Multiple sequence alignment - TraesCS7D01G123200

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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 TraesCS7D01G123200 chr7D 100.000 2837 0 0 1 2837 76970566 76973402 0.000000e+00 5240.0
1 TraesCS7D01G123200 chr7D 96.621 1095 27 1 1753 2837 568394107 568395201 0.000000e+00 1808.0
2 TraesCS7D01G123200 chr7D 85.982 1120 117 21 671 1752 76929762 76930879 0.000000e+00 1162.0
3 TraesCS7D01G123200 chr7D 83.245 1128 161 17 650 1752 76635999 76634875 0.000000e+00 1011.0
4 TraesCS7D01G123200 chr7D 81.947 1130 171 11 655 1752 76625350 76624222 0.000000e+00 926.0
5 TraesCS7D01G123200 chr7D 82.843 1020 145 12 548 1541 76947187 76948202 0.000000e+00 887.0
6 TraesCS7D01G123200 chr7D 84.170 916 116 10 650 1544 76919202 76920109 0.000000e+00 861.0
7 TraesCS7D01G123200 chr7D 82.988 917 114 14 650 1544 76954473 76955369 0.000000e+00 791.0
8 TraesCS7D01G123200 chr7D 82.876 911 113 21 671 1542 76784085 76784991 0.000000e+00 778.0
9 TraesCS7D01G123200 chr7D 81.759 614 78 14 802 1398 77038649 77039245 1.530000e-132 483.0
10 TraesCS7D01G123200 chr7D 87.845 181 20 2 1573 1752 7561874 7562053 7.960000e-51 211.0
11 TraesCS7D01G123200 chr7D 87.222 180 23 0 1573 1752 7549186 7549365 3.700000e-49 206.0
12 TraesCS7D01G123200 chr7D 100.000 47 0 0 119 165 6942676 6942722 1.400000e-13 87.9
13 TraesCS7D01G123200 chr2A 89.908 1090 72 9 1753 2832 470052286 470053347 0.000000e+00 1369.0
14 TraesCS7D01G123200 chr2A 89.172 314 33 1 1753 2066 18004406 18004094 9.530000e-105 390.0
15 TraesCS7D01G123200 chr2A 100.000 47 0 0 119 165 466395675 466395721 1.400000e-13 87.9
16 TraesCS7D01G123200 chr2A 94.872 39 2 0 2253 2291 25350546 25350508 8.490000e-06 62.1
17 TraesCS7D01G123200 chr7B 87.060 1221 114 18 350 1551 23581923 23583118 0.000000e+00 1339.0
18 TraesCS7D01G123200 chr7B 84.425 1130 146 16 650 1752 23524410 23525536 0.000000e+00 1085.0
19 TraesCS7D01G123200 chr7B 83.957 1122 136 21 671 1752 23516010 23517127 0.000000e+00 1035.0
20 TraesCS7D01G123200 chr7B 82.088 1245 161 17 548 1752 23933114 23934336 0.000000e+00 1007.0
21 TraesCS7D01G123200 chr7B 83.094 905 122 12 671 1544 23596621 23597525 0.000000e+00 795.0
22 TraesCS7D01G123200 chr7B 84.451 701 90 12 869 1551 23938644 23939343 0.000000e+00 673.0
23 TraesCS7D01G123200 chr7B 87.221 493 63 0 1059 1551 23636976 23637468 1.910000e-156 562.0
24 TraesCS7D01G123200 chr7B 100.000 47 0 0 119 165 531985672 531985626 1.400000e-13 87.9
25 TraesCS7D01G123200 chr5D 90.779 770 52 10 2071 2836 98668091 98667337 0.000000e+00 1011.0
26 TraesCS7D01G123200 chr5D 87.261 314 35 3 1753 2066 121074284 121073976 1.250000e-93 353.0
27 TraesCS7D01G123200 chr6B 88.861 395 36 2 2121 2507 632560390 632560784 1.980000e-131 479.0
28 TraesCS7D01G123200 chr6B 83.191 351 33 20 1 344 469297265 469296934 5.940000e-77 298.0
29 TraesCS7D01G123200 chr6B 83.129 326 42 5 2519 2831 61806495 61806820 4.630000e-73 285.0
30 TraesCS7D01G123200 chr6B 85.714 91 10 2 266 356 43242611 43242698 3.010000e-15 93.5
31 TraesCS7D01G123200 chr3A 86.458 384 32 9 2124 2507 412934610 412934247 1.220000e-108 403.0
32 TraesCS7D01G123200 chr3A 89.241 316 32 2 1752 2066 713995637 713995323 7.370000e-106 394.0
33 TraesCS7D01G123200 chr3A 88.644 317 30 6 1746 2060 23321986 23321674 5.740000e-102 381.0
34 TraesCS7D01G123200 chr3A 88.845 251 28 0 2257 2507 123291918 123292168 2.740000e-80 309.0
35 TraesCS7D01G123200 chr3A 88.827 179 20 0 2659 2837 23321086 23320908 1.320000e-53 220.0
36 TraesCS7D01G123200 chr3A 93.000 100 7 0 2121 2220 123291821 123291920 2.280000e-31 147.0
37 TraesCS7D01G123200 chr1A 89.172 314 33 1 1753 2066 12219440 12219128 9.530000e-105 390.0
38 TraesCS7D01G123200 chr1A 100.000 47 0 0 119 165 334068314 334068268 1.400000e-13 87.9
39 TraesCS7D01G123200 chr5A 88.312 308 30 6 1754 2060 563165675 563165373 5.780000e-97 364.0
40 TraesCS7D01G123200 chr5A 88.827 179 20 0 2659 2837 563100897 563100719 1.320000e-53 220.0
41 TraesCS7D01G123200 chr5A 88.827 179 20 0 2659 2837 563164776 563164598 1.320000e-53 220.0
42 TraesCS7D01G123200 chr3D 87.742 310 33 3 1751 2060 462045480 462045784 9.670000e-95 357.0
43 TraesCS7D01G123200 chr3D 88.845 251 27 1 2257 2507 15412607 15412856 9.870000e-80 307.0
44 TraesCS7D01G123200 chr3D 80.980 347 44 16 1 344 13806282 13806609 3.630000e-64 255.0
45 TraesCS7D01G123200 chr3D 92.000 100 8 0 2121 2220 15412510 15412609 1.060000e-29 141.0
46 TraesCS7D01G123200 chr3B 88.845 251 28 0 2257 2507 655317243 655317493 2.740000e-80 309.0
47 TraesCS7D01G123200 chr3B 92.000 100 8 0 2121 2220 655317146 655317245 1.060000e-29 141.0
48 TraesCS7D01G123200 chr1D 93.532 201 13 0 2636 2836 430066947 430067147 1.650000e-77 300.0
49 TraesCS7D01G123200 chr1D 93.500 200 13 0 2636 2835 442449994 442449795 5.940000e-77 298.0
50 TraesCS7D01G123200 chr1D 80.403 347 45 19 1 344 130305414 130305740 2.820000e-60 243.0
51 TraesCS7D01G123200 chr1D 78.841 345 45 19 5 342 425307486 425307163 1.030000e-49 207.0
52 TraesCS7D01G123200 chr2B 81.714 350 38 20 4 349 168653939 168653612 4.660000e-68 268.0
53 TraesCS7D01G123200 chr2B 79.656 349 46 17 1 345 448370878 448371205 7.910000e-56 228.0
54 TraesCS7D01G123200 chr2B 100.000 47 0 0 119 165 72428000 72428046 1.400000e-13 87.9
55 TraesCS7D01G123200 chr1B 80.882 340 47 15 5 343 217285770 217286092 4.690000e-63 252.0
56 TraesCS7D01G123200 chr1B 86.413 184 19 6 166 346 370953106 370953286 2.230000e-46 196.0
57 TraesCS7D01G123200 chr4A 80.781 333 46 13 2519 2836 719984044 719984373 7.850000e-61 244.0
58 TraesCS7D01G123200 chr4A 91.875 160 12 1 1594 1752 731616029 731615870 3.680000e-54 222.0
59 TraesCS7D01G123200 chr4A 100.000 47 0 0 119 165 67542701 67542655 1.400000e-13 87.9
60 TraesCS7D01G123200 chr4A 100.000 47 0 0 119 165 552096727 552096681 1.400000e-13 87.9
61 TraesCS7D01G123200 chr7A 91.195 159 11 2 1597 1752 8591021 8591179 2.210000e-51 213.0
62 TraesCS7D01G123200 chr4D 88.202 178 17 4 173 348 363574787 363574612 2.860000e-50 209.0
63 TraesCS7D01G123200 chr6D 100.000 47 0 0 119 165 458917744 458917698 1.400000e-13 87.9
64 TraesCS7D01G123200 chr2D 100.000 47 0 0 119 165 18022804 18022850 1.400000e-13 87.9


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G123200 chr7D 76970566 76973402 2836 False 5240.0 5240 100.0000 1 2837 1 chr7D.!!$F9 2836
1 TraesCS7D01G123200 chr7D 568394107 568395201 1094 False 1808.0 1808 96.6210 1753 2837 1 chr7D.!!$F11 1084
2 TraesCS7D01G123200 chr7D 76929762 76930879 1117 False 1162.0 1162 85.9820 671 1752 1 chr7D.!!$F6 1081
3 TraesCS7D01G123200 chr7D 76634875 76635999 1124 True 1011.0 1011 83.2450 650 1752 1 chr7D.!!$R2 1102
4 TraesCS7D01G123200 chr7D 76624222 76625350 1128 True 926.0 926 81.9470 655 1752 1 chr7D.!!$R1 1097
5 TraesCS7D01G123200 chr7D 76947187 76948202 1015 False 887.0 887 82.8430 548 1541 1 chr7D.!!$F7 993
6 TraesCS7D01G123200 chr7D 76919202 76920109 907 False 861.0 861 84.1700 650 1544 1 chr7D.!!$F5 894
7 TraesCS7D01G123200 chr7D 76954473 76955369 896 False 791.0 791 82.9880 650 1544 1 chr7D.!!$F8 894
8 TraesCS7D01G123200 chr7D 76784085 76784991 906 False 778.0 778 82.8760 671 1542 1 chr7D.!!$F4 871
9 TraesCS7D01G123200 chr7D 77038649 77039245 596 False 483.0 483 81.7590 802 1398 1 chr7D.!!$F10 596
10 TraesCS7D01G123200 chr2A 470052286 470053347 1061 False 1369.0 1369 89.9080 1753 2832 1 chr2A.!!$F2 1079
11 TraesCS7D01G123200 chr7B 23581923 23583118 1195 False 1339.0 1339 87.0600 350 1551 1 chr7B.!!$F3 1201
12 TraesCS7D01G123200 chr7B 23524410 23525536 1126 False 1085.0 1085 84.4250 650 1752 1 chr7B.!!$F2 1102
13 TraesCS7D01G123200 chr7B 23516010 23517127 1117 False 1035.0 1035 83.9570 671 1752 1 chr7B.!!$F1 1081
14 TraesCS7D01G123200 chr7B 23933114 23934336 1222 False 1007.0 1007 82.0880 548 1752 1 chr7B.!!$F6 1204
15 TraesCS7D01G123200 chr7B 23596621 23597525 904 False 795.0 795 83.0940 671 1544 1 chr7B.!!$F4 873
16 TraesCS7D01G123200 chr7B 23938644 23939343 699 False 673.0 673 84.4510 869 1551 1 chr7B.!!$F7 682
17 TraesCS7D01G123200 chr5D 98667337 98668091 754 True 1011.0 1011 90.7790 2071 2836 1 chr5D.!!$R1 765
18 TraesCS7D01G123200 chr3A 23320908 23321986 1078 True 300.5 381 88.7355 1746 2837 2 chr3A.!!$R3 1091
19 TraesCS7D01G123200 chr5A 563164598 563165675 1077 True 292.0 364 88.5695 1754 2837 2 chr5A.!!$R2 1083

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
335 336 0.025001 CCTTCACGCGACGCTTAATG 59.975 55.0 15.93 10.68 0.0 1.90 F
448 449 0.108615 AGCTATGCACTCACGGACAC 60.109 55.0 0.00 0.00 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1635 1733 1.202348 CTTTTCCGGCCAATGACTTCC 59.798 52.381 2.24 0.0 0.0 3.46 R
2049 2151 1.269309 GCAATAGACATCTCCGACGCT 60.269 52.381 0.00 0.0 0.0 5.07 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
40 41 2.282958 ACGGAGTCCTCGCTTCCA 60.283 61.111 7.77 0.00 29.74 3.53
41 42 1.682684 ACGGAGTCCTCGCTTCCAT 60.683 57.895 7.77 0.00 29.74 3.41
42 43 1.066587 CGGAGTCCTCGCTTCCATC 59.933 63.158 7.77 0.00 0.00 3.51
43 44 1.388065 CGGAGTCCTCGCTTCCATCT 61.388 60.000 7.77 0.00 0.00 2.90
44 45 1.693627 GGAGTCCTCGCTTCCATCTA 58.306 55.000 0.41 0.00 0.00 1.98
45 46 1.611491 GGAGTCCTCGCTTCCATCTAG 59.389 57.143 0.41 0.00 0.00 2.43
46 47 2.577700 GAGTCCTCGCTTCCATCTAGA 58.422 52.381 0.00 0.00 0.00 2.43
47 48 2.952978 GAGTCCTCGCTTCCATCTAGAA 59.047 50.000 0.00 0.00 0.00 2.10
48 49 3.366396 AGTCCTCGCTTCCATCTAGAAA 58.634 45.455 0.00 0.00 0.00 2.52
49 50 3.769844 AGTCCTCGCTTCCATCTAGAAAA 59.230 43.478 0.00 0.00 0.00 2.29
50 51 4.223032 AGTCCTCGCTTCCATCTAGAAAAA 59.777 41.667 0.00 0.00 0.00 1.94
51 52 4.330347 GTCCTCGCTTCCATCTAGAAAAAC 59.670 45.833 0.00 0.00 0.00 2.43
52 53 4.020573 TCCTCGCTTCCATCTAGAAAAACA 60.021 41.667 0.00 0.00 0.00 2.83
53 54 4.878397 CCTCGCTTCCATCTAGAAAAACAT 59.122 41.667 0.00 0.00 0.00 2.71
54 55 5.355350 CCTCGCTTCCATCTAGAAAAACATT 59.645 40.000 0.00 0.00 0.00 2.71
55 56 6.127897 CCTCGCTTCCATCTAGAAAAACATTT 60.128 38.462 0.00 0.00 0.00 2.32
56 57 7.065803 CCTCGCTTCCATCTAGAAAAACATTTA 59.934 37.037 0.00 0.00 0.00 1.40
57 58 8.330466 TCGCTTCCATCTAGAAAAACATTTAA 57.670 30.769 0.00 0.00 0.00 1.52
58 59 8.788806 TCGCTTCCATCTAGAAAAACATTTAAA 58.211 29.630 0.00 0.00 0.00 1.52
59 60 9.405587 CGCTTCCATCTAGAAAAACATTTAAAA 57.594 29.630 0.00 0.00 0.00 1.52
85 86 8.491045 AAAAATCCTCACCTCCATTTAGAAAA 57.509 30.769 0.00 0.00 0.00 2.29
86 87 8.491045 AAAATCCTCACCTCCATTTAGAAAAA 57.509 30.769 0.00 0.00 0.00 1.94
87 88 7.709149 AATCCTCACCTCCATTTAGAAAAAG 57.291 36.000 0.00 0.00 0.00 2.27
88 89 6.448369 TCCTCACCTCCATTTAGAAAAAGA 57.552 37.500 0.00 0.00 0.00 2.52
89 90 6.848069 TCCTCACCTCCATTTAGAAAAAGAA 58.152 36.000 0.00 0.00 0.00 2.52
90 91 6.942576 TCCTCACCTCCATTTAGAAAAAGAAG 59.057 38.462 0.00 0.00 0.00 2.85
91 92 6.717084 CCTCACCTCCATTTAGAAAAAGAAGT 59.283 38.462 0.00 0.00 0.00 3.01
92 93 7.883311 CCTCACCTCCATTTAGAAAAAGAAGTA 59.117 37.037 0.00 0.00 0.00 2.24
93 94 9.284968 CTCACCTCCATTTAGAAAAAGAAGTAA 57.715 33.333 0.00 0.00 0.00 2.24
94 95 9.635404 TCACCTCCATTTAGAAAAAGAAGTAAA 57.365 29.630 0.00 0.00 0.00 2.01
131 132 9.768662 AAAATCATCAACATAAAAGCAAACTCT 57.231 25.926 0.00 0.00 0.00 3.24
132 133 8.976986 AATCATCAACATAAAAGCAAACTCTC 57.023 30.769 0.00 0.00 0.00 3.20
133 134 6.913170 TCATCAACATAAAAGCAAACTCTCC 58.087 36.000 0.00 0.00 0.00 3.71
134 135 6.489700 TCATCAACATAAAAGCAAACTCTCCA 59.510 34.615 0.00 0.00 0.00 3.86
135 136 6.707440 TCAACATAAAAGCAAACTCTCCAA 57.293 33.333 0.00 0.00 0.00 3.53
136 137 7.106439 TCAACATAAAAGCAAACTCTCCAAA 57.894 32.000 0.00 0.00 0.00 3.28
137 138 7.725251 TCAACATAAAAGCAAACTCTCCAAAT 58.275 30.769 0.00 0.00 0.00 2.32
138 139 8.203485 TCAACATAAAAGCAAACTCTCCAAATT 58.797 29.630 0.00 0.00 0.00 1.82
139 140 8.829612 CAACATAAAAGCAAACTCTCCAAATTT 58.170 29.630 0.00 0.00 0.00 1.82
144 145 8.593492 AAAAGCAAACTCTCCAAATTTATGAC 57.407 30.769 0.00 0.00 0.00 3.06
145 146 6.272822 AGCAAACTCTCCAAATTTATGACC 57.727 37.500 0.00 0.00 0.00 4.02
146 147 5.774690 AGCAAACTCTCCAAATTTATGACCA 59.225 36.000 0.00 0.00 0.00 4.02
147 148 6.267471 AGCAAACTCTCCAAATTTATGACCAA 59.733 34.615 0.00 0.00 0.00 3.67
148 149 6.366061 GCAAACTCTCCAAATTTATGACCAAC 59.634 38.462 0.00 0.00 0.00 3.77
149 150 6.590234 AACTCTCCAAATTTATGACCAACC 57.410 37.500 0.00 0.00 0.00 3.77
150 151 5.892348 ACTCTCCAAATTTATGACCAACCT 58.108 37.500 0.00 0.00 0.00 3.50
151 152 6.314917 ACTCTCCAAATTTATGACCAACCTT 58.685 36.000 0.00 0.00 0.00 3.50
152 153 6.782494 ACTCTCCAAATTTATGACCAACCTTT 59.218 34.615 0.00 0.00 0.00 3.11
153 154 7.039714 ACTCTCCAAATTTATGACCAACCTTTC 60.040 37.037 0.00 0.00 0.00 2.62
154 155 6.210584 TCTCCAAATTTATGACCAACCTTTCC 59.789 38.462 0.00 0.00 0.00 3.13
155 156 6.081356 TCCAAATTTATGACCAACCTTTCCT 58.919 36.000 0.00 0.00 0.00 3.36
156 157 6.556874 TCCAAATTTATGACCAACCTTTCCTT 59.443 34.615 0.00 0.00 0.00 3.36
157 158 6.873605 CCAAATTTATGACCAACCTTTCCTTC 59.126 38.462 0.00 0.00 0.00 3.46
158 159 7.441017 CAAATTTATGACCAACCTTTCCTTCA 58.559 34.615 0.00 0.00 0.00 3.02
159 160 6.840780 ATTTATGACCAACCTTTCCTTCAG 57.159 37.500 0.00 0.00 0.00 3.02
160 161 3.884037 ATGACCAACCTTTCCTTCAGT 57.116 42.857 0.00 0.00 0.00 3.41
161 162 2.930950 TGACCAACCTTTCCTTCAGTG 58.069 47.619 0.00 0.00 0.00 3.66
162 163 2.507886 TGACCAACCTTTCCTTCAGTGA 59.492 45.455 0.00 0.00 0.00 3.41
163 164 3.138283 TGACCAACCTTTCCTTCAGTGAT 59.862 43.478 0.00 0.00 0.00 3.06
164 165 3.753797 GACCAACCTTTCCTTCAGTGATC 59.246 47.826 0.00 0.00 0.00 2.92
165 166 3.084786 CCAACCTTTCCTTCAGTGATCC 58.915 50.000 0.00 0.00 0.00 3.36
166 167 3.084786 CAACCTTTCCTTCAGTGATCCC 58.915 50.000 0.00 0.00 0.00 3.85
167 168 1.636003 ACCTTTCCTTCAGTGATCCCC 59.364 52.381 0.00 0.00 0.00 4.81
168 169 1.918957 CCTTTCCTTCAGTGATCCCCT 59.081 52.381 0.00 0.00 0.00 4.79
169 170 2.310052 CCTTTCCTTCAGTGATCCCCTT 59.690 50.000 0.00 0.00 0.00 3.95
170 171 3.615155 CTTTCCTTCAGTGATCCCCTTC 58.385 50.000 0.00 0.00 0.00 3.46
171 172 2.342406 TCCTTCAGTGATCCCCTTCA 57.658 50.000 0.00 0.00 0.00 3.02
172 173 2.850833 TCCTTCAGTGATCCCCTTCAT 58.149 47.619 0.00 0.00 0.00 2.57
173 174 3.192944 TCCTTCAGTGATCCCCTTCATT 58.807 45.455 0.00 0.00 0.00 2.57
174 175 3.593328 TCCTTCAGTGATCCCCTTCATTT 59.407 43.478 0.00 0.00 0.00 2.32
175 176 4.788075 TCCTTCAGTGATCCCCTTCATTTA 59.212 41.667 0.00 0.00 0.00 1.40
176 177 5.252863 TCCTTCAGTGATCCCCTTCATTTAA 59.747 40.000 0.00 0.00 0.00 1.52
177 178 5.951747 CCTTCAGTGATCCCCTTCATTTAAA 59.048 40.000 0.00 0.00 0.00 1.52
178 179 6.437162 CCTTCAGTGATCCCCTTCATTTAAAA 59.563 38.462 0.00 0.00 0.00 1.52
179 180 7.039082 CCTTCAGTGATCCCCTTCATTTAAAAA 60.039 37.037 0.00 0.00 0.00 1.94
180 181 7.227049 TCAGTGATCCCCTTCATTTAAAAAC 57.773 36.000 0.00 0.00 0.00 2.43
181 182 7.010160 TCAGTGATCCCCTTCATTTAAAAACT 58.990 34.615 0.00 0.00 0.00 2.66
182 183 7.508977 TCAGTGATCCCCTTCATTTAAAAACTT 59.491 33.333 0.00 0.00 0.00 2.66
183 184 8.802267 CAGTGATCCCCTTCATTTAAAAACTTA 58.198 33.333 0.00 0.00 0.00 2.24
184 185 9.547279 AGTGATCCCCTTCATTTAAAAACTTAT 57.453 29.630 0.00 0.00 0.00 1.73
185 186 9.586435 GTGATCCCCTTCATTTAAAAACTTATG 57.414 33.333 0.00 0.00 0.00 1.90
186 187 8.757877 TGATCCCCTTCATTTAAAAACTTATGG 58.242 33.333 0.00 0.00 0.00 2.74
187 188 7.489239 TCCCCTTCATTTAAAAACTTATGGG 57.511 36.000 0.00 0.00 0.00 4.00
188 189 6.649155 CCCCTTCATTTAAAAACTTATGGGG 58.351 40.000 12.38 12.38 42.66 4.96
189 190 6.214615 CCCCTTCATTTAAAAACTTATGGGGT 59.785 38.462 15.73 0.00 43.14 4.95
190 191 7.327975 CCCTTCATTTAAAAACTTATGGGGTC 58.672 38.462 0.00 0.00 0.00 4.46
191 192 7.038658 CCCTTCATTTAAAAACTTATGGGGTCA 60.039 37.037 0.00 0.00 0.00 4.02
192 193 8.539544 CCTTCATTTAAAAACTTATGGGGTCAT 58.460 33.333 0.00 0.00 37.40 3.06
193 194 9.586435 CTTCATTTAAAAACTTATGGGGTCATC 57.414 33.333 0.00 0.00 34.96 2.92
194 195 8.657387 TCATTTAAAAACTTATGGGGTCATCA 57.343 30.769 0.00 0.00 34.96 3.07
195 196 8.527810 TCATTTAAAAACTTATGGGGTCATCAC 58.472 33.333 0.00 0.00 34.96 3.06
196 197 6.844097 TTAAAAACTTATGGGGTCATCACC 57.156 37.500 0.00 0.00 42.90 4.02
197 198 4.675063 AAAACTTATGGGGTCATCACCT 57.325 40.909 0.00 0.00 43.22 4.00
198 199 3.933861 AACTTATGGGGTCATCACCTC 57.066 47.619 0.00 0.00 44.84 3.85
199 200 2.127708 ACTTATGGGGTCATCACCTCC 58.872 52.381 0.00 0.00 43.77 4.30
200 201 2.126882 CTTATGGGGTCATCACCTCCA 58.873 52.381 0.00 0.00 43.77 3.86
201 202 2.512910 TATGGGGTCATCACCTCCAT 57.487 50.000 12.26 12.26 43.77 3.41
202 203 1.143813 ATGGGGTCATCACCTCCATC 58.856 55.000 3.40 0.00 44.47 3.51
203 204 0.044702 TGGGGTCATCACCTCCATCT 59.955 55.000 0.00 0.00 43.77 2.90
204 205 1.293763 TGGGGTCATCACCTCCATCTA 59.706 52.381 0.00 0.00 43.77 1.98
205 206 2.293519 TGGGGTCATCACCTCCATCTAA 60.294 50.000 0.00 0.00 43.77 2.10
206 207 2.777692 GGGGTCATCACCTCCATCTAAA 59.222 50.000 0.00 0.00 43.22 1.85
207 208 3.202151 GGGGTCATCACCTCCATCTAAAA 59.798 47.826 0.00 0.00 43.22 1.52
208 209 4.325030 GGGGTCATCACCTCCATCTAAAAA 60.325 45.833 0.00 0.00 43.22 1.94
209 210 5.449553 GGGTCATCACCTCCATCTAAAAAT 58.550 41.667 0.00 0.00 43.22 1.82
210 211 5.893824 GGGTCATCACCTCCATCTAAAAATT 59.106 40.000 0.00 0.00 43.22 1.82
211 212 6.381133 GGGTCATCACCTCCATCTAAAAATTT 59.619 38.462 0.00 0.00 43.22 1.82
212 213 7.559897 GGGTCATCACCTCCATCTAAAAATTTA 59.440 37.037 0.00 0.00 43.22 1.40
213 214 8.966868 GGTCATCACCTCCATCTAAAAATTTAA 58.033 33.333 0.00 0.00 40.00 1.52
272 273 9.448438 AAATAATATCCCAAAAGCTTTTTCACC 57.552 29.630 21.70 0.00 0.00 4.02
273 274 6.432403 AATATCCCAAAAGCTTTTTCACCA 57.568 33.333 21.70 8.04 0.00 4.17
274 275 3.535280 TCCCAAAAGCTTTTTCACCAC 57.465 42.857 21.70 0.00 0.00 4.16
275 276 2.834549 TCCCAAAAGCTTTTTCACCACA 59.165 40.909 21.70 0.00 0.00 4.17
276 277 3.118811 TCCCAAAAGCTTTTTCACCACAG 60.119 43.478 21.70 8.03 0.00 3.66
277 278 3.369366 CCCAAAAGCTTTTTCACCACAGT 60.369 43.478 21.70 0.00 0.00 3.55
278 279 3.865164 CCAAAAGCTTTTTCACCACAGTC 59.135 43.478 21.70 0.00 0.00 3.51
279 280 4.493547 CAAAAGCTTTTTCACCACAGTCA 58.506 39.130 21.70 0.00 0.00 3.41
280 281 4.799564 AAAGCTTTTTCACCACAGTCAA 57.200 36.364 5.69 0.00 0.00 3.18
281 282 3.782889 AGCTTTTTCACCACAGTCAAC 57.217 42.857 0.00 0.00 0.00 3.18
282 283 2.427095 AGCTTTTTCACCACAGTCAACC 59.573 45.455 0.00 0.00 0.00 3.77
283 284 2.165437 GCTTTTTCACCACAGTCAACCA 59.835 45.455 0.00 0.00 0.00 3.67
284 285 3.734902 GCTTTTTCACCACAGTCAACCAG 60.735 47.826 0.00 0.00 0.00 4.00
285 286 1.388547 TTTCACCACAGTCAACCAGC 58.611 50.000 0.00 0.00 0.00 4.85
286 287 0.546122 TTCACCACAGTCAACCAGCT 59.454 50.000 0.00 0.00 0.00 4.24
287 288 0.546122 TCACCACAGTCAACCAGCTT 59.454 50.000 0.00 0.00 0.00 3.74
288 289 0.664761 CACCACAGTCAACCAGCTTG 59.335 55.000 0.00 0.00 0.00 4.01
289 290 1.103398 ACCACAGTCAACCAGCTTGC 61.103 55.000 0.00 0.00 0.00 4.01
290 291 1.280746 CACAGTCAACCAGCTTGCG 59.719 57.895 0.00 0.00 0.00 4.85
291 292 2.253452 CAGTCAACCAGCTTGCGC 59.747 61.111 0.00 0.00 0.00 6.09
292 293 2.980233 AGTCAACCAGCTTGCGCC 60.980 61.111 4.18 0.00 36.60 6.53
293 294 3.286751 GTCAACCAGCTTGCGCCA 61.287 61.111 4.18 0.00 36.60 5.69
294 295 3.286751 TCAACCAGCTTGCGCCAC 61.287 61.111 4.18 0.00 36.60 5.01
295 296 3.594775 CAACCAGCTTGCGCCACA 61.595 61.111 4.18 0.00 36.60 4.17
296 297 2.598394 AACCAGCTTGCGCCACAT 60.598 55.556 4.18 0.00 36.60 3.21
297 298 2.922950 AACCAGCTTGCGCCACATG 61.923 57.895 4.18 0.00 36.60 3.21
298 299 4.124351 CCAGCTTGCGCCACATGG 62.124 66.667 4.18 4.49 36.60 3.66
308 309 4.993307 CCACATGGCATAGCTGGT 57.007 55.556 0.00 0.00 0.00 4.00
309 310 3.196040 CCACATGGCATAGCTGGTT 57.804 52.632 0.00 0.00 0.00 3.67
310 311 0.742505 CCACATGGCATAGCTGGTTG 59.257 55.000 0.00 0.00 0.00 3.77
311 312 0.742505 CACATGGCATAGCTGGTTGG 59.257 55.000 0.00 0.00 0.00 3.77
312 313 1.039233 ACATGGCATAGCTGGTTGGC 61.039 55.000 0.00 4.54 38.77 4.52
313 314 1.456331 ATGGCATAGCTGGTTGGCC 60.456 57.895 0.00 12.70 44.82 5.36
314 315 2.044053 GGCATAGCTGGTTGGCCA 60.044 61.111 0.00 0.00 44.01 5.36
315 316 2.418083 GGCATAGCTGGTTGGCCAC 61.418 63.158 3.88 0.00 44.01 5.01
317 318 1.754234 CATAGCTGGTTGGCCACCC 60.754 63.158 13.50 13.50 46.68 4.61
318 319 1.930656 ATAGCTGGTTGGCCACCCT 60.931 57.895 21.42 13.08 46.68 4.34
319 320 1.509548 ATAGCTGGTTGGCCACCCTT 61.510 55.000 21.42 8.70 46.68 3.95
320 321 2.137177 TAGCTGGTTGGCCACCCTTC 62.137 60.000 21.42 11.75 46.68 3.46
321 322 2.520458 CTGGTTGGCCACCCTTCA 59.480 61.111 21.42 6.68 46.68 3.02
322 323 1.903404 CTGGTTGGCCACCCTTCAC 60.903 63.158 21.42 7.72 46.68 3.18
323 324 2.983592 GGTTGGCCACCCTTCACG 60.984 66.667 13.06 0.00 40.19 4.35
324 325 3.670377 GTTGGCCACCCTTCACGC 61.670 66.667 3.88 0.00 0.00 5.34
331 332 4.295119 ACCCTTCACGCGACGCTT 62.295 61.111 15.93 5.43 0.00 4.68
332 333 2.126228 CCCTTCACGCGACGCTTA 60.126 61.111 15.93 0.00 0.00 3.09
333 334 1.735198 CCCTTCACGCGACGCTTAA 60.735 57.895 15.93 8.11 0.00 1.85
334 335 1.082117 CCCTTCACGCGACGCTTAAT 61.082 55.000 15.93 0.00 0.00 1.40
335 336 0.025001 CCTTCACGCGACGCTTAATG 59.975 55.000 15.93 10.68 0.00 1.90
336 337 0.025001 CTTCACGCGACGCTTAATGG 59.975 55.000 15.93 3.27 0.00 3.16
337 338 1.355796 TTCACGCGACGCTTAATGGG 61.356 55.000 15.93 2.60 0.00 4.00
338 339 2.098233 CACGCGACGCTTAATGGGT 61.098 57.895 15.93 3.18 44.89 4.51
339 340 1.375013 ACGCGACGCTTAATGGGTT 60.375 52.632 15.93 0.00 42.14 4.11
340 341 0.952010 ACGCGACGCTTAATGGGTTT 60.952 50.000 15.93 0.00 42.14 3.27
341 342 1.000884 CGCGACGCTTAATGGGTTTA 58.999 50.000 19.02 0.00 42.14 2.01
342 343 1.394227 CGCGACGCTTAATGGGTTTAA 59.606 47.619 19.02 0.00 42.14 1.52
343 344 2.031191 CGCGACGCTTAATGGGTTTAAT 59.969 45.455 19.02 0.00 42.14 1.40
344 345 3.486209 CGCGACGCTTAATGGGTTTAATT 60.486 43.478 19.02 0.00 42.14 1.40
345 346 4.260294 CGCGACGCTTAATGGGTTTAATTA 60.260 41.667 19.02 0.00 42.14 1.40
346 347 5.571277 GCGACGCTTAATGGGTTTAATTAA 58.429 37.500 13.73 0.00 42.14 1.40
347 348 6.203647 GCGACGCTTAATGGGTTTAATTAAT 58.796 36.000 13.73 0.00 42.14 1.40
348 349 7.354257 GCGACGCTTAATGGGTTTAATTAATA 58.646 34.615 13.73 0.00 42.14 0.98
376 377 2.959516 GGTTGAAACCCATTTAGCAGC 58.040 47.619 0.36 0.00 43.43 5.25
394 395 0.603975 GCGTTGCCAGGAAAGAGAGT 60.604 55.000 0.00 0.00 0.00 3.24
445 446 1.433471 CGAGCTATGCACTCACGGA 59.567 57.895 0.00 0.00 33.58 4.69
446 447 0.867753 CGAGCTATGCACTCACGGAC 60.868 60.000 0.00 0.00 33.58 4.79
447 448 0.173481 GAGCTATGCACTCACGGACA 59.827 55.000 0.00 0.00 34.18 4.02
448 449 0.108615 AGCTATGCACTCACGGACAC 60.109 55.000 0.00 0.00 0.00 3.67
449 450 0.108615 GCTATGCACTCACGGACACT 60.109 55.000 0.00 0.00 0.00 3.55
450 451 1.633561 CTATGCACTCACGGACACTG 58.366 55.000 0.00 0.00 0.00 3.66
451 452 0.966179 TATGCACTCACGGACACTGT 59.034 50.000 0.00 0.00 0.00 3.55
452 453 0.966179 ATGCACTCACGGACACTGTA 59.034 50.000 0.00 0.00 0.00 2.74
453 454 0.966179 TGCACTCACGGACACTGTAT 59.034 50.000 0.00 0.00 0.00 2.29
454 455 1.336795 TGCACTCACGGACACTGTATG 60.337 52.381 0.00 0.00 0.00 2.39
455 456 1.350193 CACTCACGGACACTGTATGC 58.650 55.000 0.00 0.00 0.00 3.14
456 457 0.246635 ACTCACGGACACTGTATGCC 59.753 55.000 0.00 0.00 0.00 4.40
457 458 0.802222 CTCACGGACACTGTATGCCG 60.802 60.000 11.87 11.87 46.85 5.69
458 459 1.214325 CACGGACACTGTATGCCGA 59.786 57.895 18.00 0.00 45.37 5.54
475 476 1.492319 CGAACCACGGAAAACTCGCA 61.492 55.000 0.00 0.00 38.46 5.10
483 484 0.248215 GGAAAACTCGCATCGCCATG 60.248 55.000 0.00 0.00 0.00 3.66
484 485 0.447801 GAAAACTCGCATCGCCATGT 59.552 50.000 0.00 0.00 31.86 3.21
485 486 0.881118 AAAACTCGCATCGCCATGTT 59.119 45.000 0.00 0.00 31.86 2.71
486 487 1.732941 AAACTCGCATCGCCATGTTA 58.267 45.000 0.00 0.00 31.86 2.41
487 488 1.953559 AACTCGCATCGCCATGTTAT 58.046 45.000 0.00 0.00 31.86 1.89
488 489 1.953559 ACTCGCATCGCCATGTTATT 58.046 45.000 0.00 0.00 31.86 1.40
489 490 3.106242 ACTCGCATCGCCATGTTATTA 57.894 42.857 0.00 0.00 31.86 0.98
490 491 3.664107 ACTCGCATCGCCATGTTATTAT 58.336 40.909 0.00 0.00 31.86 1.28
494 495 5.175127 TCGCATCGCCATGTTATTATATGT 58.825 37.500 0.00 0.00 31.86 2.29
523 524 2.399448 CGTATGCGTATGGTGTATGCA 58.601 47.619 4.62 4.62 42.73 3.96
525 526 4.170256 CGTATGCGTATGGTGTATGCATA 58.830 43.478 14.63 14.63 45.27 3.14
542 543 5.388408 TGCATATGACATGTGAAAGCAAA 57.612 34.783 15.64 0.00 0.00 3.68
716 728 1.341531 CTAAGGTACATGCTCCCCTCG 59.658 57.143 0.00 0.00 0.00 4.63
735 755 2.487762 TCGAATCTTGGGTGTGATTTGC 59.512 45.455 0.00 0.00 35.27 3.68
758 798 1.080025 CTCCGGTTGTTCCTCGTCC 60.080 63.158 0.00 0.00 0.00 4.79
809 866 2.156917 CATGCTGCAGTTCTTCTTCCA 58.843 47.619 16.64 1.14 0.00 3.53
810 867 2.574006 TGCTGCAGTTCTTCTTCCAT 57.426 45.000 16.64 0.00 0.00 3.41
836 893 3.292492 TGCAAGATCATGGCAGAATCT 57.708 42.857 8.22 8.22 32.95 2.40
864 921 3.276091 CTTTGGTGCGCGGTGTGA 61.276 61.111 8.83 0.00 0.00 3.58
941 998 1.928503 GACGACCGTGAAACACTGAAA 59.071 47.619 0.00 0.00 35.74 2.69
971 1028 1.254975 TAGCCGTGGAGTGCAAGCTA 61.255 55.000 12.03 12.03 0.00 3.32
992 1049 0.320374 TCAACGCGGAGGAAATGAGT 59.680 50.000 12.47 0.00 0.00 3.41
1065 1145 0.518636 CGAGGACGTTCCAGTACGAA 59.481 55.000 3.76 0.00 43.99 3.85
1074 1154 3.545481 CAGTACGAAGCGCTGCGG 61.545 66.667 38.91 22.25 0.00 5.69
1230 1310 1.464997 GAGATGAACACGTTTGGCCTC 59.535 52.381 3.32 0.00 0.00 4.70
1239 1319 0.727398 CGTTTGGCCTCGAGAATTCC 59.273 55.000 15.71 9.79 0.00 3.01
1344 1424 2.507886 TGACAAGAAGGGAGTGGTGAAA 59.492 45.455 0.00 0.00 0.00 2.69
1424 1504 4.336581 TCTTGGCAAGACGACACG 57.663 55.556 25.38 0.00 31.20 4.49
1492 1572 1.364626 GAAGATCTGGCACTGCGTGG 61.365 60.000 0.00 0.00 33.64 4.94
1635 1733 9.635520 ATTGAATTATTGCAGAAGAAACTTGAG 57.364 29.630 0.00 0.00 0.00 3.02
1854 1956 6.260936 CACTGTGATTTCACTAAACTCCTTGT 59.739 38.462 11.67 0.00 46.55 3.16
1871 1973 3.368427 CCTTGTAGAAAGCACTGATCGGA 60.368 47.826 9.00 0.00 0.00 4.55
2430 2680 1.443407 GAGCATTGGAGGCGAGCTA 59.557 57.895 0.00 0.00 35.36 3.32
2453 2703 4.624364 CCGCGGGCTGGATATGCA 62.624 66.667 20.10 0.00 0.00 3.96
2458 2708 1.839191 GGGCTGGATATGCAGTCCA 59.161 57.895 35.14 19.26 42.44 4.02
2788 3220 4.355151 GGGCCAAATCACCCGATT 57.645 55.556 4.39 0.00 43.94 3.34
2820 3252 6.899393 TTGCAAGGAGTTTAGTGAAATCAT 57.101 33.333 0.00 0.00 34.12 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.496470 AGCGAGGACTCCGTCTATTTTT 59.504 45.455 0.00 0.00 32.47 1.94
16 17 2.100989 AGCGAGGACTCCGTCTATTTT 58.899 47.619 0.00 0.00 32.47 1.82
17 18 1.765230 AGCGAGGACTCCGTCTATTT 58.235 50.000 0.00 0.00 32.47 1.40
18 19 1.677052 GAAGCGAGGACTCCGTCTATT 59.323 52.381 0.00 0.00 32.47 1.73
19 20 1.310904 GAAGCGAGGACTCCGTCTAT 58.689 55.000 0.00 0.00 32.47 1.98
20 21 0.747283 GGAAGCGAGGACTCCGTCTA 60.747 60.000 0.00 0.00 32.47 2.59
21 22 2.047443 GGAAGCGAGGACTCCGTCT 61.047 63.158 0.00 0.00 32.47 4.18
22 23 1.668101 ATGGAAGCGAGGACTCCGTC 61.668 60.000 0.00 0.00 0.00 4.79
23 24 1.668101 GATGGAAGCGAGGACTCCGT 61.668 60.000 0.00 0.00 0.00 4.69
24 25 1.066587 GATGGAAGCGAGGACTCCG 59.933 63.158 0.00 0.00 0.00 4.63
25 26 1.611491 CTAGATGGAAGCGAGGACTCC 59.389 57.143 0.00 0.00 0.00 3.85
26 27 2.577700 TCTAGATGGAAGCGAGGACTC 58.422 52.381 0.00 0.00 0.00 3.36
27 28 2.738587 TCTAGATGGAAGCGAGGACT 57.261 50.000 0.00 0.00 0.00 3.85
28 29 3.802948 TTTCTAGATGGAAGCGAGGAC 57.197 47.619 0.00 0.00 0.00 3.85
29 30 4.020573 TGTTTTTCTAGATGGAAGCGAGGA 60.021 41.667 0.00 0.00 0.00 3.71
30 31 4.253685 TGTTTTTCTAGATGGAAGCGAGG 58.746 43.478 0.00 0.00 0.00 4.63
31 32 6.428385 AATGTTTTTCTAGATGGAAGCGAG 57.572 37.500 0.00 0.00 0.00 5.03
32 33 6.817765 AAATGTTTTTCTAGATGGAAGCGA 57.182 33.333 0.00 0.00 0.00 4.93
33 34 8.964420 TTTAAATGTTTTTCTAGATGGAAGCG 57.036 30.769 0.00 0.00 0.00 4.68
60 61 8.491045 TTTTCTAAATGGAGGTGAGGATTTTT 57.509 30.769 0.00 0.00 0.00 1.94
61 62 8.491045 TTTTTCTAAATGGAGGTGAGGATTTT 57.509 30.769 0.00 0.00 0.00 1.82
62 63 7.950124 TCTTTTTCTAAATGGAGGTGAGGATTT 59.050 33.333 0.00 0.00 0.00 2.17
63 64 7.470192 TCTTTTTCTAAATGGAGGTGAGGATT 58.530 34.615 0.00 0.00 0.00 3.01
64 65 7.032598 TCTTTTTCTAAATGGAGGTGAGGAT 57.967 36.000 0.00 0.00 0.00 3.24
65 66 6.448369 TCTTTTTCTAAATGGAGGTGAGGA 57.552 37.500 0.00 0.00 0.00 3.71
66 67 6.717084 ACTTCTTTTTCTAAATGGAGGTGAGG 59.283 38.462 0.00 0.00 0.00 3.86
67 68 7.751768 ACTTCTTTTTCTAAATGGAGGTGAG 57.248 36.000 0.00 0.00 0.00 3.51
68 69 9.635404 TTTACTTCTTTTTCTAAATGGAGGTGA 57.365 29.630 0.00 0.00 0.00 4.02
105 106 9.768662 AGAGTTTGCTTTTATGTTGATGATTTT 57.231 25.926 0.00 0.00 0.00 1.82
106 107 9.415544 GAGAGTTTGCTTTTATGTTGATGATTT 57.584 29.630 0.00 0.00 0.00 2.17
107 108 8.031277 GGAGAGTTTGCTTTTATGTTGATGATT 58.969 33.333 0.00 0.00 0.00 2.57
108 109 7.177216 TGGAGAGTTTGCTTTTATGTTGATGAT 59.823 33.333 0.00 0.00 0.00 2.45
109 110 6.489700 TGGAGAGTTTGCTTTTATGTTGATGA 59.510 34.615 0.00 0.00 0.00 2.92
110 111 6.680810 TGGAGAGTTTGCTTTTATGTTGATG 58.319 36.000 0.00 0.00 0.00 3.07
111 112 6.899393 TGGAGAGTTTGCTTTTATGTTGAT 57.101 33.333 0.00 0.00 0.00 2.57
112 113 6.707440 TTGGAGAGTTTGCTTTTATGTTGA 57.293 33.333 0.00 0.00 0.00 3.18
113 114 7.951530 ATTTGGAGAGTTTGCTTTTATGTTG 57.048 32.000 0.00 0.00 0.00 3.33
114 115 8.962884 AAATTTGGAGAGTTTGCTTTTATGTT 57.037 26.923 0.00 0.00 0.00 2.71
118 119 9.691362 GTCATAAATTTGGAGAGTTTGCTTTTA 57.309 29.630 0.00 0.00 0.00 1.52
119 120 7.657354 GGTCATAAATTTGGAGAGTTTGCTTTT 59.343 33.333 0.00 0.00 0.00 2.27
120 121 7.154656 GGTCATAAATTTGGAGAGTTTGCTTT 58.845 34.615 0.00 0.00 0.00 3.51
121 122 6.267471 TGGTCATAAATTTGGAGAGTTTGCTT 59.733 34.615 0.00 0.00 0.00 3.91
122 123 5.774690 TGGTCATAAATTTGGAGAGTTTGCT 59.225 36.000 0.00 0.00 0.00 3.91
123 124 6.024552 TGGTCATAAATTTGGAGAGTTTGC 57.975 37.500 0.00 0.00 0.00 3.68
124 125 6.868339 GGTTGGTCATAAATTTGGAGAGTTTG 59.132 38.462 0.00 0.00 0.00 2.93
125 126 6.782494 AGGTTGGTCATAAATTTGGAGAGTTT 59.218 34.615 0.00 0.00 0.00 2.66
126 127 6.314917 AGGTTGGTCATAAATTTGGAGAGTT 58.685 36.000 0.00 0.00 0.00 3.01
127 128 5.892348 AGGTTGGTCATAAATTTGGAGAGT 58.108 37.500 0.00 0.00 0.00 3.24
128 129 6.840780 AAGGTTGGTCATAAATTTGGAGAG 57.159 37.500 0.00 0.00 0.00 3.20
129 130 6.210584 GGAAAGGTTGGTCATAAATTTGGAGA 59.789 38.462 0.00 0.00 0.00 3.71
130 131 6.211384 AGGAAAGGTTGGTCATAAATTTGGAG 59.789 38.462 0.00 0.00 0.00 3.86
131 132 6.081356 AGGAAAGGTTGGTCATAAATTTGGA 58.919 36.000 0.00 0.00 0.00 3.53
132 133 6.358974 AGGAAAGGTTGGTCATAAATTTGG 57.641 37.500 0.00 0.00 0.00 3.28
133 134 7.441017 TGAAGGAAAGGTTGGTCATAAATTTG 58.559 34.615 0.00 0.00 0.00 2.32
134 135 7.290014 ACTGAAGGAAAGGTTGGTCATAAATTT 59.710 33.333 0.00 0.00 0.00 1.82
135 136 6.782494 ACTGAAGGAAAGGTTGGTCATAAATT 59.218 34.615 0.00 0.00 0.00 1.82
136 137 6.209391 CACTGAAGGAAAGGTTGGTCATAAAT 59.791 38.462 0.00 0.00 0.00 1.40
137 138 5.534654 CACTGAAGGAAAGGTTGGTCATAAA 59.465 40.000 0.00 0.00 0.00 1.40
138 139 5.070001 CACTGAAGGAAAGGTTGGTCATAA 58.930 41.667 0.00 0.00 0.00 1.90
139 140 4.349636 TCACTGAAGGAAAGGTTGGTCATA 59.650 41.667 0.00 0.00 0.00 2.15
140 141 3.138283 TCACTGAAGGAAAGGTTGGTCAT 59.862 43.478 0.00 0.00 0.00 3.06
141 142 2.507886 TCACTGAAGGAAAGGTTGGTCA 59.492 45.455 0.00 0.00 0.00 4.02
142 143 3.208747 TCACTGAAGGAAAGGTTGGTC 57.791 47.619 0.00 0.00 0.00 4.02
143 144 3.498661 GGATCACTGAAGGAAAGGTTGGT 60.499 47.826 0.00 0.00 0.00 3.67
144 145 3.084786 GGATCACTGAAGGAAAGGTTGG 58.915 50.000 0.00 0.00 0.00 3.77
145 146 3.084786 GGGATCACTGAAGGAAAGGTTG 58.915 50.000 0.00 0.00 0.00 3.77
146 147 2.041755 GGGGATCACTGAAGGAAAGGTT 59.958 50.000 0.00 0.00 0.00 3.50
147 148 1.636003 GGGGATCACTGAAGGAAAGGT 59.364 52.381 0.00 0.00 0.00 3.50
148 149 1.918957 AGGGGATCACTGAAGGAAAGG 59.081 52.381 0.00 0.00 0.00 3.11
149 150 3.009473 TGAAGGGGATCACTGAAGGAAAG 59.991 47.826 0.00 0.00 0.00 2.62
150 151 2.986019 TGAAGGGGATCACTGAAGGAAA 59.014 45.455 0.00 0.00 0.00 3.13
151 152 2.631384 TGAAGGGGATCACTGAAGGAA 58.369 47.619 0.00 0.00 0.00 3.36
152 153 2.342406 TGAAGGGGATCACTGAAGGA 57.658 50.000 0.00 0.00 0.00 3.36
153 154 3.659183 AATGAAGGGGATCACTGAAGG 57.341 47.619 0.00 0.00 30.82 3.46
154 155 7.466746 TTTTAAATGAAGGGGATCACTGAAG 57.533 36.000 0.00 0.00 30.82 3.02
155 156 7.508977 AGTTTTTAAATGAAGGGGATCACTGAA 59.491 33.333 0.00 0.00 30.82 3.02
156 157 7.010160 AGTTTTTAAATGAAGGGGATCACTGA 58.990 34.615 0.00 0.00 30.82 3.41
157 158 7.232118 AGTTTTTAAATGAAGGGGATCACTG 57.768 36.000 0.00 0.00 30.82 3.66
158 159 7.855784 AAGTTTTTAAATGAAGGGGATCACT 57.144 32.000 0.00 0.00 30.82 3.41
159 160 9.586435 CATAAGTTTTTAAATGAAGGGGATCAC 57.414 33.333 0.00 0.00 30.82 3.06
160 161 8.757877 CCATAAGTTTTTAAATGAAGGGGATCA 58.242 33.333 0.00 0.00 0.00 2.92
161 162 8.204160 CCCATAAGTTTTTAAATGAAGGGGATC 58.796 37.037 0.00 0.00 0.00 3.36
162 163 8.089625 CCCATAAGTTTTTAAATGAAGGGGAT 57.910 34.615 0.00 0.00 0.00 3.85
163 164 7.489239 CCCATAAGTTTTTAAATGAAGGGGA 57.511 36.000 0.00 0.00 0.00 4.81
164 165 6.649155 CCCCATAAGTTTTTAAATGAAGGGG 58.351 40.000 0.00 0.00 44.43 4.79
165 166 7.038658 TGACCCCATAAGTTTTTAAATGAAGGG 60.039 37.037 0.00 0.00 0.00 3.95
166 167 7.902087 TGACCCCATAAGTTTTTAAATGAAGG 58.098 34.615 0.00 0.00 0.00 3.46
167 168 9.586435 GATGACCCCATAAGTTTTTAAATGAAG 57.414 33.333 0.00 0.00 32.09 3.02
168 169 9.094578 TGATGACCCCATAAGTTTTTAAATGAA 57.905 29.630 0.00 0.00 32.09 2.57
169 170 8.527810 GTGATGACCCCATAAGTTTTTAAATGA 58.472 33.333 0.00 0.00 32.09 2.57
170 171 7.763985 GGTGATGACCCCATAAGTTTTTAAATG 59.236 37.037 0.00 0.00 36.03 2.32
171 172 7.678171 AGGTGATGACCCCATAAGTTTTTAAAT 59.322 33.333 0.00 0.00 44.40 1.40
172 173 7.013834 AGGTGATGACCCCATAAGTTTTTAAA 58.986 34.615 0.00 0.00 44.40 1.52
173 174 6.557568 AGGTGATGACCCCATAAGTTTTTAA 58.442 36.000 0.00 0.00 44.40 1.52
174 175 6.147437 AGGTGATGACCCCATAAGTTTTTA 57.853 37.500 0.00 0.00 44.40 1.52
175 176 5.010708 AGGTGATGACCCCATAAGTTTTT 57.989 39.130 0.00 0.00 44.40 1.94
176 177 4.569865 GGAGGTGATGACCCCATAAGTTTT 60.570 45.833 0.00 0.00 44.40 2.43
177 178 3.053619 GGAGGTGATGACCCCATAAGTTT 60.054 47.826 0.00 0.00 44.40 2.66
178 179 2.509964 GGAGGTGATGACCCCATAAGTT 59.490 50.000 0.00 0.00 44.40 2.66
179 180 2.127708 GGAGGTGATGACCCCATAAGT 58.872 52.381 0.00 0.00 44.40 2.24
180 181 2.126882 TGGAGGTGATGACCCCATAAG 58.873 52.381 7.33 0.00 44.40 1.73
181 182 2.278657 TGGAGGTGATGACCCCATAA 57.721 50.000 7.33 0.00 44.40 1.90
182 183 2.089982 AGATGGAGGTGATGACCCCATA 60.090 50.000 19.30 0.00 45.89 2.74
183 184 3.365069 ATGGAGGTGATGACCCCAT 57.635 52.632 15.40 15.40 44.40 4.00
184 185 0.044702 AGATGGAGGTGATGACCCCA 59.955 55.000 12.57 12.57 44.40 4.96
185 186 2.103153 TAGATGGAGGTGATGACCCC 57.897 55.000 0.00 0.00 44.40 4.95
186 187 4.503714 TTTTAGATGGAGGTGATGACCC 57.496 45.455 0.00 0.00 44.40 4.46
187 188 7.410120 AAATTTTTAGATGGAGGTGATGACC 57.590 36.000 0.00 0.00 43.52 4.02
246 247 9.448438 GGTGAAAAAGCTTTTGGGATATTATTT 57.552 29.630 24.50 4.68 0.00 1.40
247 248 8.601546 TGGTGAAAAAGCTTTTGGGATATTATT 58.398 29.630 24.50 5.20 0.00 1.40
248 249 8.040727 GTGGTGAAAAAGCTTTTGGGATATTAT 58.959 33.333 24.50 5.95 0.00 1.28
249 250 7.015682 TGTGGTGAAAAAGCTTTTGGGATATTA 59.984 33.333 24.50 2.47 0.00 0.98
250 251 6.183361 TGTGGTGAAAAAGCTTTTGGGATATT 60.183 34.615 24.50 7.46 0.00 1.28
251 252 5.306678 TGTGGTGAAAAAGCTTTTGGGATAT 59.693 36.000 24.50 8.21 0.00 1.63
252 253 4.651503 TGTGGTGAAAAAGCTTTTGGGATA 59.348 37.500 24.50 9.35 0.00 2.59
253 254 3.454082 TGTGGTGAAAAAGCTTTTGGGAT 59.546 39.130 24.50 9.35 0.00 3.85
254 255 2.834549 TGTGGTGAAAAAGCTTTTGGGA 59.165 40.909 24.50 9.16 0.00 4.37
255 256 3.197265 CTGTGGTGAAAAAGCTTTTGGG 58.803 45.455 24.50 5.92 0.00 4.12
256 257 3.860641 ACTGTGGTGAAAAAGCTTTTGG 58.139 40.909 24.50 9.97 0.00 3.28
257 258 4.493547 TGACTGTGGTGAAAAAGCTTTTG 58.506 39.130 24.50 11.89 0.00 2.44
258 259 4.799564 TGACTGTGGTGAAAAAGCTTTT 57.200 36.364 18.74 18.74 0.00 2.27
259 260 4.494484 GTTGACTGTGGTGAAAAAGCTTT 58.506 39.130 5.69 5.69 0.00 3.51
260 261 3.119137 GGTTGACTGTGGTGAAAAAGCTT 60.119 43.478 0.00 0.00 0.00 3.74
261 262 2.427095 GGTTGACTGTGGTGAAAAAGCT 59.573 45.455 0.00 0.00 0.00 3.74
262 263 2.165437 TGGTTGACTGTGGTGAAAAAGC 59.835 45.455 0.00 0.00 0.00 3.51
263 264 3.734902 GCTGGTTGACTGTGGTGAAAAAG 60.735 47.826 0.00 0.00 0.00 2.27
264 265 2.165437 GCTGGTTGACTGTGGTGAAAAA 59.835 45.455 0.00 0.00 0.00 1.94
265 266 1.748493 GCTGGTTGACTGTGGTGAAAA 59.252 47.619 0.00 0.00 0.00 2.29
266 267 1.064758 AGCTGGTTGACTGTGGTGAAA 60.065 47.619 0.00 0.00 0.00 2.69
267 268 0.546122 AGCTGGTTGACTGTGGTGAA 59.454 50.000 0.00 0.00 0.00 3.18
268 269 0.546122 AAGCTGGTTGACTGTGGTGA 59.454 50.000 0.00 0.00 0.00 4.02
269 270 0.664761 CAAGCTGGTTGACTGTGGTG 59.335 55.000 14.05 0.00 38.60 4.17
270 271 1.103398 GCAAGCTGGTTGACTGTGGT 61.103 55.000 22.54 0.00 38.60 4.16
271 272 1.656441 GCAAGCTGGTTGACTGTGG 59.344 57.895 22.54 0.00 38.60 4.17
272 273 1.280746 CGCAAGCTGGTTGACTGTG 59.719 57.895 22.54 0.00 38.60 3.66
273 274 3.736483 CGCAAGCTGGTTGACTGT 58.264 55.556 22.54 0.00 38.60 3.55
291 292 0.742505 CAACCAGCTATGCCATGTGG 59.257 55.000 0.00 0.00 38.53 4.17
292 293 0.742505 CCAACCAGCTATGCCATGTG 59.257 55.000 0.00 0.00 0.00 3.21
293 294 1.039233 GCCAACCAGCTATGCCATGT 61.039 55.000 0.00 0.00 0.00 3.21
294 295 1.737816 GCCAACCAGCTATGCCATG 59.262 57.895 0.00 0.00 0.00 3.66
295 296 1.456331 GGCCAACCAGCTATGCCAT 60.456 57.895 0.00 0.00 41.76 4.40
296 297 2.044053 GGCCAACCAGCTATGCCA 60.044 61.111 0.00 0.00 41.76 4.92
297 298 2.044053 TGGCCAACCAGCTATGCC 60.044 61.111 0.61 0.00 42.67 4.40
307 308 3.670377 GCGTGAAGGGTGGCCAAC 61.670 66.667 14.15 14.15 0.00 3.77
314 315 2.424705 TTAAGCGTCGCGTGAAGGGT 62.425 55.000 16.13 5.66 0.00 4.34
315 316 1.082117 ATTAAGCGTCGCGTGAAGGG 61.082 55.000 16.13 1.57 0.00 3.95
316 317 0.025001 CATTAAGCGTCGCGTGAAGG 59.975 55.000 16.13 7.41 0.00 3.46
317 318 0.025001 CCATTAAGCGTCGCGTGAAG 59.975 55.000 16.13 7.59 0.00 3.02
318 319 1.355796 CCCATTAAGCGTCGCGTGAA 61.356 55.000 16.13 9.67 0.00 3.18
319 320 1.807981 CCCATTAAGCGTCGCGTGA 60.808 57.895 16.13 8.09 0.00 4.35
320 321 1.632046 AACCCATTAAGCGTCGCGTG 61.632 55.000 16.13 11.19 0.00 5.34
321 322 0.952010 AAACCCATTAAGCGTCGCGT 60.952 50.000 12.30 11.69 0.00 6.01
322 323 1.000884 TAAACCCATTAAGCGTCGCG 58.999 50.000 12.30 0.00 0.00 5.87
323 324 3.685836 ATTAAACCCATTAAGCGTCGC 57.314 42.857 9.80 9.80 36.94 5.19
324 325 9.887406 ATTATTAATTAAACCCATTAAGCGTCG 57.113 29.630 1.21 0.00 36.94 5.12
332 333 8.777089 ACCTGCCAATTATTAATTAAACCCATT 58.223 29.630 1.21 0.00 0.00 3.16
333 334 8.330638 ACCTGCCAATTATTAATTAAACCCAT 57.669 30.769 1.21 0.00 0.00 4.00
334 335 7.741554 ACCTGCCAATTATTAATTAAACCCA 57.258 32.000 1.21 0.00 0.00 4.51
335 336 8.261522 TCAACCTGCCAATTATTAATTAAACCC 58.738 33.333 1.21 0.00 0.00 4.11
336 337 9.660180 TTCAACCTGCCAATTATTAATTAAACC 57.340 29.630 1.21 0.00 0.00 3.27
339 340 9.660180 GGTTTCAACCTGCCAATTATTAATTAA 57.340 29.630 0.00 0.00 45.75 1.40
373 374 0.603707 TCTCTTTCCTGGCAACGCTG 60.604 55.000 0.00 0.00 42.51 5.18
376 377 2.743636 TACTCTCTTTCCTGGCAACG 57.256 50.000 0.00 0.00 42.51 4.10
394 395 1.004560 GCTCAGCCCGCATGCTATA 60.005 57.895 17.13 0.00 40.32 1.31
431 432 1.067565 ACAGTGTCCGTGAGTGCATAG 60.068 52.381 0.00 0.00 0.00 2.23
433 434 0.966179 TACAGTGTCCGTGAGTGCAT 59.034 50.000 0.00 0.00 0.00 3.96
436 437 1.350193 GCATACAGTGTCCGTGAGTG 58.650 55.000 0.00 0.00 0.00 3.51
445 446 0.669318 CGTGGTTCGGCATACAGTGT 60.669 55.000 0.00 0.00 35.71 3.55
446 447 2.078226 CGTGGTTCGGCATACAGTG 58.922 57.895 0.00 0.00 35.71 3.66
447 448 4.590487 CGTGGTTCGGCATACAGT 57.410 55.556 0.00 0.00 35.71 3.55
456 457 1.203313 GCGAGTTTTCCGTGGTTCG 59.797 57.895 0.00 0.00 39.52 3.95
457 458 0.872388 ATGCGAGTTTTCCGTGGTTC 59.128 50.000 0.00 0.00 0.00 3.62
458 459 0.872388 GATGCGAGTTTTCCGTGGTT 59.128 50.000 0.00 0.00 0.00 3.67
471 472 5.175127 ACATATAATAACATGGCGATGCGA 58.825 37.500 8.81 0.00 32.14 5.10
475 476 7.094377 GGGTTCAACATATAATAACATGGCGAT 60.094 37.037 0.00 0.00 0.00 4.58
483 484 5.662211 ACGCGGGTTCAACATATAATAAC 57.338 39.130 12.47 0.00 0.00 1.89
484 485 6.128499 GCATACGCGGGTTCAACATATAATAA 60.128 38.462 11.50 0.00 0.00 1.40
485 486 5.349270 GCATACGCGGGTTCAACATATAATA 59.651 40.000 11.50 0.00 0.00 0.98
486 487 4.153475 GCATACGCGGGTTCAACATATAAT 59.847 41.667 11.50 0.00 0.00 1.28
487 488 3.495377 GCATACGCGGGTTCAACATATAA 59.505 43.478 11.50 0.00 0.00 0.98
488 489 3.061322 GCATACGCGGGTTCAACATATA 58.939 45.455 11.50 0.00 0.00 0.86
489 490 1.871039 GCATACGCGGGTTCAACATAT 59.129 47.619 11.50 0.00 0.00 1.78
490 491 1.292061 GCATACGCGGGTTCAACATA 58.708 50.000 11.50 0.00 0.00 2.29
516 517 5.589452 TGCTTTCACATGTCATATGCATACA 59.411 36.000 8.99 5.84 0.00 2.29
523 524 5.648178 TGCTTTGCTTTCACATGTCATAT 57.352 34.783 0.00 0.00 0.00 1.78
525 526 4.325028 TTGCTTTGCTTTCACATGTCAT 57.675 36.364 0.00 0.00 0.00 3.06
542 543 1.615392 GCAAGAGTTGGGTCAATTGCT 59.385 47.619 0.00 0.00 35.39 3.91
716 728 3.578688 GTGCAAATCACACCCAAGATTC 58.421 45.455 0.00 0.00 44.98 2.52
735 755 1.797025 GAGGAACAACCGGAGAAGTG 58.203 55.000 9.46 0.00 44.74 3.16
758 798 1.664151 GAAAGGGATTAAGCACCGACG 59.336 52.381 0.00 0.00 0.00 5.12
836 893 0.250901 GCACCAAAGGGAGAAGCAGA 60.251 55.000 0.00 0.00 38.05 4.26
941 998 1.219124 CACGGCTAGCAGATGGTGT 59.781 57.895 22.16 2.37 0.00 4.16
971 1028 0.320374 TCATTTCCTCCGCGTTGACT 59.680 50.000 4.92 0.00 0.00 3.41
992 1049 3.447229 TCTTGATGTAGCCATTCGTCTGA 59.553 43.478 0.00 0.00 0.00 3.27
1051 1114 1.731969 GCGCTTCGTACTGGAACGT 60.732 57.895 0.00 0.00 43.31 3.99
1074 1154 3.880846 CCGATCTGGGCTTTGCGC 61.881 66.667 0.00 0.00 41.94 6.09
1239 1319 1.493950 GCTGCTCCATCCGATTCACG 61.494 60.000 0.00 0.00 42.18 4.35
1249 1329 2.372264 CCAAGTATGTTGCTGCTCCAT 58.628 47.619 0.00 5.57 0.00 3.41
1306 1386 5.936372 TCTTGTCATCATCTCTTCCAAACAG 59.064 40.000 0.00 0.00 0.00 3.16
1363 1443 2.270205 CTGCACCCTCCGCTGATT 59.730 61.111 0.00 0.00 0.00 2.57
1424 1504 3.367025 GTCGTTGTACACCATCTTAGCAC 59.633 47.826 0.00 0.00 0.00 4.40
1635 1733 1.202348 CTTTTCCGGCCAATGACTTCC 59.798 52.381 2.24 0.00 0.00 3.46
1854 1956 4.944619 ATCATCCGATCAGTGCTTTCTA 57.055 40.909 0.00 0.00 0.00 2.10
1871 1973 2.166254 GTGATCAAACGGGCCAAATCAT 59.834 45.455 4.39 0.00 0.00 2.45
2049 2151 1.269309 GCAATAGACATCTCCGACGCT 60.269 52.381 0.00 0.00 0.00 5.07
2208 2310 4.850193 CCAACAGGAATGGTGGCT 57.150 55.556 0.00 0.00 40.09 4.75
2458 2708 3.361977 AACTTTTGCGGCGGCGAT 61.362 55.556 36.87 9.21 44.10 4.58


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

AutoCloner maintained by Alex Coulton.