCACCTTCACAGACACCC 60.543 57.143 0.00 0.00 0.00 4.61
2117 2214 4.442052 GCATGTGAGCCTGTGAGATTAGTA 60.442 45.833 0.00 0.00 0.00 1.82
2118 2215 5.741383 GCATGTGAGCCTGTGAGATTAGTAT 60.741 44.000 0.00 0.00 0.00 2.12
2176 2273 7.039313 TGTGTGTACATGATGTAGATACTCC 57.961 40.000 23.06 5.96 38.45 3.85
2188 2285 2.295885 AGATACTCCTGCTTGCAATGC 58.704 47.619 0.00 6.77 37.54 3.56
2217 2314 6.719370 TGTGGTCCAACTAATTAGCAGAAAAT 59.281 34.615 12.54 0.00 0.00 1.82
2223 2320 9.077885 TCCAACTAATTAGCAGAAAATCTTGTT 57.922 29.630 12.54 0.00 0.00 2.83
2224 2321 9.696917 CCAACTAATTAGCAGAAAATCTTGTTT 57.303 29.630 12.54 0.00 0.00 2.83
2226 2323 9.696917 AACTAATTAGCAGAAAATCTTGTTTGG 57.303 29.630 12.54 0.00 0.00 3.28
2371 2494 3.627577 TCCTTGTTCTTGAGCAAGTGAAC 59.372 43.478 20.20 8.69 40.13 3.18
2375 2498 6.238731 CCTTGTTCTTGAGCAAGTGAACATTA 60.239 38.462 20.20 5.04 40.13 1.90
2394 2517 8.831715 AACATTATGTTCTTTCCATTTCAACC 57.168 30.769 4.56 0.00 35.27 3.77
2398 2521 1.988293 TCTTTCCATTTCAACCGCCA 58.012 45.000 0.00 0.00 0.00 5.69
2419 2542 0.758123 CAATCAGGGAGGGAGAGCTC 59.242 60.000 5.27 5.27 0.00 4.09
2501 2636 3.691118 TCATTGCCGAGAAATCTTTCTGG 59.309 43.478 9.81 8.53 46.84 3.86
2553 2694 1.135139 CATGGACTCTCGTGGTACCAG 59.865 57.143 16.93 9.90 0.00 4.00
2619 2761 0.105593 GATCATCGCCAGCTTCTCCA 59.894 55.000 0.00 0.00 0.00 3.86
2684 2837 2.482490 GCATGCTCCCATTAAAAGCCTG 60.482 50.000 11.37 0.00 35.54 4.85
2685 2838 1.185315 TGCTCCCATTAAAAGCCTGC 58.815 50.000 0.00 0.00 35.12 4.85
2686 2839 0.461548 GCTCCCATTAAAAGCCTGCC 59.538 55.000 0.00 0.00 0.00 4.85
2687 2840 1.114627 CTCCCATTAAAAGCCTGCCC 58.885 55.000 0.00 0.00 0.00 5.36
2688 2841 0.682855 TCCCATTAAAAGCCTGCCCG 60.683 55.000 0.00 0.00 0.00 6.13
2689 2842 1.675720 CCCATTAAAAGCCTGCCCGG 61.676 60.000 0.00 0.00 0.00 5.73
2775 2928 7.256286 CAGAAACCAAAATGATCTCCTGAATC 58.744 38.462 0.00 0.00 0.00 2.52
2784 2937 6.998968 ATGATCTCCTGAATCACAAAACTC 57.001 37.500 0.00 0.00 0.00 3.01
2791 2944 5.827267 TCCTGAATCACAAAACTCACAATGA 59.173 36.000 0.00 0.00 0.00 2.57
2805 2958 6.647229 ACTCACAATGACATGTCACATCTAT 58.353 36.000 30.09 11.12 43.11 1.98
2806 2959 7.108194 ACTCACAATGACATGTCACATCTATT 58.892 34.615 30.09 16.52 43.11 1.73
2807 2960 7.279536 ACTCACAATGACATGTCACATCTATTC 59.720 37.037 30.09 0.00 43.11 1.75
2808 2961 6.539826 TCACAATGACATGTCACATCTATTCC 59.460 38.462 30.09 0.00 43.11 3.01
2809 2962 6.541278 CACAATGACATGTCACATCTATTCCT 59.459 38.462 30.09 8.05 43.11 3.36
2810 2963 6.765036 ACAATGACATGTCACATCTATTCCTC 59.235 38.462 30.09 0.00 43.11 3.71
2811 2964 5.282055 TGACATGTCACATCTATTCCTCC 57.718 43.478 24.56 0.00 34.14 4.30
2812 2965 4.202151 TGACATGTCACATCTATTCCTCCG 60.202 45.833 24.56 0.00 34.14 4.63
2813 2966 3.706594 ACATGTCACATCTATTCCTCCGT 59.293 43.478 0.00 0.00 0.00 4.69
2814 2967 4.162320 ACATGTCACATCTATTCCTCCGTT 59.838 41.667 0.00 0.00 0.00 4.44
2815 2968 4.386867 TGTCACATCTATTCCTCCGTTC 57.613 45.455 0.00 0.00 0.00 3.95
2816 2969 3.132289 TGTCACATCTATTCCTCCGTTCC 59.868 47.826 0.00 0.00 0.00 3.62
2817 2970 2.698797 TCACATCTATTCCTCCGTTCCC 59.301 50.000 0.00 0.00 0.00 3.97
2818 2971 2.434336 CACATCTATTCCTCCGTTCCCA 59.566 50.000 0.00 0.00 0.00 4.37
2819 2972 3.112263 ACATCTATTCCTCCGTTCCCAA 58.888 45.455 0.00 0.00 0.00 4.12
2820 2973 3.521937 ACATCTATTCCTCCGTTCCCAAA 59.478 43.478 0.00 0.00 0.00 3.28
2821 2974 4.166144 ACATCTATTCCTCCGTTCCCAAAT 59.834 41.667 0.00 0.00 0.00 2.32
2822 2975 5.368523 ACATCTATTCCTCCGTTCCCAAATA 59.631 40.000 0.00 0.00 0.00 1.40
2823 2976 6.044404 ACATCTATTCCTCCGTTCCCAAATAT 59.956 38.462 0.00 0.00 0.00 1.28
2824 2977 7.236847 ACATCTATTCCTCCGTTCCCAAATATA 59.763 37.037 0.00 0.00 0.00 0.86
2825 2978 7.621006 TCTATTCCTCCGTTCCCAAATATAA 57.379 36.000 0.00 0.00 0.00 0.98
2826 2979 7.676947 TCTATTCCTCCGTTCCCAAATATAAG 58.323 38.462 0.00 0.00 0.00 1.73
2827 2980 4.081322 TCCTCCGTTCCCAAATATAAGC 57.919 45.455 0.00 0.00 0.00 3.09
2828 2981 3.146847 CCTCCGTTCCCAAATATAAGCC 58.853 50.000 0.00 0.00 0.00 4.35
2829 2982 3.181443 CCTCCGTTCCCAAATATAAGCCT 60.181 47.826 0.00 0.00 0.00 4.58
2830 2983 4.461198 CTCCGTTCCCAAATATAAGCCTT 58.539 43.478 0.00 0.00 0.00 4.35
2831 2984 4.862371 TCCGTTCCCAAATATAAGCCTTT 58.138 39.130 0.00 0.00 0.00 3.11
2832 2985 5.265989 TCCGTTCCCAAATATAAGCCTTTT 58.734 37.500 0.00 0.00 0.00 2.27
2833 2986 5.717654 TCCGTTCCCAAATATAAGCCTTTTT 59.282 36.000 0.00 0.00 0.00 1.94
2834 2987 6.890814 TCCGTTCCCAAATATAAGCCTTTTTA 59.109 34.615 0.00 0.00 0.00 1.52
2835 2988 7.067737 TCCGTTCCCAAATATAAGCCTTTTTAG 59.932 37.037 0.00 0.00 0.00 1.85
2836 2989 7.067737 CCGTTCCCAAATATAAGCCTTTTTAGA 59.932 37.037 0.00 0.00 0.00 2.10
2837 2990 8.129211 CGTTCCCAAATATAAGCCTTTTTAGAG 58.871 37.037 0.00 0.00 0.00 2.43
2838 2991 9.185680 GTTCCCAAATATAAGCCTTTTTAGAGA 57.814 33.333 0.00 0.00 0.00 3.10
2839 2992 9.936329 TTCCCAAATATAAGCCTTTTTAGAGAT 57.064 29.630 0.00 0.00 0.00 2.75
2840 2993 9.936329 TCCCAAATATAAGCCTTTTTAGAGATT 57.064 29.630 0.00 0.00 0.00 2.40
2849 3002 7.588497 AGCCTTTTTAGAGATTTCAACAAGT 57.412 32.000 0.00 0.00 0.00 3.16
2850 3003 7.428826 AGCCTTTTTAGAGATTTCAACAAGTG 58.571 34.615 0.00 0.00 0.00 3.16
2851 3004 7.285401 AGCCTTTTTAGAGATTTCAACAAGTGA 59.715 33.333 0.00 0.00 0.00 3.41
2852 3005 7.920682 GCCTTTTTAGAGATTTCAACAAGTGAA 59.079 33.333 0.00 0.00 44.74 3.18
2865 3018 7.754069 TCAACAAGTGAAAGCAAAATTAGTG 57.246 32.000 0.00 0.00 31.51 2.74
2866 3019 7.542890 TCAACAAGTGAAAGCAAAATTAGTGA 58.457 30.769 0.00 0.00 31.51 3.41
2867 3020 8.031864 TCAACAAGTGAAAGCAAAATTAGTGAA 58.968 29.630 0.00 0.00 31.51 3.18
2868 3021 8.819974 CAACAAGTGAAAGCAAAATTAGTGAAT 58.180 29.630 0.00 0.00 0.00 2.57
2869 3022 8.356533 ACAAGTGAAAGCAAAATTAGTGAATG 57.643 30.769 0.00 0.00 0.00 2.67
2870 3023 7.981225 ACAAGTGAAAGCAAAATTAGTGAATGT 59.019 29.630 0.00 0.00 0.00 2.71
2871 3024 9.462174 CAAGTGAAAGCAAAATTAGTGAATGTA 57.538 29.630 0.00 0.00 0.00 2.29
2872 3025 9.463443 AAGTGAAAGCAAAATTAGTGAATGTAC 57.537 29.630 0.00 0.00 0.00 2.90
2873 3026 8.629158 AGTGAAAGCAAAATTAGTGAATGTACA 58.371 29.630 0.00 0.00 0.00 2.90
2874 3027 8.690840 GTGAAAGCAAAATTAGTGAATGTACAC 58.309 33.333 0.00 0.00 40.60 2.90
2876 3029 9.118236 GAAAGCAAAATTAGTGAATGTACACTC 57.882 33.333 0.00 0.00 46.36 3.51
2877 3030 7.986085 AGCAAAATTAGTGAATGTACACTCT 57.014 32.000 5.83 0.04 46.36 3.24
2878 3031 9.502091 AAGCAAAATTAGTGAATGTACACTCTA 57.498 29.630 5.83 0.00 46.36 2.43
2879 3032 9.502091 AGCAAAATTAGTGAATGTACACTCTAA 57.498 29.630 5.83 7.90 46.36 2.10
2970 3123 3.467803 GGGGGAGTACAAAAGATCGATG 58.532 50.000 0.54 0.00 0.00 3.84
3004 3157 1.478510 CACATCTGCGGGAGAGTACTT 59.521 52.381 5.24 0.00 32.80 2.24
3020 3173 6.476378 AGAGTACTTCCAAACATATGCAGTT 58.524 36.000 1.58 0.00 0.00 3.16
3045 3198 3.787634 CGCAAAAGATGGACGAAATCATG 59.212 43.478 0.00 0.00 0.00 3.07
3088 3241 1.474077 AGGTTACCGTACACCTTAGCG 59.526 52.381 0.00 0.00 40.85 4.26
3195 3348 1.686110 CTAGGGTCTCCGGCCAACT 60.686 63.158 2.24 0.00 38.33 3.16
3223 3376 4.161001 ACCCTAAACTAATCCGGTACAGTG 59.839 45.833 0.00 0.00 0.00 3.66
3233 3386 8.921205 ACTAATCCGGTACAGTGATTAATAAGT 58.079 33.333 0.00 9.43 32.31 2.24
3276 3429 4.724697 CGTCGGCGTGCTTGCTTG 62.725 66.667 6.85 0.00 34.52 4.01
3328 3481 8.567948 CAATGTAGCCTACAAATAATTGGGTAG 58.432 37.037 8.93 0.00 42.76 3.18
3329 3482 7.202972 TGTAGCCTACAAATAATTGGGTAGT 57.797 36.000 1.10 0.00 41.01 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 4.050553 GCTTGTCTTGTTTATGCTTGCAA 58.949 39.130 0.00 0.00 0.00 4.08
49 50 6.640499 TCATTTTTCGGCTTGTCTTGTTTATG 59.360 34.615 0.00 0.00 0.00 1.90
68 69 4.513442 TGCTCCTACACGCTAATCATTTT 58.487 39.130 0.00 0.00 0.00 1.82
101 102 9.409312 CAAGCAAAGTCATGTTATCACAATTTA 57.591 29.630 0.00 0.00 36.16 1.40
102 103 7.385752 CCAAGCAAAGTCATGTTATCACAATTT 59.614 33.333 0.00 0.00 36.16 1.82
103 104 6.869913 CCAAGCAAAGTCATGTTATCACAATT 59.130 34.615 0.00 0.00 36.16 2.32
104 105 6.209192 TCCAAGCAAAGTCATGTTATCACAAT 59.791 34.615 0.00 0.00 36.16 2.71
105 106 5.534278 TCCAAGCAAAGTCATGTTATCACAA 59.466 36.000 0.00 0.00 36.16 3.33
106 107 5.048782 GTCCAAGCAAAGTCATGTTATCACA 60.049 40.000 0.00 0.00 37.31 3.58
107 108 5.393962 GTCCAAGCAAAGTCATGTTATCAC 58.606 41.667 0.00 0.00 0.00 3.06
108 109 4.458989 GGTCCAAGCAAAGTCATGTTATCA 59.541 41.667 0.00 0.00 0.00 2.15
109 110 4.458989 TGGTCCAAGCAAAGTCATGTTATC 59.541 41.667 0.00 0.00 0.00 1.75
110 111 4.406456 TGGTCCAAGCAAAGTCATGTTAT 58.594 39.130 0.00 0.00 0.00 1.89
115 116 3.087031 CTGATGGTCCAAGCAAAGTCAT 58.913 45.455 0.00 0.00 0.00 3.06
149 153 2.616510 GCGCTCTGATAATAATGGGGCT 60.617 50.000 0.00 0.00 0.00 5.19
152 156 3.402110 TGTGCGCTCTGATAATAATGGG 58.598 45.455 9.73 0.00 0.00 4.00
161 165 1.080435 CGTGTCATGTGCGCTCTGAT 61.080 55.000 9.73 0.00 0.00 2.90
163 167 1.681025 CTCGTGTCATGTGCGCTCTG 61.681 60.000 9.73 5.79 0.00 3.35
226 230 4.558538 AGCAAGACAAGTTAAGCAAGTG 57.441 40.909 0.00 0.00 0.00 3.16
227 231 4.036852 GGAAGCAAGACAAGTTAAGCAAGT 59.963 41.667 0.00 0.00 0.00 3.16
230 240 3.550820 TGGAAGCAAGACAAGTTAAGCA 58.449 40.909 0.00 0.00 0.00 3.91
241 251 3.523157 TGGGATGATACTTGGAAGCAAGA 59.477 43.478 0.00 0.00 36.16 3.02
243 253 3.266772 AGTGGGATGATACTTGGAAGCAA 59.733 43.478 0.00 0.00 0.00 3.91
244 254 2.846206 AGTGGGATGATACTTGGAAGCA 59.154 45.455 0.00 0.00 0.00 3.91
247 257 3.199946 GGACAGTGGGATGATACTTGGAA 59.800 47.826 0.00 0.00 0.00 3.53
249 259 2.505407 TGGACAGTGGGATGATACTTGG 59.495 50.000 0.00 0.00 0.00 3.61
253 263 4.192317 GTCTTTGGACAGTGGGATGATAC 58.808 47.826 0.00 0.00 41.75 2.24
270 280 3.443588 GCTTGGGGCGTTGTCTTT 58.556 55.556 0.00 0.00 0.00 2.52
286 296 3.123620 CTGTGGCGAGCTTGGAGC 61.124 66.667 2.37 0.00 42.84 4.70
287 297 1.739562 GTCTGTGGCGAGCTTGGAG 60.740 63.158 2.37 0.00 0.00 3.86
288 298 2.343758 GTCTGTGGCGAGCTTGGA 59.656 61.111 2.37 0.00 0.00 3.53
289 299 3.114616 CGTCTGTGGCGAGCTTGG 61.115 66.667 2.37 0.00 0.00 3.61
290 300 2.486636 TACCGTCTGTGGCGAGCTTG 62.487 60.000 0.00 0.00 0.00 4.01
293 303 2.092882 GTTACCGTCTGTGGCGAGC 61.093 63.158 0.00 0.00 0.00 5.03
294 304 0.038526 AAGTTACCGTCTGTGGCGAG 60.039 55.000 0.00 0.00 0.00 5.03
296 306 1.193874 GAAAAGTTACCGTCTGTGGCG 59.806 52.381 0.00 0.00 0.00 5.69
297 307 1.193874 CGAAAAGTTACCGTCTGTGGC 59.806 52.381 0.00 0.00 0.00 5.01
300 310 2.286025 GCAACGAAAAGTTACCGTCTGT 59.714 45.455 0.00 0.00 42.02 3.41
330 381 7.986320 GGAAGGGACTAGAAAAGGAAACTATAC 59.014 40.741 0.00 0.00 37.48 1.47
345 396 4.401657 CCAGGGGGAAGGGACTAG 57.598 66.667 0.00 0.00 38.49 2.57
372 423 1.377994 CAGCTTGTGGGAGAAGCCT 59.622 57.895 0.00 0.00 45.89 4.58
373 424 1.676967 CCAGCTTGTGGGAGAAGCC 60.677 63.158 0.00 0.00 45.89 4.35
408 485 4.820458 GCTTGACGCCGAAGAAAC 57.180 55.556 0.00 0.00 0.00 2.78
440 523 4.192317 AGCTTGGCCGTTCTATTCTAAAG 58.808 43.478 0.00 0.00 0.00 1.85
466 557 2.359975 GGGAGCAAGGGTCGGTTG 60.360 66.667 0.00 0.00 0.00 3.77
916 1007 0.251209 TGGAGCGAGTGTGGTAGAGT 60.251 55.000 0.00 0.00 0.00 3.24
917 1008 0.171455 GTGGAGCGAGTGTGGTAGAG 59.829 60.000 0.00 0.00 0.00 2.43
918 1009 1.583495 CGTGGAGCGAGTGTGGTAGA 61.583 60.000 0.00 0.00 44.77 2.59
919 1010 1.154016 CGTGGAGCGAGTGTGGTAG 60.154 63.158 0.00 0.00 44.77 3.18
920 1011 1.859427 GACGTGGAGCGAGTGTGGTA 61.859 60.000 0.00 0.00 44.77 3.25
921 1012 3.208884 GACGTGGAGCGAGTGTGGT 62.209 63.158 0.00 0.00 44.77 4.16
922 1013 2.430921 GACGTGGAGCGAGTGTGG 60.431 66.667 0.00 0.00 44.77 4.17
923 1014 2.016704 GTGACGTGGAGCGAGTGTG 61.017 63.158 0.00 0.00 44.77 3.82
949 1040 8.325997 GTGCTTTATACTGGTTTATTACACGAG 58.674 37.037 0.00 0.00 0.00 4.18
950 1041 7.278424 GGTGCTTTATACTGGTTTATTACACGA 59.722 37.037 0.00 0.00 0.00 4.35
952 1043 7.404203 CGGTGCTTTATACTGGTTTATTACAC 58.596 38.462 0.00 0.00 0.00 2.90
955 1046 5.528320 GGCGGTGCTTTATACTGGTTTATTA 59.472 40.000 0.00 0.00 0.00 0.98
957 1048 3.881089 GGCGGTGCTTTATACTGGTTTAT 59.119 43.478 0.00 0.00 0.00 1.40
958 1049 3.054948 AGGCGGTGCTTTATACTGGTTTA 60.055 43.478 0.00 0.00 0.00 2.01
959 1050 2.089201 GGCGGTGCTTTATACTGGTTT 58.911 47.619 0.00 0.00 0.00 3.27
960 1051 1.280998 AGGCGGTGCTTTATACTGGTT 59.719 47.619 0.00 0.00 0.00 3.67
977 1068 4.512914 GCTGGTGATGGGGGAGGC 62.513 72.222 0.00 0.00 0.00 4.70
1010 1103 0.664761 GGATGTGGATGTGAATGCGG 59.335 55.000 0.00 0.00 0.00 5.69
1011 1104 1.381522 TGGATGTGGATGTGAATGCG 58.618 50.000 0.00 0.00 0.00 4.73
1012 1105 2.100252 CCTTGGATGTGGATGTGAATGC 59.900 50.000 0.00 0.00 0.00 3.56
1013 1106 3.623703 TCCTTGGATGTGGATGTGAATG 58.376 45.455 0.00 0.00 0.00 2.67
1014 1107 4.079615 TGATCCTTGGATGTGGATGTGAAT 60.080 41.667 6.92 0.00 42.56 2.57
1015 1108 3.266513 TGATCCTTGGATGTGGATGTGAA 59.733 43.478 6.92 0.00 42.56 3.18
1020 1113 3.282021 CGTTTGATCCTTGGATGTGGAT 58.718 45.455 6.92 0.00 44.91 3.41
1021 1114 2.710377 CGTTTGATCCTTGGATGTGGA 58.290 47.619 6.92 0.00 36.72 4.02
1025 1118 0.740737 GGGCGTTTGATCCTTGGATG 59.259 55.000 6.92 0.00 0.00 3.51
1044 1137 2.857152 CTGGAGAGAAGCTTTTCGATCG 59.143 50.000 9.36 9.36 0.00 3.69
1045 1138 2.607180 GCTGGAGAGAAGCTTTTCGATC 59.393 50.000 11.03 4.78 37.69 3.69
1047 1140 1.344438 TGCTGGAGAGAAGCTTTTCGA 59.656 47.619 11.03 2.04 41.42 3.71
1048 1141 1.800805 TGCTGGAGAGAAGCTTTTCG 58.199 50.000 11.03 0.00 41.42 3.46
1050 1143 1.885233 GCTTGCTGGAGAGAAGCTTTT 59.115 47.619 0.00 0.00 41.42 2.27
1051 1144 1.202855 TGCTTGCTGGAGAGAAGCTTT 60.203 47.619 0.00 0.00 42.19 3.51
1052 1145 0.399454 TGCTTGCTGGAGAGAAGCTT 59.601 50.000 0.00 0.00 42.19 3.74
1053 1146 0.036199 CTGCTTGCTGGAGAGAAGCT 60.036 55.000 0.00 0.00 42.19 3.74
1054 1147 0.036577 TCTGCTTGCTGGAGAGAAGC 60.037 55.000 0.00 0.00 38.24 3.86
1067 1160 1.954258 GCTTCCTGATTGCCTCTGCTT 60.954 52.381 0.00 0.00 38.71 3.91
1072 1165 1.382692 GCTGGCTTCCTGATTGCCTC 61.383 60.000 11.28 2.82 46.23 4.70
1075 1168 2.768492 CCGCTGGCTTCCTGATTGC 61.768 63.158 0.00 0.00 0.00 3.56
1076 1169 2.768492 GCCGCTGGCTTCCTGATTG 61.768 63.158 11.61 0.00 46.69 2.67
1077 1170 2.439156 GCCGCTGGCTTCCTGATT 60.439 61.111 11.61 0.00 46.69 2.57
1590 1687 4.095400 AGGTCCCTGGCGGAGGAT 62.095 66.667 6.79 0.00 46.33 3.24
1599 1696 4.087892 CGGTGGCAGAGGTCCCTG 62.088 72.222 0.00 3.62 37.23 4.45
1636 1733 4.700037 GAGCGTGATCTCGTCCAG 57.300 61.111 17.55 0.00 0.00 3.86
1869 1966 0.173708 CCTCCTCCTCGTTGCAGTAC 59.826 60.000 0.00 0.00 0.00 2.73
2032 2129 1.235724 GGAACACGGGAAAGAACAGG 58.764 55.000 0.00 0.00 0.00 4.00
2034 2131 0.179012 GGGGAACACGGGAAAGAACA 60.179 55.000 0.00 0.00 0.00 3.18
2051 2148 1.543429 GGTGTCTGTGAAGGTGAAGGG 60.543 57.143 0.00 0.00 0.00 3.95
2057 2154 3.312736 AAAATGGGTGTCTGTGAAGGT 57.687 42.857 0.00 0.00 0.00 3.50
2058 2155 3.891366 AGAAAAATGGGTGTCTGTGAAGG 59.109 43.478 0.00 0.00 0.00 3.46
2062 2159 3.221771 TCCAGAAAAATGGGTGTCTGTG 58.778 45.455 0.00 0.00 41.01 3.66
2064 2161 3.754965 TCTCCAGAAAAATGGGTGTCTG 58.245 45.455 0.00 0.00 41.01 3.51
2072 2169 2.824341 AGCCTTGCTCTCCAGAAAAATG 59.176 45.455 0.00 0.00 30.62 2.32
2117 2214 4.750098 ACGAATCGAAATGGAATCGCTAAT 59.250 37.500 10.55 0.00 41.74 1.73
2118 2215 4.116961 ACGAATCGAAATGGAATCGCTAA 58.883 39.130 10.55 0.00 41.74 3.09
2188 2285 6.150976 TCTGCTAATTAGTTGGACCACATTTG 59.849 38.462 13.91 0.00 0.00 2.32
2192 2289 4.901197 TCTGCTAATTAGTTGGACCACA 57.099 40.909 13.91 0.44 0.00 4.17
2196 2293 8.515414 ACAAGATTTTCTGCTAATTAGTTGGAC 58.485 33.333 13.91 0.00 0.00 4.02
2217 2314 6.491394 CGAGTAAACAATTCACCAAACAAGA 58.509 36.000 0.00 0.00 0.00 3.02
2223 2320 3.215151 TGGCGAGTAAACAATTCACCAA 58.785 40.909 0.00 0.00 0.00 3.67
2224 2321 2.852449 TGGCGAGTAAACAATTCACCA 58.148 42.857 0.00 0.00 0.00 4.17
2225 2322 3.907894 TTGGCGAGTAAACAATTCACC 57.092 42.857 0.00 0.00 0.00 4.02
2226 2323 5.296813 AGATTGGCGAGTAAACAATTCAC 57.703 39.130 0.00 0.00 35.17 3.18
2306 2429 6.012337 TGCTAATCAAGTCCATTATTGGGA 57.988 37.500 3.86 0.00 43.81 4.37
2371 2494 6.034898 GCGGTTGAAATGGAAAGAACATAATG 59.965 38.462 0.00 0.00 0.00 1.90
2375 2498 3.306019 GGCGGTTGAAATGGAAAGAACAT 60.306 43.478 0.00 0.00 0.00 2.71
2394 2517 2.515523 CCTCCCTGATTGCTGGCG 60.516 66.667 0.00 0.00 0.00 5.69
2398 2521 1.344191 GCTCTCCCTCCCTGATTGCT 61.344 60.000 0.00 0.00 0.00 3.91
2419 2542 1.434622 GCATGCATGTGAGGGAGACG 61.435 60.000 26.79 0.00 0.00 4.18
2553 2694 2.095059 CAGCTTGGCACATTAACTCCAC 60.095 50.000 0.00 0.00 39.30 4.02
2684 2837 0.766752 TAATTAGTTAGGGGCCGGGC 59.233 55.000 22.00 22.00 0.00 6.13
2685 2838 2.487805 GGTTAATTAGTTAGGGGCCGGG 60.488 54.545 2.18 0.00 0.00 5.73
2686 2839 2.173143 TGGTTAATTAGTTAGGGGCCGG 59.827 50.000 0.00 0.00 0.00 6.13
2687 2840 3.118149 ACTGGTTAATTAGTTAGGGGCCG 60.118 47.826 0.00 0.00 0.00 6.13
2688 2841 4.515028 ACTGGTTAATTAGTTAGGGGCC 57.485 45.455 0.00 0.00 0.00 5.80
2689 2842 5.061853 GCTACTGGTTAATTAGTTAGGGGC 58.938 45.833 0.71 0.00 0.00 5.80
2690 2843 6.496144 AGCTACTGGTTAATTAGTTAGGGG 57.504 41.667 0.00 0.00 0.00 4.79
2775 2928 5.456497 GTGACATGTCATTGTGAGTTTTGTG 59.544 40.000 30.10 0.00 42.18 3.33
2784 2937 6.541278 AGGAATAGATGTGACATGTCATTGTG 59.459 38.462 30.10 0.00 42.18 3.33
2791 2944 3.706594 ACGGAGGAATAGATGTGACATGT 59.293 43.478 1.23 0.37 0.00 3.21
2805 2958 4.457466 GCTTATATTTGGGAACGGAGGAA 58.543 43.478 0.00 0.00 0.00 3.36
2806 2959 3.181448 GGCTTATATTTGGGAACGGAGGA 60.181 47.826 0.00 0.00 0.00 3.71
2807 2960 3.146847 GGCTTATATTTGGGAACGGAGG 58.853 50.000 0.00 0.00 0.00 4.30
2808 2961 4.086706 AGGCTTATATTTGGGAACGGAG 57.913 45.455 0.00 0.00 0.00 4.63
2809 2962 4.513406 AAGGCTTATATTTGGGAACGGA 57.487 40.909 0.00 0.00 0.00 4.69
2810 2963 5.592104 AAAAGGCTTATATTTGGGAACGG 57.408 39.130 0.00 0.00 0.00 4.44
2811 2964 7.992008 TCTAAAAAGGCTTATATTTGGGAACG 58.008 34.615 0.00 0.00 0.00 3.95
2812 2965 9.185680 TCTCTAAAAAGGCTTATATTTGGGAAC 57.814 33.333 0.00 0.00 0.00 3.62
2813 2966 9.936329 ATCTCTAAAAAGGCTTATATTTGGGAA 57.064 29.630 0.00 0.00 0.00 3.97
2814 2967 9.936329 AATCTCTAAAAAGGCTTATATTTGGGA 57.064 29.630 0.00 3.71 0.00 4.37
2823 2976 9.131791 ACTTGTTGAAATCTCTAAAAAGGCTTA 57.868 29.630 0.00 0.00 0.00 3.09
2824 2977 7.922811 CACTTGTTGAAATCTCTAAAAAGGCTT 59.077 33.333 0.00 0.00 0.00 4.35
2825 2978 7.285401 TCACTTGTTGAAATCTCTAAAAAGGCT 59.715 33.333 0.00 0.00 0.00 4.58
2826 2979 7.425606 TCACTTGTTGAAATCTCTAAAAAGGC 58.574 34.615 0.00 0.00 0.00 4.35
2840 2993 8.031864 TCACTAATTTTGCTTTCACTTGTTGAA 58.968 29.630 0.00 0.00 42.83 2.69
2841 2994 7.542890 TCACTAATTTTGCTTTCACTTGTTGA 58.457 30.769 0.00 0.00 0.00 3.18
2842 2995 7.754069 TCACTAATTTTGCTTTCACTTGTTG 57.246 32.000 0.00 0.00 0.00 3.33
2843 2996 8.819974 CATTCACTAATTTTGCTTTCACTTGTT 58.180 29.630 0.00 0.00 0.00 2.83
2844 2997 7.981225 ACATTCACTAATTTTGCTTTCACTTGT 59.019 29.630 0.00 0.00 0.00 3.16
2845 2998 8.356533 ACATTCACTAATTTTGCTTTCACTTG 57.643 30.769 0.00 0.00 0.00 3.16
2846 2999 9.463443 GTACATTCACTAATTTTGCTTTCACTT 57.537 29.630 0.00 0.00 0.00 3.16
2847 3000 8.629158 TGTACATTCACTAATTTTGCTTTCACT 58.371 29.630 0.00 0.00 0.00 3.41
2848 3001 8.690840 GTGTACATTCACTAATTTTGCTTTCAC 58.309 33.333 0.00 0.00 35.68 3.18
2849 3002 8.629158 AGTGTACATTCACTAATTTTGCTTTCA 58.371 29.630 0.00 0.00 45.31 2.69
2850 3003 9.118236 GAGTGTACATTCACTAATTTTGCTTTC 57.882 33.333 13.07 0.00 46.81 2.62
2851 3004 8.850156 AGAGTGTACATTCACTAATTTTGCTTT 58.150 29.630 19.24 0.00 46.81 3.51
2852 3005 8.396272 AGAGTGTACATTCACTAATTTTGCTT 57.604 30.769 19.24 0.00 46.81 3.91
2853 3006 7.986085 AGAGTGTACATTCACTAATTTTGCT 57.014 32.000 19.24 0.00 46.81 3.91
2949 3102 3.467803 CATCGATCTTTTGTACTCCCCC 58.532 50.000 0.00 0.00 0.00 5.40
2950 3103 3.134081 TCCATCGATCTTTTGTACTCCCC 59.866 47.826 0.00 0.00 0.00 4.81
2951 3104 4.402056 TCCATCGATCTTTTGTACTCCC 57.598 45.455 0.00 0.00 0.00 4.30
2952 3105 5.292101 CAGTTCCATCGATCTTTTGTACTCC 59.708 44.000 0.00 0.00 0.00 3.85
2953 3106 5.869888 ACAGTTCCATCGATCTTTTGTACTC 59.130 40.000 0.00 0.00 0.00 2.59
2954 3107 5.794894 ACAGTTCCATCGATCTTTTGTACT 58.205 37.500 0.00 0.00 0.00 2.73
2955 3108 6.812160 ACTACAGTTCCATCGATCTTTTGTAC 59.188 38.462 0.00 0.00 0.00 2.90
2956 3109 6.931838 ACTACAGTTCCATCGATCTTTTGTA 58.068 36.000 0.00 0.96 0.00 2.41
2957 3110 5.794894 ACTACAGTTCCATCGATCTTTTGT 58.205 37.500 0.00 0.00 0.00 2.83
2970 3123 4.377431 CGCAGATGTGAAAACTACAGTTCC 60.377 45.833 0.00 0.00 37.25 3.62
3020 3173 0.947960 TTCGTCCATCTTTTGCGCAA 59.052 45.000 21.02 21.02 0.00 4.85
3023 3176 3.469899 TGATTTCGTCCATCTTTTGCG 57.530 42.857 0.00 0.00 0.00 4.85
3026 3179 4.946157 AGCTCATGATTTCGTCCATCTTTT 59.054 37.500 0.00 0.00 0.00 2.27
3045 3198 2.023041 GGCGTACGACTCGAGCTC 59.977 66.667 21.65 2.73 0.00 4.09
3088 3241 2.023771 GGCTGCTTTCGCCTTTTGC 61.024 57.895 0.00 0.00 44.17 3.68
3148 3301 1.069636 CGAGCAGCCACTTTTCTTGTC 60.070 52.381 0.00 0.00 0.00 3.18
3195 3348 6.667414 TGTACCGGATTAGTTTAGGGTTTAGA 59.333 38.462 9.46 0.00 0.00 2.10
3223 3376 8.973835 AGCATTCGAGCTAGTACTTATTAATC 57.026 34.615 0.00 0.00 44.50 1.75


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

AutoCloner maintained by Alex Coulton.