Multiple sequence alignment - TraesCS7A01G243800

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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 TraesCS7A01G243800 chr7A 100.000 3117 0 0 1 3117 219756541 219753425 0.000000e+00 5757
1 TraesCS7A01G243800 chr7A 79.324 503 76 12 182 658 81564930 81565430 8.330000e-86 327
2 TraesCS7A01G243800 chr7A 79.042 501 76 16 182 656 457212879 457212382 1.800000e-82 316
3 TraesCS7A01G243800 chr7A 88.542 96 11 0 1 96 188844084 188843989 1.960000e-22 117
4 TraesCS7A01G243800 chr7D 93.006 2345 127 23 782 3112 206993528 206991207 0.000000e+00 3387
5 TraesCS7A01G243800 chr7D 94.074 135 7 1 651 784 206993694 206993560 1.470000e-48 204
6 TraesCS7A01G243800 chr7B 91.772 2370 142 37 782 3117 194098904 194101254 0.000000e+00 3247
7 TraesCS7A01G243800 chr7B 84.722 432 45 8 358 784 194098457 194098872 2.240000e-111 412
8 TraesCS7A01G243800 chr7B 90.000 130 11 2 182 311 194028895 194029022 1.920000e-37 167
9 TraesCS7A01G243800 chr6A 75.478 942 160 45 2209 3100 599901436 599900516 8.100000e-106 394
10 TraesCS7A01G243800 chr6A 89.583 96 10 0 1 96 562528481 562528386 4.220000e-24 122
11 TraesCS7A01G243800 chr2A 78.400 500 80 16 182 655 84610093 84610590 1.820000e-77 300
12 TraesCS7A01G243800 chr6D 81.646 316 54 4 341 656 221214376 221214687 3.080000e-65 259
13 TraesCS7A01G243800 chr6D 91.667 96 8 0 1 96 418957082 418956987 1.950000e-27 134
14 TraesCS7A01G243800 chr6D 73.824 340 54 22 333 660 406334184 406333868 5.500000e-18 102
15 TraesCS7A01G243800 chr2B 80.896 335 51 8 333 656 626294527 626294195 5.160000e-63 252
16 TraesCS7A01G243800 chr2D 77.727 440 76 14 181 602 15192628 15192193 1.860000e-62 250
17 TraesCS7A01G243800 chr2D 91.667 96 8 0 1 96 71386476 71386571 1.950000e-27 134
18 TraesCS7A01G243800 chr2D 87.500 96 12 0 1 96 568236207 568236112 9.140000e-21 111
19 TraesCS7A01G243800 chr4D 79.121 364 60 12 308 660 80147212 80146854 1.440000e-58 237
20 TraesCS7A01G243800 chr4D 92.708 96 7 0 1 96 8400928 8401023 4.190000e-29 139
21 TraesCS7A01G243800 chr4D 89.583 96 10 0 1 96 465124137 465124232 4.220000e-24 122
22 TraesCS7A01G243800 chr3B 78.649 370 63 10 299 656 671005858 671006223 6.720000e-57 231
23 TraesCS7A01G243800 chr3B 85.088 114 13 3 1 114 820353479 820353588 2.540000e-21 113
24 TraesCS7A01G243800 chr5D 79.310 319 55 7 338 646 485634043 485634360 2.440000e-51 213
25 TraesCS7A01G243800 chr3D 90.722 97 9 0 1 97 108242211 108242115 2.520000e-26 130


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 TraesCS7A01G243800 chr7A 219753425 219756541 3116 True 5757.0 5757 100.000 1 3117 1 chr7A.!!$R2 3116
1 TraesCS7A01G243800 chr7A 81564930 81565430 500 False 327.0 327 79.324 182 658 1 chr7A.!!$F1 476
2 TraesCS7A01G243800 chr7D 206991207 206993694 2487 True 1795.5 3387 93.540 651 3112 2 chr7D.!!$R1 2461
3 TraesCS7A01G243800 chr7B 194098457 194101254 2797 False 1829.5 3247 88.247 358 3117 2 chr7B.!!$F2 2759
4 TraesCS7A01G243800 chr6A 599900516 599901436 920 True 394.0 394 75.478 2209 3100 1 chr6A.!!$R2 891

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
731 757 0.109723 TACTTGGCTTCCGGCTTGTT 59.89 50.0 0.0 0.0 41.46 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2494 2660 0.105039 CTGGTAGGCTGTCCGGATTC 59.895 60.0 7.81 0.0 37.47 2.52 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.357034 TTTGCTCCCGTCGCAGTC 60.357 61.111 0.00 0.00 38.80 3.51
18 19 4.717629 TTGCTCCCGTCGCAGTCG 62.718 66.667 0.00 0.00 38.80 4.18
20 21 4.719369 GCTCCCGTCGCAGTCGTT 62.719 66.667 0.00 0.00 37.35 3.85
21 22 2.504244 CTCCCGTCGCAGTCGTTC 60.504 66.667 0.00 0.00 37.35 3.95
22 23 2.979197 CTCCCGTCGCAGTCGTTCT 61.979 63.158 0.00 0.00 37.35 3.01
23 24 2.049433 CCCGTCGCAGTCGTTCTT 60.049 61.111 0.00 0.00 37.35 2.52
24 25 2.372690 CCCGTCGCAGTCGTTCTTG 61.373 63.158 0.00 0.00 37.35 3.02
25 26 1.660575 CCGTCGCAGTCGTTCTTGT 60.661 57.895 0.00 0.00 37.35 3.16
26 27 1.213094 CCGTCGCAGTCGTTCTTGTT 61.213 55.000 0.00 0.00 37.35 2.83
27 28 0.111704 CGTCGCAGTCGTTCTTGTTG 60.112 55.000 0.00 0.00 33.83 3.33
28 29 1.205657 GTCGCAGTCGTTCTTGTTGA 58.794 50.000 0.00 0.00 36.96 3.18
29 30 1.071436 GTCGCAGTCGTTCTTGTTGAC 60.071 52.381 0.00 0.00 36.96 3.18
30 31 1.202371 TCGCAGTCGTTCTTGTTGACT 60.202 47.619 0.00 0.00 43.43 3.41
31 32 2.033675 TCGCAGTCGTTCTTGTTGACTA 59.966 45.455 0.00 0.00 40.83 2.59
32 33 2.792674 CGCAGTCGTTCTTGTTGACTAA 59.207 45.455 0.00 0.00 40.83 2.24
33 34 3.244345 CGCAGTCGTTCTTGTTGACTAAA 59.756 43.478 0.00 0.00 40.83 1.85
34 35 4.084537 CGCAGTCGTTCTTGTTGACTAAAT 60.085 41.667 0.00 0.00 40.83 1.40
35 36 5.558273 CGCAGTCGTTCTTGTTGACTAAATT 60.558 40.000 0.00 0.00 40.83 1.82
36 37 6.199393 GCAGTCGTTCTTGTTGACTAAATTT 58.801 36.000 0.00 0.00 40.83 1.82
37 38 7.349711 GCAGTCGTTCTTGTTGACTAAATTTA 58.650 34.615 0.00 0.00 40.83 1.40
38 39 8.015658 GCAGTCGTTCTTGTTGACTAAATTTAT 58.984 33.333 0.00 0.00 40.83 1.40
39 40 9.318041 CAGTCGTTCTTGTTGACTAAATTTATG 57.682 33.333 0.00 0.00 40.83 1.90
40 41 8.504005 AGTCGTTCTTGTTGACTAAATTTATGG 58.496 33.333 0.00 0.00 40.98 2.74
41 42 8.500773 GTCGTTCTTGTTGACTAAATTTATGGA 58.499 33.333 0.00 0.00 0.00 3.41
42 43 8.500773 TCGTTCTTGTTGACTAAATTTATGGAC 58.499 33.333 0.00 0.00 0.00 4.02
43 44 8.286800 CGTTCTTGTTGACTAAATTTATGGACA 58.713 33.333 0.00 0.00 0.00 4.02
44 45 9.959749 GTTCTTGTTGACTAAATTTATGGACAA 57.040 29.630 0.00 7.21 0.00 3.18
46 47 9.959749 TCTTGTTGACTAAATTTATGGACAAAC 57.040 29.630 0.00 0.29 0.00 2.93
47 48 9.965824 CTTGTTGACTAAATTTATGGACAAACT 57.034 29.630 0.00 0.00 0.00 2.66
57 58 9.667107 AAATTTATGGACAAACTTAGATCTCGA 57.333 29.630 0.00 0.00 0.00 4.04
58 59 8.879342 ATTTATGGACAAACTTAGATCTCGAG 57.121 34.615 5.93 5.93 0.00 4.04
59 60 7.640597 TTATGGACAAACTTAGATCTCGAGA 57.359 36.000 19.19 19.19 0.00 4.04
60 61 5.977489 TGGACAAACTTAGATCTCGAGAA 57.023 39.130 20.91 0.00 0.00 2.87
61 62 5.955488 TGGACAAACTTAGATCTCGAGAAG 58.045 41.667 20.91 14.55 0.00 2.85
62 63 4.801516 GGACAAACTTAGATCTCGAGAAGC 59.198 45.833 20.91 14.51 0.00 3.86
63 64 4.416620 ACAAACTTAGATCTCGAGAAGCG 58.583 43.478 20.91 8.89 42.69 4.68
64 65 2.766970 ACTTAGATCTCGAGAAGCGC 57.233 50.000 20.91 9.35 40.61 5.92
65 66 1.003331 ACTTAGATCTCGAGAAGCGCG 60.003 52.381 20.91 0.00 40.61 6.86
66 67 0.308068 TTAGATCTCGAGAAGCGCGG 59.692 55.000 20.91 0.00 40.61 6.46
67 68 1.507974 TAGATCTCGAGAAGCGCGGG 61.508 60.000 20.91 0.00 40.61 6.13
68 69 4.577246 ATCTCGAGAAGCGCGGGC 62.577 66.667 20.91 17.92 40.61 6.13
79 80 4.222589 CGCGGGCGCACTACATTG 62.223 66.667 8.62 0.00 42.06 2.82
80 81 3.124921 GCGGGCGCACTACATTGT 61.125 61.111 8.62 0.00 41.49 2.71
81 82 2.784596 CGGGCGCACTACATTGTG 59.215 61.111 8.62 0.00 40.62 3.33
82 83 2.749865 CGGGCGCACTACATTGTGG 61.750 63.158 8.62 0.00 38.31 4.17
83 84 1.376683 GGGCGCACTACATTGTGGA 60.377 57.895 10.83 0.00 38.31 4.02
84 85 0.958382 GGGCGCACTACATTGTGGAA 60.958 55.000 10.83 0.00 38.31 3.53
85 86 1.094785 GGCGCACTACATTGTGGAAT 58.905 50.000 10.83 0.00 38.31 3.01
86 87 1.202177 GGCGCACTACATTGTGGAATG 60.202 52.381 10.83 0.00 44.11 2.67
87 88 1.737236 GCGCACTACATTGTGGAATGA 59.263 47.619 0.30 0.00 41.49 2.57
88 89 2.161410 GCGCACTACATTGTGGAATGAA 59.839 45.455 0.30 0.00 41.49 2.57
89 90 3.728864 GCGCACTACATTGTGGAATGAAG 60.729 47.826 0.30 0.00 41.49 3.02
90 91 3.181507 CGCACTACATTGTGGAATGAAGG 60.182 47.826 7.20 0.00 41.49 3.46
91 92 3.129287 GCACTACATTGTGGAATGAAGGG 59.871 47.826 7.20 0.00 41.49 3.95
92 93 4.588899 CACTACATTGTGGAATGAAGGGA 58.411 43.478 7.20 0.00 41.49 4.20
93 94 4.637534 CACTACATTGTGGAATGAAGGGAG 59.362 45.833 7.20 0.00 41.49 4.30
94 95 3.814504 ACATTGTGGAATGAAGGGAGT 57.185 42.857 0.00 0.00 41.49 3.85
95 96 4.927267 ACATTGTGGAATGAAGGGAGTA 57.073 40.909 0.00 0.00 41.49 2.59
96 97 5.255397 ACATTGTGGAATGAAGGGAGTAA 57.745 39.130 0.00 0.00 41.49 2.24
97 98 5.256474 ACATTGTGGAATGAAGGGAGTAAG 58.744 41.667 0.00 0.00 41.49 2.34
98 99 4.993705 TTGTGGAATGAAGGGAGTAAGT 57.006 40.909 0.00 0.00 0.00 2.24
99 100 6.012858 ACATTGTGGAATGAAGGGAGTAAGTA 60.013 38.462 0.00 0.00 41.49 2.24
100 101 6.636454 TTGTGGAATGAAGGGAGTAAGTAT 57.364 37.500 0.00 0.00 0.00 2.12
101 102 5.989477 TGTGGAATGAAGGGAGTAAGTATG 58.011 41.667 0.00 0.00 0.00 2.39
102 103 5.724370 TGTGGAATGAAGGGAGTAAGTATGA 59.276 40.000 0.00 0.00 0.00 2.15
103 104 6.386927 TGTGGAATGAAGGGAGTAAGTATGAT 59.613 38.462 0.00 0.00 0.00 2.45
104 105 6.708054 GTGGAATGAAGGGAGTAAGTATGATG 59.292 42.308 0.00 0.00 0.00 3.07
105 106 5.703130 GGAATGAAGGGAGTAAGTATGATGC 59.297 44.000 0.00 0.00 0.00 3.91
106 107 6.465035 GGAATGAAGGGAGTAAGTATGATGCT 60.465 42.308 0.00 0.00 0.00 3.79
107 108 7.256332 GGAATGAAGGGAGTAAGTATGATGCTA 60.256 40.741 0.00 0.00 0.00 3.49
108 109 6.406692 TGAAGGGAGTAAGTATGATGCTAC 57.593 41.667 0.00 0.00 0.00 3.58
109 110 6.136857 TGAAGGGAGTAAGTATGATGCTACT 58.863 40.000 0.00 0.00 33.34 2.57
110 111 7.295340 TGAAGGGAGTAAGTATGATGCTACTA 58.705 38.462 0.00 0.00 31.70 1.82
111 112 7.783119 TGAAGGGAGTAAGTATGATGCTACTAA 59.217 37.037 0.00 0.00 31.70 2.24
112 113 8.728596 AAGGGAGTAAGTATGATGCTACTAAT 57.271 34.615 0.00 0.00 31.70 1.73
113 114 8.728596 AGGGAGTAAGTATGATGCTACTAATT 57.271 34.615 0.00 0.00 31.70 1.40
114 115 8.808092 AGGGAGTAAGTATGATGCTACTAATTC 58.192 37.037 0.00 0.00 31.70 2.17
115 116 8.035984 GGGAGTAAGTATGATGCTACTAATTCC 58.964 40.741 0.00 0.00 31.70 3.01
116 117 7.755822 GGAGTAAGTATGATGCTACTAATTCCG 59.244 40.741 0.00 0.00 31.70 4.30
117 118 8.179509 AGTAAGTATGATGCTACTAATTCCGT 57.820 34.615 0.00 0.00 31.70 4.69
118 119 8.082852 AGTAAGTATGATGCTACTAATTCCGTG 58.917 37.037 0.00 0.00 31.70 4.94
119 120 5.230942 AGTATGATGCTACTAATTCCGTGC 58.769 41.667 0.00 0.00 30.16 5.34
120 121 3.535280 TGATGCTACTAATTCCGTGCA 57.465 42.857 0.00 0.00 34.88 4.57
121 122 4.071961 TGATGCTACTAATTCCGTGCAT 57.928 40.909 8.11 8.11 42.74 3.96
122 123 4.450976 TGATGCTACTAATTCCGTGCATT 58.549 39.130 9.27 0.00 40.58 3.56
123 124 4.511454 TGATGCTACTAATTCCGTGCATTC 59.489 41.667 9.27 5.38 40.58 2.67
124 125 3.867857 TGCTACTAATTCCGTGCATTCA 58.132 40.909 0.00 0.00 0.00 2.57
125 126 4.257731 TGCTACTAATTCCGTGCATTCAA 58.742 39.130 0.00 0.00 0.00 2.69
126 127 4.881273 TGCTACTAATTCCGTGCATTCAAT 59.119 37.500 0.00 0.00 0.00 2.57
127 128 5.356751 TGCTACTAATTCCGTGCATTCAATT 59.643 36.000 0.00 0.00 0.00 2.32
128 129 6.127758 TGCTACTAATTCCGTGCATTCAATTT 60.128 34.615 0.00 0.00 0.00 1.82
129 130 7.066404 TGCTACTAATTCCGTGCATTCAATTTA 59.934 33.333 0.00 0.00 0.00 1.40
130 131 8.076178 GCTACTAATTCCGTGCATTCAATTTAT 58.924 33.333 0.00 0.00 0.00 1.40
131 132 9.950680 CTACTAATTCCGTGCATTCAATTTATT 57.049 29.630 0.00 0.00 0.00 1.40
132 133 8.856490 ACTAATTCCGTGCATTCAATTTATTC 57.144 30.769 0.00 0.00 0.00 1.75
133 134 6.810888 AATTCCGTGCATTCAATTTATTCG 57.189 33.333 0.00 0.00 0.00 3.34
134 135 4.285807 TCCGTGCATTCAATTTATTCGG 57.714 40.909 0.00 0.00 37.29 4.30
135 136 3.692101 TCCGTGCATTCAATTTATTCGGT 59.308 39.130 0.00 0.00 37.26 4.69
136 137 4.156922 TCCGTGCATTCAATTTATTCGGTT 59.843 37.500 0.00 0.00 37.26 4.44
137 138 4.862018 CCGTGCATTCAATTTATTCGGTTT 59.138 37.500 0.00 0.00 0.00 3.27
138 139 5.347364 CCGTGCATTCAATTTATTCGGTTTT 59.653 36.000 0.00 0.00 0.00 2.43
139 140 6.453659 CCGTGCATTCAATTTATTCGGTTTTC 60.454 38.462 0.00 0.00 0.00 2.29
140 141 6.088749 CGTGCATTCAATTTATTCGGTTTTCA 59.911 34.615 0.00 0.00 0.00 2.69
141 142 7.201427 CGTGCATTCAATTTATTCGGTTTTCAT 60.201 33.333 0.00 0.00 0.00 2.57
142 143 7.899330 GTGCATTCAATTTATTCGGTTTTCATG 59.101 33.333 0.00 0.00 0.00 3.07
143 144 7.064371 TGCATTCAATTTATTCGGTTTTCATGG 59.936 33.333 0.00 0.00 0.00 3.66
144 145 7.064490 GCATTCAATTTATTCGGTTTTCATGGT 59.936 33.333 0.00 0.00 0.00 3.55
145 146 8.934825 CATTCAATTTATTCGGTTTTCATGGTT 58.065 29.630 0.00 0.00 0.00 3.67
146 147 8.894768 TTCAATTTATTCGGTTTTCATGGTTT 57.105 26.923 0.00 0.00 0.00 3.27
147 148 8.304202 TCAATTTATTCGGTTTTCATGGTTTG 57.696 30.769 0.00 0.00 0.00 2.93
148 149 7.386299 TCAATTTATTCGGTTTTCATGGTTTGG 59.614 33.333 0.00 0.00 0.00 3.28
149 150 5.793030 TTATTCGGTTTTCATGGTTTGGT 57.207 34.783 0.00 0.00 0.00 3.67
150 151 4.681074 ATTCGGTTTTCATGGTTTGGTT 57.319 36.364 0.00 0.00 0.00 3.67
151 152 5.793030 ATTCGGTTTTCATGGTTTGGTTA 57.207 34.783 0.00 0.00 0.00 2.85
152 153 5.793030 TTCGGTTTTCATGGTTTGGTTAT 57.207 34.783 0.00 0.00 0.00 1.89
153 154 6.896021 TTCGGTTTTCATGGTTTGGTTATA 57.104 33.333 0.00 0.00 0.00 0.98
154 155 6.256912 TCGGTTTTCATGGTTTGGTTATAC 57.743 37.500 0.00 0.00 0.00 1.47
155 156 6.005198 TCGGTTTTCATGGTTTGGTTATACT 58.995 36.000 0.00 0.00 0.00 2.12
156 157 6.490721 TCGGTTTTCATGGTTTGGTTATACTT 59.509 34.615 0.00 0.00 0.00 2.24
157 158 6.804783 CGGTTTTCATGGTTTGGTTATACTTC 59.195 38.462 0.00 0.00 0.00 3.01
158 159 7.308951 CGGTTTTCATGGTTTGGTTATACTTCT 60.309 37.037 0.00 0.00 0.00 2.85
159 160 8.027189 GGTTTTCATGGTTTGGTTATACTTCTC 58.973 37.037 0.00 0.00 0.00 2.87
160 161 8.573035 GTTTTCATGGTTTGGTTATACTTCTCA 58.427 33.333 0.00 0.00 0.00 3.27
161 162 8.877864 TTTCATGGTTTGGTTATACTTCTCAT 57.122 30.769 0.00 0.00 0.00 2.90
162 163 7.864108 TCATGGTTTGGTTATACTTCTCATG 57.136 36.000 0.00 0.00 0.00 3.07
163 164 7.402054 TCATGGTTTGGTTATACTTCTCATGT 58.598 34.615 0.00 0.00 32.65 3.21
164 165 7.888021 TCATGGTTTGGTTATACTTCTCATGTT 59.112 33.333 0.00 0.00 32.65 2.71
165 166 8.522830 CATGGTTTGGTTATACTTCTCATGTTT 58.477 33.333 0.00 0.00 0.00 2.83
166 167 7.881142 TGGTTTGGTTATACTTCTCATGTTTG 58.119 34.615 0.00 0.00 0.00 2.93
167 168 7.504238 TGGTTTGGTTATACTTCTCATGTTTGT 59.496 33.333 0.00 0.00 0.00 2.83
168 169 9.005777 GGTTTGGTTATACTTCTCATGTTTGTA 57.994 33.333 0.00 0.00 0.00 2.41
171 172 9.952030 TTGGTTATACTTCTCATGTTTGTATGA 57.048 29.630 0.00 0.00 35.83 2.15
179 180 9.896645 ACTTCTCATGTTTGTATGATATGAAGT 57.103 29.630 12.33 12.33 40.94 3.01
249 254 9.739786 GGTTGTTGCGAATTTAAAAATGAATAG 57.260 29.630 0.00 0.00 0.00 1.73
278 283 3.059188 ACAAAGTTATGACTCCAAACGCG 60.059 43.478 3.53 3.53 34.21 6.01
283 288 2.450609 ATGACTCCAAACGCGTACTT 57.549 45.000 14.46 0.00 0.00 2.24
286 291 2.937799 TGACTCCAAACGCGTACTTTTT 59.062 40.909 14.46 0.00 0.00 1.94
360 378 2.267188 ATGCACGTGCTTAGCATTTG 57.733 45.000 37.59 11.64 45.98 2.32
373 391 7.787480 GTGCTTAGCATTTGTTTAAAAGAAACG 59.213 33.333 11.03 0.00 41.91 3.60
378 396 8.690680 AGCATTTGTTTAAAAGAAACGTAACA 57.309 26.923 0.00 0.00 33.05 2.41
400 418 6.212955 ACAATGTTACAAGAAAAATGGACGG 58.787 36.000 0.00 0.00 0.00 4.79
403 421 1.698506 ACAAGAAAAATGGACGGGCA 58.301 45.000 0.00 0.00 0.00 5.36
425 443 6.051717 GCATAGCAGGAAATCTTACTCTTGA 58.948 40.000 0.00 0.00 0.00 3.02
550 576 9.649167 AAACAAAATTCAAAATGGCATGAAAAA 57.351 22.222 0.00 0.00 38.88 1.94
578 604 2.356135 CATACCGAACCCAGAAACCAG 58.644 52.381 0.00 0.00 0.00 4.00
583 609 2.034179 CCGAACCCAGAAACCAGAAAAC 59.966 50.000 0.00 0.00 0.00 2.43
589 615 4.202781 ACCCAGAAACCAGAAAACCCATAT 60.203 41.667 0.00 0.00 0.00 1.78
621 647 6.164876 TCGGTTCAGTTTATTTTCGGTATGA 58.835 36.000 0.00 0.00 0.00 2.15
649 675 4.626042 TGCTTCGGTTTTAAAATGCACAT 58.374 34.783 3.52 0.00 0.00 3.21
731 757 0.109723 TACTTGGCTTCCGGCTTGTT 59.890 50.000 0.00 0.00 41.46 2.83
764 792 2.953648 CAACAAGTTTAGGAAACCCGGT 59.046 45.455 0.00 0.00 42.34 5.28
784 812 4.935205 CGGTGATCAAGGTTCTGAAACATA 59.065 41.667 8.34 0.00 37.10 2.29
785 813 5.586243 CGGTGATCAAGGTTCTGAAACATAT 59.414 40.000 8.34 0.00 37.10 1.78
786 814 6.761242 CGGTGATCAAGGTTCTGAAACATATA 59.239 38.462 8.34 0.00 37.10 0.86
788 816 7.227512 GGTGATCAAGGTTCTGAAACATATAGG 59.772 40.741 8.34 0.00 37.10 2.57
789 817 7.227512 GTGATCAAGGTTCTGAAACATATAGGG 59.772 40.741 8.34 0.00 37.10 3.53
865 929 5.411669 CCCGTTCATACCAAGCTATAAATCC 59.588 44.000 0.00 0.00 0.00 3.01
939 1003 1.043673 TGTCCCAAACCAAAACCCCG 61.044 55.000 0.00 0.00 0.00 5.73
1021 1085 1.078848 GCTTCGACCCTGTCATGCT 60.079 57.895 0.00 0.00 32.09 3.79
1034 1101 2.026822 TGTCATGCTTTCTTCCTCCTCC 60.027 50.000 0.00 0.00 0.00 4.30
1035 1102 2.238395 GTCATGCTTTCTTCCTCCTCCT 59.762 50.000 0.00 0.00 0.00 3.69
1036 1103 2.503356 TCATGCTTTCTTCCTCCTCCTC 59.497 50.000 0.00 0.00 0.00 3.71
1037 1104 1.280457 TGCTTTCTTCCTCCTCCTCC 58.720 55.000 0.00 0.00 0.00 4.30
1179 1246 2.496817 GAGGCTCTGTTCGGCGAT 59.503 61.111 11.76 0.00 0.00 4.58
1190 1257 2.519541 CGGCGATGGAGGAGGAGA 60.520 66.667 0.00 0.00 0.00 3.71
1191 1258 2.560119 CGGCGATGGAGGAGGAGAG 61.560 68.421 0.00 0.00 0.00 3.20
1194 1261 1.539165 CGATGGAGGAGGAGAGGGA 59.461 63.158 0.00 0.00 0.00 4.20
1202 1269 1.388837 GGAGGAGAGGGAGAAGACGC 61.389 65.000 0.00 0.00 0.00 5.19
1229 1296 0.596083 GCGGTGATGAGGATCGTGAG 60.596 60.000 0.00 0.00 38.61 3.51
1318 1385 4.776322 TCTGCCGCAACATCCCGG 62.776 66.667 0.00 0.00 46.94 5.73
1352 1419 2.952978 CGGAGATGAGCAAGGTACTACT 59.047 50.000 0.00 0.00 38.49 2.57
1355 1422 3.370104 AGATGAGCAAGGTACTACTGCT 58.630 45.455 14.11 14.11 38.49 4.24
1356 1423 3.131933 AGATGAGCAAGGTACTACTGCTG 59.868 47.826 17.64 0.00 38.49 4.41
1357 1424 2.248248 TGAGCAAGGTACTACTGCTGT 58.752 47.619 17.64 0.66 38.49 4.40
1358 1425 3.427573 TGAGCAAGGTACTACTGCTGTA 58.572 45.455 17.64 3.25 38.49 2.74
1359 1426 4.023980 TGAGCAAGGTACTACTGCTGTAT 58.976 43.478 17.64 0.00 38.49 2.29
1360 1427 4.142160 TGAGCAAGGTACTACTGCTGTATG 60.142 45.833 17.64 0.22 38.49 2.39
1361 1428 3.769844 AGCAAGGTACTACTGCTGTATGT 59.230 43.478 13.64 7.33 38.49 2.29
1362 1429 4.113354 GCAAGGTACTACTGCTGTATGTC 58.887 47.826 3.72 0.00 38.49 3.06
1363 1430 4.142138 GCAAGGTACTACTGCTGTATGTCT 60.142 45.833 3.72 0.00 38.49 3.41
1364 1431 5.583495 CAAGGTACTACTGCTGTATGTCTC 58.417 45.833 3.72 3.24 38.49 3.36
1390 1465 4.614946 CTTGCTGCTGCTACTTTCTTTTT 58.385 39.130 17.00 0.00 40.48 1.94
1418 1499 3.398954 TTGTTCGTTCTTGTTGCTGAC 57.601 42.857 0.00 0.00 0.00 3.51
1528 1609 3.003763 GGAGCCTTCGACCTGGGT 61.004 66.667 0.00 3.11 36.70 4.51
1558 1639 2.660236 GTCGCTAGGTCTGTGTAAAACG 59.340 50.000 0.00 0.00 0.00 3.60
1576 1657 3.082698 ACGCTTGTCAGTTGTAACGTA 57.917 42.857 0.00 0.00 0.00 3.57
1577 1658 2.791004 ACGCTTGTCAGTTGTAACGTAC 59.209 45.455 0.00 0.00 0.00 3.67
1580 1661 3.183775 GCTTGTCAGTTGTAACGTACCAG 59.816 47.826 0.00 0.00 0.00 4.00
1596 1677 1.503542 CAGCCACGGTTTGATCAGC 59.496 57.895 0.00 0.00 0.00 4.26
1614 1697 3.689161 TCAGCTCATACCGAAATGTTTGG 59.311 43.478 0.00 0.00 0.00 3.28
1647 1730 3.263259 AAGGGCCAGAAGCTGCCT 61.263 61.111 6.18 0.00 43.05 4.75
1724 1807 2.771943 TCAGGTACAATCTCATCCACCC 59.228 50.000 0.00 0.00 0.00 4.61
1728 1812 3.308117 GGTACAATCTCATCCACCCAACA 60.308 47.826 0.00 0.00 0.00 3.33
1790 1908 6.031751 ACAATTTAGAGAGGAGAGACACAC 57.968 41.667 0.00 0.00 0.00 3.82
1791 1909 4.974368 ATTTAGAGAGGAGAGACACACG 57.026 45.455 0.00 0.00 0.00 4.49
1822 1940 9.033481 TCAGATCAAAATCACATTGTGTTTTTC 57.967 29.630 25.13 18.29 40.88 2.29
1823 1941 9.037737 CAGATCAAAATCACATTGTGTTTTTCT 57.962 29.630 25.13 19.61 40.88 2.52
1824 1942 9.252962 AGATCAAAATCACATTGTGTTTTTCTC 57.747 29.630 25.13 23.02 40.88 2.87
1832 1951 7.047891 TCACATTGTGTTTTTCTCTCTGTAGT 58.952 34.615 16.06 0.00 34.79 2.73
1907 2026 2.635714 CAGGCAAGCATGATACACTCA 58.364 47.619 0.00 0.00 38.53 3.41
1964 2083 6.877611 AATGACTCGACTTTTGTTTACCAT 57.122 33.333 0.00 0.00 0.00 3.55
1988 2107 3.126831 CAGAATCTGGATGCGGTAGTTC 58.873 50.000 1.53 0.00 0.00 3.01
2014 2133 2.303175 GTGGCAAACAAGTTCCTACCA 58.697 47.619 0.00 0.00 0.00 3.25
2059 2178 5.051891 AGAGAAGCAACATAATTGTGTGC 57.948 39.130 8.74 13.47 38.77 4.57
2124 2243 7.033530 TGTTTAACAACTTGTAGGTCCATTG 57.966 36.000 0.00 0.00 33.58 2.82
2148 2267 2.672996 GCAAGGCCACACCGATGT 60.673 61.111 5.01 0.00 46.52 3.06
2200 2320 1.872952 TCTGTTGTGAAATGGTCAGCG 59.127 47.619 0.00 0.00 36.74 5.18
2298 2423 7.568199 AACTTCATGAATAAGAATAACCGGG 57.432 36.000 8.96 0.00 0.00 5.73
2400 2538 6.748132 ACATCACAATGTTCTGGGTAAAAAG 58.252 36.000 0.00 0.00 43.74 2.27
2494 2660 5.220381 TCACTTTCTCTTACTGTTGCTACG 58.780 41.667 0.00 0.00 0.00 3.51
2582 2750 6.245408 ACCATTCCTTTTCATTGCTACTGTA 58.755 36.000 0.00 0.00 0.00 2.74
2619 2787 4.935808 ACAGCCCTTTCTCGTAAGTAAATG 59.064 41.667 0.00 0.00 39.48 2.32
2716 2886 3.199677 TGTTAGACCAACCACGTTTCAG 58.800 45.455 0.00 0.00 36.20 3.02
2740 2910 3.354678 CCAAAGTTGGGCACTCGG 58.645 61.111 1.83 0.00 44.70 4.63
3038 3211 1.201921 GCAGTTACGCTTTCACATCCG 60.202 52.381 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.719369 AACGACTGCGACGGGAGC 62.719 66.667 0.00 0.00 41.64 4.70
4 5 2.473664 AAGAACGACTGCGACGGGAG 62.474 60.000 0.00 0.00 41.64 4.30
5 6 2.558286 AAGAACGACTGCGACGGGA 61.558 57.895 0.00 0.00 41.64 5.14
6 7 2.049433 AAGAACGACTGCGACGGG 60.049 61.111 0.00 0.00 41.64 5.28
7 8 1.213094 AACAAGAACGACTGCGACGG 61.213 55.000 0.00 0.00 41.64 4.79
8 9 0.111704 CAACAAGAACGACTGCGACG 60.112 55.000 0.00 0.00 41.64 5.12
9 10 1.071436 GTCAACAAGAACGACTGCGAC 60.071 52.381 0.00 0.00 41.64 5.19
10 11 1.202371 AGTCAACAAGAACGACTGCGA 60.202 47.619 0.00 0.00 38.55 5.10
11 12 1.209128 AGTCAACAAGAACGACTGCG 58.791 50.000 0.00 0.00 38.55 5.18
12 13 4.789095 TTTAGTCAACAAGAACGACTGC 57.211 40.909 0.00 0.00 40.18 4.40
13 14 9.318041 CATAAATTTAGTCAACAAGAACGACTG 57.682 33.333 3.94 0.00 40.18 3.51
14 15 8.504005 CCATAAATTTAGTCAACAAGAACGACT 58.496 33.333 3.94 0.00 42.49 4.18
15 16 8.500773 TCCATAAATTTAGTCAACAAGAACGAC 58.499 33.333 3.94 0.00 0.00 4.34
16 17 8.500773 GTCCATAAATTTAGTCAACAAGAACGA 58.499 33.333 3.94 0.00 0.00 3.85
17 18 8.286800 TGTCCATAAATTTAGTCAACAAGAACG 58.713 33.333 3.94 0.00 0.00 3.95
18 19 9.959749 TTGTCCATAAATTTAGTCAACAAGAAC 57.040 29.630 3.94 0.00 0.00 3.01
20 21 9.959749 GTTTGTCCATAAATTTAGTCAACAAGA 57.040 29.630 3.94 2.14 0.00 3.02
21 22 9.965824 AGTTTGTCCATAAATTTAGTCAACAAG 57.034 29.630 3.94 0.00 0.00 3.16
31 32 9.667107 TCGAGATCTAAGTTTGTCCATAAATTT 57.333 29.630 0.00 0.00 0.00 1.82
32 33 9.319143 CTCGAGATCTAAGTTTGTCCATAAATT 57.681 33.333 6.58 0.00 0.00 1.82
33 34 8.696374 TCTCGAGATCTAAGTTTGTCCATAAAT 58.304 33.333 12.08 0.00 0.00 1.40
34 35 8.063200 TCTCGAGATCTAAGTTTGTCCATAAA 57.937 34.615 12.08 0.00 0.00 1.40
35 36 7.640597 TCTCGAGATCTAAGTTTGTCCATAA 57.359 36.000 12.08 0.00 0.00 1.90
36 37 7.640597 TTCTCGAGATCTAAGTTTGTCCATA 57.359 36.000 17.44 0.00 0.00 2.74
37 38 6.531503 TTCTCGAGATCTAAGTTTGTCCAT 57.468 37.500 17.44 0.00 0.00 3.41
38 39 5.622460 GCTTCTCGAGATCTAAGTTTGTCCA 60.622 44.000 17.44 0.00 0.00 4.02
39 40 4.801516 GCTTCTCGAGATCTAAGTTTGTCC 59.198 45.833 17.44 0.00 0.00 4.02
40 41 4.497608 CGCTTCTCGAGATCTAAGTTTGTC 59.502 45.833 17.44 0.00 41.67 3.18
41 42 4.416620 CGCTTCTCGAGATCTAAGTTTGT 58.583 43.478 17.44 0.00 41.67 2.83
42 43 3.241784 GCGCTTCTCGAGATCTAAGTTTG 59.758 47.826 17.44 6.29 41.67 2.93
43 44 3.440228 GCGCTTCTCGAGATCTAAGTTT 58.560 45.455 17.44 0.00 41.67 2.66
44 45 2.539953 CGCGCTTCTCGAGATCTAAGTT 60.540 50.000 17.44 0.00 40.54 2.66
45 46 1.003331 CGCGCTTCTCGAGATCTAAGT 60.003 52.381 17.44 0.00 40.54 2.24
46 47 1.661743 CCGCGCTTCTCGAGATCTAAG 60.662 57.143 17.44 11.70 40.54 2.18
47 48 0.308068 CCGCGCTTCTCGAGATCTAA 59.692 55.000 17.44 0.00 40.54 2.10
48 49 1.507974 CCCGCGCTTCTCGAGATCTA 61.508 60.000 17.44 0.00 40.54 1.98
49 50 2.718731 CCGCGCTTCTCGAGATCT 59.281 61.111 17.44 0.00 40.54 2.75
50 51 2.354072 CCCGCGCTTCTCGAGATC 60.354 66.667 17.44 10.36 40.54 2.75
51 52 4.577246 GCCCGCGCTTCTCGAGAT 62.577 66.667 17.44 0.00 40.54 2.75
62 63 4.222589 CAATGTAGTGCGCCCGCG 62.223 66.667 4.18 4.36 45.51 6.46
63 64 3.124921 ACAATGTAGTGCGCCCGC 61.125 61.111 4.18 5.60 42.35 6.13
64 65 2.749865 CCACAATGTAGTGCGCCCG 61.750 63.158 4.18 0.00 38.18 6.13
65 66 0.958382 TTCCACAATGTAGTGCGCCC 60.958 55.000 4.18 0.00 38.18 6.13
66 67 1.094785 ATTCCACAATGTAGTGCGCC 58.905 50.000 4.18 0.00 38.18 6.53
67 68 1.737236 TCATTCCACAATGTAGTGCGC 59.263 47.619 0.00 0.00 40.47 6.09
68 69 3.181507 CCTTCATTCCACAATGTAGTGCG 60.182 47.826 0.00 0.00 40.47 5.34
69 70 3.129287 CCCTTCATTCCACAATGTAGTGC 59.871 47.826 0.00 0.00 40.47 4.40
70 71 4.588899 TCCCTTCATTCCACAATGTAGTG 58.411 43.478 0.00 0.00 40.47 2.74
71 72 4.289672 ACTCCCTTCATTCCACAATGTAGT 59.710 41.667 0.00 0.00 40.47 2.73
72 73 4.848357 ACTCCCTTCATTCCACAATGTAG 58.152 43.478 0.00 0.00 40.47 2.74
73 74 4.927267 ACTCCCTTCATTCCACAATGTA 57.073 40.909 0.00 0.00 40.47 2.29
74 75 3.814504 ACTCCCTTCATTCCACAATGT 57.185 42.857 0.00 0.00 40.47 2.71
75 76 5.256474 ACTTACTCCCTTCATTCCACAATG 58.744 41.667 0.00 0.00 40.91 2.82
76 77 5.520748 ACTTACTCCCTTCATTCCACAAT 57.479 39.130 0.00 0.00 0.00 2.71
77 78 4.993705 ACTTACTCCCTTCATTCCACAA 57.006 40.909 0.00 0.00 0.00 3.33
78 79 5.724370 TCATACTTACTCCCTTCATTCCACA 59.276 40.000 0.00 0.00 0.00 4.17
79 80 6.235231 TCATACTTACTCCCTTCATTCCAC 57.765 41.667 0.00 0.00 0.00 4.02
80 81 6.688922 GCATCATACTTACTCCCTTCATTCCA 60.689 42.308 0.00 0.00 0.00 3.53
81 82 5.703130 GCATCATACTTACTCCCTTCATTCC 59.297 44.000 0.00 0.00 0.00 3.01
82 83 6.529220 AGCATCATACTTACTCCCTTCATTC 58.471 40.000 0.00 0.00 0.00 2.67
83 84 6.506538 AGCATCATACTTACTCCCTTCATT 57.493 37.500 0.00 0.00 0.00 2.57
84 85 6.784969 AGTAGCATCATACTTACTCCCTTCAT 59.215 38.462 0.00 0.00 31.89 2.57
85 86 6.136857 AGTAGCATCATACTTACTCCCTTCA 58.863 40.000 0.00 0.00 31.89 3.02
86 87 6.658188 AGTAGCATCATACTTACTCCCTTC 57.342 41.667 0.00 0.00 31.89 3.46
87 88 8.728596 ATTAGTAGCATCATACTTACTCCCTT 57.271 34.615 0.00 0.00 37.24 3.95
88 89 8.728596 AATTAGTAGCATCATACTTACTCCCT 57.271 34.615 0.00 0.00 37.24 4.20
89 90 8.035984 GGAATTAGTAGCATCATACTTACTCCC 58.964 40.741 0.00 0.00 37.24 4.30
90 91 7.755822 CGGAATTAGTAGCATCATACTTACTCC 59.244 40.741 0.00 0.00 37.24 3.85
91 92 8.298140 ACGGAATTAGTAGCATCATACTTACTC 58.702 37.037 0.00 0.00 37.24 2.59
92 93 8.082852 CACGGAATTAGTAGCATCATACTTACT 58.917 37.037 0.00 0.00 37.24 2.24
93 94 7.148787 GCACGGAATTAGTAGCATCATACTTAC 60.149 40.741 0.00 0.00 37.24 2.34
94 95 6.866770 GCACGGAATTAGTAGCATCATACTTA 59.133 38.462 0.00 0.00 37.24 2.24
95 96 5.696724 GCACGGAATTAGTAGCATCATACTT 59.303 40.000 0.00 0.00 37.24 2.24
96 97 5.221441 TGCACGGAATTAGTAGCATCATACT 60.221 40.000 0.00 0.00 39.35 2.12
97 98 4.988540 TGCACGGAATTAGTAGCATCATAC 59.011 41.667 0.00 0.00 0.00 2.39
98 99 5.208463 TGCACGGAATTAGTAGCATCATA 57.792 39.130 0.00 0.00 0.00 2.15
99 100 4.071961 TGCACGGAATTAGTAGCATCAT 57.928 40.909 0.00 0.00 0.00 2.45
100 101 3.535280 TGCACGGAATTAGTAGCATCA 57.465 42.857 0.00 0.00 0.00 3.07
101 102 4.511454 TGAATGCACGGAATTAGTAGCATC 59.489 41.667 16.09 12.54 41.37 3.91
102 103 4.450976 TGAATGCACGGAATTAGTAGCAT 58.549 39.130 0.00 12.85 43.79 3.79
103 104 3.867857 TGAATGCACGGAATTAGTAGCA 58.132 40.909 0.00 0.00 36.34 3.49
104 105 4.875544 TTGAATGCACGGAATTAGTAGC 57.124 40.909 0.00 0.00 0.00 3.58
105 106 9.950680 AATAAATTGAATGCACGGAATTAGTAG 57.049 29.630 0.00 0.00 0.00 2.57
106 107 9.944663 GAATAAATTGAATGCACGGAATTAGTA 57.055 29.630 0.00 0.00 0.00 1.82
107 108 7.643764 CGAATAAATTGAATGCACGGAATTAGT 59.356 33.333 0.00 0.00 0.00 2.24
108 109 7.113404 CCGAATAAATTGAATGCACGGAATTAG 59.887 37.037 0.00 0.00 40.16 1.73
109 110 6.915300 CCGAATAAATTGAATGCACGGAATTA 59.085 34.615 0.00 0.00 40.16 1.40
110 111 5.748152 CCGAATAAATTGAATGCACGGAATT 59.252 36.000 0.00 0.00 40.16 2.17
111 112 5.163561 ACCGAATAAATTGAATGCACGGAAT 60.164 36.000 10.44 0.00 40.78 3.01
112 113 4.156922 ACCGAATAAATTGAATGCACGGAA 59.843 37.500 10.44 0.00 40.78 4.30
113 114 3.692101 ACCGAATAAATTGAATGCACGGA 59.308 39.130 10.44 0.00 40.78 4.69
114 115 4.027572 ACCGAATAAATTGAATGCACGG 57.972 40.909 0.00 0.00 42.78 4.94
115 116 6.088749 TGAAAACCGAATAAATTGAATGCACG 59.911 34.615 0.00 0.00 0.00 5.34
116 117 7.344910 TGAAAACCGAATAAATTGAATGCAC 57.655 32.000 0.00 0.00 0.00 4.57
117 118 7.064371 CCATGAAAACCGAATAAATTGAATGCA 59.936 33.333 0.00 0.00 0.00 3.96
118 119 7.064490 ACCATGAAAACCGAATAAATTGAATGC 59.936 33.333 0.00 0.00 0.00 3.56
119 120 8.477984 ACCATGAAAACCGAATAAATTGAATG 57.522 30.769 0.00 0.00 0.00 2.67
120 121 9.500785 AAACCATGAAAACCGAATAAATTGAAT 57.499 25.926 0.00 0.00 0.00 2.57
121 122 8.768955 CAAACCATGAAAACCGAATAAATTGAA 58.231 29.630 0.00 0.00 0.00 2.69
122 123 7.386299 CCAAACCATGAAAACCGAATAAATTGA 59.614 33.333 0.00 0.00 0.00 2.57
123 124 7.172361 ACCAAACCATGAAAACCGAATAAATTG 59.828 33.333 0.00 0.00 0.00 2.32
124 125 7.220740 ACCAAACCATGAAAACCGAATAAATT 58.779 30.769 0.00 0.00 0.00 1.82
125 126 6.764379 ACCAAACCATGAAAACCGAATAAAT 58.236 32.000 0.00 0.00 0.00 1.40
126 127 6.163135 ACCAAACCATGAAAACCGAATAAA 57.837 33.333 0.00 0.00 0.00 1.40
127 128 5.793030 ACCAAACCATGAAAACCGAATAA 57.207 34.783 0.00 0.00 0.00 1.40
128 129 5.793030 AACCAAACCATGAAAACCGAATA 57.207 34.783 0.00 0.00 0.00 1.75
129 130 4.681074 AACCAAACCATGAAAACCGAAT 57.319 36.364 0.00 0.00 0.00 3.34
130 131 5.793030 ATAACCAAACCATGAAAACCGAA 57.207 34.783 0.00 0.00 0.00 4.30
131 132 6.005198 AGTATAACCAAACCATGAAAACCGA 58.995 36.000 0.00 0.00 0.00 4.69
132 133 6.262193 AGTATAACCAAACCATGAAAACCG 57.738 37.500 0.00 0.00 0.00 4.44
133 134 7.892609 AGAAGTATAACCAAACCATGAAAACC 58.107 34.615 0.00 0.00 0.00 3.27
134 135 8.573035 TGAGAAGTATAACCAAACCATGAAAAC 58.427 33.333 0.00 0.00 0.00 2.43
135 136 8.698973 TGAGAAGTATAACCAAACCATGAAAA 57.301 30.769 0.00 0.00 0.00 2.29
136 137 8.739039 CATGAGAAGTATAACCAAACCATGAAA 58.261 33.333 0.00 0.00 31.99 2.69
137 138 7.888021 ACATGAGAAGTATAACCAAACCATGAA 59.112 33.333 0.00 0.00 33.84 2.57
138 139 7.402054 ACATGAGAAGTATAACCAAACCATGA 58.598 34.615 0.00 0.00 33.84 3.07
139 140 7.630242 ACATGAGAAGTATAACCAAACCATG 57.370 36.000 0.00 0.00 35.25 3.66
140 141 8.522830 CAAACATGAGAAGTATAACCAAACCAT 58.477 33.333 0.00 0.00 0.00 3.55
141 142 7.504238 ACAAACATGAGAAGTATAACCAAACCA 59.496 33.333 0.00 0.00 0.00 3.67
142 143 7.882179 ACAAACATGAGAAGTATAACCAAACC 58.118 34.615 0.00 0.00 0.00 3.27
145 146 9.952030 TCATACAAACATGAGAAGTATAACCAA 57.048 29.630 0.00 0.00 31.34 3.67
153 154 9.896645 ACTTCATATCATACAAACATGAGAAGT 57.103 29.630 0.00 10.82 40.04 3.01
201 202 8.326765 AACCTCTGTTGTTATGGTATATACCA 57.673 34.615 31.81 31.81 46.02 3.25
202 203 8.603242 CAACCTCTGTTGTTATGGTATATACC 57.397 38.462 22.97 22.97 45.51 2.73
220 221 7.206687 TCATTTTTAAATTCGCAACAACCTCT 58.793 30.769 0.00 0.00 0.00 3.69
221 222 7.401484 TCATTTTTAAATTCGCAACAACCTC 57.599 32.000 0.00 0.00 0.00 3.85
223 224 9.739786 CTATTCATTTTTAAATTCGCAACAACC 57.260 29.630 0.00 0.00 0.00 3.77
255 260 4.150980 CGCGTTTGGAGTCATAACTTTGTA 59.849 41.667 0.00 0.00 35.28 2.41
256 261 3.059188 CGCGTTTGGAGTCATAACTTTGT 60.059 43.478 0.00 0.00 35.28 2.83
261 266 3.248266 AGTACGCGTTTGGAGTCATAAC 58.752 45.455 20.78 4.38 0.00 1.89
313 318 6.237996 CCATCAAGACATAAATTTGTGCATGC 60.238 38.462 11.82 11.82 0.00 4.06
314 319 6.814644 ACCATCAAGACATAAATTTGTGCATG 59.185 34.615 14.17 10.69 0.00 4.06
315 320 6.938507 ACCATCAAGACATAAATTTGTGCAT 58.061 32.000 14.17 1.25 0.00 3.96
316 321 6.343716 ACCATCAAGACATAAATTTGTGCA 57.656 33.333 14.17 0.00 0.00 4.57
317 322 8.810427 CATAACCATCAAGACATAAATTTGTGC 58.190 33.333 14.17 7.79 0.00 4.57
318 323 8.810427 GCATAACCATCAAGACATAAATTTGTG 58.190 33.333 12.84 12.84 0.00 3.33
319 324 8.530311 TGCATAACCATCAAGACATAAATTTGT 58.470 29.630 0.00 0.00 0.00 2.83
320 325 8.810427 GTGCATAACCATCAAGACATAAATTTG 58.190 33.333 0.00 0.00 0.00 2.32
321 326 7.701924 CGTGCATAACCATCAAGACATAAATTT 59.298 33.333 0.00 0.00 0.00 1.82
326 344 4.570369 CACGTGCATAACCATCAAGACATA 59.430 41.667 0.82 0.00 0.00 2.29
329 347 2.476185 GCACGTGCATAACCATCAAGAC 60.476 50.000 34.52 0.00 41.59 3.01
331 349 1.739466 AGCACGTGCATAACCATCAAG 59.261 47.619 39.21 0.00 45.16 3.02
373 391 8.687301 CGTCCATTTTTCTTGTAACATTGTTAC 58.313 33.333 25.87 25.87 0.00 2.50
378 396 5.778862 CCCGTCCATTTTTCTTGTAACATT 58.221 37.500 0.00 0.00 0.00 2.71
400 418 4.967036 AGAGTAAGATTTCCTGCTATGCC 58.033 43.478 0.00 0.00 0.00 4.40
403 421 6.126940 TGCTCAAGAGTAAGATTTCCTGCTAT 60.127 38.462 0.00 0.00 0.00 2.97
526 552 9.819267 AATTTTTCATGCCATTTTGAATTTTGT 57.181 22.222 0.00 0.00 32.27 2.83
550 576 3.971305 TCTGGGTTCGGTATGGTATGAAT 59.029 43.478 0.00 0.00 0.00 2.57
567 593 2.080654 TGGGTTTTCTGGTTTCTGGG 57.919 50.000 0.00 0.00 0.00 4.45
578 604 6.459670 ACCGAACCAATTATATGGGTTTTC 57.540 37.500 0.21 0.00 41.64 2.29
583 609 5.130350 ACTGAACCGAACCAATTATATGGG 58.870 41.667 0.00 0.00 45.18 4.00
589 615 7.804129 CGAAAATAAACTGAACCGAACCAATTA 59.196 33.333 0.00 0.00 0.00 1.40
627 653 4.046938 TGTGCATTTTAAAACCGAAGCA 57.953 36.364 1.97 6.31 0.00 3.91
629 655 7.081349 TCACTATGTGCATTTTAAAACCGAAG 58.919 34.615 1.97 0.00 32.98 3.79
731 757 9.835389 TTCCTAAACTTGTTGTAGCTTAAACTA 57.165 29.630 11.24 4.59 0.00 2.24
764 792 7.092444 ACCCTATATGTTTCAGAACCTTGATCA 60.092 37.037 0.00 0.00 34.80 2.92
784 812 3.060479 TGGCTTGAGGTCATACCCTAT 57.940 47.619 0.00 0.00 39.75 2.57
785 813 2.561209 TGGCTTGAGGTCATACCCTA 57.439 50.000 0.00 0.00 39.75 3.53
786 814 1.561542 CTTGGCTTGAGGTCATACCCT 59.438 52.381 0.00 0.00 39.75 4.34
788 816 2.789409 ACTTGGCTTGAGGTCATACC 57.211 50.000 0.00 0.00 38.99 2.73
789 817 3.125316 CGAAACTTGGCTTGAGGTCATAC 59.875 47.826 0.00 0.00 0.00 2.39
865 929 0.534412 CCCTGGTGTGCTCTAGACTG 59.466 60.000 0.00 0.00 0.00 3.51
939 1003 1.378531 TGTGCACGATTTATGAGGCC 58.621 50.000 13.13 0.00 0.00 5.19
1021 1085 1.280457 GCAGGAGGAGGAGGAAGAAA 58.720 55.000 0.00 0.00 0.00 2.52
1179 1246 0.633921 CTTCTCCCTCTCCTCCTCCA 59.366 60.000 0.00 0.00 0.00 3.86
1190 1257 2.971452 GGAACGCGTCTTCTCCCT 59.029 61.111 14.44 0.00 0.00 4.20
1318 1385 3.479269 CTCCGAAACGCTGACGGC 61.479 66.667 0.00 0.00 46.04 5.68
1352 1419 2.079158 GCAAGCAAGAGACATACAGCA 58.921 47.619 0.00 0.00 0.00 4.41
1355 1422 2.079158 GCAGCAAGCAAGAGACATACA 58.921 47.619 0.00 0.00 44.79 2.29
1356 1423 2.821307 GCAGCAAGCAAGAGACATAC 57.179 50.000 0.00 0.00 44.79 2.39
1390 1465 5.571357 GCAACAAGAACGAACAAAAGAAGAA 59.429 36.000 0.00 0.00 0.00 2.52
1391 1466 5.092781 GCAACAAGAACGAACAAAAGAAGA 58.907 37.500 0.00 0.00 0.00 2.87
1392 1467 5.003778 CAGCAACAAGAACGAACAAAAGAAG 59.996 40.000 0.00 0.00 0.00 2.85
1409 1484 2.050836 ATGTCCCGTGGTCAGCAACA 62.051 55.000 0.00 0.00 0.00 3.33
1418 1499 0.888736 TGTCAAAGCATGTCCCGTGG 60.889 55.000 0.00 0.00 0.00 4.94
1528 1609 0.601558 GACCTAGCGACCACTTGACA 59.398 55.000 0.00 0.00 0.00 3.58
1558 1639 3.125316 TGGTACGTTACAACTGACAAGC 58.875 45.455 0.00 0.00 0.00 4.01
1576 1657 0.606401 CTGATCAAACCGTGGCTGGT 60.606 55.000 0.00 0.00 46.67 4.00
1577 1658 1.926511 GCTGATCAAACCGTGGCTGG 61.927 60.000 0.00 0.00 0.00 4.85
1580 1661 0.955428 TGAGCTGATCAAACCGTGGC 60.955 55.000 0.00 0.00 34.02 5.01
1596 1677 6.737254 AGTAACCAAACATTTCGGTATGAG 57.263 37.500 4.95 0.00 31.12 2.90
1614 1697 2.164422 GCCCTTCCATTCTGCAAGTAAC 59.836 50.000 0.00 0.00 33.76 2.50
1647 1730 0.317160 CAGTGCAGTCTACGTCCCAA 59.683 55.000 0.00 0.00 0.00 4.12
1702 1785 3.392616 GGGTGGATGAGATTGTACCTGAT 59.607 47.826 0.00 0.00 0.00 2.90
1712 1795 3.117745 TCAGATGTTGGGTGGATGAGAT 58.882 45.455 0.00 0.00 0.00 2.75
1714 1797 3.354948 TTCAGATGTTGGGTGGATGAG 57.645 47.619 0.00 0.00 0.00 2.90
1724 1807 2.675889 GCTGGCCCAAATTCAGATGTTG 60.676 50.000 0.00 0.00 0.00 3.33
1728 1812 2.242882 AAGCTGGCCCAAATTCAGAT 57.757 45.000 0.00 0.00 0.00 2.90
1765 1883 7.254852 GTGTGTCTCTCCTCTCTAAATTGTAG 58.745 42.308 0.00 0.00 0.00 2.74
1780 1898 3.627732 TCTGAAACTCGTGTGTCTCTC 57.372 47.619 9.10 0.00 31.78 3.20
1790 1908 7.060289 CACAATGTGATTTTGATCTGAAACTCG 59.940 37.037 7.78 0.00 35.23 4.18
1791 1909 7.864379 ACACAATGTGATTTTGATCTGAAACTC 59.136 33.333 21.34 0.00 36.96 3.01
1822 1940 5.226396 CCTTGTTCACTTGACTACAGAGAG 58.774 45.833 0.00 0.00 0.00 3.20
1823 1941 4.501571 GCCTTGTTCACTTGACTACAGAGA 60.502 45.833 0.00 0.00 0.00 3.10
1824 1942 3.743396 GCCTTGTTCACTTGACTACAGAG 59.257 47.826 0.00 0.00 0.00 3.35
1832 1951 1.955778 CCACATGCCTTGTTCACTTGA 59.044 47.619 0.00 0.00 36.00 3.02
1924 2043 7.036220 CGAGTCATTTTACTTGGATCTGTACT 58.964 38.462 0.00 0.00 0.00 2.73
1926 2045 7.033791 GTCGAGTCATTTTACTTGGATCTGTA 58.966 38.462 0.00 0.00 32.53 2.74
1988 2107 2.350772 GGAACTTGTTTGCCACGATCAG 60.351 50.000 0.00 0.00 0.00 2.90
2014 2133 3.362399 CTCATCCAGCGTGCCGTCT 62.362 63.158 0.00 0.00 0.00 4.18
2148 2267 5.366829 CTGTGCATCAGAATTCTGTGAAA 57.633 39.130 29.80 14.89 46.27 2.69
2183 2302 1.400242 GCTCGCTGACCATTTCACAAC 60.400 52.381 0.00 0.00 0.00 3.32
2200 2320 3.073274 AGGGGTAAAGTCATTGTGCTC 57.927 47.619 0.00 0.00 0.00 4.26
2253 2373 5.643348 AGTTTTTCTTCCTTTTTGCAACCAG 59.357 36.000 0.00 0.00 0.00 4.00
2298 2423 3.120442 CCCGTTCGTTCTAAATTGTGTCC 60.120 47.826 0.00 0.00 0.00 4.02
2358 2486 7.041721 TGTGATGTTGTAGGTGATGTCTAATC 58.958 38.462 0.00 0.00 0.00 1.75
2400 2538 0.912486 TAAGAGGCAGCTTTCTCCCC 59.088 55.000 8.90 0.00 0.00 4.81
2471 2610 5.009310 TCGTAGCAACAGTAAGAGAAAGTGA 59.991 40.000 0.00 0.00 0.00 3.41
2494 2660 0.105039 CTGGTAGGCTGTCCGGATTC 59.895 60.000 7.81 0.00 37.47 2.52
2582 2750 3.321950 AGGGCTGTAGGCTAATCTCATT 58.678 45.455 0.00 0.00 41.46 2.57
2619 2787 3.764237 TCTTTGGTACCCAACAGACTC 57.236 47.619 10.07 0.00 43.82 3.36
2740 2910 8.451908 AGGTGTTGGTTTGCTTATATCTAATC 57.548 34.615 0.00 0.00 0.00 1.75
2923 3096 4.668636 ACTCCCTCCTAAGAATATCCTCG 58.331 47.826 0.00 0.00 0.00 4.63
3038 3211 6.416750 GCGACTCTAAGCTTAAAGATCTCTTC 59.583 42.308 13.79 0.00 34.61 2.87


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

AutoCloner maintained by Alex Coulton.