Multiple sequence alignment - TraesCS6D01G108400

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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 TraesCS6D01G108400 chr6D 100.000 3149 0 0 1 3149 72404548 72407696 0.000000e+00 5816.0
1 TraesCS6D01G108400 chr6D 79.602 201 36 2 1306 1505 90922941 90923137 4.240000e-29 139.0
2 TraesCS6D01G108400 chr6A 87.172 2627 165 83 133 2636 89301697 89304274 0.000000e+00 2826.0
3 TraesCS6D01G108400 chr6A 90.437 366 25 6 2790 3146 89304344 89304708 1.020000e-129 473.0
4 TraesCS6D01G108400 chr6A 94.643 56 3 0 1187 1242 109135820 109135875 1.560000e-13 87.9
5 TraesCS6D01G108400 chr6B 90.432 2059 100 43 690 2673 147055761 147057797 0.000000e+00 2621.0
6 TraesCS6D01G108400 chr6B 86.965 537 34 18 201 707 147055215 147055745 3.520000e-159 571.0
7 TraesCS6D01G108400 chr6B 88.670 406 31 8 2725 3123 147057787 147058184 6.110000e-132 481.0
8 TraesCS6D01G108400 chr6B 76.900 329 52 16 1193 1505 173391863 173392183 6.990000e-37 165.0
9 TraesCS6D01G108400 chr6B 82.653 98 15 2 1395 1491 48074720 48074816 5.600000e-13 86.1
10 TraesCS6D01G108400 chr6B 96.875 32 1 0 181 212 719318077 719318046 2.000000e-03 54.7
11 TraesCS6D01G108400 chr3A 70.824 874 185 55 1148 1988 113922422 113921586 1.520000e-28 137.0
12 TraesCS6D01G108400 chr3A 88.660 97 9 2 1396 1491 208222051 208222146 1.980000e-22 117.0
13 TraesCS6D01G108400 chr3D 88.660 97 9 2 1396 1491 170659602 170659697 1.980000e-22 117.0
14 TraesCS6D01G108400 chr3D 95.082 61 3 0 1430 1490 170558039 170557979 2.590000e-16 97.1
15 TraesCS6D01G108400 chr3D 82.243 107 17 2 1137 1242 95840290 95840185 1.200000e-14 91.6
16 TraesCS6D01G108400 chr3B 77.419 186 37 3 1307 1491 245964145 245963964 4.300000e-19 106.0
17 TraesCS6D01G108400 chr3B 96.667 60 2 0 1432 1491 245969767 245969708 2.000000e-17 100.0
18 TraesCS6D01G108400 chr3B 82.075 106 19 0 1137 1242 146707004 146706899 1.200000e-14 91.6
19 TraesCS6D01G108400 chr2D 71.233 438 104 16 1064 1491 55630258 55629833 1.200000e-14 91.6
20 TraesCS6D01G108400 chr5A 83.158 95 16 0 1396 1490 703951757 703951663 1.560000e-13 87.9
21 TraesCS6D01G108400 chr4B 74.747 198 45 4 1301 1497 139399340 139399533 2.010000e-12 84.2
22 TraesCS6D01G108400 chr4B 74.747 198 45 4 1301 1497 139472485 139472678 2.010000e-12 84.2
23 TraesCS6D01G108400 chr4B 74.747 198 45 4 1301 1497 139510933 139511126 2.010000e-12 84.2
24 TraesCS6D01G108400 chr4A 74.359 195 45 4 1304 1497 478219500 478219310 9.360000e-11 78.7
25 TraesCS6D01G108400 chr4A 73.711 194 46 4 1304 1496 478339829 478339640 1.570000e-08 71.3
26 TraesCS6D01G108400 chr4D 74.457 184 44 2 1301 1484 97605460 97605640 3.370000e-10 76.8
27 TraesCS6D01G108400 chr4D 73.737 198 47 4 1301 1497 97720835 97721028 4.360000e-09 73.1
28 TraesCS6D01G108400 chr1D 85.484 62 9 0 1181 1242 62858079 62858140 7.290000e-07 65.8
29 TraesCS6D01G108400 chr1B 85.484 62 9 0 1181 1242 100308692 100308753 7.290000e-07 65.8
30 TraesCS6D01G108400 chr1A 85.246 61 9 0 1181 1241 60956085 60956025 2.620000e-06 63.9


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 TraesCS6D01G108400 chr6D 72404548 72407696 3148 False 5816.000000 5816 100.0000 1 3149 1 chr6D.!!$F1 3148
1 TraesCS6D01G108400 chr6A 89301697 89304708 3011 False 1649.500000 2826 88.8045 133 3146 2 chr6A.!!$F2 3013
2 TraesCS6D01G108400 chr6B 147055215 147058184 2969 False 1224.333333 2621 88.6890 201 3123 3 chr6B.!!$F3 2922

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
54 55 0.033208 TTGAGGCCTGGCTTATTGGG 60.033 55.0 12.00 0.0 0.0 4.12 F
76 77 0.102120 TGTTTTGTCGCAGGCCAAAG 59.898 50.0 5.01 0.0 32.4 2.77 F
562 599 0.178947 TCCCCGGCATTTTTCCAAGT 60.179 50.0 0.00 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1550 1693 0.733566 TTCATTCACGACCCGTACGC 60.734 55.0 10.49 0.0 38.32 4.42 R
2064 2211 1.578897 TCCCGAGGTTGATCATGGAA 58.421 50.0 0.00 0.0 0.00 3.53 R
2403 2594 0.179076 CCATGCCACTGATCGCTACA 60.179 55.0 0.00 0.0 0.00 2.74 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
25 26 7.681125 ATAGAAAAATATCGTGTCGTGAGTC 57.319 36.000 0.00 0.00 0.00 3.36
26 27 4.557690 AGAAAAATATCGTGTCGTGAGTCG 59.442 41.667 0.00 0.00 41.41 4.18
27 28 3.482722 AAATATCGTGTCGTGAGTCGT 57.517 42.857 0.00 0.00 40.80 4.34
28 29 2.453650 ATATCGTGTCGTGAGTCGTG 57.546 50.000 0.00 0.00 40.80 4.35
29 30 1.431496 TATCGTGTCGTGAGTCGTGA 58.569 50.000 0.00 0.00 40.80 4.35
30 31 0.110328 ATCGTGTCGTGAGTCGTGAC 60.110 55.000 7.44 7.44 40.80 3.67
31 32 1.010462 CGTGTCGTGAGTCGTGACA 60.010 57.895 11.90 11.90 40.12 3.58
32 33 0.992263 CGTGTCGTGAGTCGTGACAG 60.992 60.000 15.27 7.98 42.77 3.51
33 34 1.008881 TGTCGTGAGTCGTGACAGC 60.009 57.895 11.90 0.00 37.69 4.40
34 35 1.008881 GTCGTGAGTCGTGACAGCA 60.009 57.895 9.10 0.00 40.80 4.41
35 36 0.387367 GTCGTGAGTCGTGACAGCAT 60.387 55.000 9.10 0.00 40.80 3.79
36 37 0.313987 TCGTGAGTCGTGACAGCATT 59.686 50.000 2.44 0.00 40.80 3.56
37 38 0.436150 CGTGAGTCGTGACAGCATTG 59.564 55.000 2.44 0.00 34.52 2.82
38 39 1.783284 GTGAGTCGTGACAGCATTGA 58.217 50.000 2.44 0.00 0.00 2.57
39 40 1.723542 GTGAGTCGTGACAGCATTGAG 59.276 52.381 2.44 0.00 0.00 3.02
40 41 1.337167 TGAGTCGTGACAGCATTGAGG 60.337 52.381 2.44 0.00 0.00 3.86
41 42 0.671781 AGTCGTGACAGCATTGAGGC 60.672 55.000 2.44 0.00 0.00 4.70
42 43 1.375908 TCGTGACAGCATTGAGGCC 60.376 57.895 0.00 0.00 0.00 5.19
43 44 1.376424 CGTGACAGCATTGAGGCCT 60.376 57.895 3.86 3.86 0.00 5.19
44 45 1.642037 CGTGACAGCATTGAGGCCTG 61.642 60.000 12.00 0.00 0.00 4.85
45 46 1.001764 TGACAGCATTGAGGCCTGG 60.002 57.895 12.00 0.00 0.00 4.45
46 47 2.362120 ACAGCATTGAGGCCTGGC 60.362 61.111 12.00 11.05 0.00 4.85
47 48 2.044252 CAGCATTGAGGCCTGGCT 60.044 61.111 12.00 11.35 34.64 4.75
48 49 1.681327 CAGCATTGAGGCCTGGCTT 60.681 57.895 12.00 11.74 31.30 4.35
49 50 0.394762 CAGCATTGAGGCCTGGCTTA 60.395 55.000 12.00 2.15 31.30 3.09
50 51 0.554792 AGCATTGAGGCCTGGCTTAT 59.445 50.000 12.00 4.89 0.00 1.73
51 52 1.063417 AGCATTGAGGCCTGGCTTATT 60.063 47.619 12.00 1.81 0.00 1.40
52 53 1.068127 GCATTGAGGCCTGGCTTATTG 59.932 52.381 12.00 10.28 0.00 1.90
53 54 1.684983 CATTGAGGCCTGGCTTATTGG 59.315 52.381 12.00 1.09 0.00 3.16
54 55 0.033208 TTGAGGCCTGGCTTATTGGG 60.033 55.000 12.00 0.00 0.00 4.12
55 56 1.214305 TGAGGCCTGGCTTATTGGGT 61.214 55.000 12.00 0.00 0.00 4.51
56 57 0.753111 GAGGCCTGGCTTATTGGGTG 60.753 60.000 12.00 0.00 0.00 4.61
57 58 1.000359 GGCCTGGCTTATTGGGTGT 60.000 57.895 19.68 0.00 0.00 4.16
58 59 1.322538 GGCCTGGCTTATTGGGTGTG 61.323 60.000 19.68 0.00 0.00 3.82
59 60 0.611896 GCCTGGCTTATTGGGTGTGT 60.612 55.000 12.43 0.00 0.00 3.72
60 61 1.923356 CCTGGCTTATTGGGTGTGTT 58.077 50.000 0.00 0.00 0.00 3.32
61 62 2.247358 CCTGGCTTATTGGGTGTGTTT 58.753 47.619 0.00 0.00 0.00 2.83
62 63 2.632512 CCTGGCTTATTGGGTGTGTTTT 59.367 45.455 0.00 0.00 0.00 2.43
63 64 3.554752 CCTGGCTTATTGGGTGTGTTTTG 60.555 47.826 0.00 0.00 0.00 2.44
64 65 3.034635 TGGCTTATTGGGTGTGTTTTGT 58.965 40.909 0.00 0.00 0.00 2.83
65 66 3.068873 TGGCTTATTGGGTGTGTTTTGTC 59.931 43.478 0.00 0.00 0.00 3.18
66 67 3.305110 GCTTATTGGGTGTGTTTTGTCG 58.695 45.455 0.00 0.00 0.00 4.35
67 68 3.305110 CTTATTGGGTGTGTTTTGTCGC 58.695 45.455 0.00 0.00 0.00 5.19
68 69 1.107114 ATTGGGTGTGTTTTGTCGCA 58.893 45.000 0.00 0.00 0.00 5.10
69 70 0.453793 TTGGGTGTGTTTTGTCGCAG 59.546 50.000 0.00 0.00 0.00 5.18
70 71 1.358759 GGGTGTGTTTTGTCGCAGG 59.641 57.895 0.00 0.00 0.00 4.85
71 72 1.299089 GGTGTGTTTTGTCGCAGGC 60.299 57.895 0.00 0.00 0.00 4.85
72 73 1.299089 GTGTGTTTTGTCGCAGGCC 60.299 57.895 0.00 0.00 0.00 5.19
73 74 1.750780 TGTGTTTTGTCGCAGGCCA 60.751 52.632 5.01 0.00 0.00 5.36
74 75 1.315981 TGTGTTTTGTCGCAGGCCAA 61.316 50.000 5.01 0.00 0.00 4.52
75 76 0.179124 GTGTTTTGTCGCAGGCCAAA 60.179 50.000 5.01 0.00 0.00 3.28
76 77 0.102120 TGTTTTGTCGCAGGCCAAAG 59.898 50.000 5.01 0.00 32.40 2.77
77 78 0.597377 GTTTTGTCGCAGGCCAAAGG 60.597 55.000 5.01 0.00 32.40 3.11
78 79 1.040339 TTTTGTCGCAGGCCAAAGGT 61.040 50.000 5.01 0.00 32.40 3.50
79 80 1.452145 TTTGTCGCAGGCCAAAGGTC 61.452 55.000 5.01 0.00 0.00 3.85
80 81 2.281484 GTCGCAGGCCAAAGGTCA 60.281 61.111 5.01 0.00 0.00 4.02
81 82 2.032528 TCGCAGGCCAAAGGTCAG 59.967 61.111 5.01 0.00 0.00 3.51
82 83 3.741476 CGCAGGCCAAAGGTCAGC 61.741 66.667 5.01 0.00 36.46 4.26
83 84 2.282745 GCAGGCCAAAGGTCAGCT 60.283 61.111 5.01 0.00 36.87 4.24
84 85 2.338785 GCAGGCCAAAGGTCAGCTC 61.339 63.158 5.01 0.00 36.87 4.09
85 86 2.037136 CAGGCCAAAGGTCAGCTCG 61.037 63.158 5.01 0.00 0.00 5.03
86 87 2.217038 AGGCCAAAGGTCAGCTCGA 61.217 57.895 5.01 0.00 0.00 4.04
87 88 1.078143 GGCCAAAGGTCAGCTCGAT 60.078 57.895 0.00 0.00 0.00 3.59
88 89 0.678048 GGCCAAAGGTCAGCTCGATT 60.678 55.000 0.00 0.00 0.00 3.34
89 90 1.168714 GCCAAAGGTCAGCTCGATTT 58.831 50.000 0.00 0.00 0.00 2.17
90 91 1.541588 GCCAAAGGTCAGCTCGATTTT 59.458 47.619 0.00 0.00 0.00 1.82
91 92 2.029918 GCCAAAGGTCAGCTCGATTTTT 60.030 45.455 0.00 0.00 0.00 1.94
121 122 8.475331 ACATAACTCGATCTTTTCATTTACGT 57.525 30.769 0.00 0.00 0.00 3.57
122 123 8.380644 ACATAACTCGATCTTTTCATTTACGTG 58.619 33.333 0.00 0.00 0.00 4.49
123 124 6.780706 AACTCGATCTTTTCATTTACGTGT 57.219 33.333 0.00 0.00 0.00 4.49
124 125 6.390987 ACTCGATCTTTTCATTTACGTGTC 57.609 37.500 0.00 0.00 0.00 3.67
125 126 5.924254 ACTCGATCTTTTCATTTACGTGTCA 59.076 36.000 0.00 0.00 0.00 3.58
126 127 6.590292 ACTCGATCTTTTCATTTACGTGTCAT 59.410 34.615 0.00 0.00 0.00 3.06
127 128 6.761117 TCGATCTTTTCATTTACGTGTCATG 58.239 36.000 0.00 0.00 0.00 3.07
128 129 5.449113 CGATCTTTTCATTTACGTGTCATGC 59.551 40.000 0.00 0.00 0.00 4.06
129 130 5.041951 TCTTTTCATTTACGTGTCATGCC 57.958 39.130 0.00 0.00 0.00 4.40
130 131 3.840890 TTTCATTTACGTGTCATGCCC 57.159 42.857 0.00 0.00 0.00 5.36
131 132 1.364721 TCATTTACGTGTCATGCCCG 58.635 50.000 0.00 0.00 0.00 6.13
149 150 1.963679 GGCCGTGCCTGATCAAAAA 59.036 52.632 7.58 0.00 46.69 1.94
150 151 0.532115 GGCCGTGCCTGATCAAAAAT 59.468 50.000 7.58 0.00 46.69 1.82
160 161 4.083324 GCCTGATCAAAAATTCAGACACGA 60.083 41.667 0.00 0.00 41.53 4.35
174 175 7.979115 TTCAGACACGACCTTTTTATTTTTG 57.021 32.000 0.00 0.00 0.00 2.44
229 232 3.071892 TGGTAAATCAGACACGACCCTTT 59.928 43.478 0.00 0.00 0.00 3.11
231 234 5.221682 TGGTAAATCAGACACGACCCTTTTA 60.222 40.000 0.00 0.00 0.00 1.52
233 236 3.611766 ATCAGACACGACCCTTTTAGG 57.388 47.619 0.00 0.00 34.30 2.69
234 237 2.600790 TCAGACACGACCCTTTTAGGA 58.399 47.619 0.00 0.00 37.67 2.94
239 242 1.346722 CACGACCCTTTTAGGACCAGT 59.653 52.381 0.00 0.00 37.67 4.00
274 277 5.189145 ACTCCCTTGATGTACTTTAACGGAT 59.811 40.000 0.00 0.00 0.00 4.18
280 283 7.279981 CCTTGATGTACTTTAACGGATGATTGA 59.720 37.037 0.00 0.00 0.00 2.57
396 411 4.351054 CACGCCCTTGCCTTCCCT 62.351 66.667 0.00 0.00 0.00 4.20
558 595 1.136891 CATCTTCCCCGGCATTTTTCC 59.863 52.381 0.00 0.00 0.00 3.13
560 597 0.972883 CTTCCCCGGCATTTTTCCAA 59.027 50.000 0.00 0.00 0.00 3.53
562 599 0.178947 TCCCCGGCATTTTTCCAAGT 60.179 50.000 0.00 0.00 0.00 3.16
563 600 0.684535 CCCCGGCATTTTTCCAAGTT 59.315 50.000 0.00 0.00 0.00 2.66
564 601 1.071542 CCCCGGCATTTTTCCAAGTTT 59.928 47.619 0.00 0.00 0.00 2.66
687 747 7.342284 CCTTTTAGACTCTAGTGGACTATGGAA 59.658 40.741 0.00 0.00 0.00 3.53
852 955 2.915137 CCCAACCCAACCCAACCG 60.915 66.667 0.00 0.00 0.00 4.44
888 991 2.752354 CAACCGAGCCACAATAATTGGA 59.248 45.455 0.00 0.00 36.02 3.53
889 992 2.365582 ACCGAGCCACAATAATTGGAC 58.634 47.619 0.00 0.00 36.02 4.02
907 1010 4.712425 GCAGCCAAGCAAGTGCCG 62.712 66.667 0.00 0.00 43.38 5.69
1017 1136 2.041265 ATGGCCGTCTCCCCTTCT 59.959 61.111 0.00 0.00 0.00 2.85
1019 1138 4.475135 GGCCGTCTCCCCTTCTGC 62.475 72.222 0.00 0.00 0.00 4.26
1259 1390 2.604174 GCGTCTCCAACACAACCCG 61.604 63.158 0.00 0.00 0.00 5.28
1261 1392 2.112297 TCTCCAACACAACCCGGC 59.888 61.111 0.00 0.00 0.00 6.13
1263 1394 1.528309 CTCCAACACAACCCGGCTT 60.528 57.895 0.00 0.00 0.00 4.35
1264 1395 1.076632 TCCAACACAACCCGGCTTT 60.077 52.632 0.00 0.00 0.00 3.51
1265 1396 1.067250 CCAACACAACCCGGCTTTG 59.933 57.895 11.46 11.46 0.00 2.77
1270 1409 0.744281 CACAACCCGGCTTTGTTTCT 59.256 50.000 15.12 0.00 34.91 2.52
1287 1426 9.316730 CTTTGTTTCTCCTTTGATTGAATTGAA 57.683 29.630 0.00 0.00 0.00 2.69
1302 1441 5.909477 TGAATTGAATTGAATGATGGCTCC 58.091 37.500 0.00 0.00 0.00 4.70
1528 1669 1.261238 CCCTCTCTCCACTCCACACC 61.261 65.000 0.00 0.00 0.00 4.16
1550 1693 1.668419 CGCTACCAATTCTTCCCCAG 58.332 55.000 0.00 0.00 0.00 4.45
2001 2148 2.626780 GCTCTTCAACAACGGGGCC 61.627 63.158 0.00 0.00 0.00 5.80
2199 2357 6.317140 ACTCATATGGAAGCAACATGTTACTG 59.683 38.462 12.10 1.74 0.00 2.74
2241 2399 1.019673 GCATGACACTGCATCGGAAT 58.980 50.000 0.00 0.00 41.87 3.01
2242 2400 2.158914 AGCATGACACTGCATCGGAATA 60.159 45.455 0.00 0.00 44.77 1.75
2243 2401 2.222678 GCATGACACTGCATCGGAATAG 59.777 50.000 0.00 0.00 41.87 1.73
2252 2410 5.755375 CACTGCATCGGAATAGTAGAAATGT 59.245 40.000 0.00 0.00 0.00 2.71
2253 2411 6.258727 CACTGCATCGGAATAGTAGAAATGTT 59.741 38.462 0.00 0.00 0.00 2.71
2256 2414 6.260050 TGCATCGGAATAGTAGAAATGTTTCC 59.740 38.462 2.04 0.00 37.92 3.13
2330 2508 8.443979 AGCTTTGCTATTTTTAGGAGGATATCT 58.556 33.333 2.05 0.00 36.99 1.98
2380 2571 9.270576 GATATGAACGATATGAAATGCACATTC 57.729 33.333 7.04 7.04 0.00 2.67
2386 2577 6.203530 ACGATATGAAATGCACATTCCAGTAG 59.796 38.462 10.62 4.04 0.00 2.57
2393 2584 8.970020 TGAAATGCACATTCCAGTAGATATTTT 58.030 29.630 10.62 0.00 0.00 1.82
2398 2589 8.046708 TGCACATTCCAGTAGATATTTTGTACT 58.953 33.333 0.00 0.00 0.00 2.73
2419 2640 1.470051 TAGTGTAGCGATCAGTGGCA 58.530 50.000 0.00 0.00 0.00 4.92
2472 2717 6.944557 TCAGTGTGACATTATTTACTCGTG 57.055 37.500 0.00 0.00 0.00 4.35
2481 2726 2.373540 ATTTACTCGTGCGCTGGTTA 57.626 45.000 9.73 0.00 0.00 2.85
2486 2733 3.124270 CGTGCGCTGGTTATGGCA 61.124 61.111 9.73 0.00 0.00 4.92
2502 2749 3.058160 CAAGGGTTGGGCGAGCTG 61.058 66.667 0.00 0.00 0.00 4.24
2506 2753 2.032681 GGTTGGGCGAGCTGAACT 59.967 61.111 0.00 0.00 0.00 3.01
2511 2758 1.522580 GGGCGAGCTGAACTGATCC 60.523 63.158 0.00 0.00 0.00 3.36
2572 2828 6.907212 CGTTGCTACATAAATAGCTGGAAAAG 59.093 38.462 0.00 0.00 46.54 2.27
2608 2864 1.277273 TGGCTCTCTGATCAGTTGGTG 59.723 52.381 21.92 14.16 0.00 4.17
2609 2865 1.406614 GGCTCTCTGATCAGTTGGTGG 60.407 57.143 21.92 8.96 0.00 4.61
2610 2866 2.011046 GCTCTCTGATCAGTTGGTGGC 61.011 57.143 21.92 14.10 0.00 5.01
2611 2867 0.247460 TCTCTGATCAGTTGGTGGCG 59.753 55.000 21.92 0.00 0.00 5.69
2612 2868 0.247460 CTCTGATCAGTTGGTGGCGA 59.753 55.000 21.92 0.00 0.00 5.54
2673 2929 9.658475 TTGTTTCAGAGTCGTAAATAATGTTTG 57.342 29.630 0.00 0.00 0.00 2.93
2674 2930 9.047371 TGTTTCAGAGTCGTAAATAATGTTTGA 57.953 29.630 0.00 0.00 0.00 2.69
2677 2933 8.115491 TCAGAGTCGTAAATAATGTTTGATCG 57.885 34.615 0.00 0.00 0.00 3.69
2678 2934 7.222031 TCAGAGTCGTAAATAATGTTTGATCGG 59.778 37.037 0.00 0.00 0.00 4.18
2679 2935 6.018994 AGAGTCGTAAATAATGTTTGATCGGC 60.019 38.462 0.00 0.00 0.00 5.54
2680 2936 5.583061 AGTCGTAAATAATGTTTGATCGGCA 59.417 36.000 0.00 0.00 0.00 5.69
2681 2937 6.260050 AGTCGTAAATAATGTTTGATCGGCAT 59.740 34.615 0.00 0.00 0.00 4.40
2682 2938 6.573725 GTCGTAAATAATGTTTGATCGGCATC 59.426 38.462 0.00 0.00 0.00 3.91
2683 2939 6.481976 TCGTAAATAATGTTTGATCGGCATCT 59.518 34.615 0.00 0.00 0.00 2.90
2684 2940 6.792250 CGTAAATAATGTTTGATCGGCATCTC 59.208 38.462 0.00 0.00 0.00 2.75
2685 2941 4.997905 ATAATGTTTGATCGGCATCTCG 57.002 40.909 0.00 0.00 0.00 4.04
2686 2942 1.586422 ATGTTTGATCGGCATCTCGG 58.414 50.000 0.00 0.00 0.00 4.63
2687 2943 0.534873 TGTTTGATCGGCATCTCGGA 59.465 50.000 0.00 0.00 0.00 4.55
2688 2944 1.066502 TGTTTGATCGGCATCTCGGAA 60.067 47.619 0.00 0.00 0.00 4.30
2689 2945 1.594862 GTTTGATCGGCATCTCGGAAG 59.405 52.381 0.00 0.00 0.00 3.46
2690 2946 0.104855 TTGATCGGCATCTCGGAAGG 59.895 55.000 0.00 0.00 0.00 3.46
2691 2947 0.755327 TGATCGGCATCTCGGAAGGA 60.755 55.000 0.00 0.00 0.00 3.36
2692 2948 0.389391 GATCGGCATCTCGGAAGGAA 59.611 55.000 0.00 0.00 0.00 3.36
2693 2949 0.830648 ATCGGCATCTCGGAAGGAAA 59.169 50.000 0.00 0.00 0.00 3.13
2694 2950 0.611200 TCGGCATCTCGGAAGGAAAA 59.389 50.000 0.00 0.00 0.00 2.29
2695 2951 1.002659 TCGGCATCTCGGAAGGAAAAA 59.997 47.619 0.00 0.00 0.00 1.94
2716 2972 3.680642 AAATGTTTGATCGCATCTCGG 57.319 42.857 0.00 0.00 39.05 4.63
2717 2973 2.602257 ATGTTTGATCGCATCTCGGA 57.398 45.000 0.00 0.00 39.05 4.55
2718 2974 2.378445 TGTTTGATCGCATCTCGGAA 57.622 45.000 0.00 0.00 39.05 4.30
2719 2975 2.270923 TGTTTGATCGCATCTCGGAAG 58.729 47.619 0.00 0.00 39.05 3.46
2720 2976 1.594862 GTTTGATCGCATCTCGGAAGG 59.405 52.381 0.00 0.00 39.05 3.46
2721 2977 1.111277 TTGATCGCATCTCGGAAGGA 58.889 50.000 0.00 0.00 39.05 3.36
2722 2978 1.111277 TGATCGCATCTCGGAAGGAA 58.889 50.000 0.00 0.00 39.05 3.36
2723 2979 1.480545 TGATCGCATCTCGGAAGGAAA 59.519 47.619 0.00 0.00 39.05 3.13
2724 2980 2.093711 TGATCGCATCTCGGAAGGAAAA 60.094 45.455 0.00 0.00 39.05 2.29
2725 2981 2.465860 TCGCATCTCGGAAGGAAAAA 57.534 45.000 0.00 0.00 39.05 1.94
2752 3008 0.969149 TTGATCGGCGGATAGAGCAT 59.031 50.000 7.21 0.00 32.57 3.79
2772 3028 2.346365 GGGGAGCGACGAAAAGGT 59.654 61.111 0.00 0.00 0.00 3.50
2781 3037 2.357760 CGAAAAGGTCCGGCGGAA 60.358 61.111 32.91 12.48 31.38 4.30
2811 3067 2.366590 TCAAGTCCCTCGATCATGATGG 59.633 50.000 14.30 12.58 0.00 3.51
2812 3068 2.366590 CAAGTCCCTCGATCATGATGGA 59.633 50.000 14.30 16.54 31.24 3.41
2868 3124 1.526464 CTTTTCACCCAACAAATGCGC 59.474 47.619 0.00 0.00 0.00 6.09
2932 3191 7.524367 GCCAATCCATCGATCCAAAAATATCTT 60.524 37.037 0.00 0.00 0.00 2.40
2958 3220 1.903183 AGAGAGGGGAAAAGGAAGACG 59.097 52.381 0.00 0.00 0.00 4.18
2988 3252 1.536766 ACTTGGTGTTGATCATGCACG 59.463 47.619 18.57 11.24 34.25 5.34
3099 3367 7.044798 CCACTTGTTAAAGTTTGGAATGGAAA 58.955 34.615 0.00 0.00 44.47 3.13
3113 3381 3.498774 ATGGAAAGTCACTCAGCACTT 57.501 42.857 0.00 0.00 34.16 3.16
3124 3392 7.398024 AGTCACTCAGCACTTAGGATATTTTT 58.602 34.615 0.00 0.00 0.00 1.94
3146 3414 2.316677 TCTTACTATGGTCACAGGGGGA 59.683 50.000 0.00 0.00 0.00 4.81
3147 3415 2.471815 TACTATGGTCACAGGGGGAG 57.528 55.000 0.00 0.00 0.00 4.30
3148 3416 0.417841 ACTATGGTCACAGGGGGAGT 59.582 55.000 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.044249 CGACTCACGACACGATATTTTTCTATT 60.044 37.037 0.00 0.00 45.77 1.73
1 2 6.414109 CGACTCACGACACGATATTTTTCTAT 59.586 38.462 0.00 0.00 45.77 1.98
2 3 5.735892 CGACTCACGACACGATATTTTTCTA 59.264 40.000 0.00 0.00 45.77 2.10
3 4 4.557690 CGACTCACGACACGATATTTTTCT 59.442 41.667 0.00 0.00 45.77 2.52
4 5 4.322804 ACGACTCACGACACGATATTTTTC 59.677 41.667 0.00 0.00 45.77 2.29
5 6 4.089493 CACGACTCACGACACGATATTTTT 59.911 41.667 0.00 0.00 45.77 1.94
6 7 3.606777 CACGACTCACGACACGATATTTT 59.393 43.478 0.00 0.00 45.77 1.82
7 8 3.120095 TCACGACTCACGACACGATATTT 60.120 43.478 0.00 0.00 45.77 1.40
8 9 2.417586 TCACGACTCACGACACGATATT 59.582 45.455 0.00 0.00 45.77 1.28
9 10 2.004733 TCACGACTCACGACACGATAT 58.995 47.619 0.00 0.00 45.77 1.63
10 11 1.127397 GTCACGACTCACGACACGATA 59.873 52.381 0.00 0.00 45.77 2.92
11 12 0.110328 GTCACGACTCACGACACGAT 60.110 55.000 0.00 0.00 45.77 3.73
12 13 1.277739 GTCACGACTCACGACACGA 59.722 57.895 0.00 0.00 45.77 4.35
13 14 0.992263 CTGTCACGACTCACGACACG 60.992 60.000 0.00 0.00 45.77 4.49
14 15 1.269444 GCTGTCACGACTCACGACAC 61.269 60.000 0.00 0.00 45.77 3.67
15 16 1.008881 GCTGTCACGACTCACGACA 60.009 57.895 0.00 0.00 45.77 4.35
16 17 0.387367 ATGCTGTCACGACTCACGAC 60.387 55.000 0.00 0.00 45.77 4.34
17 18 0.313987 AATGCTGTCACGACTCACGA 59.686 50.000 0.00 0.00 45.77 4.35
19 20 1.723542 CTCAATGCTGTCACGACTCAC 59.276 52.381 0.00 0.00 0.00 3.51
20 21 1.337167 CCTCAATGCTGTCACGACTCA 60.337 52.381 0.00 0.00 0.00 3.41
21 22 1.354040 CCTCAATGCTGTCACGACTC 58.646 55.000 0.00 0.00 0.00 3.36
22 23 0.671781 GCCTCAATGCTGTCACGACT 60.672 55.000 0.00 0.00 0.00 4.18
23 24 1.639298 GGCCTCAATGCTGTCACGAC 61.639 60.000 0.00 0.00 0.00 4.34
24 25 1.375908 GGCCTCAATGCTGTCACGA 60.376 57.895 0.00 0.00 0.00 4.35
25 26 1.376424 AGGCCTCAATGCTGTCACG 60.376 57.895 0.00 0.00 0.00 4.35
26 27 1.310933 CCAGGCCTCAATGCTGTCAC 61.311 60.000 0.00 0.00 0.00 3.67
27 28 1.001764 CCAGGCCTCAATGCTGTCA 60.002 57.895 0.00 0.00 0.00 3.58
28 29 2.413142 GCCAGGCCTCAATGCTGTC 61.413 63.158 0.00 0.00 0.00 3.51
29 30 2.362120 GCCAGGCCTCAATGCTGT 60.362 61.111 0.00 0.00 0.00 4.40
30 31 0.394762 TAAGCCAGGCCTCAATGCTG 60.395 55.000 8.22 0.00 31.55 4.41
31 32 0.554792 ATAAGCCAGGCCTCAATGCT 59.445 50.000 8.22 5.97 0.00 3.79
32 33 1.068127 CAATAAGCCAGGCCTCAATGC 59.932 52.381 8.22 3.21 0.00 3.56
33 34 1.684983 CCAATAAGCCAGGCCTCAATG 59.315 52.381 8.22 1.13 0.00 2.82
34 35 1.412074 CCCAATAAGCCAGGCCTCAAT 60.412 52.381 8.22 0.00 0.00 2.57
35 36 0.033208 CCCAATAAGCCAGGCCTCAA 60.033 55.000 8.22 0.00 0.00 3.02
36 37 1.214305 ACCCAATAAGCCAGGCCTCA 61.214 55.000 8.22 0.00 0.00 3.86
37 38 0.753111 CACCCAATAAGCCAGGCCTC 60.753 60.000 8.22 0.00 0.00 4.70
38 39 1.307647 CACCCAATAAGCCAGGCCT 59.692 57.895 8.22 0.00 0.00 5.19
39 40 1.000359 ACACCCAATAAGCCAGGCC 60.000 57.895 8.22 0.00 0.00 5.19
40 41 0.611896 ACACACCCAATAAGCCAGGC 60.612 55.000 1.84 1.84 0.00 4.85
41 42 1.923356 AACACACCCAATAAGCCAGG 58.077 50.000 0.00 0.00 0.00 4.45
42 43 3.069443 ACAAAACACACCCAATAAGCCAG 59.931 43.478 0.00 0.00 0.00 4.85
43 44 3.034635 ACAAAACACACCCAATAAGCCA 58.965 40.909 0.00 0.00 0.00 4.75
44 45 3.649073 GACAAAACACACCCAATAAGCC 58.351 45.455 0.00 0.00 0.00 4.35
45 46 3.305110 CGACAAAACACACCCAATAAGC 58.695 45.455 0.00 0.00 0.00 3.09
46 47 3.243234 TGCGACAAAACACACCCAATAAG 60.243 43.478 0.00 0.00 0.00 1.73
47 48 2.688446 TGCGACAAAACACACCCAATAA 59.312 40.909 0.00 0.00 0.00 1.40
48 49 2.292016 CTGCGACAAAACACACCCAATA 59.708 45.455 0.00 0.00 0.00 1.90
49 50 1.066908 CTGCGACAAAACACACCCAAT 59.933 47.619 0.00 0.00 0.00 3.16
50 51 0.453793 CTGCGACAAAACACACCCAA 59.546 50.000 0.00 0.00 0.00 4.12
51 52 1.380403 CCTGCGACAAAACACACCCA 61.380 55.000 0.00 0.00 0.00 4.51
52 53 1.358759 CCTGCGACAAAACACACCC 59.641 57.895 0.00 0.00 0.00 4.61
53 54 1.299089 GCCTGCGACAAAACACACC 60.299 57.895 0.00 0.00 0.00 4.16
54 55 1.299089 GGCCTGCGACAAAACACAC 60.299 57.895 0.00 0.00 0.00 3.82
55 56 1.315981 TTGGCCTGCGACAAAACACA 61.316 50.000 3.32 0.00 0.00 3.72
56 57 0.179124 TTTGGCCTGCGACAAAACAC 60.179 50.000 3.32 0.00 34.00 3.32
57 58 0.102120 CTTTGGCCTGCGACAAAACA 59.898 50.000 3.32 0.00 36.29 2.83
58 59 0.597377 CCTTTGGCCTGCGACAAAAC 60.597 55.000 3.32 0.00 36.29 2.43
59 60 1.040339 ACCTTTGGCCTGCGACAAAA 61.040 50.000 3.32 0.00 36.29 2.44
60 61 1.452145 GACCTTTGGCCTGCGACAAA 61.452 55.000 3.32 0.00 35.49 2.83
61 62 1.896660 GACCTTTGGCCTGCGACAA 60.897 57.895 3.32 0.00 0.00 3.18
62 63 2.281484 GACCTTTGGCCTGCGACA 60.281 61.111 3.32 0.00 0.00 4.35
63 64 2.281484 TGACCTTTGGCCTGCGAC 60.281 61.111 3.32 0.00 0.00 5.19
64 65 2.032528 CTGACCTTTGGCCTGCGA 59.967 61.111 3.32 0.00 0.00 5.10
65 66 3.741476 GCTGACCTTTGGCCTGCG 61.741 66.667 3.32 0.00 0.00 5.18
66 67 2.282745 AGCTGACCTTTGGCCTGC 60.283 61.111 3.32 0.00 0.00 4.85
67 68 2.037136 CGAGCTGACCTTTGGCCTG 61.037 63.158 3.32 0.00 0.00 4.85
68 69 1.557269 ATCGAGCTGACCTTTGGCCT 61.557 55.000 3.32 0.00 0.00 5.19
69 70 0.678048 AATCGAGCTGACCTTTGGCC 60.678 55.000 0.00 0.00 0.00 5.36
70 71 1.168714 AAATCGAGCTGACCTTTGGC 58.831 50.000 0.00 0.00 0.00 4.52
71 72 3.923017 AAAAATCGAGCTGACCTTTGG 57.077 42.857 0.00 0.00 0.00 3.28
95 96 8.932791 ACGTAAATGAAAAGATCGAGTTATGTT 58.067 29.630 0.00 0.00 0.00 2.71
96 97 8.380644 CACGTAAATGAAAAGATCGAGTTATGT 58.619 33.333 0.00 0.00 0.00 2.29
97 98 8.380644 ACACGTAAATGAAAAGATCGAGTTATG 58.619 33.333 0.00 0.00 0.00 1.90
98 99 8.475331 ACACGTAAATGAAAAGATCGAGTTAT 57.525 30.769 0.00 0.00 0.00 1.89
99 100 7.595875 TGACACGTAAATGAAAAGATCGAGTTA 59.404 33.333 0.00 0.00 0.00 2.24
100 101 6.422701 TGACACGTAAATGAAAAGATCGAGTT 59.577 34.615 0.00 0.00 0.00 3.01
101 102 5.924254 TGACACGTAAATGAAAAGATCGAGT 59.076 36.000 0.00 0.00 0.00 4.18
102 103 6.389622 TGACACGTAAATGAAAAGATCGAG 57.610 37.500 0.00 0.00 0.00 4.04
103 104 6.672118 GCATGACACGTAAATGAAAAGATCGA 60.672 38.462 0.00 0.00 0.00 3.59
104 105 5.449113 GCATGACACGTAAATGAAAAGATCG 59.551 40.000 0.00 0.00 0.00 3.69
105 106 5.739161 GGCATGACACGTAAATGAAAAGATC 59.261 40.000 0.00 0.00 0.00 2.75
106 107 5.393027 GGGCATGACACGTAAATGAAAAGAT 60.393 40.000 0.00 0.00 0.00 2.40
107 108 4.083003 GGGCATGACACGTAAATGAAAAGA 60.083 41.667 0.00 0.00 0.00 2.52
108 109 4.165779 GGGCATGACACGTAAATGAAAAG 58.834 43.478 0.00 0.00 0.00 2.27
109 110 3.365465 CGGGCATGACACGTAAATGAAAA 60.365 43.478 0.00 0.00 0.00 2.29
110 111 2.160615 CGGGCATGACACGTAAATGAAA 59.839 45.455 0.00 0.00 0.00 2.69
111 112 1.735018 CGGGCATGACACGTAAATGAA 59.265 47.619 0.00 0.00 0.00 2.57
112 113 1.364721 CGGGCATGACACGTAAATGA 58.635 50.000 0.00 0.00 0.00 2.57
113 114 0.376852 CCGGGCATGACACGTAAATG 59.623 55.000 0.00 0.00 0.00 2.32
114 115 1.373590 GCCGGGCATGACACGTAAAT 61.374 55.000 15.62 0.00 0.00 1.40
115 116 2.036006 GCCGGGCATGACACGTAAA 61.036 57.895 15.62 0.00 0.00 2.01
116 117 2.435234 GCCGGGCATGACACGTAA 60.435 61.111 15.62 0.00 0.00 3.18
117 118 4.460683 GGCCGGGCATGACACGTA 62.461 66.667 25.33 0.00 0.00 3.57
144 145 6.885735 AAAAAGGTCGTGTCTGAATTTTTG 57.114 33.333 0.00 0.00 32.34 2.44
149 150 8.410141 TCAAAAATAAAAAGGTCGTGTCTGAAT 58.590 29.630 0.00 0.00 0.00 2.57
150 151 7.763356 TCAAAAATAAAAAGGTCGTGTCTGAA 58.237 30.769 0.00 0.00 0.00 3.02
184 185 7.755591 CCATGTGATACATATGGTAAGCAATC 58.244 38.462 15.84 0.00 44.49 2.67
196 197 7.651704 CGTGTCTGATTTACCATGTGATACATA 59.348 37.037 0.00 0.00 36.53 2.29
206 207 2.838202 AGGGTCGTGTCTGATTTACCAT 59.162 45.455 0.00 0.00 0.00 3.55
239 242 4.202461 ACATCAAGGGAGTCTACAGCAAAA 60.202 41.667 0.00 0.00 0.00 2.44
386 401 0.917333 ATACCGGGAAGGGAAGGCAA 60.917 55.000 6.32 0.00 46.96 4.52
425 447 0.603065 GGTTGGTTCATTCTGGTGGC 59.397 55.000 0.00 0.00 0.00 5.01
435 457 1.716826 GCAACGGTTCGGTTGGTTCA 61.717 55.000 19.33 0.00 45.72 3.18
538 575 1.136891 GGAAAAATGCCGGGGAAGATG 59.863 52.381 2.18 0.00 0.00 2.90
558 595 6.582295 CGAGGTCCAAATCAAATGTAAACTTG 59.418 38.462 0.00 0.00 0.00 3.16
560 597 6.001460 TCGAGGTCCAAATCAAATGTAAACT 58.999 36.000 0.00 0.00 0.00 2.66
562 599 5.182380 GGTCGAGGTCCAAATCAAATGTAAA 59.818 40.000 0.00 0.00 0.00 2.01
563 600 4.698304 GGTCGAGGTCCAAATCAAATGTAA 59.302 41.667 0.00 0.00 0.00 2.41
564 601 4.258543 GGTCGAGGTCCAAATCAAATGTA 58.741 43.478 0.00 0.00 0.00 2.29
633 670 3.414700 GTGTTCCGCAGACCGCAG 61.415 66.667 0.00 0.00 42.60 5.18
634 671 4.228567 TGTGTTCCGCAGACCGCA 62.229 61.111 0.00 0.00 42.60 5.69
635 672 3.712881 GTGTGTTCCGCAGACCGC 61.713 66.667 0.00 0.00 35.56 5.68
636 673 2.279851 TGTGTGTTCCGCAGACCG 60.280 61.111 0.00 0.00 40.29 4.79
637 674 3.330275 GTGTGTGTTCCGCAGACC 58.670 61.111 0.00 0.00 40.29 3.85
638 675 2.594962 CGGTGTGTGTTCCGCAGAC 61.595 63.158 0.00 0.00 41.26 3.51
639 676 2.279851 CGGTGTGTGTTCCGCAGA 60.280 61.111 0.00 0.00 40.28 4.26
687 747 5.012148 CAGTTTACGATCCCATATTCTCCCT 59.988 44.000 0.00 0.00 0.00 4.20
838 941 4.926162 GGCCGGTTGGGTTGGGTT 62.926 66.667 1.90 0.00 38.44 4.11
888 991 3.969802 GCACTTGCTTGGCTGCGT 61.970 61.111 0.00 0.00 38.21 5.24
889 992 4.712425 GGCACTTGCTTGGCTGCG 62.712 66.667 0.38 0.00 41.70 5.18
907 1010 1.146358 CGGAAACTGCCGTAGCTAGC 61.146 60.000 6.62 6.62 46.07 3.42
946 1061 0.105607 ATCGGAGGAAGGTAGACCCC 60.106 60.000 0.00 0.00 36.42 4.95
1259 1390 5.200368 TCAATCAAAGGAGAAACAAAGCC 57.800 39.130 0.00 0.00 0.00 4.35
1261 1392 8.876275 TCAATTCAATCAAAGGAGAAACAAAG 57.124 30.769 0.00 0.00 0.00 2.77
1263 1394 9.835389 AATTCAATTCAATCAAAGGAGAAACAA 57.165 25.926 0.00 0.00 0.00 2.83
1264 1395 9.263538 CAATTCAATTCAATCAAAGGAGAAACA 57.736 29.630 0.00 0.00 0.00 2.83
1265 1396 9.480053 TCAATTCAATTCAATCAAAGGAGAAAC 57.520 29.630 0.00 0.00 0.00 2.78
1418 1557 2.707849 GGCCTCGACCTGCGTCTTA 61.708 63.158 0.00 0.00 41.80 2.10
1528 1669 1.436983 GGGAAGAATTGGTAGCGCGG 61.437 60.000 8.83 0.00 0.00 6.46
1550 1693 0.733566 TTCATTCACGACCCGTACGC 60.734 55.000 10.49 0.00 38.32 4.42
2001 2148 4.742201 CGCACCAGGGAGTCCACG 62.742 72.222 12.30 0.26 34.83 4.94
2064 2211 1.578897 TCCCGAGGTTGATCATGGAA 58.421 50.000 0.00 0.00 0.00 3.53
2169 2321 7.212976 ACATGTTGCTTCCATATGAGTACTAG 58.787 38.462 3.65 0.00 0.00 2.57
2199 2357 4.755191 TCGTCGATTTCATCAACGAATC 57.245 40.909 0.00 0.00 36.57 2.52
2241 2399 8.946085 CACTAATTGCTGGAAACATTTCTACTA 58.054 33.333 4.45 0.00 41.51 1.82
2242 2400 7.665559 TCACTAATTGCTGGAAACATTTCTACT 59.334 33.333 4.45 0.00 41.51 2.57
2243 2401 7.816640 TCACTAATTGCTGGAAACATTTCTAC 58.183 34.615 4.45 0.00 41.51 2.59
2286 2451 5.972107 AAGCTCTACAATTTGATGCAAGT 57.028 34.783 2.79 0.00 0.00 3.16
2290 2455 4.741342 AGCAAAGCTCTACAATTTGATGC 58.259 39.130 2.79 2.11 36.28 3.91
2330 2508 7.958088 TCATGGATAATGGTTACGTCAGATAA 58.042 34.615 0.00 0.00 36.86 1.75
2393 2584 5.392703 CCACTGATCGCTACACTAAAGTACA 60.393 44.000 0.00 0.00 0.00 2.90
2398 2589 2.232696 TGCCACTGATCGCTACACTAAA 59.767 45.455 0.00 0.00 0.00 1.85
2400 2591 1.470051 TGCCACTGATCGCTACACTA 58.530 50.000 0.00 0.00 0.00 2.74
2401 2592 0.826715 ATGCCACTGATCGCTACACT 59.173 50.000 0.00 0.00 0.00 3.55
2402 2593 0.933097 CATGCCACTGATCGCTACAC 59.067 55.000 0.00 0.00 0.00 2.90
2403 2594 0.179076 CCATGCCACTGATCGCTACA 60.179 55.000 0.00 0.00 0.00 2.74
2419 2640 5.477984 TCTGCTGTTAGCTTCAATTTTCCAT 59.522 36.000 0.00 0.00 42.97 3.41
2472 2717 2.774799 CCCTTGCCATAACCAGCGC 61.775 63.158 0.00 0.00 0.00 5.92
2481 2726 3.944250 CTCGCCCAACCCTTGCCAT 62.944 63.158 0.00 0.00 0.00 4.40
2486 2733 2.829384 TTCAGCTCGCCCAACCCTT 61.829 57.895 0.00 0.00 0.00 3.95
2502 2749 5.237344 CGGACAATTATTCCAGGATCAGTTC 59.763 44.000 0.00 0.00 31.94 3.01
2506 2753 3.136443 AGCGGACAATTATTCCAGGATCA 59.864 43.478 0.00 0.00 31.94 2.92
2511 2758 5.300752 ACTATGAGCGGACAATTATTCCAG 58.699 41.667 6.18 1.27 31.94 3.86
2609 2865 4.508128 TTCACGGGATCGCCTCGC 62.508 66.667 3.90 0.00 40.63 5.03
2610 2866 2.278857 CTTCACGGGATCGCCTCG 60.279 66.667 3.90 0.00 40.63 4.63
2611 2867 1.956629 TTCCTTCACGGGATCGCCTC 61.957 60.000 3.90 0.00 40.63 4.70
2612 2868 1.338136 ATTCCTTCACGGGATCGCCT 61.338 55.000 3.90 0.00 40.63 5.52
2673 2929 0.389391 TTCCTTCCGAGATGCCGATC 59.611 55.000 0.00 0.00 0.00 3.69
2674 2930 0.830648 TTTCCTTCCGAGATGCCGAT 59.169 50.000 0.00 0.00 0.00 4.18
2675 2931 0.611200 TTTTCCTTCCGAGATGCCGA 59.389 50.000 0.00 0.00 0.00 5.54
2676 2932 1.448985 TTTTTCCTTCCGAGATGCCG 58.551 50.000 0.00 0.00 0.00 5.69
2694 2950 4.155826 TCCGAGATGCGATCAAACATTTTT 59.844 37.500 0.00 0.00 44.57 1.94
2695 2951 3.689161 TCCGAGATGCGATCAAACATTTT 59.311 39.130 0.00 0.00 44.57 1.82
2696 2952 3.270027 TCCGAGATGCGATCAAACATTT 58.730 40.909 0.00 0.00 44.57 2.32
2697 2953 2.905075 TCCGAGATGCGATCAAACATT 58.095 42.857 0.00 0.00 44.57 2.71
2698 2954 2.602257 TCCGAGATGCGATCAAACAT 57.398 45.000 0.00 0.00 44.57 2.71
2699 2955 2.270923 CTTCCGAGATGCGATCAAACA 58.729 47.619 0.00 0.00 44.57 2.83
2700 2956 1.594862 CCTTCCGAGATGCGATCAAAC 59.405 52.381 0.00 0.00 44.57 2.93
2701 2957 1.480545 TCCTTCCGAGATGCGATCAAA 59.519 47.619 0.00 0.00 44.57 2.69
2702 2958 1.111277 TCCTTCCGAGATGCGATCAA 58.889 50.000 0.00 0.00 44.57 2.57
2703 2959 1.111277 TTCCTTCCGAGATGCGATCA 58.889 50.000 0.00 0.00 44.57 2.92
2704 2960 2.225068 TTTCCTTCCGAGATGCGATC 57.775 50.000 0.00 0.00 44.57 3.69
2705 2961 2.691409 TTTTCCTTCCGAGATGCGAT 57.309 45.000 0.00 0.00 44.57 4.58
2706 2962 2.465860 TTTTTCCTTCCGAGATGCGA 57.534 45.000 0.00 0.00 44.57 5.10
2725 2981 3.866883 ATCCGCCGATCAAACATTTTT 57.133 38.095 0.00 0.00 0.00 1.94
2726 2982 4.196193 TCTATCCGCCGATCAAACATTTT 58.804 39.130 0.00 0.00 0.00 1.82
2727 2983 3.804036 TCTATCCGCCGATCAAACATTT 58.196 40.909 0.00 0.00 0.00 2.32
2728 2984 3.393800 CTCTATCCGCCGATCAAACATT 58.606 45.455 0.00 0.00 0.00 2.71
2729 2985 2.868044 GCTCTATCCGCCGATCAAACAT 60.868 50.000 0.00 0.00 0.00 2.71
2730 2986 1.538204 GCTCTATCCGCCGATCAAACA 60.538 52.381 0.00 0.00 0.00 2.83
2731 2987 1.140816 GCTCTATCCGCCGATCAAAC 58.859 55.000 0.00 0.00 0.00 2.93
2732 2988 0.750249 TGCTCTATCCGCCGATCAAA 59.250 50.000 0.00 0.00 0.00 2.69
2752 3008 1.292223 CTTTTCGTCGCTCCCCAGA 59.708 57.895 0.00 0.00 0.00 3.86
2811 3067 0.394899 CAGGGCCATTCCAGGAACTC 60.395 60.000 3.18 0.00 34.60 3.01
2812 3068 0.846427 TCAGGGCCATTCCAGGAACT 60.846 55.000 3.18 0.00 43.88 3.01
2868 3124 4.443598 GGCTAGAACTAGAGACAATTGGGG 60.444 50.000 10.83 0.00 35.21 4.96
2908 3164 8.025445 GGAAGATATTTTTGGATCGATGGATTG 58.975 37.037 0.54 0.00 31.51 2.67
2958 3220 5.700832 TGATCAACACCAAGTCTTCACATAC 59.299 40.000 0.00 0.00 0.00 2.39
2988 3252 4.992951 ACAACACCTTATCTTCACCGTTAC 59.007 41.667 0.00 0.00 0.00 2.50
3099 3367 6.552445 AAATATCCTAAGTGCTGAGTGACT 57.448 37.500 0.00 0.00 0.00 3.41
3124 3392 3.112263 CCCCCTGTGACCATAGTAAGAA 58.888 50.000 0.00 0.00 0.00 2.52
3125 3393 2.316677 TCCCCCTGTGACCATAGTAAGA 59.683 50.000 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.