Multiple sequence alignment - TraesCS2B01G349300

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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 TraesCS2B01G349300 chr2B 100.000 2477 0 0 1 2477 496079757 496077281 0.000000e+00 4575.0
1 TraesCS2B01G349300 chr2B 90.234 727 53 8 197 905 496192093 496191367 0.000000e+00 933.0
2 TraesCS2B01G349300 chr2B 90.047 633 41 9 900 1514 496177294 496176666 0.000000e+00 800.0
3 TraesCS2B01G349300 chr2B 82.224 1007 91 36 506 1466 495953327 495952363 0.000000e+00 787.0
4 TraesCS2B01G349300 chr2B 88.449 606 47 14 1041 1635 496542331 496541738 0.000000e+00 710.0
5 TraesCS2B01G349300 chr2B 89.293 495 43 3 1061 1551 496359753 496359265 1.630000e-171 612.0
6 TraesCS2B01G349300 chr2B 89.002 491 49 5 4 490 452910661 452910172 9.800000e-169 603.0
7 TraesCS2B01G349300 chr2B 89.050 484 51 2 4 485 209818334 209817851 1.270000e-167 599.0
8 TraesCS2B01G349300 chr2B 87.121 132 12 3 2060 2190 496117064 496116937 7.140000e-31 145.0
9 TraesCS2B01G349300 chr2A 84.495 1148 87 29 605 1698 565313045 565314155 0.000000e+00 1050.0
10 TraesCS2B01G349300 chr2A 85.230 1002 85 24 506 1465 565323629 565324609 0.000000e+00 972.0
11 TraesCS2B01G349300 chr2A 88.497 652 49 16 1036 1669 565234376 565235019 0.000000e+00 765.0
12 TraesCS2B01G349300 chr2A 93.706 429 21 4 2052 2476 565314578 565315004 2.690000e-179 638.0
13 TraesCS2B01G349300 chr2A 88.796 357 28 3 1105 1461 565256261 565256605 6.330000e-116 427.0
14 TraesCS2B01G349300 chr2A 84.898 245 31 5 2181 2425 565259433 565259671 2.460000e-60 243.0
15 TraesCS2B01G349300 chr2A 88.439 173 10 3 1883 2045 565314336 565314508 1.500000e-47 200.0
16 TraesCS2B01G349300 chr2A 87.023 131 13 1 2052 2182 565259239 565259365 7.140000e-31 145.0
17 TraesCS2B01G349300 chr2A 96.053 76 2 1 1800 1874 565283751 565283826 3.350000e-24 122.0
18 TraesCS2B01G349300 chr2A 82.353 102 13 3 634 733 565255803 565255901 1.580000e-12 84.2
19 TraesCS2B01G349300 chr2D 85.214 913 70 24 506 1375 423280880 423279990 0.000000e+00 878.0
20 TraesCS2B01G349300 chr2D 82.385 914 78 43 771 1645 423348026 423347157 0.000000e+00 719.0
21 TraesCS2B01G349300 chr2D 85.736 666 56 20 975 1617 423292539 423291890 0.000000e+00 667.0
22 TraesCS2B01G349300 chr2D 86.986 292 33 5 2184 2472 423308535 423308246 8.540000e-85 324.0
23 TraesCS2B01G349300 chr2D 88.321 137 11 2 2055 2190 423308730 423308598 2.550000e-35 159.0
24 TraesCS2B01G349300 chr2D 88.095 126 8 3 2060 2185 423291366 423291248 2.570000e-30 143.0
25 TraesCS2B01G349300 chr2D 81.818 110 13 2 2060 2169 423286467 423286365 4.390000e-13 86.1
26 TraesCS2B01G349300 chr7D 89.322 487 50 2 2 486 407860963 407860477 5.860000e-171 610.0
27 TraesCS2B01G349300 chr3B 89.162 489 50 3 1 486 752076144 752076632 7.580000e-170 606.0
28 TraesCS2B01G349300 chr3B 88.330 497 54 4 1 493 465345252 465345748 5.900000e-166 593.0
29 TraesCS2B01G349300 chr6B 88.844 493 53 2 1 491 641301340 641300848 2.720000e-169 604.0
30 TraesCS2B01G349300 chr7B 88.957 489 51 3 1 486 706479713 706480201 3.520000e-168 601.0
31 TraesCS2B01G349300 chr4B 89.095 486 49 4 4 486 665294303 665293819 3.520000e-168 601.0
32 TraesCS2B01G349300 chrUn 85.739 589 51 15 884 1466 325760006 325760567 2.120000e-165 592.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G349300 chr2B 496077281 496079757 2476 True 4575.000000 4575 100.0000 1 2477 1 chr2B.!!$R4 2476
1 TraesCS2B01G349300 chr2B 496191367 496192093 726 True 933.000000 933 90.2340 197 905 1 chr2B.!!$R7 708
2 TraesCS2B01G349300 chr2B 496176666 496177294 628 True 800.000000 800 90.0470 900 1514 1 chr2B.!!$R6 614
3 TraesCS2B01G349300 chr2B 495952363 495953327 964 True 787.000000 787 82.2240 506 1466 1 chr2B.!!$R3 960
4 TraesCS2B01G349300 chr2B 496541738 496542331 593 True 710.000000 710 88.4490 1041 1635 1 chr2B.!!$R9 594
5 TraesCS2B01G349300 chr2A 565323629 565324609 980 False 972.000000 972 85.2300 506 1465 1 chr2A.!!$F3 959
6 TraesCS2B01G349300 chr2A 565234376 565235019 643 False 765.000000 765 88.4970 1036 1669 1 chr2A.!!$F1 633
7 TraesCS2B01G349300 chr2A 565313045 565315004 1959 False 629.333333 1050 88.8800 605 2476 3 chr2A.!!$F5 1871
8 TraesCS2B01G349300 chr2A 565255803 565259671 3868 False 224.800000 427 85.7675 634 2425 4 chr2A.!!$F4 1791
9 TraesCS2B01G349300 chr2D 423279990 423280880 890 True 878.000000 878 85.2140 506 1375 1 chr2D.!!$R1 869
10 TraesCS2B01G349300 chr2D 423347157 423348026 869 True 719.000000 719 82.3850 771 1645 1 chr2D.!!$R3 874
11 TraesCS2B01G349300 chr2D 423291248 423292539 1291 True 405.000000 667 86.9155 975 2185 2 chr2D.!!$R4 1210
12 TraesCS2B01G349300 chrUn 325760006 325760567 561 False 592.000000 592 85.7390 884 1466 1 chrUn.!!$F1 582

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
108 109 0.027063 GAACGTGTGTTGGGTTCGTG 59.973 55.0 0.0 0.0 38.78 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1537 1784 0.109964 AATAAACACGCGCGCATGTT 60.11 45.0 36.4 36.4 40.76 2.71 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 4.012895 CGGCGTTTGCTTCAGCGT 62.013 61.111 0.00 0.00 45.83 5.07
18 19 2.127232 GGCGTTTGCTTCAGCGTC 60.127 61.111 0.00 0.00 45.83 5.19
19 20 2.497628 GCGTTTGCTTCAGCGTCG 60.498 61.111 0.00 0.65 45.83 5.12
20 21 2.170985 CGTTTGCTTCAGCGTCGG 59.829 61.111 0.00 0.00 45.83 4.79
21 22 2.127232 GTTTGCTTCAGCGTCGGC 60.127 61.111 0.00 0.00 45.83 5.54
22 23 3.711842 TTTGCTTCAGCGTCGGCG 61.712 61.111 4.29 4.29 46.35 6.46
49 50 1.817209 GGAGGTAGTCCAAGAGCGG 59.183 63.158 0.00 0.00 46.10 5.52
50 51 0.683504 GGAGGTAGTCCAAGAGCGGA 60.684 60.000 0.00 0.00 46.10 5.54
51 52 1.404843 GAGGTAGTCCAAGAGCGGAT 58.595 55.000 0.00 0.00 37.41 4.18
52 53 1.067821 GAGGTAGTCCAAGAGCGGATG 59.932 57.143 0.00 0.00 37.41 3.51
53 54 0.530870 GGTAGTCCAAGAGCGGATGC 60.531 60.000 0.00 0.00 37.41 3.91
54 55 0.175760 GTAGTCCAAGAGCGGATGCA 59.824 55.000 0.00 0.00 46.23 3.96
55 56 0.461548 TAGTCCAAGAGCGGATGCAG 59.538 55.000 0.00 0.00 46.23 4.41
56 57 1.219124 GTCCAAGAGCGGATGCAGA 59.781 57.895 0.00 0.00 46.23 4.26
57 58 0.179062 GTCCAAGAGCGGATGCAGAT 60.179 55.000 0.00 0.00 46.23 2.90
58 59 0.543277 TCCAAGAGCGGATGCAGATT 59.457 50.000 0.00 0.00 46.23 2.40
59 60 0.661552 CCAAGAGCGGATGCAGATTG 59.338 55.000 0.00 0.00 46.23 2.67
60 61 1.376543 CAAGAGCGGATGCAGATTGT 58.623 50.000 0.00 0.00 46.23 2.71
61 62 1.063616 CAAGAGCGGATGCAGATTGTG 59.936 52.381 0.00 0.00 46.23 3.33
62 63 0.538584 AGAGCGGATGCAGATTGTGA 59.461 50.000 0.00 0.00 46.23 3.58
63 64 1.140452 AGAGCGGATGCAGATTGTGAT 59.860 47.619 0.00 0.00 46.23 3.06
64 65 1.530293 GAGCGGATGCAGATTGTGATC 59.470 52.381 0.00 0.00 46.23 2.92
65 66 1.140452 AGCGGATGCAGATTGTGATCT 59.860 47.619 0.00 0.00 46.23 2.75
74 75 2.467838 AGATTGTGATCTGCATCGACG 58.532 47.619 0.00 0.00 41.09 5.12
75 76 2.099756 AGATTGTGATCTGCATCGACGA 59.900 45.455 0.00 0.00 41.09 4.20
76 77 1.629013 TTGTGATCTGCATCGACGAC 58.371 50.000 0.00 0.00 0.00 4.34
77 78 0.525761 TGTGATCTGCATCGACGACA 59.474 50.000 0.00 0.00 0.00 4.35
78 79 1.134946 TGTGATCTGCATCGACGACAT 59.865 47.619 0.00 0.00 0.00 3.06
79 80 1.783711 GTGATCTGCATCGACGACATC 59.216 52.381 0.00 0.00 0.00 3.06
80 81 1.678101 TGATCTGCATCGACGACATCT 59.322 47.619 0.00 0.00 0.00 2.90
81 82 2.049959 GATCTGCATCGACGACATCTG 58.950 52.381 0.00 0.00 0.00 2.90
82 83 0.101219 TCTGCATCGACGACATCTGG 59.899 55.000 0.00 0.00 0.00 3.86
83 84 0.101219 CTGCATCGACGACATCTGGA 59.899 55.000 0.00 0.00 0.00 3.86
84 85 0.530288 TGCATCGACGACATCTGGAA 59.470 50.000 0.00 0.00 0.00 3.53
85 86 1.203928 GCATCGACGACATCTGGAAG 58.796 55.000 0.00 0.00 0.00 3.46
106 107 1.644913 GGAACGTGTGTTGGGTTCG 59.355 57.895 0.00 0.00 40.64 3.95
107 108 1.091197 GGAACGTGTGTTGGGTTCGT 61.091 55.000 0.00 0.00 40.64 3.85
108 109 0.027063 GAACGTGTGTTGGGTTCGTG 59.973 55.000 0.00 0.00 38.78 4.35
109 110 1.370587 AACGTGTGTTGGGTTCGTGG 61.371 55.000 0.00 0.00 36.81 4.94
110 111 1.816259 CGTGTGTTGGGTTCGTGGT 60.816 57.895 0.00 0.00 0.00 4.16
111 112 1.370587 CGTGTGTTGGGTTCGTGGTT 61.371 55.000 0.00 0.00 0.00 3.67
112 113 0.812549 GTGTGTTGGGTTCGTGGTTT 59.187 50.000 0.00 0.00 0.00 3.27
113 114 0.811915 TGTGTTGGGTTCGTGGTTTG 59.188 50.000 0.00 0.00 0.00 2.93
114 115 0.812549 GTGTTGGGTTCGTGGTTTGT 59.187 50.000 0.00 0.00 0.00 2.83
115 116 0.811915 TGTTGGGTTCGTGGTTTGTG 59.188 50.000 0.00 0.00 0.00 3.33
116 117 0.101579 GTTGGGTTCGTGGTTTGTGG 59.898 55.000 0.00 0.00 0.00 4.17
117 118 0.034380 TTGGGTTCGTGGTTTGTGGA 60.034 50.000 0.00 0.00 0.00 4.02
118 119 0.183971 TGGGTTCGTGGTTTGTGGAT 59.816 50.000 0.00 0.00 0.00 3.41
119 120 0.596082 GGGTTCGTGGTTTGTGGATG 59.404 55.000 0.00 0.00 0.00 3.51
120 121 1.600023 GGTTCGTGGTTTGTGGATGA 58.400 50.000 0.00 0.00 0.00 2.92
121 122 1.265905 GGTTCGTGGTTTGTGGATGAC 59.734 52.381 0.00 0.00 0.00 3.06
122 123 1.944024 GTTCGTGGTTTGTGGATGACA 59.056 47.619 0.00 0.00 0.00 3.58
123 124 2.552315 GTTCGTGGTTTGTGGATGACAT 59.448 45.455 0.00 0.00 33.40 3.06
124 125 2.150390 TCGTGGTTTGTGGATGACATG 58.850 47.619 0.00 0.00 33.40 3.21
125 126 1.879380 CGTGGTTTGTGGATGACATGT 59.121 47.619 0.00 0.00 33.40 3.21
126 127 3.070748 CGTGGTTTGTGGATGACATGTA 58.929 45.455 0.00 0.00 33.40 2.29
127 128 3.689161 CGTGGTTTGTGGATGACATGTAT 59.311 43.478 0.00 0.00 33.40 2.29
128 129 4.437255 CGTGGTTTGTGGATGACATGTATG 60.437 45.833 0.00 0.00 33.40 2.39
129 130 4.015764 TGGTTTGTGGATGACATGTATGG 58.984 43.478 0.00 0.00 33.40 2.74
130 131 4.016444 GGTTTGTGGATGACATGTATGGT 58.984 43.478 0.00 0.00 33.40 3.55
131 132 4.462483 GGTTTGTGGATGACATGTATGGTT 59.538 41.667 0.00 0.00 33.40 3.67
132 133 5.047377 GGTTTGTGGATGACATGTATGGTTT 60.047 40.000 0.00 0.00 33.40 3.27
133 134 5.895636 TTGTGGATGACATGTATGGTTTC 57.104 39.130 0.00 0.00 33.40 2.78
134 135 4.269183 TGTGGATGACATGTATGGTTTCC 58.731 43.478 0.00 0.00 0.00 3.13
135 136 4.018506 TGTGGATGACATGTATGGTTTCCT 60.019 41.667 0.00 0.00 0.00 3.36
136 137 4.576463 GTGGATGACATGTATGGTTTCCTC 59.424 45.833 0.00 0.00 0.00 3.71
137 138 4.227073 TGGATGACATGTATGGTTTCCTCA 59.773 41.667 0.00 0.00 0.00 3.86
138 139 5.103982 TGGATGACATGTATGGTTTCCTCAT 60.104 40.000 0.00 0.00 0.00 2.90
139 140 5.829924 GGATGACATGTATGGTTTCCTCATT 59.170 40.000 0.00 0.00 0.00 2.57
140 141 6.016777 GGATGACATGTATGGTTTCCTCATTC 60.017 42.308 0.00 0.00 0.00 2.67
141 142 4.875536 TGACATGTATGGTTTCCTCATTCG 59.124 41.667 0.00 0.00 0.00 3.34
142 143 5.097742 ACATGTATGGTTTCCTCATTCGA 57.902 39.130 0.00 0.00 0.00 3.71
143 144 4.876107 ACATGTATGGTTTCCTCATTCGAC 59.124 41.667 0.00 0.00 0.00 4.20
144 145 3.517602 TGTATGGTTTCCTCATTCGACG 58.482 45.455 0.00 0.00 0.00 5.12
145 146 2.762535 ATGGTTTCCTCATTCGACGT 57.237 45.000 0.00 0.00 0.00 4.34
146 147 2.536761 TGGTTTCCTCATTCGACGTT 57.463 45.000 0.00 0.00 0.00 3.99
147 148 2.841215 TGGTTTCCTCATTCGACGTTT 58.159 42.857 0.00 0.00 0.00 3.60
148 149 3.207778 TGGTTTCCTCATTCGACGTTTT 58.792 40.909 0.00 0.00 0.00 2.43
149 150 4.378774 TGGTTTCCTCATTCGACGTTTTA 58.621 39.130 0.00 0.00 0.00 1.52
150 151 4.449743 TGGTTTCCTCATTCGACGTTTTAG 59.550 41.667 0.00 0.00 0.00 1.85
151 152 4.450080 GGTTTCCTCATTCGACGTTTTAGT 59.550 41.667 0.00 0.00 0.00 2.24
152 153 5.049886 GGTTTCCTCATTCGACGTTTTAGTT 60.050 40.000 0.00 0.00 0.00 2.24
153 154 5.585500 TTCCTCATTCGACGTTTTAGTTG 57.415 39.130 0.00 0.00 0.00 3.16
154 155 4.624015 TCCTCATTCGACGTTTTAGTTGT 58.376 39.130 0.00 0.00 0.00 3.32
155 156 4.446385 TCCTCATTCGACGTTTTAGTTGTG 59.554 41.667 0.00 0.00 0.00 3.33
156 157 4.377022 CCTCATTCGACGTTTTAGTTGTGG 60.377 45.833 0.00 0.00 0.00 4.17
157 158 4.121317 TCATTCGACGTTTTAGTTGTGGT 58.879 39.130 0.00 0.00 0.00 4.16
158 159 3.929417 TTCGACGTTTTAGTTGTGGTG 57.071 42.857 0.00 0.00 0.00 4.17
159 160 2.203401 TCGACGTTTTAGTTGTGGTGG 58.797 47.619 0.00 0.00 0.00 4.61
160 161 1.262151 CGACGTTTTAGTTGTGGTGGG 59.738 52.381 0.00 0.00 0.00 4.61
161 162 1.605232 GACGTTTTAGTTGTGGTGGGG 59.395 52.381 0.00 0.00 0.00 4.96
162 163 1.064537 ACGTTTTAGTTGTGGTGGGGT 60.065 47.619 0.00 0.00 0.00 4.95
163 164 1.335496 CGTTTTAGTTGTGGTGGGGTG 59.665 52.381 0.00 0.00 0.00 4.61
164 165 1.067974 GTTTTAGTTGTGGTGGGGTGC 59.932 52.381 0.00 0.00 0.00 5.01
165 166 0.468400 TTTAGTTGTGGTGGGGTGCC 60.468 55.000 0.00 0.00 0.00 5.01
166 167 1.646367 TTAGTTGTGGTGGGGTGCCA 61.646 55.000 0.00 0.00 0.00 4.92
167 168 2.063015 TAGTTGTGGTGGGGTGCCAG 62.063 60.000 0.00 0.00 36.57 4.85
168 169 3.099841 TTGTGGTGGGGTGCCAGA 61.100 61.111 0.00 0.00 36.57 3.86
169 170 2.468868 TTGTGGTGGGGTGCCAGAT 61.469 57.895 0.00 0.00 36.57 2.90
170 171 2.044946 GTGGTGGGGTGCCAGATC 60.045 66.667 0.00 0.00 36.57 2.75
171 172 2.204136 TGGTGGGGTGCCAGATCT 60.204 61.111 0.00 0.00 0.00 2.75
172 173 2.273449 GGTGGGGTGCCAGATCTG 59.727 66.667 16.24 16.24 0.00 2.90
184 185 1.863267 CAGATCTGGAGTTCGATGGC 58.137 55.000 15.38 0.00 0.00 4.40
185 186 0.387202 AGATCTGGAGTTCGATGGCG 59.613 55.000 0.00 0.00 39.35 5.69
186 187 0.103208 GATCTGGAGTTCGATGGCGT 59.897 55.000 0.00 0.00 38.98 5.68
187 188 0.179100 ATCTGGAGTTCGATGGCGTG 60.179 55.000 0.00 0.00 38.98 5.34
188 189 1.079819 CTGGAGTTCGATGGCGTGT 60.080 57.895 0.00 0.00 38.98 4.49
189 190 1.078759 CTGGAGTTCGATGGCGTGTC 61.079 60.000 0.00 0.00 38.98 3.67
190 191 1.215647 GGAGTTCGATGGCGTGTCT 59.784 57.895 0.00 0.00 38.98 3.41
191 192 1.078759 GGAGTTCGATGGCGTGTCTG 61.079 60.000 0.00 0.00 38.98 3.51
192 193 1.078759 GAGTTCGATGGCGTGTCTGG 61.079 60.000 0.00 0.00 38.98 3.86
193 194 2.100631 GTTCGATGGCGTGTCTGGG 61.101 63.158 0.00 0.00 38.98 4.45
194 195 2.279810 TTCGATGGCGTGTCTGGGA 61.280 57.895 0.00 0.00 38.98 4.37
195 196 2.501223 TTCGATGGCGTGTCTGGGAC 62.501 60.000 0.00 0.00 38.98 4.46
196 197 2.509336 GATGGCGTGTCTGGGACG 60.509 66.667 0.00 0.00 39.87 4.79
197 198 3.296709 GATGGCGTGTCTGGGACGT 62.297 63.158 0.00 0.00 39.08 4.34
198 199 2.781595 GATGGCGTGTCTGGGACGTT 62.782 60.000 0.00 0.00 39.08 3.99
199 200 3.041940 GGCGTGTCTGGGACGTTG 61.042 66.667 0.00 0.00 39.08 4.10
200 201 3.712881 GCGTGTCTGGGACGTTGC 61.713 66.667 0.00 0.00 39.08 4.17
201 202 3.041940 CGTGTCTGGGACGTTGCC 61.042 66.667 0.00 0.00 34.95 4.52
242 243 3.192422 CGGCAATGGATTCACTTTTGGTA 59.808 43.478 0.00 0.00 0.00 3.25
248 249 3.826157 TGGATTCACTTTTGGTAAGCCAG 59.174 43.478 0.00 0.00 46.91 4.85
249 250 3.826729 GGATTCACTTTTGGTAAGCCAGT 59.173 43.478 0.00 0.00 46.91 4.00
251 252 5.221441 GGATTCACTTTTGGTAAGCCAGTTT 60.221 40.000 0.00 0.00 46.91 2.66
252 253 4.647424 TCACTTTTGGTAAGCCAGTTTG 57.353 40.909 0.00 0.00 46.91 2.93
255 256 4.027437 ACTTTTGGTAAGCCAGTTTGGAA 58.973 39.130 0.00 0.00 46.91 3.53
261 262 0.182775 AAGCCAGTTTGGAAGTCCGT 59.817 50.000 0.00 0.00 40.96 4.69
270 271 0.394938 TGGAAGTCCGTAAAGCTGCA 59.605 50.000 1.02 0.00 39.43 4.41
274 275 3.495001 GGAAGTCCGTAAAGCTGCATATC 59.505 47.826 1.02 0.00 0.00 1.63
304 305 2.352915 GCGTCGAGCTCGGATGAG 60.353 66.667 33.98 20.85 45.49 2.90
313 314 0.755686 GCTCGGATGAGGAGGTGATT 59.244 55.000 0.00 0.00 42.79 2.57
314 315 1.139853 GCTCGGATGAGGAGGTGATTT 59.860 52.381 0.00 0.00 42.79 2.17
321 322 4.578105 GGATGAGGAGGTGATTTGTCATTC 59.422 45.833 0.00 0.00 0.00 2.67
322 323 3.955471 TGAGGAGGTGATTTGTCATTCC 58.045 45.455 0.00 0.00 0.00 3.01
323 324 3.588842 TGAGGAGGTGATTTGTCATTCCT 59.411 43.478 11.71 11.71 38.44 3.36
326 327 5.397360 AGGAGGTGATTTGTCATTCCTTTT 58.603 37.500 7.99 0.00 34.85 2.27
350 357 2.601398 CGCTGCTATGATGGTGCCG 61.601 63.158 0.00 0.00 0.00 5.69
371 378 2.359850 GCAGGTGATGGGCGTTGA 60.360 61.111 0.00 0.00 0.00 3.18
374 381 1.750399 AGGTGATGGGCGTTGATGC 60.750 57.895 0.00 0.00 0.00 3.91
397 404 4.808364 CCAAGCTTAGAGATGTTCTGCTAC 59.192 45.833 0.00 0.00 34.93 3.58
404 411 4.837972 AGAGATGTTCTGCTACCTTTTCC 58.162 43.478 0.00 0.00 33.93 3.13
427 434 4.025563 CGTTTTGTCATGTCGGTCTTTACA 60.026 41.667 0.00 0.00 0.00 2.41
437 444 5.224888 TGTCGGTCTTTACATGACTTGTAC 58.775 41.667 0.00 0.00 40.53 2.90
619 636 3.005155 GCCAATCATTGTCTAATGCCTCC 59.995 47.826 0.00 0.00 42.71 4.30
676 698 0.179166 CGCGTTTACATGCATGGCTT 60.179 50.000 29.41 12.30 34.13 4.35
749 780 3.109612 CTGCTGCTGCTGCGAATCC 62.110 63.158 23.38 0.54 43.34 3.01
871 946 0.952497 ATCACAAGCCACTGCGTCTG 60.952 55.000 0.00 0.00 44.33 3.51
962 1062 5.399858 TGAACTCCGAGTTTCTATTTCTCG 58.600 41.667 14.96 6.80 46.77 4.04
1037 1155 5.191722 ACCTATTCAGTTTCTGCTCCCATTA 59.808 40.000 0.00 0.00 0.00 1.90
1077 1214 9.874205 TTTAGCTTAATTTTGAGCAAGCAATAT 57.126 25.926 10.21 0.00 44.59 1.28
1156 1303 3.508762 CAGCAAAAGATTGTCATCCAGC 58.491 45.455 0.00 0.00 38.85 4.85
1383 1534 2.114616 GAGGAGAAGAAGGATGAGCCA 58.885 52.381 0.00 0.00 40.02 4.75
1492 1731 2.470990 TCTGACCATGTACTGCCAGAT 58.529 47.619 0.00 0.00 31.98 2.90
1495 1734 3.374764 TGACCATGTACTGCCAGATAGT 58.625 45.455 0.00 0.00 0.00 2.12
1537 1784 2.789213 TGCCAGCAACTACAAATAGCA 58.211 42.857 0.00 0.00 30.75 3.49
1561 1808 2.852748 TGCGCGCGTGTTTATTAATTT 58.147 38.095 32.35 0.00 0.00 1.82
1619 1870 3.907194 CGATCTATTTACGAGTTCGCCTC 59.093 47.826 0.73 0.00 44.43 4.70
1644 1895 5.119125 GGCAATTTCCAGTTTGAAATCGAAG 59.881 40.000 0.00 0.00 42.58 3.79
1672 1941 7.212976 TGGTTATATGAATCTCAGTTCTCAGC 58.787 38.462 0.00 0.00 0.00 4.26
1711 3919 2.399607 TGAAGGTTTGGGGCTGGGT 61.400 57.895 0.00 0.00 0.00 4.51
1729 3937 1.475034 GGTCATGTGCCCGATGTGTAT 60.475 52.381 0.00 0.00 0.00 2.29
1744 3952 1.066143 GTGTATGGTGACTGGTGAGGG 60.066 57.143 0.00 0.00 0.00 4.30
1762 3970 1.743252 GCGAGGAGCCAAACAGGAG 60.743 63.158 0.00 0.00 41.22 3.69
1800 4026 3.569194 TGTGCAAGAAAAGGTAGGACA 57.431 42.857 0.00 0.00 0.00 4.02
1801 4027 3.476552 TGTGCAAGAAAAGGTAGGACAG 58.523 45.455 0.00 0.00 0.00 3.51
1820 4066 0.456653 GCCCACATTGTGACGAATGC 60.457 55.000 18.33 6.93 36.89 3.56
1840 4096 4.445453 TGCCATCTAATCATATGATCGGC 58.555 43.478 18.44 21.39 36.21 5.54
1842 4098 5.363580 TGCCATCTAATCATATGATCGGCTA 59.636 40.000 26.42 14.88 36.41 3.93
1862 4118 6.811665 CGGCTAATAATTCGAGTTGATCCATA 59.188 38.462 3.04 0.00 0.00 2.74
1874 4130 4.654262 AGTTGATCCATATAACCACGGTCT 59.346 41.667 0.00 0.00 0.00 3.85
1875 4131 4.600692 TGATCCATATAACCACGGTCTG 57.399 45.455 0.00 0.00 0.00 3.51
1878 4134 2.963101 TCCATATAACCACGGTCTGGAG 59.037 50.000 0.00 0.00 43.95 3.86
1880 4136 3.005897 CCATATAACCACGGTCTGGAGAG 59.994 52.174 0.00 0.00 43.95 3.20
1881 4137 1.486211 ATAACCACGGTCTGGAGAGG 58.514 55.000 0.00 0.00 43.95 3.69
1889 4164 1.071699 CGGTCTGGAGAGGGTCAAAAA 59.928 52.381 0.00 0.00 0.00 1.94
1919 4194 1.063616 CAGGTCTGCAGCGATTTCATG 59.936 52.381 9.47 0.00 0.00 3.07
1920 4195 1.065926 AGGTCTGCAGCGATTTCATGA 60.066 47.619 9.47 0.00 0.00 3.07
1926 4211 4.397103 TCTGCAGCGATTTCATGAGAAAAT 59.603 37.500 9.47 0.00 46.06 1.82
1950 4266 6.175712 AGACTCAAAATTCTTCAGCGATTC 57.824 37.500 0.00 0.00 0.00 2.52
2017 4372 1.963679 GCCATGTTTTCTTCGGCCA 59.036 52.632 2.24 0.00 36.73 5.36
2045 4400 1.150827 TCGTCTTGCTGCATCAGTTG 58.849 50.000 1.84 0.00 33.43 3.16
2058 4477 2.418368 TCAGTTGCTGACCACAAGTT 57.582 45.000 0.00 0.00 35.39 2.66
2093 4512 1.561076 TCAGATTGTCCACATCCCCAG 59.439 52.381 0.00 0.00 0.00 4.45
2139 4558 1.028868 GGCCACCAACTGCAGAGATC 61.029 60.000 23.35 2.27 0.00 2.75
2169 4588 1.409064 CGGCAACCAGACTGCTCTATA 59.591 52.381 0.00 0.00 39.82 1.31
2223 4711 7.435305 AGAGTAAATTTCGAGCTCCTAATACC 58.565 38.462 8.47 0.69 0.00 2.73
2224 4712 6.214399 AGTAAATTTCGAGCTCCTAATACCG 58.786 40.000 8.47 0.00 0.00 4.02
2232 4720 3.036091 AGCTCCTAATACCGGCTTTACA 58.964 45.455 0.00 0.00 0.00 2.41
2275 4763 2.364970 CAACCAGAGCAACCAATTCCAA 59.635 45.455 0.00 0.00 0.00 3.53
2309 4798 1.295423 CCCGGAAATGACAGACCGT 59.705 57.895 0.73 0.00 43.22 4.83
2326 4815 5.462398 CAGACCGTACAATAATTAGAGTGCC 59.538 44.000 0.00 0.00 0.00 5.01
2382 4871 9.003658 CAGAAATAGAACTACAACCTGACAAAT 57.996 33.333 0.00 0.00 0.00 2.32
2445 4934 2.139118 GTCTCTGGTGACTTTGTCTGC 58.861 52.381 0.00 0.00 34.39 4.26
2471 4963 9.871238 CATTTCTTATTGTACACACCTAGTAGT 57.129 33.333 0.00 0.00 0.00 2.73
2474 4966 9.745018 TTCTTATTGTACACACCTAGTAGTAGT 57.255 33.333 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.911155 GACGCTGAAGCAAACGCCG 62.911 63.158 2.79 0.00 42.21 6.46
1 2 2.127232 GACGCTGAAGCAAACGCC 60.127 61.111 2.79 0.00 42.21 5.68
2 3 2.497628 CGACGCTGAAGCAAACGC 60.498 61.111 2.79 0.00 42.21 4.84
3 4 2.170985 CCGACGCTGAAGCAAACG 59.829 61.111 2.79 4.73 42.21 3.60
4 5 2.127232 GCCGACGCTGAAGCAAAC 60.127 61.111 2.79 0.00 42.21 2.93
5 6 3.711842 CGCCGACGCTGAAGCAAA 61.712 61.111 2.79 0.00 42.21 3.68
20 21 4.143333 TACCTCCAAGCTCCGCGC 62.143 66.667 0.00 0.00 39.57 6.86
21 22 2.105128 CTACCTCCAAGCTCCGCG 59.895 66.667 0.00 0.00 0.00 6.46
22 23 1.142097 GACTACCTCCAAGCTCCGC 59.858 63.158 0.00 0.00 0.00 5.54
23 24 1.817209 GGACTACCTCCAAGCTCCG 59.183 63.158 0.00 0.00 39.21 4.63
31 32 0.683504 TCCGCTCTTGGACTACCTCC 60.684 60.000 0.00 0.00 39.97 4.30
32 33 1.067821 CATCCGCTCTTGGACTACCTC 59.932 57.143 0.00 0.00 41.85 3.85
33 34 1.115467 CATCCGCTCTTGGACTACCT 58.885 55.000 0.00 0.00 41.85 3.08
34 35 0.530870 GCATCCGCTCTTGGACTACC 60.531 60.000 0.00 0.00 41.85 3.18
35 36 0.175760 TGCATCCGCTCTTGGACTAC 59.824 55.000 0.00 0.00 41.85 2.73
36 37 0.461548 CTGCATCCGCTCTTGGACTA 59.538 55.000 0.00 0.00 41.85 2.59
37 38 1.220206 CTGCATCCGCTCTTGGACT 59.780 57.895 0.00 0.00 41.85 3.85
38 39 0.179062 ATCTGCATCCGCTCTTGGAC 60.179 55.000 0.00 0.00 41.85 4.02
39 40 0.543277 AATCTGCATCCGCTCTTGGA 59.457 50.000 0.00 0.00 43.58 3.53
40 41 0.661552 CAATCTGCATCCGCTCTTGG 59.338 55.000 0.00 0.00 39.64 3.61
41 42 1.063616 CACAATCTGCATCCGCTCTTG 59.936 52.381 0.00 0.00 39.64 3.02
42 43 1.065926 TCACAATCTGCATCCGCTCTT 60.066 47.619 0.00 0.00 39.64 2.85
43 44 0.538584 TCACAATCTGCATCCGCTCT 59.461 50.000 0.00 0.00 39.64 4.09
44 45 1.530293 GATCACAATCTGCATCCGCTC 59.470 52.381 0.00 0.00 39.64 5.03
45 46 1.140452 AGATCACAATCTGCATCCGCT 59.860 47.619 0.00 0.00 40.84 5.52
46 47 1.590932 AGATCACAATCTGCATCCGC 58.409 50.000 0.00 0.00 40.84 5.54
54 55 2.099756 TCGTCGATGCAGATCACAATCT 59.900 45.455 0.00 0.00 43.24 2.40
55 56 2.217393 GTCGTCGATGCAGATCACAATC 59.783 50.000 0.00 0.00 0.00 2.67
56 57 2.196749 GTCGTCGATGCAGATCACAAT 58.803 47.619 0.00 0.00 0.00 2.71
57 58 1.067915 TGTCGTCGATGCAGATCACAA 60.068 47.619 0.00 0.00 0.00 3.33
58 59 0.525761 TGTCGTCGATGCAGATCACA 59.474 50.000 0.00 0.00 0.00 3.58
59 60 1.783711 GATGTCGTCGATGCAGATCAC 59.216 52.381 0.00 0.00 0.00 3.06
60 61 1.678101 AGATGTCGTCGATGCAGATCA 59.322 47.619 0.00 0.00 0.00 2.92
61 62 2.049959 CAGATGTCGTCGATGCAGATC 58.950 52.381 0.00 3.35 0.00 2.75
62 63 1.269465 CCAGATGTCGTCGATGCAGAT 60.269 52.381 0.00 0.00 0.00 2.90
63 64 0.101219 CCAGATGTCGTCGATGCAGA 59.899 55.000 0.00 0.00 0.00 4.26
64 65 0.101219 TCCAGATGTCGTCGATGCAG 59.899 55.000 0.00 0.00 0.00 4.41
65 66 0.530288 TTCCAGATGTCGTCGATGCA 59.470 50.000 0.00 1.91 0.00 3.96
66 67 1.202302 TCTTCCAGATGTCGTCGATGC 60.202 52.381 0.00 0.00 0.00 3.91
67 68 2.455032 GTCTTCCAGATGTCGTCGATG 58.545 52.381 0.00 0.00 0.00 3.84
68 69 1.064208 CGTCTTCCAGATGTCGTCGAT 59.936 52.381 0.00 0.00 0.00 3.59
69 70 0.446616 CGTCTTCCAGATGTCGTCGA 59.553 55.000 0.00 0.00 0.00 4.20
70 71 0.523546 CCGTCTTCCAGATGTCGTCG 60.524 60.000 0.00 0.00 29.27 5.12
71 72 0.809385 TCCGTCTTCCAGATGTCGTC 59.191 55.000 0.00 0.00 29.27 4.20
72 73 1.067776 GTTCCGTCTTCCAGATGTCGT 60.068 52.381 0.00 0.00 29.27 4.34
73 74 1.630148 GTTCCGTCTTCCAGATGTCG 58.370 55.000 0.00 0.00 29.27 4.35
74 75 1.067776 ACGTTCCGTCTTCCAGATGTC 60.068 52.381 0.00 0.00 33.69 3.06
75 76 0.966920 ACGTTCCGTCTTCCAGATGT 59.033 50.000 0.00 0.00 33.69 3.06
76 77 1.336887 ACACGTTCCGTCTTCCAGATG 60.337 52.381 0.00 0.00 38.32 2.90
77 78 0.966920 ACACGTTCCGTCTTCCAGAT 59.033 50.000 0.00 0.00 38.32 2.90
78 79 0.031585 CACACGTTCCGTCTTCCAGA 59.968 55.000 0.00 0.00 38.32 3.86
79 80 0.249322 ACACACGTTCCGTCTTCCAG 60.249 55.000 0.00 0.00 38.32 3.86
80 81 0.176219 AACACACGTTCCGTCTTCCA 59.824 50.000 0.00 0.00 38.32 3.53
81 82 0.580104 CAACACACGTTCCGTCTTCC 59.420 55.000 0.00 0.00 38.32 3.46
82 83 0.580104 CCAACACACGTTCCGTCTTC 59.420 55.000 0.00 0.00 38.32 2.87
83 84 0.812412 CCCAACACACGTTCCGTCTT 60.812 55.000 0.00 0.00 38.32 3.01
84 85 1.227438 CCCAACACACGTTCCGTCT 60.227 57.895 0.00 0.00 38.32 4.18
85 86 1.091197 AACCCAACACACGTTCCGTC 61.091 55.000 0.00 0.00 38.32 4.79
86 87 1.078285 AACCCAACACACGTTCCGT 60.078 52.632 0.00 0.00 42.36 4.69
87 88 1.644913 GAACCCAACACACGTTCCG 59.355 57.895 0.00 0.00 31.13 4.30
88 89 1.091197 ACGAACCCAACACACGTTCC 61.091 55.000 0.00 0.00 33.81 3.62
89 90 0.027063 CACGAACCCAACACACGTTC 59.973 55.000 0.00 0.00 35.05 3.95
90 91 1.370587 CCACGAACCCAACACACGTT 61.371 55.000 0.00 0.00 35.05 3.99
91 92 1.816259 CCACGAACCCAACACACGT 60.816 57.895 0.00 0.00 37.68 4.49
92 93 1.370587 AACCACGAACCCAACACACG 61.371 55.000 0.00 0.00 0.00 4.49
93 94 0.812549 AAACCACGAACCCAACACAC 59.187 50.000 0.00 0.00 0.00 3.82
94 95 0.811915 CAAACCACGAACCCAACACA 59.188 50.000 0.00 0.00 0.00 3.72
95 96 0.812549 ACAAACCACGAACCCAACAC 59.187 50.000 0.00 0.00 0.00 3.32
96 97 0.811915 CACAAACCACGAACCCAACA 59.188 50.000 0.00 0.00 0.00 3.33
97 98 0.101579 CCACAAACCACGAACCCAAC 59.898 55.000 0.00 0.00 0.00 3.77
98 99 0.034380 TCCACAAACCACGAACCCAA 60.034 50.000 0.00 0.00 0.00 4.12
99 100 0.183971 ATCCACAAACCACGAACCCA 59.816 50.000 0.00 0.00 0.00 4.51
100 101 0.596082 CATCCACAAACCACGAACCC 59.404 55.000 0.00 0.00 0.00 4.11
101 102 1.265905 GTCATCCACAAACCACGAACC 59.734 52.381 0.00 0.00 0.00 3.62
102 103 1.944024 TGTCATCCACAAACCACGAAC 59.056 47.619 0.00 0.00 29.30 3.95
103 104 2.333688 TGTCATCCACAAACCACGAA 57.666 45.000 0.00 0.00 29.30 3.85
104 105 2.150390 CATGTCATCCACAAACCACGA 58.850 47.619 0.00 0.00 38.97 4.35
105 106 1.879380 ACATGTCATCCACAAACCACG 59.121 47.619 0.00 0.00 38.97 4.94
106 107 4.142403 CCATACATGTCATCCACAAACCAC 60.142 45.833 0.00 0.00 38.97 4.16
107 108 4.015764 CCATACATGTCATCCACAAACCA 58.984 43.478 0.00 0.00 38.97 3.67
108 109 4.016444 ACCATACATGTCATCCACAAACC 58.984 43.478 0.00 0.00 38.97 3.27
109 110 5.643379 AACCATACATGTCATCCACAAAC 57.357 39.130 0.00 0.00 38.97 2.93
110 111 5.184864 GGAAACCATACATGTCATCCACAAA 59.815 40.000 0.00 0.00 38.97 2.83
111 112 4.704540 GGAAACCATACATGTCATCCACAA 59.295 41.667 0.00 0.00 38.97 3.33
112 113 4.018506 AGGAAACCATACATGTCATCCACA 60.019 41.667 0.00 0.00 40.18 4.17
113 114 4.526970 AGGAAACCATACATGTCATCCAC 58.473 43.478 0.00 0.00 0.00 4.02
114 115 4.227073 TGAGGAAACCATACATGTCATCCA 59.773 41.667 0.00 0.00 0.00 3.41
115 116 4.780815 TGAGGAAACCATACATGTCATCC 58.219 43.478 0.00 2.60 0.00 3.51
116 117 6.293081 CGAATGAGGAAACCATACATGTCATC 60.293 42.308 0.00 0.00 0.00 2.92
117 118 5.528690 CGAATGAGGAAACCATACATGTCAT 59.471 40.000 0.00 0.00 0.00 3.06
118 119 4.875536 CGAATGAGGAAACCATACATGTCA 59.124 41.667 0.00 0.00 0.00 3.58
119 120 5.006746 GTCGAATGAGGAAACCATACATGTC 59.993 44.000 0.00 0.00 0.00 3.06
120 121 4.876107 GTCGAATGAGGAAACCATACATGT 59.124 41.667 2.69 2.69 0.00 3.21
121 122 4.025730 CGTCGAATGAGGAAACCATACATG 60.026 45.833 0.00 0.00 31.63 3.21
122 123 4.119862 CGTCGAATGAGGAAACCATACAT 58.880 43.478 0.00 0.00 31.63 2.29
123 124 3.056393 ACGTCGAATGAGGAAACCATACA 60.056 43.478 0.00 0.00 34.17 2.29
124 125 3.518590 ACGTCGAATGAGGAAACCATAC 58.481 45.455 0.00 0.00 34.17 2.39
125 126 3.880047 ACGTCGAATGAGGAAACCATA 57.120 42.857 0.00 0.00 34.17 2.74
126 127 2.762535 ACGTCGAATGAGGAAACCAT 57.237 45.000 0.00 0.00 34.17 3.55
127 128 2.536761 AACGTCGAATGAGGAAACCA 57.463 45.000 0.00 0.00 34.17 3.67
128 129 3.891056 AAAACGTCGAATGAGGAAACC 57.109 42.857 0.00 0.00 34.17 3.27
129 130 5.587033 ACTAAAACGTCGAATGAGGAAAC 57.413 39.130 0.00 0.00 34.17 2.78
130 131 5.524646 ACAACTAAAACGTCGAATGAGGAAA 59.475 36.000 0.00 0.00 34.17 3.13
131 132 5.050634 CACAACTAAAACGTCGAATGAGGAA 60.051 40.000 0.00 0.00 34.17 3.36
132 133 4.446385 CACAACTAAAACGTCGAATGAGGA 59.554 41.667 0.00 0.00 34.17 3.71
133 134 4.377022 CCACAACTAAAACGTCGAATGAGG 60.377 45.833 0.00 0.00 36.10 3.86
134 135 4.210537 ACCACAACTAAAACGTCGAATGAG 59.789 41.667 0.00 0.00 0.00 2.90
135 136 4.025563 CACCACAACTAAAACGTCGAATGA 60.026 41.667 0.00 0.00 0.00 2.57
136 137 4.208355 CACCACAACTAAAACGTCGAATG 58.792 43.478 0.00 0.00 0.00 2.67
137 138 3.249080 CCACCACAACTAAAACGTCGAAT 59.751 43.478 0.00 0.00 0.00 3.34
138 139 2.608546 CCACCACAACTAAAACGTCGAA 59.391 45.455 0.00 0.00 0.00 3.71
139 140 2.203401 CCACCACAACTAAAACGTCGA 58.797 47.619 0.00 0.00 0.00 4.20
140 141 1.262151 CCCACCACAACTAAAACGTCG 59.738 52.381 0.00 0.00 0.00 5.12
141 142 1.605232 CCCCACCACAACTAAAACGTC 59.395 52.381 0.00 0.00 0.00 4.34
142 143 1.064537 ACCCCACCACAACTAAAACGT 60.065 47.619 0.00 0.00 0.00 3.99
143 144 1.335496 CACCCCACCACAACTAAAACG 59.665 52.381 0.00 0.00 0.00 3.60
144 145 1.067974 GCACCCCACCACAACTAAAAC 59.932 52.381 0.00 0.00 0.00 2.43
145 146 1.404843 GCACCCCACCACAACTAAAA 58.595 50.000 0.00 0.00 0.00 1.52
146 147 0.468400 GGCACCCCACCACAACTAAA 60.468 55.000 0.00 0.00 0.00 1.85
147 148 1.151908 GGCACCCCACCACAACTAA 59.848 57.895 0.00 0.00 0.00 2.24
148 149 2.063015 CTGGCACCCCACCACAACTA 62.063 60.000 0.00 0.00 35.79 2.24
149 150 3.425014 TGGCACCCCACCACAACT 61.425 61.111 0.00 0.00 35.79 3.16
150 151 2.713531 ATCTGGCACCCCACCACAAC 62.714 60.000 0.00 0.00 35.79 3.32
151 152 2.424842 GATCTGGCACCCCACCACAA 62.425 60.000 0.00 0.00 35.79 3.33
152 153 2.858476 ATCTGGCACCCCACCACA 60.858 61.111 0.00 0.00 35.79 4.17
153 154 2.044946 GATCTGGCACCCCACCAC 60.045 66.667 0.00 0.00 35.79 4.16
154 155 2.204136 AGATCTGGCACCCCACCA 60.204 61.111 0.00 0.00 35.79 4.17
155 156 2.273449 CAGATCTGGCACCCCACC 59.727 66.667 15.38 0.00 35.79 4.61
156 157 2.273449 CCAGATCTGGCACCCCAC 59.727 66.667 28.45 0.00 44.73 4.61
165 166 1.863267 GCCATCGAACTCCAGATCTG 58.137 55.000 16.24 16.24 0.00 2.90
166 167 0.387202 CGCCATCGAACTCCAGATCT 59.613 55.000 0.00 0.00 38.10 2.75
167 168 0.103208 ACGCCATCGAACTCCAGATC 59.897 55.000 0.00 0.00 39.41 2.75
168 169 0.179100 CACGCCATCGAACTCCAGAT 60.179 55.000 0.00 0.00 39.41 2.90
169 170 1.215382 CACGCCATCGAACTCCAGA 59.785 57.895 0.00 0.00 39.41 3.86
170 171 1.078759 GACACGCCATCGAACTCCAG 61.079 60.000 0.00 0.00 39.41 3.86
171 172 1.080093 GACACGCCATCGAACTCCA 60.080 57.895 0.00 0.00 39.41 3.86
172 173 1.078759 CAGACACGCCATCGAACTCC 61.079 60.000 0.00 0.00 39.41 3.85
173 174 1.078759 CCAGACACGCCATCGAACTC 61.079 60.000 0.00 0.00 39.41 3.01
174 175 1.079819 CCAGACACGCCATCGAACT 60.080 57.895 0.00 0.00 39.41 3.01
175 176 2.100631 CCCAGACACGCCATCGAAC 61.101 63.158 0.00 0.00 39.41 3.95
176 177 2.264480 CCCAGACACGCCATCGAA 59.736 61.111 0.00 0.00 39.41 3.71
177 178 2.678580 TCCCAGACACGCCATCGA 60.679 61.111 0.00 0.00 39.41 3.59
178 179 2.509336 GTCCCAGACACGCCATCG 60.509 66.667 0.00 0.00 42.43 3.84
179 180 2.509336 CGTCCCAGACACGCCATC 60.509 66.667 0.00 0.00 32.09 3.51
180 181 2.879233 AACGTCCCAGACACGCCAT 61.879 57.895 0.00 0.00 41.10 4.40
181 182 3.542676 AACGTCCCAGACACGCCA 61.543 61.111 0.00 0.00 41.10 5.69
182 183 3.041940 CAACGTCCCAGACACGCC 61.042 66.667 0.00 0.00 41.10 5.68
183 184 3.712881 GCAACGTCCCAGACACGC 61.713 66.667 0.00 0.00 41.10 5.34
184 185 3.041940 GGCAACGTCCCAGACACG 61.042 66.667 0.00 0.00 43.13 4.49
185 186 2.668550 GGGCAACGTCCCAGACAC 60.669 66.667 7.44 0.00 45.82 3.67
191 192 3.637273 AGACCAGGGCAACGTCCC 61.637 66.667 4.09 4.09 46.93 4.46
192 193 2.185310 ATCAGACCAGGGCAACGTCC 62.185 60.000 0.00 0.00 37.60 4.79
193 194 0.321653 AATCAGACCAGGGCAACGTC 60.322 55.000 0.00 0.00 37.60 4.34
194 195 0.321653 GAATCAGACCAGGGCAACGT 60.322 55.000 0.00 0.00 37.60 3.99
195 196 1.361668 CGAATCAGACCAGGGCAACG 61.362 60.000 0.00 0.00 37.60 4.10
196 197 0.321653 ACGAATCAGACCAGGGCAAC 60.322 55.000 0.00 0.00 0.00 4.17
197 198 0.400213 AACGAATCAGACCAGGGCAA 59.600 50.000 0.00 0.00 0.00 4.52
198 199 0.036388 GAACGAATCAGACCAGGGCA 60.036 55.000 0.00 0.00 0.00 5.36
199 200 0.036388 TGAACGAATCAGACCAGGGC 60.036 55.000 0.00 0.00 33.04 5.19
200 201 2.076863 GTTGAACGAATCAGACCAGGG 58.923 52.381 0.00 0.00 39.77 4.45
201 202 1.726791 CGTTGAACGAATCAGACCAGG 59.273 52.381 13.13 0.00 46.05 4.45
202 203 1.726791 CCGTTGAACGAATCAGACCAG 59.273 52.381 20.47 0.00 46.05 4.00
203 204 1.790755 CCGTTGAACGAATCAGACCA 58.209 50.000 20.47 0.00 46.05 4.02
242 243 0.182775 ACGGACTTCCAAACTGGCTT 59.817 50.000 0.00 0.00 37.47 4.35
248 249 2.350484 GCAGCTTTACGGACTTCCAAAC 60.350 50.000 0.00 0.00 35.14 2.93
249 250 1.877443 GCAGCTTTACGGACTTCCAAA 59.123 47.619 0.00 0.00 35.14 3.28
251 252 0.394938 TGCAGCTTTACGGACTTCCA 59.605 50.000 0.00 0.00 35.14 3.53
252 253 1.739067 ATGCAGCTTTACGGACTTCC 58.261 50.000 0.00 0.00 0.00 3.46
255 256 3.722147 CTGATATGCAGCTTTACGGACT 58.278 45.455 0.00 0.00 37.90 3.85
289 290 1.652012 CTCCTCATCCGAGCTCGAC 59.348 63.158 36.59 0.00 43.02 4.20
304 305 5.728637 AAAAGGAATGACAAATCACCTCC 57.271 39.130 0.00 0.00 39.21 4.30
326 327 2.419673 CACCATCATAGCAGCGACAAAA 59.580 45.455 0.00 0.00 0.00 2.44
330 331 1.502163 GGCACCATCATAGCAGCGAC 61.502 60.000 0.00 0.00 0.00 5.19
331 332 1.227645 GGCACCATCATAGCAGCGA 60.228 57.895 0.00 0.00 0.00 4.93
332 333 2.601398 CGGCACCATCATAGCAGCG 61.601 63.158 0.00 0.00 0.00 5.18
350 357 4.864334 CGCCCATCACCTGCCTCC 62.864 72.222 0.00 0.00 0.00 4.30
356 363 1.750399 GCATCAACGCCCATCACCT 60.750 57.895 0.00 0.00 0.00 4.00
371 378 4.197750 CAGAACATCTCTAAGCTTGGCAT 58.802 43.478 9.86 0.00 31.12 4.40
374 381 3.871485 AGCAGAACATCTCTAAGCTTGG 58.129 45.455 9.86 6.29 31.04 3.61
381 388 5.394224 CGGAAAAGGTAGCAGAACATCTCTA 60.394 44.000 0.00 0.00 31.12 2.43
397 404 3.296628 CGACATGACAAAACGGAAAAGG 58.703 45.455 0.00 0.00 0.00 3.11
404 411 3.602390 AAAGACCGACATGACAAAACG 57.398 42.857 0.00 0.00 0.00 3.60
635 652 1.409412 CTCGTCACAAGTTCTCGGTG 58.591 55.000 0.00 0.00 0.00 4.94
676 698 1.228245 GCCCACCAACTGAGCAAGA 60.228 57.895 0.00 0.00 0.00 3.02
760 815 1.555967 GAGCAGAGAACCAGAGGACT 58.444 55.000 0.00 0.00 0.00 3.85
871 946 2.978010 CAGTTGGCGTGGGTGTCC 60.978 66.667 0.00 0.00 0.00 4.02
962 1062 3.281727 TGGCAGATGTTCCCTATCAAC 57.718 47.619 0.00 0.00 0.00 3.18
1037 1155 4.568152 AAGCTAAACAAAGCAACACGAT 57.432 36.364 0.00 0.00 45.30 3.73
1077 1214 6.039382 TCGTATGCTTCAGCTTCAGAGTAATA 59.961 38.462 0.00 0.00 42.66 0.98
1495 1734 7.921214 TGGCAAAATTAAAGTACGTCAAAATCA 59.079 29.630 0.00 0.00 0.00 2.57
1537 1784 0.109964 AATAAACACGCGCGCATGTT 60.110 45.000 36.40 36.40 40.76 2.71
1561 1808 7.158697 TCTCGTCTTGTTCATTTCCTTCAATA 58.841 34.615 0.00 0.00 0.00 1.90
1619 1870 3.364621 CGATTTCAAACTGGAAATTGCCG 59.635 43.478 0.00 0.00 45.05 5.69
1622 1873 5.691305 TGCTTCGATTTCAAACTGGAAATTG 59.309 36.000 8.80 8.80 45.05 2.32
1644 1895 7.658982 TGAGAACTGAGATTCATATAACCATGC 59.341 37.037 0.00 0.00 0.00 4.06
1672 1941 1.490621 CTTCACCAAAAAGCAAGCGG 58.509 50.000 0.00 0.00 0.00 5.52
1682 1951 2.763448 CCAAACCTTCACCTTCACCAAA 59.237 45.455 0.00 0.00 0.00 3.28
1711 3919 1.474855 CCATACACATCGGGCACATGA 60.475 52.381 0.00 0.00 0.00 3.07
1729 3937 3.625897 CGCCCTCACCAGTCACCA 61.626 66.667 0.00 0.00 0.00 4.17
1744 3952 1.743252 CTCCTGTTTGGCTCCTCGC 60.743 63.158 0.00 0.00 35.26 5.03
1762 3970 3.036633 CACATGACGTACTATCGTGCTC 58.963 50.000 13.39 0.00 44.21 4.26
1780 4006 3.476552 CTGTCCTACCTTTTCTTGCACA 58.523 45.455 0.00 0.00 0.00 4.57
1800 4026 1.167851 CATTCGTCACAATGTGGGCT 58.832 50.000 13.95 0.00 33.87 5.19
1801 4027 0.456653 GCATTCGTCACAATGTGGGC 60.457 55.000 13.95 6.20 36.32 5.36
1820 4066 9.987272 TTATTAGCCGATCATATGATTAGATGG 57.013 33.333 19.11 15.57 34.37 3.51
1868 4124 0.471211 TTTGACCCTCTCCAGACCGT 60.471 55.000 0.00 0.00 0.00 4.83
1874 4130 5.779241 ACTATGATTTTTGACCCTCTCCA 57.221 39.130 0.00 0.00 0.00 3.86
1875 4131 6.659242 TGAAACTATGATTTTTGACCCTCTCC 59.341 38.462 0.00 0.00 0.00 3.71
1878 4134 6.434340 ACCTGAAACTATGATTTTTGACCCTC 59.566 38.462 0.00 0.00 0.00 4.30
1880 4136 6.434340 AGACCTGAAACTATGATTTTTGACCC 59.566 38.462 0.00 0.00 0.00 4.46
1881 4137 7.308435 CAGACCTGAAACTATGATTTTTGACC 58.692 38.462 0.00 0.00 0.00 4.02
1889 4164 3.539604 GCTGCAGACCTGAAACTATGAT 58.460 45.455 20.43 0.00 0.00 2.45
1919 4194 9.553418 GCTGAAGAATTTTGAGTCTATTTTCTC 57.447 33.333 0.00 0.00 0.00 2.87
1920 4195 8.233190 CGCTGAAGAATTTTGAGTCTATTTTCT 58.767 33.333 0.00 0.00 0.00 2.52
1926 4211 6.313905 GGAATCGCTGAAGAATTTTGAGTCTA 59.686 38.462 0.00 0.00 0.00 2.59
2002 4318 1.995376 AACCTGGCCGAAGAAAACAT 58.005 45.000 0.00 0.00 0.00 2.71
2003 4319 1.770294 AAACCTGGCCGAAGAAAACA 58.230 45.000 0.00 0.00 0.00 2.83
2017 4372 1.604278 GCAGCAAGACGAAGAAAACCT 59.396 47.619 0.00 0.00 0.00 3.50
2045 4400 2.289002 CAGTCTTGAACTTGTGGTCAGC 59.711 50.000 0.00 0.00 35.45 4.26
2046 4401 3.535561 ACAGTCTTGAACTTGTGGTCAG 58.464 45.455 0.00 0.00 35.45 3.51
2049 4404 3.016736 CCAACAGTCTTGAACTTGTGGT 58.983 45.455 0.00 0.00 35.45 4.16
2050 4405 2.223572 GCCAACAGTCTTGAACTTGTGG 60.224 50.000 0.00 0.00 40.30 4.17
2051 4406 2.423185 TGCCAACAGTCTTGAACTTGTG 59.577 45.455 0.00 0.00 35.45 3.33
2052 4407 2.722094 TGCCAACAGTCTTGAACTTGT 58.278 42.857 0.00 0.00 35.45 3.16
2053 4408 3.316029 TGATGCCAACAGTCTTGAACTTG 59.684 43.478 0.00 0.00 35.45 3.16
2058 4477 3.708403 ATCTGATGCCAACAGTCTTGA 57.292 42.857 1.68 0.00 36.81 3.02
2169 4588 4.580580 GCAAACATTCCTAAATCCCGATCT 59.419 41.667 0.00 0.00 0.00 2.75
2206 4694 1.068127 GCCGGTATTAGGAGCTCGAAA 59.932 52.381 7.83 4.67 0.00 3.46
2223 4711 5.873179 TTTCCAACTATTCTGTAAAGCCG 57.127 39.130 0.00 0.00 0.00 5.52
2224 4712 6.377146 TGGATTTCCAACTATTCTGTAAAGCC 59.623 38.462 0.00 0.00 44.35 4.35
2275 4763 2.775384 TCCGGGCTCCTATATTGTGTTT 59.225 45.455 0.00 0.00 0.00 2.83
2309 4798 4.760878 TGCGTGGCACTCTAATTATTGTA 58.239 39.130 16.72 0.00 31.71 2.41
2382 4871 6.042093 ACAGTCTGACTCTTCTCATGGTTAAA 59.958 38.462 7.49 0.00 0.00 1.52
2445 4934 9.871238 ACTACTAGGTGTGTACAATAAGAAATG 57.129 33.333 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.