Multiple sequence alignment - TraesCS2A01G568700

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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 TraesCS2A01G568700 chr2A 100.000 3692 0 0 1 3692 766897738 766901429 0.000000e+00 6818.0
1 TraesCS2A01G568700 chr2A 98.969 970 8 2 2725 3692 766907449 766908418 0.000000e+00 1735.0
2 TraesCS2A01G568700 chr2A 98.660 970 11 2 2725 3692 760515807 760514838 0.000000e+00 1718.0
3 TraesCS2A01G568700 chr2A 98.557 970 12 2 2725 3692 760735519 760734550 0.000000e+00 1712.0
4 TraesCS2A01G568700 chr2A 98.557 970 12 2 2725 3692 767045705 767044736 0.000000e+00 1712.0
5 TraesCS2A01G568700 chr2A 98.557 970 12 2 2725 3692 779955301 779954332 0.000000e+00 1712.0
6 TraesCS2A01G568700 chr2A 84.810 395 56 4 2344 2736 767005895 767006287 9.610000e-106 394.0
7 TraesCS2A01G568700 chr2A 84.892 139 20 1 293 430 73185840 73185978 4.970000e-29 139.0
8 TraesCS2A01G568700 chr2A 84.375 128 20 0 285 412 41606298 41606171 3.870000e-25 126.0
9 TraesCS2A01G568700 chr2A 93.103 58 4 0 223 280 766884883 766884826 6.570000e-13 86.1
10 TraesCS2A01G568700 chr2A 90.000 50 3 2 157 206 767000012 767000059 3.080000e-06 63.9
11 TraesCS2A01G568700 chr2B 97.676 1162 22 4 1575 2736 799619529 799618373 0.000000e+00 1991.0
12 TraesCS2A01G568700 chr2B 95.455 682 23 5 544 1221 799627601 799626924 0.000000e+00 1081.0
13 TraesCS2A01G568700 chr2B 95.556 360 15 1 1217 1575 799619981 799619622 3.200000e-160 575.0
14 TraesCS2A01G568700 chr2B 93.939 165 9 1 286 449 799628031 799627867 7.920000e-62 248.0
15 TraesCS2A01G568700 chr2B 94.000 150 9 0 138 287 799628337 799628188 1.030000e-55 228.0
16 TraesCS2A01G568700 chr2B 95.035 141 5 1 1 139 799644315 799644175 1.730000e-53 220.0
17 TraesCS2A01G568700 chr6A 98.658 969 11 2 2725 3691 20536285 20535317 0.000000e+00 1716.0
18 TraesCS2A01G568700 chr6A 98.557 970 12 2 2725 3692 23783692 23782723 0.000000e+00 1712.0
19 TraesCS2A01G568700 chr6A 98.454 970 13 2 2725 3692 15342118 15341149 0.000000e+00 1707.0
20 TraesCS2A01G568700 chr6A 98.454 970 13 2 2725 3692 33992102 33993071 0.000000e+00 1707.0
21 TraesCS2A01G568700 chr6A 87.671 73 4 5 2296 2364 268571378 268571449 3.060000e-11 80.5
22 TraesCS2A01G568700 chr2D 94.568 1031 32 8 549 1575 642196883 642197893 0.000000e+00 1572.0
23 TraesCS2A01G568700 chr2D 98.634 732 10 0 1575 2306 642197986 642198717 0.000000e+00 1297.0
24 TraesCS2A01G568700 chr2D 98.843 432 4 1 2306 2736 642198751 642199182 0.000000e+00 769.0
25 TraesCS2A01G568700 chr2D 84.964 419 51 7 2325 2736 597960645 597960232 7.380000e-112 414.0
26 TraesCS2A01G568700 chr2D 84.726 419 52 8 2325 2736 641973165 641972752 3.430000e-110 409.0
27 TraesCS2A01G568700 chr2D 85.279 394 52 4 2345 2736 642036809 642036420 5.740000e-108 401.0
28 TraesCS2A01G568700 chr2D 84.925 398 48 5 2344 2736 598278577 598278187 3.460000e-105 392.0
29 TraesCS2A01G568700 chr2D 84.343 396 58 3 2344 2736 598304099 598304493 5.780000e-103 385.0
30 TraesCS2A01G568700 chr2D 84.091 396 59 3 2344 2736 642059696 642060090 2.690000e-101 379.0
31 TraesCS2A01G568700 chr2D 92.000 125 7 3 161 284 642196162 642196284 4.900000e-39 172.0
32 TraesCS2A01G568700 chr2D 84.076 157 20 5 1596 1748 598279338 598279183 2.970000e-31 147.0
33 TraesCS2A01G568700 chr2D 84.076 157 20 5 1596 1748 642056402 642056557 2.970000e-31 147.0
34 TraesCS2A01G568700 chr2D 83.117 154 21 5 1599 1748 642153196 642153044 6.430000e-28 135.0
35 TraesCS2A01G568700 chr2D 83.898 118 15 4 315 430 518072331 518072446 3.900000e-20 110.0
36 TraesCS2A01G568700 chr2D 90.164 61 6 0 227 287 598285380 598285320 3.060000e-11 80.5
37 TraesCS2A01G568700 chr2D 90.164 61 6 0 227 287 642050692 642050632 3.060000e-11 80.5
38 TraesCS2A01G568700 chr2D 90.164 61 1 5 2294 2351 10212457 10212515 1.420000e-09 75.0
39 TraesCS2A01G568700 chr1B 89.922 129 12 1 303 430 161986951 161987079 8.200000e-37 165.0
40 TraesCS2A01G568700 chr1B 79.856 139 25 2 293 430 58578564 58578428 8.440000e-17 99.0
41 TraesCS2A01G568700 chr1D 88.806 134 14 1 301 433 104576815 104576682 2.950000e-36 163.0
42 TraesCS2A01G568700 chr7D 90.805 87 6 2 342 427 170733109 170733194 8.380000e-22 115.0
43 TraesCS2A01G568700 chr7D 90.323 62 4 2 2307 2367 378490968 378490908 3.060000e-11 80.5
44 TraesCS2A01G568700 chr4A 80.282 142 27 1 287 427 679991492 679991633 5.040000e-19 106.0
45 TraesCS2A01G568700 chr6D 96.226 53 1 1 2307 2359 53670142 53670193 6.570000e-13 86.1
46 TraesCS2A01G568700 chr7B 91.803 61 1 4 2294 2352 198885163 198885105 8.500000e-12 82.4
47 TraesCS2A01G568700 chr7B 90.323 62 4 2 2307 2367 373175145 373175085 3.060000e-11 80.5
48 TraesCS2A01G568700 chr5D 89.231 65 2 4 2283 2345 458896006 458896067 3.950000e-10 76.8


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 TraesCS2A01G568700 chr2A 766897738 766901429 3691 False 6818.0 6818 100.000000 1 3692 1 chr2A.!!$F2 3691
1 TraesCS2A01G568700 chr2A 766907449 766908418 969 False 1735.0 1735 98.969000 2725 3692 1 chr2A.!!$F3 967
2 TraesCS2A01G568700 chr2A 760514838 760515807 969 True 1718.0 1718 98.660000 2725 3692 1 chr2A.!!$R2 967
3 TraesCS2A01G568700 chr2A 760734550 760735519 969 True 1712.0 1712 98.557000 2725 3692 1 chr2A.!!$R3 967
4 TraesCS2A01G568700 chr2A 767044736 767045705 969 True 1712.0 1712 98.557000 2725 3692 1 chr2A.!!$R5 967
5 TraesCS2A01G568700 chr2A 779954332 779955301 969 True 1712.0 1712 98.557000 2725 3692 1 chr2A.!!$R6 967
6 TraesCS2A01G568700 chr2B 799618373 799619981 1608 True 1283.0 1991 96.616000 1217 2736 2 chr2B.!!$R2 1519
7 TraesCS2A01G568700 chr2B 799626924 799628337 1413 True 519.0 1081 94.464667 138 1221 3 chr2B.!!$R3 1083
8 TraesCS2A01G568700 chr6A 20535317 20536285 968 True 1716.0 1716 98.658000 2725 3691 1 chr6A.!!$R2 966
9 TraesCS2A01G568700 chr6A 23782723 23783692 969 True 1712.0 1712 98.557000 2725 3692 1 chr6A.!!$R3 967
10 TraesCS2A01G568700 chr6A 15341149 15342118 969 True 1707.0 1707 98.454000 2725 3692 1 chr6A.!!$R1 967
11 TraesCS2A01G568700 chr6A 33992102 33993071 969 False 1707.0 1707 98.454000 2725 3692 1 chr6A.!!$F1 967
12 TraesCS2A01G568700 chr2D 642196162 642199182 3020 False 952.5 1572 96.011250 161 2736 4 chr2D.!!$F5 2575
13 TraesCS2A01G568700 chr2D 598278187 598279338 1151 True 269.5 392 84.500500 1596 2736 2 chr2D.!!$R7 1140
14 TraesCS2A01G568700 chr2D 642056402 642060090 3688 False 263.0 379 84.083500 1596 2736 2 chr2D.!!$F4 1140

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
66 67 0.034896 GAGTCTGGTGCGGAAAGGAA 59.965 55.0 0.00 0.0 0.0 3.36 F
131 132 0.037326 AACTCGCGTGTGGATGTCAT 60.037 50.0 15.31 0.0 0.0 3.06 F
132 133 0.037326 ACTCGCGTGTGGATGTCATT 60.037 50.0 13.75 0.0 0.0 2.57 F
134 135 0.037790 TCGCGTGTGGATGTCATTGA 60.038 50.0 5.77 0.0 0.0 2.57 F
135 136 0.371301 CGCGTGTGGATGTCATTGAG 59.629 55.0 0.00 0.0 0.0 3.02 F
518 691 0.464373 GGGAGCGATGCAATTCAGGA 60.464 55.0 0.00 0.0 0.0 3.86 F
521 694 0.465097 AGCGATGCAATTCAGGAGGG 60.465 55.0 0.00 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1101 1460 0.592148 ACGAGAAGACCAGTGACGAC 59.408 55.000 0.00 0.00 0.00 4.34 R
1107 1466 2.637383 GGGCGACGAGAAGACCAGT 61.637 63.158 0.00 0.00 0.00 4.00 R
1258 1617 2.905736 TCCAACCAGACACATGATCAGA 59.094 45.455 0.00 0.00 0.00 3.27 R
2491 5545 5.222109 TGGTTCCTTGAATCCTTCATGAAGA 60.222 40.000 32.49 20.05 40.79 2.87 R
2509 5563 5.993748 TCTCCAAATGGTAAAATGGTTCC 57.006 39.130 0.00 0.00 36.34 3.62 R
2666 5720 2.957402 TGAGTTCATTTGCAGGAGGT 57.043 45.000 0.00 0.00 0.00 3.85 R
2886 5945 8.301720 TCTTTGATTAACGAGCTAGTCAAGTAA 58.698 33.333 0.00 0.00 31.56 2.24 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
20 21 3.526931 ACGCAGTGCTGTACATAATCT 57.473 42.857 14.33 0.00 42.51 2.40
21 22 3.190079 ACGCAGTGCTGTACATAATCTG 58.810 45.455 14.33 4.75 42.51 2.90
22 23 2.033407 CGCAGTGCTGTACATAATCTGC 60.033 50.000 21.51 21.51 41.89 4.26
23 24 3.201290 GCAGTGCTGTACATAATCTGCT 58.799 45.455 22.89 5.37 42.00 4.24
24 25 3.624861 GCAGTGCTGTACATAATCTGCTT 59.375 43.478 22.89 5.35 42.00 3.91
25 26 4.095483 GCAGTGCTGTACATAATCTGCTTT 59.905 41.667 22.89 5.09 42.00 3.51
26 27 5.392380 GCAGTGCTGTACATAATCTGCTTTT 60.392 40.000 22.89 3.29 42.00 2.27
27 28 6.025896 CAGTGCTGTACATAATCTGCTTTTG 58.974 40.000 0.00 0.00 0.00 2.44
28 29 5.707298 AGTGCTGTACATAATCTGCTTTTGT 59.293 36.000 0.00 0.00 34.10 2.83
29 30 6.878923 AGTGCTGTACATAATCTGCTTTTGTA 59.121 34.615 0.00 0.00 32.27 2.41
30 31 7.554118 AGTGCTGTACATAATCTGCTTTTGTAT 59.446 33.333 0.00 0.00 34.93 2.29
31 32 8.826710 GTGCTGTACATAATCTGCTTTTGTATA 58.173 33.333 0.00 0.00 34.93 1.47
32 33 9.045223 TGCTGTACATAATCTGCTTTTGTATAG 57.955 33.333 11.37 11.37 40.34 1.31
33 34 8.499162 GCTGTACATAATCTGCTTTTGTATAGG 58.501 37.037 14.93 5.08 39.09 2.57
34 35 8.902540 TGTACATAATCTGCTTTTGTATAGGG 57.097 34.615 0.00 0.00 34.93 3.53
35 36 6.884280 ACATAATCTGCTTTTGTATAGGGC 57.116 37.500 0.00 0.00 28.67 5.19
36 37 6.364701 ACATAATCTGCTTTTGTATAGGGCA 58.635 36.000 0.00 0.00 28.67 5.36
37 38 6.833416 ACATAATCTGCTTTTGTATAGGGCAA 59.167 34.615 0.00 0.00 32.43 4.52
38 39 5.841957 AATCTGCTTTTGTATAGGGCAAG 57.158 39.130 0.00 0.00 32.43 4.01
39 40 3.620488 TCTGCTTTTGTATAGGGCAAGG 58.380 45.455 0.00 0.00 32.43 3.61
40 41 2.689983 CTGCTTTTGTATAGGGCAAGGG 59.310 50.000 0.00 0.00 32.43 3.95
41 42 2.031870 GCTTTTGTATAGGGCAAGGGG 58.968 52.381 0.00 0.00 0.00 4.79
42 43 2.623239 GCTTTTGTATAGGGCAAGGGGT 60.623 50.000 0.00 0.00 0.00 4.95
43 44 3.708451 CTTTTGTATAGGGCAAGGGGTT 58.292 45.455 0.00 0.00 0.00 4.11
44 45 2.818751 TTGTATAGGGCAAGGGGTTG 57.181 50.000 0.00 0.00 0.00 3.77
45 46 0.923358 TGTATAGGGCAAGGGGTTGG 59.077 55.000 0.00 0.00 0.00 3.77
46 47 0.924090 GTATAGGGCAAGGGGTTGGT 59.076 55.000 0.00 0.00 0.00 3.67
47 48 0.923358 TATAGGGCAAGGGGTTGGTG 59.077 55.000 0.00 0.00 0.00 4.17
48 49 0.849094 ATAGGGCAAGGGGTTGGTGA 60.849 55.000 0.00 0.00 0.00 4.02
49 50 1.497309 TAGGGCAAGGGGTTGGTGAG 61.497 60.000 0.00 0.00 0.00 3.51
50 51 2.520968 GGCAAGGGGTTGGTGAGT 59.479 61.111 0.00 0.00 0.00 3.41
51 52 1.603739 GGCAAGGGGTTGGTGAGTC 60.604 63.158 0.00 0.00 0.00 3.36
52 53 1.456287 GCAAGGGGTTGGTGAGTCT 59.544 57.895 0.00 0.00 0.00 3.24
53 54 0.890996 GCAAGGGGTTGGTGAGTCTG 60.891 60.000 0.00 0.00 0.00 3.51
54 55 0.250901 CAAGGGGTTGGTGAGTCTGG 60.251 60.000 0.00 0.00 0.00 3.86
55 56 0.697854 AAGGGGTTGGTGAGTCTGGT 60.698 55.000 0.00 0.00 0.00 4.00
56 57 1.073199 GGGGTTGGTGAGTCTGGTG 59.927 63.158 0.00 0.00 0.00 4.17
57 58 1.600916 GGGTTGGTGAGTCTGGTGC 60.601 63.158 0.00 0.00 0.00 5.01
58 59 1.961277 GGTTGGTGAGTCTGGTGCG 60.961 63.158 0.00 0.00 0.00 5.34
59 60 1.961277 GTTGGTGAGTCTGGTGCGG 60.961 63.158 0.00 0.00 0.00 5.69
60 61 2.137528 TTGGTGAGTCTGGTGCGGA 61.138 57.895 0.00 0.00 0.00 5.54
61 62 1.691195 TTGGTGAGTCTGGTGCGGAA 61.691 55.000 0.00 0.00 0.00 4.30
62 63 1.070786 GGTGAGTCTGGTGCGGAAA 59.929 57.895 0.00 0.00 0.00 3.13
63 64 0.951040 GGTGAGTCTGGTGCGGAAAG 60.951 60.000 0.00 0.00 0.00 2.62
64 65 0.951040 GTGAGTCTGGTGCGGAAAGG 60.951 60.000 0.00 0.00 0.00 3.11
65 66 1.118965 TGAGTCTGGTGCGGAAAGGA 61.119 55.000 0.00 0.00 0.00 3.36
66 67 0.034896 GAGTCTGGTGCGGAAAGGAA 59.965 55.000 0.00 0.00 0.00 3.36
67 68 0.472471 AGTCTGGTGCGGAAAGGAAA 59.528 50.000 0.00 0.00 0.00 3.13
68 69 0.875059 GTCTGGTGCGGAAAGGAAAG 59.125 55.000 0.00 0.00 0.00 2.62
69 70 0.762418 TCTGGTGCGGAAAGGAAAGA 59.238 50.000 0.00 0.00 0.00 2.52
70 71 1.142060 TCTGGTGCGGAAAGGAAAGAA 59.858 47.619 0.00 0.00 0.00 2.52
71 72 1.953686 CTGGTGCGGAAAGGAAAGAAA 59.046 47.619 0.00 0.00 0.00 2.52
72 73 1.679153 TGGTGCGGAAAGGAAAGAAAC 59.321 47.619 0.00 0.00 0.00 2.78
73 74 1.679153 GGTGCGGAAAGGAAAGAAACA 59.321 47.619 0.00 0.00 0.00 2.83
74 75 2.543031 GGTGCGGAAAGGAAAGAAACAC 60.543 50.000 0.00 0.00 0.00 3.32
75 76 1.679153 TGCGGAAAGGAAAGAAACACC 59.321 47.619 0.00 0.00 0.00 4.16
76 77 1.679153 GCGGAAAGGAAAGAAACACCA 59.321 47.619 0.00 0.00 0.00 4.17
77 78 2.287608 GCGGAAAGGAAAGAAACACCAG 60.288 50.000 0.00 0.00 0.00 4.00
78 79 2.293399 CGGAAAGGAAAGAAACACCAGG 59.707 50.000 0.00 0.00 0.00 4.45
79 80 3.562182 GGAAAGGAAAGAAACACCAGGA 58.438 45.455 0.00 0.00 0.00 3.86
80 81 4.152647 GGAAAGGAAAGAAACACCAGGAT 58.847 43.478 0.00 0.00 0.00 3.24
81 82 4.021981 GGAAAGGAAAGAAACACCAGGATG 60.022 45.833 0.00 0.00 0.00 3.51
82 83 2.519013 AGGAAAGAAACACCAGGATGC 58.481 47.619 0.00 0.00 31.97 3.91
83 84 2.158475 AGGAAAGAAACACCAGGATGCA 60.158 45.455 0.00 0.00 31.97 3.96
84 85 2.627699 GGAAAGAAACACCAGGATGCAA 59.372 45.455 0.00 0.00 31.97 4.08
85 86 3.552890 GGAAAGAAACACCAGGATGCAAC 60.553 47.826 0.00 0.00 31.97 4.17
86 87 1.620822 AGAAACACCAGGATGCAACC 58.379 50.000 4.51 4.51 31.97 3.77
87 88 1.133513 AGAAACACCAGGATGCAACCA 60.134 47.619 16.21 0.00 31.97 3.67
88 89 1.686052 GAAACACCAGGATGCAACCAA 59.314 47.619 16.21 0.00 31.97 3.67
89 90 1.039856 AACACCAGGATGCAACCAAC 58.960 50.000 16.21 0.00 31.97 3.77
90 91 0.185901 ACACCAGGATGCAACCAACT 59.814 50.000 16.21 0.00 31.97 3.16
91 92 1.331214 CACCAGGATGCAACCAACTT 58.669 50.000 16.21 0.00 31.97 2.66
92 93 1.000060 CACCAGGATGCAACCAACTTG 60.000 52.381 16.21 4.41 31.97 3.16
104 105 4.813346 AACTTGCGGTTGGTAGGG 57.187 55.556 0.00 0.00 36.70 3.53
105 106 2.147695 AACTTGCGGTTGGTAGGGA 58.852 52.632 0.00 0.00 36.70 4.20
106 107 0.250597 AACTTGCGGTTGGTAGGGAC 60.251 55.000 0.00 0.00 36.70 4.46
107 108 1.125711 ACTTGCGGTTGGTAGGGACT 61.126 55.000 0.00 0.00 46.37 3.85
108 109 0.673644 CTTGCGGTTGGTAGGGACTG 60.674 60.000 0.00 0.00 41.52 3.51
109 110 1.122632 TTGCGGTTGGTAGGGACTGA 61.123 55.000 0.00 0.00 41.52 3.41
110 111 1.079336 GCGGTTGGTAGGGACTGAC 60.079 63.158 0.00 0.00 41.52 3.51
111 112 1.214589 CGGTTGGTAGGGACTGACG 59.785 63.158 0.00 0.00 41.52 4.35
112 113 1.246056 CGGTTGGTAGGGACTGACGA 61.246 60.000 0.00 0.00 41.52 4.20
113 114 0.971386 GGTTGGTAGGGACTGACGAA 59.029 55.000 0.00 0.00 41.52 3.85
114 115 1.337541 GGTTGGTAGGGACTGACGAAC 60.338 57.143 0.00 0.00 41.52 3.95
115 116 1.617357 GTTGGTAGGGACTGACGAACT 59.383 52.381 0.00 0.00 41.52 3.01
116 117 1.542492 TGGTAGGGACTGACGAACTC 58.458 55.000 0.00 0.00 41.52 3.01
117 118 0.450983 GGTAGGGACTGACGAACTCG 59.549 60.000 0.00 0.00 41.52 4.18
118 119 0.179169 GTAGGGACTGACGAACTCGC 60.179 60.000 0.00 0.00 41.24 5.03
119 120 1.642037 TAGGGACTGACGAACTCGCG 61.642 60.000 0.00 0.00 41.24 5.87
121 122 2.081212 GGACTGACGAACTCGCGTG 61.081 63.158 5.77 6.24 45.72 5.34
122 123 1.370172 GACTGACGAACTCGCGTGT 60.370 57.895 8.21 8.21 45.72 4.49
123 124 1.597700 GACTGACGAACTCGCGTGTG 61.598 60.000 15.31 5.85 45.72 3.82
124 125 2.354188 TGACGAACTCGCGTGTGG 60.354 61.111 15.31 12.22 45.72 4.17
125 126 2.050714 GACGAACTCGCGTGTGGA 60.051 61.111 15.31 0.00 45.72 4.02
126 127 1.443872 GACGAACTCGCGTGTGGAT 60.444 57.895 15.31 2.88 45.72 3.41
127 128 1.674611 GACGAACTCGCGTGTGGATG 61.675 60.000 15.31 7.57 45.72 3.51
128 129 1.733041 CGAACTCGCGTGTGGATGT 60.733 57.895 15.31 0.00 0.00 3.06
129 130 1.674611 CGAACTCGCGTGTGGATGTC 61.675 60.000 15.31 7.19 0.00 3.06
130 131 0.666274 GAACTCGCGTGTGGATGTCA 60.666 55.000 15.31 0.00 0.00 3.58
131 132 0.037326 AACTCGCGTGTGGATGTCAT 60.037 50.000 15.31 0.00 0.00 3.06
132 133 0.037326 ACTCGCGTGTGGATGTCATT 60.037 50.000 13.75 0.00 0.00 2.57
133 134 0.371301 CTCGCGTGTGGATGTCATTG 59.629 55.000 5.77 0.00 0.00 2.82
134 135 0.037790 TCGCGTGTGGATGTCATTGA 60.038 50.000 5.77 0.00 0.00 2.57
135 136 0.371301 CGCGTGTGGATGTCATTGAG 59.629 55.000 0.00 0.00 0.00 3.02
136 137 1.725641 GCGTGTGGATGTCATTGAGA 58.274 50.000 0.00 0.00 0.00 3.27
154 155 3.180507 GAGATGCCTAGGAATCTCCCAT 58.819 50.000 36.70 19.13 46.63 4.00
159 160 4.307259 TGCCTAGGAATCTCCCATAGTTT 58.693 43.478 14.75 0.00 37.19 2.66
160 161 4.726825 TGCCTAGGAATCTCCCATAGTTTT 59.273 41.667 14.75 0.00 37.19 2.43
218 219 6.481644 GGCTCCTTGATTATTCTCACAGTTAG 59.518 42.308 0.00 0.00 0.00 2.34
265 266 0.793250 GAAGTGCACTCTCTTTCCGC 59.207 55.000 21.95 0.00 0.00 5.54
284 285 2.780714 GCCTAGATCAGCGAGGTAGTA 58.219 52.381 0.00 0.00 41.10 1.82
320 488 1.681793 CGGTCACACCTCGGATAATCT 59.318 52.381 0.00 0.00 35.66 2.40
336 504 6.102663 GGATAATCTATTCCACAGTCGGATG 58.897 44.000 0.00 0.00 34.19 3.51
354 522 4.399303 CGGATGCCTCAAATTAGAAACCTT 59.601 41.667 0.00 0.00 0.00 3.50
459 632 2.996734 GGACGGGTACGGGGAACA 60.997 66.667 0.00 0.00 46.48 3.18
461 634 1.598517 GACGGGTACGGGGAACATT 59.401 57.895 0.00 0.00 46.48 2.71
466 639 1.456296 GGTACGGGGAACATTGTTCC 58.544 55.000 31.94 31.94 37.86 3.62
481 654 1.025113 GTTCCGGCAGCTAGGGTTTC 61.025 60.000 0.00 0.00 0.00 2.78
482 655 2.124695 CCGGCAGCTAGGGTTTCC 60.125 66.667 0.00 0.00 0.00 3.13
483 656 2.124695 CGGCAGCTAGGGTTTCCC 60.125 66.667 0.00 0.00 45.90 3.97
499 672 3.849951 CCCCCTCGGTCGGTCATG 61.850 72.222 0.00 0.00 0.00 3.07
500 673 3.849951 CCCCTCGGTCGGTCATGG 61.850 72.222 0.00 0.00 0.00 3.66
501 674 3.849951 CCCTCGGTCGGTCATGGG 61.850 72.222 0.00 0.00 0.00 4.00
502 675 2.758327 CCTCGGTCGGTCATGGGA 60.758 66.667 0.00 0.00 0.00 4.37
503 676 2.786495 CCTCGGTCGGTCATGGGAG 61.786 68.421 0.00 0.00 0.00 4.30
504 677 3.432051 CTCGGTCGGTCATGGGAGC 62.432 68.421 0.00 0.00 38.17 4.70
510 683 2.190313 GGTCATGGGAGCGATGCA 59.810 61.111 0.00 0.00 0.00 3.96
511 684 1.451927 GGTCATGGGAGCGATGCAA 60.452 57.895 0.00 0.00 0.00 4.08
512 685 0.820891 GGTCATGGGAGCGATGCAAT 60.821 55.000 0.00 0.00 0.00 3.56
513 686 1.027357 GTCATGGGAGCGATGCAATT 58.973 50.000 0.00 0.00 0.00 2.32
514 687 1.002033 GTCATGGGAGCGATGCAATTC 60.002 52.381 0.00 0.00 0.00 2.17
515 688 1.026584 CATGGGAGCGATGCAATTCA 58.973 50.000 0.00 0.00 0.00 2.57
516 689 1.001706 CATGGGAGCGATGCAATTCAG 60.002 52.381 0.00 0.00 0.00 3.02
517 690 0.749091 TGGGAGCGATGCAATTCAGG 60.749 55.000 0.00 0.00 0.00 3.86
518 691 0.464373 GGGAGCGATGCAATTCAGGA 60.464 55.000 0.00 0.00 0.00 3.86
519 692 0.942962 GGAGCGATGCAATTCAGGAG 59.057 55.000 0.00 0.00 0.00 3.69
520 693 0.942962 GAGCGATGCAATTCAGGAGG 59.057 55.000 0.00 0.00 0.00 4.30
521 694 0.465097 AGCGATGCAATTCAGGAGGG 60.465 55.000 0.00 0.00 0.00 4.30
522 695 1.450531 GCGATGCAATTCAGGAGGGG 61.451 60.000 0.00 0.00 0.00 4.79
523 696 0.820891 CGATGCAATTCAGGAGGGGG 60.821 60.000 0.00 0.00 0.00 5.40
538 711 2.979649 GGGGGTCTTGACGTCCTC 59.020 66.667 14.12 0.00 0.00 3.71
539 712 2.657066 GGGGGTCTTGACGTCCTCC 61.657 68.421 14.12 6.50 34.20 4.30
540 713 1.609794 GGGGTCTTGACGTCCTCCT 60.610 63.158 14.12 0.00 0.00 3.69
541 714 1.592223 GGGTCTTGACGTCCTCCTG 59.408 63.158 14.12 0.00 0.00 3.86
542 715 1.079750 GGTCTTGACGTCCTCCTGC 60.080 63.158 14.12 0.00 0.00 4.85
625 980 3.244009 CGCCTCCATCACAGTGATTAGAT 60.244 47.826 13.79 0.00 34.28 1.98
700 1056 0.823356 GCCAGGCTCACTTTCACCAA 60.823 55.000 3.29 0.00 0.00 3.67
747 1103 7.012515 CAGCTAAGCTAAGCAGAGTAGTACTAA 59.987 40.741 3.61 0.00 45.30 2.24
830 1186 9.639601 ATTAGAAATGCACTTAAAAGTTTAGCC 57.360 29.630 0.00 0.00 37.08 3.93
834 1190 5.845391 TGCACTTAAAAGTTTAGCCAAGT 57.155 34.783 0.00 0.00 37.08 3.16
852 1208 5.120363 GCCAAGTTAAGCAGAGTAGTTACAC 59.880 44.000 0.00 0.00 0.00 2.90
863 1219 2.036346 AGTAGTTACACGTTCACCCACC 59.964 50.000 0.00 0.00 0.00 4.61
907 1263 7.830697 AGATGAGACCATATTTGATGTTTGTGA 59.169 33.333 0.00 0.00 32.09 3.58
908 1264 7.144722 TGAGACCATATTTGATGTTTGTGAC 57.855 36.000 0.00 0.00 0.00 3.67
934 1290 5.970266 AAGATGCTCTTATGCAACTCGTGC 61.970 45.833 0.00 0.00 43.58 5.34
1031 1390 7.724305 TGAAAGGTACAACTAAGTTCACATC 57.276 36.000 0.00 0.00 0.00 3.06
1036 1395 5.107220 GGTACAACTAAGTTCACATCCAACG 60.107 44.000 0.00 0.00 0.00 4.10
1107 1466 2.987547 GGGGTGTCCTCGTCGTCA 60.988 66.667 0.00 0.00 0.00 4.35
1147 1506 1.474879 CCAAACCCAACACAACGTTCT 59.525 47.619 0.00 0.00 34.86 3.01
1797 2332 8.336801 ACTTATACTTGAGGTTCAAATTGGTC 57.663 34.615 0.00 0.00 35.73 4.02
1873 2410 7.596494 TCCAGAAGTGATGTGATTTTGAATTC 58.404 34.615 0.00 0.00 0.00 2.17
2491 5545 6.022958 AGGGGCTTGTGAAGGTTTAAAATAT 58.977 36.000 0.00 0.00 0.00 1.28
2530 5584 6.014669 TCAAGGAACCATTTTACCATTTGGAG 60.015 38.462 3.01 0.00 38.94 3.86
2666 5720 9.764363 CTATTGCAGGAACTATGTAAGTGAATA 57.236 33.333 0.00 0.00 38.88 1.75
2886 5945 4.090090 ACAGAGTGTCACTAGTATGCCTT 58.910 43.478 5.21 0.00 0.00 4.35
3347 6406 1.741706 ACGAGTAAAGAGATTCGCCGA 59.258 47.619 0.00 0.00 36.58 5.54
3426 6485 1.399727 CGATGACAAAGGGAACAACGC 60.400 52.381 0.00 0.00 0.00 4.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.190079 CAGATTATGTACAGCACTGCGT 58.810 45.455 0.33 0.00 0.00 5.24
1 2 2.033407 GCAGATTATGTACAGCACTGCG 60.033 50.000 21.72 3.86 39.42 5.18
2 3 3.201290 AGCAGATTATGTACAGCACTGC 58.799 45.455 25.42 25.42 46.02 4.40
3 4 5.808042 AAAGCAGATTATGTACAGCACTG 57.192 39.130 0.33 9.30 0.00 3.66
8 9 8.993121 CCCTATACAAAAGCAGATTATGTACAG 58.007 37.037 0.33 0.00 30.06 2.74
9 10 7.444183 GCCCTATACAAAAGCAGATTATGTACA 59.556 37.037 0.00 0.00 30.06 2.90
10 11 7.444183 TGCCCTATACAAAAGCAGATTATGTAC 59.556 37.037 0.00 0.00 30.06 2.90
11 12 7.513856 TGCCCTATACAAAAGCAGATTATGTA 58.486 34.615 0.00 0.00 0.00 2.29
12 13 6.364701 TGCCCTATACAAAAGCAGATTATGT 58.635 36.000 0.00 0.00 0.00 2.29
13 14 6.882610 TGCCCTATACAAAAGCAGATTATG 57.117 37.500 0.00 0.00 0.00 1.90
14 15 6.491403 CCTTGCCCTATACAAAAGCAGATTAT 59.509 38.462 0.00 0.00 34.45 1.28
15 16 5.827797 CCTTGCCCTATACAAAAGCAGATTA 59.172 40.000 0.00 0.00 34.45 1.75
16 17 4.646492 CCTTGCCCTATACAAAAGCAGATT 59.354 41.667 0.00 0.00 34.45 2.40
17 18 4.210331 CCTTGCCCTATACAAAAGCAGAT 58.790 43.478 0.00 0.00 34.45 2.90
18 19 3.620488 CCTTGCCCTATACAAAAGCAGA 58.380 45.455 0.00 0.00 34.45 4.26
19 20 2.689983 CCCTTGCCCTATACAAAAGCAG 59.310 50.000 0.00 0.00 34.45 4.24
20 21 2.622977 CCCCTTGCCCTATACAAAAGCA 60.623 50.000 0.00 0.00 0.00 3.91
21 22 2.031870 CCCCTTGCCCTATACAAAAGC 58.968 52.381 0.00 0.00 0.00 3.51
22 23 3.382083 ACCCCTTGCCCTATACAAAAG 57.618 47.619 0.00 0.00 0.00 2.27
23 24 3.436243 CAACCCCTTGCCCTATACAAAA 58.564 45.455 0.00 0.00 0.00 2.44
24 25 2.291930 CCAACCCCTTGCCCTATACAAA 60.292 50.000 0.00 0.00 0.00 2.83
25 26 1.286553 CCAACCCCTTGCCCTATACAA 59.713 52.381 0.00 0.00 0.00 2.41
26 27 0.923358 CCAACCCCTTGCCCTATACA 59.077 55.000 0.00 0.00 0.00 2.29
27 28 0.924090 ACCAACCCCTTGCCCTATAC 59.076 55.000 0.00 0.00 0.00 1.47
28 29 0.923358 CACCAACCCCTTGCCCTATA 59.077 55.000 0.00 0.00 0.00 1.31
29 30 0.849094 TCACCAACCCCTTGCCCTAT 60.849 55.000 0.00 0.00 0.00 2.57
30 31 1.464395 TCACCAACCCCTTGCCCTA 60.464 57.895 0.00 0.00 0.00 3.53
31 32 2.780924 TCACCAACCCCTTGCCCT 60.781 61.111 0.00 0.00 0.00 5.19
32 33 2.283173 CTCACCAACCCCTTGCCC 60.283 66.667 0.00 0.00 0.00 5.36
33 34 1.603739 GACTCACCAACCCCTTGCC 60.604 63.158 0.00 0.00 0.00 4.52
34 35 0.890996 CAGACTCACCAACCCCTTGC 60.891 60.000 0.00 0.00 0.00 4.01
35 36 0.250901 CCAGACTCACCAACCCCTTG 60.251 60.000 0.00 0.00 0.00 3.61
36 37 0.697854 ACCAGACTCACCAACCCCTT 60.698 55.000 0.00 0.00 0.00 3.95
37 38 1.073706 ACCAGACTCACCAACCCCT 60.074 57.895 0.00 0.00 0.00 4.79
38 39 1.073199 CACCAGACTCACCAACCCC 59.927 63.158 0.00 0.00 0.00 4.95
39 40 1.600916 GCACCAGACTCACCAACCC 60.601 63.158 0.00 0.00 0.00 4.11
40 41 1.961277 CGCACCAGACTCACCAACC 60.961 63.158 0.00 0.00 0.00 3.77
41 42 1.961277 CCGCACCAGACTCACCAAC 60.961 63.158 0.00 0.00 0.00 3.77
42 43 1.691195 TTCCGCACCAGACTCACCAA 61.691 55.000 0.00 0.00 0.00 3.67
43 44 1.691195 TTTCCGCACCAGACTCACCA 61.691 55.000 0.00 0.00 0.00 4.17
44 45 0.951040 CTTTCCGCACCAGACTCACC 60.951 60.000 0.00 0.00 0.00 4.02
45 46 0.951040 CCTTTCCGCACCAGACTCAC 60.951 60.000 0.00 0.00 0.00 3.51
46 47 1.118965 TCCTTTCCGCACCAGACTCA 61.119 55.000 0.00 0.00 0.00 3.41
47 48 0.034896 TTCCTTTCCGCACCAGACTC 59.965 55.000 0.00 0.00 0.00 3.36
48 49 0.472471 TTTCCTTTCCGCACCAGACT 59.528 50.000 0.00 0.00 0.00 3.24
49 50 0.875059 CTTTCCTTTCCGCACCAGAC 59.125 55.000 0.00 0.00 0.00 3.51
50 51 0.762418 TCTTTCCTTTCCGCACCAGA 59.238 50.000 0.00 0.00 0.00 3.86
51 52 1.604604 TTCTTTCCTTTCCGCACCAG 58.395 50.000 0.00 0.00 0.00 4.00
52 53 1.679153 GTTTCTTTCCTTTCCGCACCA 59.321 47.619 0.00 0.00 0.00 4.17
53 54 1.679153 TGTTTCTTTCCTTTCCGCACC 59.321 47.619 0.00 0.00 0.00 5.01
54 55 2.543031 GGTGTTTCTTTCCTTTCCGCAC 60.543 50.000 0.00 0.00 0.00 5.34
55 56 1.679153 GGTGTTTCTTTCCTTTCCGCA 59.321 47.619 0.00 0.00 0.00 5.69
56 57 1.679153 TGGTGTTTCTTTCCTTTCCGC 59.321 47.619 0.00 0.00 0.00 5.54
57 58 2.293399 CCTGGTGTTTCTTTCCTTTCCG 59.707 50.000 0.00 0.00 0.00 4.30
58 59 3.562182 TCCTGGTGTTTCTTTCCTTTCC 58.438 45.455 0.00 0.00 0.00 3.13
59 60 4.559502 GCATCCTGGTGTTTCTTTCCTTTC 60.560 45.833 0.00 0.00 0.00 2.62
60 61 3.321968 GCATCCTGGTGTTTCTTTCCTTT 59.678 43.478 0.00 0.00 0.00 3.11
61 62 2.893489 GCATCCTGGTGTTTCTTTCCTT 59.107 45.455 0.00 0.00 0.00 3.36
62 63 2.158475 TGCATCCTGGTGTTTCTTTCCT 60.158 45.455 0.00 0.00 0.00 3.36
63 64 2.238521 TGCATCCTGGTGTTTCTTTCC 58.761 47.619 0.00 0.00 0.00 3.13
64 65 3.552890 GGTTGCATCCTGGTGTTTCTTTC 60.553 47.826 6.56 0.00 0.00 2.62
65 66 2.365293 GGTTGCATCCTGGTGTTTCTTT 59.635 45.455 6.56 0.00 0.00 2.52
66 67 1.963515 GGTTGCATCCTGGTGTTTCTT 59.036 47.619 6.56 0.00 0.00 2.52
67 68 1.133513 TGGTTGCATCCTGGTGTTTCT 60.134 47.619 14.81 0.00 0.00 2.52
68 69 1.327303 TGGTTGCATCCTGGTGTTTC 58.673 50.000 14.81 0.00 0.00 2.78
69 70 1.412343 GTTGGTTGCATCCTGGTGTTT 59.588 47.619 14.81 0.00 0.00 2.83
70 71 1.039856 GTTGGTTGCATCCTGGTGTT 58.960 50.000 14.81 0.00 0.00 3.32
71 72 0.185901 AGTTGGTTGCATCCTGGTGT 59.814 50.000 14.81 0.00 0.00 4.16
72 73 1.000060 CAAGTTGGTTGCATCCTGGTG 60.000 52.381 14.81 4.58 0.00 4.17
73 74 1.331214 CAAGTTGGTTGCATCCTGGT 58.669 50.000 14.81 0.00 0.00 4.00
87 88 0.250597 GTCCCTACCAACCGCAAGTT 60.251 55.000 0.00 0.00 40.16 2.66
88 89 1.125711 AGTCCCTACCAACCGCAAGT 61.126 55.000 0.00 0.00 0.00 3.16
89 90 0.673644 CAGTCCCTACCAACCGCAAG 60.674 60.000 0.00 0.00 0.00 4.01
90 91 1.122632 TCAGTCCCTACCAACCGCAA 61.123 55.000 0.00 0.00 0.00 4.85
91 92 1.534476 TCAGTCCCTACCAACCGCA 60.534 57.895 0.00 0.00 0.00 5.69
92 93 1.079336 GTCAGTCCCTACCAACCGC 60.079 63.158 0.00 0.00 0.00 5.68
93 94 1.214589 CGTCAGTCCCTACCAACCG 59.785 63.158 0.00 0.00 0.00 4.44
94 95 0.971386 TTCGTCAGTCCCTACCAACC 59.029 55.000 0.00 0.00 0.00 3.77
95 96 1.617357 AGTTCGTCAGTCCCTACCAAC 59.383 52.381 0.00 0.00 0.00 3.77
96 97 1.891150 GAGTTCGTCAGTCCCTACCAA 59.109 52.381 0.00 0.00 0.00 3.67
97 98 1.542492 GAGTTCGTCAGTCCCTACCA 58.458 55.000 0.00 0.00 0.00 3.25
98 99 0.450983 CGAGTTCGTCAGTCCCTACC 59.549 60.000 0.00 0.00 34.11 3.18
99 100 0.179169 GCGAGTTCGTCAGTCCCTAC 60.179 60.000 3.27 0.00 42.22 3.18
100 101 1.642037 CGCGAGTTCGTCAGTCCCTA 61.642 60.000 0.00 0.00 42.22 3.53
101 102 2.963371 GCGAGTTCGTCAGTCCCT 59.037 61.111 3.27 0.00 42.22 4.20
102 103 2.504244 CGCGAGTTCGTCAGTCCC 60.504 66.667 0.00 0.00 42.22 4.46
103 104 2.081212 CACGCGAGTTCGTCAGTCC 61.081 63.158 15.93 0.00 46.40 3.85
104 105 1.370172 ACACGCGAGTTCGTCAGTC 60.370 57.895 15.93 0.00 46.40 3.51
105 106 1.657487 CACACGCGAGTTCGTCAGT 60.657 57.895 15.93 0.00 46.40 3.41
106 107 2.365068 CCACACGCGAGTTCGTCAG 61.365 63.158 15.93 0.00 46.40 3.51
107 108 2.137425 ATCCACACGCGAGTTCGTCA 62.137 55.000 15.93 0.00 46.40 4.35
108 109 1.443872 ATCCACACGCGAGTTCGTC 60.444 57.895 15.93 0.00 46.40 4.20
109 110 1.733041 CATCCACACGCGAGTTCGT 60.733 57.895 15.93 0.00 46.40 3.85
110 111 1.674611 GACATCCACACGCGAGTTCG 61.675 60.000 15.93 3.29 46.40 3.95
111 112 0.666274 TGACATCCACACGCGAGTTC 60.666 55.000 15.93 5.66 46.40 3.01
112 113 0.037326 ATGACATCCACACGCGAGTT 60.037 50.000 15.93 0.00 46.40 3.01
114 115 0.371301 CAATGACATCCACACGCGAG 59.629 55.000 15.93 7.88 0.00 5.03
115 116 0.037790 TCAATGACATCCACACGCGA 60.038 50.000 15.93 0.00 0.00 5.87
116 117 0.371301 CTCAATGACATCCACACGCG 59.629 55.000 3.53 3.53 0.00 6.01
117 118 1.725641 TCTCAATGACATCCACACGC 58.274 50.000 0.00 0.00 0.00 5.34
118 119 2.031314 GCATCTCAATGACATCCACACG 59.969 50.000 0.00 0.00 34.61 4.49
119 120 2.357009 GGCATCTCAATGACATCCACAC 59.643 50.000 0.00 0.00 40.97 3.82
120 121 2.240414 AGGCATCTCAATGACATCCACA 59.760 45.455 0.00 0.00 44.06 4.17
121 122 2.928334 AGGCATCTCAATGACATCCAC 58.072 47.619 0.00 0.00 44.06 4.02
122 123 3.072038 CCTAGGCATCTCAATGACATCCA 59.928 47.826 0.00 0.00 44.06 3.41
123 124 3.326006 TCCTAGGCATCTCAATGACATCC 59.674 47.826 2.96 0.00 44.06 3.51
124 125 4.613925 TCCTAGGCATCTCAATGACATC 57.386 45.455 2.96 0.00 44.06 3.06
125 126 5.310068 AGATTCCTAGGCATCTCAATGACAT 59.690 40.000 17.26 0.00 44.06 3.06
126 127 4.657504 AGATTCCTAGGCATCTCAATGACA 59.342 41.667 17.26 0.00 44.06 3.58
127 128 5.226194 AGATTCCTAGGCATCTCAATGAC 57.774 43.478 17.26 0.00 41.69 3.06
128 129 4.285517 GGAGATTCCTAGGCATCTCAATGA 59.714 45.833 36.75 4.75 45.09 2.57
129 130 4.565236 GGGAGATTCCTAGGCATCTCAATG 60.565 50.000 36.75 1.91 45.09 2.82
130 131 3.586618 GGGAGATTCCTAGGCATCTCAAT 59.413 47.826 36.75 18.85 45.09 2.57
131 132 2.975489 GGGAGATTCCTAGGCATCTCAA 59.025 50.000 36.75 15.37 45.09 3.02
132 133 2.090550 TGGGAGATTCCTAGGCATCTCA 60.091 50.000 36.75 23.78 45.09 3.27
133 134 2.614259 TGGGAGATTCCTAGGCATCTC 58.386 52.381 32.07 32.07 43.31 2.75
134 135 2.803285 TGGGAGATTCCTAGGCATCT 57.197 50.000 22.18 22.18 36.57 2.90
135 136 4.100373 ACTATGGGAGATTCCTAGGCATC 58.900 47.826 13.05 13.05 36.57 3.91
136 137 4.153371 ACTATGGGAGATTCCTAGGCAT 57.847 45.455 2.96 0.00 36.57 4.40
152 153 8.006590 GCAGCATCGTCTTCTTATAAAACTATG 58.993 37.037 0.00 0.00 0.00 2.23
154 155 6.198403 CGCAGCATCGTCTTCTTATAAAACTA 59.802 38.462 0.00 0.00 0.00 2.24
159 160 3.796717 CACGCAGCATCGTCTTCTTATAA 59.203 43.478 0.14 0.00 41.21 0.98
160 161 3.372060 CACGCAGCATCGTCTTCTTATA 58.628 45.455 0.14 0.00 41.21 0.98
218 219 5.065474 TGCCTGCAATTTATTAACCTCGTAC 59.935 40.000 0.00 0.00 0.00 3.67
265 266 3.942748 GGATACTACCTCGCTGATCTAGG 59.057 52.174 0.00 0.00 36.42 3.02
284 285 0.036388 ACCGATCACTGTTTGCGGAT 60.036 50.000 15.93 0.00 44.43 4.18
312 480 5.723672 TCCGACTGTGGAATAGATTATCC 57.276 43.478 0.00 0.00 34.30 2.59
320 488 1.412710 GAGGCATCCGACTGTGGAATA 59.587 52.381 3.65 0.00 42.46 1.75
336 504 7.836842 TGGATTTAAGGTTTCTAATTTGAGGC 58.163 34.615 0.00 0.00 0.00 4.70
354 522 7.494211 ACGTTGCATGTAGTAGTATGGATTTA 58.506 34.615 0.00 0.00 0.00 1.40
450 623 1.302993 CCGGAACAATGTTCCCCGT 60.303 57.895 32.27 0.00 38.61 5.28
459 632 1.224592 CCCTAGCTGCCGGAACAAT 59.775 57.895 5.05 0.00 0.00 2.71
461 634 1.774894 AAACCCTAGCTGCCGGAACA 61.775 55.000 5.05 0.00 0.00 3.18
482 655 3.849951 CATGACCGACCGAGGGGG 61.850 72.222 0.00 0.00 43.62 5.40
483 656 3.849951 CCATGACCGACCGAGGGG 61.850 72.222 0.00 0.00 40.11 4.79
484 657 3.849951 CCCATGACCGACCGAGGG 61.850 72.222 0.00 0.00 35.02 4.30
485 658 2.758327 TCCCATGACCGACCGAGG 60.758 66.667 0.00 0.00 37.30 4.63
486 659 2.808315 CTCCCATGACCGACCGAG 59.192 66.667 0.00 0.00 0.00 4.63
487 660 3.458163 GCTCCCATGACCGACCGA 61.458 66.667 0.00 0.00 0.00 4.69
488 661 4.873129 CGCTCCCATGACCGACCG 62.873 72.222 0.00 0.00 0.00 4.79
489 662 2.797278 ATCGCTCCCATGACCGACC 61.797 63.158 0.00 0.00 31.82 4.79
490 663 1.592669 CATCGCTCCCATGACCGAC 60.593 63.158 0.00 0.00 31.82 4.79
491 664 2.814604 CATCGCTCCCATGACCGA 59.185 61.111 0.00 0.00 33.44 4.69
492 665 2.969238 GCATCGCTCCCATGACCG 60.969 66.667 0.00 0.00 0.00 4.79
493 666 0.820891 ATTGCATCGCTCCCATGACC 60.821 55.000 0.00 0.00 0.00 4.02
494 667 1.002033 GAATTGCATCGCTCCCATGAC 60.002 52.381 0.00 0.00 0.00 3.06
495 668 1.311859 GAATTGCATCGCTCCCATGA 58.688 50.000 0.00 0.00 0.00 3.07
496 669 1.001706 CTGAATTGCATCGCTCCCATG 60.002 52.381 0.00 0.00 0.00 3.66
497 670 1.315690 CTGAATTGCATCGCTCCCAT 58.684 50.000 0.00 0.00 0.00 4.00
498 671 0.749091 CCTGAATTGCATCGCTCCCA 60.749 55.000 0.00 0.00 0.00 4.37
499 672 0.464373 TCCTGAATTGCATCGCTCCC 60.464 55.000 0.00 0.00 0.00 4.30
500 673 0.942962 CTCCTGAATTGCATCGCTCC 59.057 55.000 0.00 0.00 0.00 4.70
501 674 0.942962 CCTCCTGAATTGCATCGCTC 59.057 55.000 0.00 0.00 0.00 5.03
502 675 0.465097 CCCTCCTGAATTGCATCGCT 60.465 55.000 0.00 0.00 0.00 4.93
503 676 1.450531 CCCCTCCTGAATTGCATCGC 61.451 60.000 0.00 0.00 0.00 4.58
504 677 0.820891 CCCCCTCCTGAATTGCATCG 60.821 60.000 0.00 0.00 0.00 3.84
505 678 3.122369 CCCCCTCCTGAATTGCATC 57.878 57.895 0.00 0.00 0.00 3.91
521 694 2.657066 GGAGGACGTCAAGACCCCC 61.657 68.421 18.91 0.00 35.19 5.40
522 695 1.609794 AGGAGGACGTCAAGACCCC 60.610 63.158 18.91 8.26 35.19 4.95
523 696 1.592223 CAGGAGGACGTCAAGACCC 59.408 63.158 18.91 9.99 35.19 4.46
524 697 1.079750 GCAGGAGGACGTCAAGACC 60.080 63.158 18.91 13.70 34.82 3.85
525 698 0.667792 GTGCAGGAGGACGTCAAGAC 60.668 60.000 18.91 4.28 0.00 3.01
526 699 1.666011 GTGCAGGAGGACGTCAAGA 59.334 57.895 18.91 0.00 0.00 3.02
527 700 1.374758 GGTGCAGGAGGACGTCAAG 60.375 63.158 18.91 2.83 36.89 3.02
528 701 1.407656 AAGGTGCAGGAGGACGTCAA 61.408 55.000 18.91 0.00 36.89 3.18
529 702 0.541063 TAAGGTGCAGGAGGACGTCA 60.541 55.000 18.91 0.00 36.89 4.35
530 703 0.824759 ATAAGGTGCAGGAGGACGTC 59.175 55.000 7.13 7.13 36.89 4.34
531 704 0.537188 CATAAGGTGCAGGAGGACGT 59.463 55.000 0.00 0.00 36.89 4.34
532 705 3.369381 CATAAGGTGCAGGAGGACG 57.631 57.895 0.00 0.00 36.89 4.79
625 980 7.283127 GCTTTTGATGATGGTGGTCTCTATTTA 59.717 37.037 0.00 0.00 0.00 1.40
700 1056 7.856415 AGCTGAAACTTTAGGAGTGATTAGAT 58.144 34.615 0.00 0.00 39.00 1.98
747 1103 4.101856 AGTAATGGGTGCACCTAGTAGTT 58.898 43.478 33.91 21.31 41.11 2.24
804 1160 9.639601 GGCTAAACTTTTAAGTGCATTTCTAAT 57.360 29.630 0.00 0.00 39.66 1.73
830 1186 5.919141 ACGTGTAACTACTCTGCTTAACTTG 59.081 40.000 0.00 0.00 31.75 3.16
834 1190 5.916883 GTGAACGTGTAACTACTCTGCTTAA 59.083 40.000 0.00 0.00 31.75 1.85
852 1208 4.233789 CAATGTTAATTGGTGGGTGAACG 58.766 43.478 0.00 0.00 39.69 3.95
863 1219 8.133627 GTCTCATCTCCAATCCAATGTTAATTG 58.866 37.037 0.00 0.00 42.49 2.32
934 1290 4.630069 CCGAAGAGTGGTATACAAACAAGG 59.370 45.833 5.01 0.53 0.00 3.61
1031 1390 2.430694 TGGGAGAGACATATGACGTTGG 59.569 50.000 10.38 0.00 0.00 3.77
1036 1395 4.679373 ATGTGTGGGAGAGACATATGAC 57.321 45.455 10.38 2.89 36.80 3.06
1101 1460 0.592148 ACGAGAAGACCAGTGACGAC 59.408 55.000 0.00 0.00 0.00 4.34
1107 1466 2.637383 GGGCGACGAGAAGACCAGT 61.637 63.158 0.00 0.00 0.00 4.00
1147 1506 8.415950 AATGTTCAGTGTTTTATGATGGGTTA 57.584 30.769 0.00 0.00 0.00 2.85
1258 1617 2.905736 TCCAACCAGACACATGATCAGA 59.094 45.455 0.00 0.00 0.00 3.27
2491 5545 5.222109 TGGTTCCTTGAATCCTTCATGAAGA 60.222 40.000 32.49 20.05 40.79 2.87
2509 5563 5.993748 TCTCCAAATGGTAAAATGGTTCC 57.006 39.130 0.00 0.00 36.34 3.62
2530 5584 6.259550 AGAAGCATGTTGTCTGGTTTTATC 57.740 37.500 0.00 0.00 34.68 1.75
2666 5720 2.957402 TGAGTTCATTTGCAGGAGGT 57.043 45.000 0.00 0.00 0.00 3.85
2886 5945 8.301720 TCTTTGATTAACGAGCTAGTCAAGTAA 58.698 33.333 0.00 0.00 31.56 2.24
3340 6399 2.855660 TCAATCTCGTTATCGGCGAA 57.144 45.000 15.93 0.00 37.93 4.70
3347 6406 8.246430 TCCAATACCTAGTTCAATCTCGTTAT 57.754 34.615 0.00 0.00 0.00 1.89
3426 6485 2.095853 GGTCAGACCGCATAACAACATG 59.904 50.000 3.05 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.