Multiple sequence alignment - TraesCS7D01G527600
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 | TraesCS7D01G527600 | chr7D | 100.000 | 2308 | 0 | 0 | 318 | 2625 | 622604727 | 622602420 | 0.000000e+00 | 4263.0 |
1 | TraesCS7D01G527600 | chr7D | 100.000 | 140 | 0 | 0 | 1 | 140 | 622605044 | 622604905 | 2.590000e-65 | 259.0 |
2 | TraesCS7D01G527600 | chr7D | 82.051 | 156 | 26 | 2 | 2273 | 2428 | 447063593 | 447063746 | 5.900000e-27 | 132.0 |
3 | TraesCS7D01G527600 | chr7D | 80.800 | 125 | 23 | 1 | 17 | 140 | 235374733 | 235374609 | 2.150000e-16 | 97.1 |
4 | TraesCS7D01G527600 | chr7A | 89.028 | 2233 | 157 | 38 | 429 | 2624 | 719417204 | 719419385 | 0.000000e+00 | 2686.0 |
5 | TraesCS7D01G527600 | chr7B | 90.973 | 1717 | 115 | 24 | 351 | 2046 | 721056567 | 721058264 | 0.000000e+00 | 2276.0 |
6 | TraesCS7D01G527600 | chr2D | 79.935 | 309 | 42 | 14 | 2267 | 2570 | 454959772 | 454960065 | 2.650000e-50 | 209.0 |
7 | TraesCS7D01G527600 | chr2D | 100.000 | 44 | 0 | 0 | 320 | 363 | 370956037 | 370955994 | 6.020000e-12 | 82.4 |
8 | TraesCS7D01G527600 | chrUn | 79.286 | 140 | 29 | 0 | 1 | 140 | 359657600 | 359657739 | 5.980000e-17 | 99.0 |
9 | TraesCS7D01G527600 | chrUn | 91.935 | 62 | 4 | 1 | 2366 | 2427 | 98087648 | 98087588 | 4.650000e-13 | 86.1 |
10 | TraesCS7D01G527600 | chr3A | 79.286 | 140 | 29 | 0 | 1 | 140 | 710457324 | 710457463 | 5.980000e-17 | 99.0 |
11 | TraesCS7D01G527600 | chr3A | 95.455 | 44 | 2 | 0 | 320 | 363 | 594502734 | 594502777 | 1.300000e-08 | 71.3 |
12 | TraesCS7D01G527600 | chr6B | 90.625 | 64 | 6 | 0 | 77 | 140 | 41437591 | 41437528 | 4.650000e-13 | 86.1 |
13 | TraesCS7D01G527600 | chr3B | 100.000 | 44 | 0 | 0 | 320 | 363 | 425171984 | 425172027 | 6.020000e-12 | 82.4 |
14 | TraesCS7D01G527600 | chr5A | 97.826 | 46 | 1 | 0 | 318 | 363 | 654846375 | 654846330 | 2.170000e-11 | 80.5 |
15 | TraesCS7D01G527600 | chr5D | 80.374 | 107 | 14 | 6 | 2299 | 2403 | 332778315 | 332778214 | 1.010000e-09 | 75.0 |
16 | TraesCS7D01G527600 | chr6A | 95.455 | 44 | 1 | 1 | 320 | 363 | 73817013 | 73817055 | 4.690000e-08 | 69.4 |
17 | TraesCS7D01G527600 | chr6A | 93.023 | 43 | 0 | 1 | 321 | 363 | 454139674 | 454139713 | 2.820000e-05 | 60.2 |
18 | TraesCS7D01G527600 | chr2A | 93.478 | 46 | 3 | 0 | 320 | 365 | 765264674 | 765264629 | 4.690000e-08 | 69.4 |
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 | TraesCS7D01G527600 | chr7D | 622602420 | 622605044 | 2624 | True | 2261 | 4263 | 100.000 | 1 | 2625 | 2 | chr7D.!!$R2 | 2624 |
1 | TraesCS7D01G527600 | chr7A | 719417204 | 719419385 | 2181 | False | 2686 | 2686 | 89.028 | 429 | 2624 | 1 | chr7A.!!$F1 | 2195 |
2 | TraesCS7D01G527600 | chr7B | 721056567 | 721058264 | 1697 | False | 2276 | 2276 | 90.973 | 351 | 2046 | 1 | chr7B.!!$F1 | 1695 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
135 | 136 | 0.107897 | TCCACACACATACATCCGGC | 60.108 | 55.0 | 0.0 | 0.0 | 0.0 | 6.13 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1913 | 1958 | 0.401356 | TGCACTCTGGCTGGATTTGA | 59.599 | 50.0 | 0.0 | 0.0 | 34.04 | 2.69 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
23 | 24 | 6.433847 | TCGTTGGGGACATATATGAATCTT | 57.566 | 37.500 | 19.63 | 0.00 | 42.32 | 2.40 |
24 | 25 | 6.464222 | TCGTTGGGGACATATATGAATCTTC | 58.536 | 40.000 | 19.63 | 5.79 | 42.32 | 2.87 |
25 | 26 | 6.270000 | TCGTTGGGGACATATATGAATCTTCT | 59.730 | 38.462 | 19.63 | 0.00 | 42.32 | 2.85 |
26 | 27 | 6.936900 | CGTTGGGGACATATATGAATCTTCTT | 59.063 | 38.462 | 19.63 | 0.00 | 42.32 | 2.52 |
27 | 28 | 7.445402 | CGTTGGGGACATATATGAATCTTCTTT | 59.555 | 37.037 | 19.63 | 0.00 | 42.32 | 2.52 |
28 | 29 | 9.793259 | GTTGGGGACATATATGAATCTTCTTTA | 57.207 | 33.333 | 19.63 | 0.00 | 42.32 | 1.85 |
40 | 41 | 7.591006 | TGAATCTTCTTTATACAACGTCACC | 57.409 | 36.000 | 0.00 | 0.00 | 0.00 | 4.02 |
41 | 42 | 7.156000 | TGAATCTTCTTTATACAACGTCACCA | 58.844 | 34.615 | 0.00 | 0.00 | 0.00 | 4.17 |
42 | 43 | 6.963049 | ATCTTCTTTATACAACGTCACCAC | 57.037 | 37.500 | 0.00 | 0.00 | 0.00 | 4.16 |
43 | 44 | 5.232463 | TCTTCTTTATACAACGTCACCACC | 58.768 | 41.667 | 0.00 | 0.00 | 0.00 | 4.61 |
44 | 45 | 3.577667 | TCTTTATACAACGTCACCACCG | 58.422 | 45.455 | 0.00 | 0.00 | 0.00 | 4.94 |
45 | 46 | 1.712401 | TTATACAACGTCACCACCGC | 58.288 | 50.000 | 0.00 | 0.00 | 0.00 | 5.68 |
46 | 47 | 0.889994 | TATACAACGTCACCACCGCT | 59.110 | 50.000 | 0.00 | 0.00 | 0.00 | 5.52 |
47 | 48 | 0.669318 | ATACAACGTCACCACCGCTG | 60.669 | 55.000 | 0.00 | 0.00 | 0.00 | 5.18 |
48 | 49 | 4.012895 | CAACGTCACCACCGCTGC | 62.013 | 66.667 | 0.00 | 0.00 | 0.00 | 5.25 |
74 | 75 | 3.445857 | GGAACGAAGACTATGTACAGCC | 58.554 | 50.000 | 0.33 | 0.00 | 0.00 | 4.85 |
75 | 76 | 2.846039 | ACGAAGACTATGTACAGCCG | 57.154 | 50.000 | 0.33 | 0.00 | 0.00 | 5.52 |
76 | 77 | 2.362736 | ACGAAGACTATGTACAGCCGA | 58.637 | 47.619 | 0.33 | 0.00 | 0.00 | 5.54 |
77 | 78 | 2.751259 | ACGAAGACTATGTACAGCCGAA | 59.249 | 45.455 | 0.33 | 0.00 | 0.00 | 4.30 |
78 | 79 | 3.192001 | ACGAAGACTATGTACAGCCGAAA | 59.808 | 43.478 | 0.33 | 0.00 | 0.00 | 3.46 |
79 | 80 | 4.171005 | CGAAGACTATGTACAGCCGAAAA | 58.829 | 43.478 | 0.33 | 0.00 | 0.00 | 2.29 |
80 | 81 | 4.624024 | CGAAGACTATGTACAGCCGAAAAA | 59.376 | 41.667 | 0.33 | 0.00 | 0.00 | 1.94 |
81 | 82 | 5.444218 | CGAAGACTATGTACAGCCGAAAAAC | 60.444 | 44.000 | 0.33 | 0.00 | 0.00 | 2.43 |
82 | 83 | 4.251268 | AGACTATGTACAGCCGAAAAACC | 58.749 | 43.478 | 0.33 | 0.00 | 0.00 | 3.27 |
83 | 84 | 4.020485 | AGACTATGTACAGCCGAAAAACCT | 60.020 | 41.667 | 0.33 | 0.00 | 0.00 | 3.50 |
84 | 85 | 5.186409 | AGACTATGTACAGCCGAAAAACCTA | 59.814 | 40.000 | 0.33 | 0.00 | 0.00 | 3.08 |
85 | 86 | 5.797051 | ACTATGTACAGCCGAAAAACCTAA | 58.203 | 37.500 | 0.33 | 0.00 | 0.00 | 2.69 |
86 | 87 | 5.873164 | ACTATGTACAGCCGAAAAACCTAAG | 59.127 | 40.000 | 0.33 | 0.00 | 0.00 | 2.18 |
87 | 88 | 2.809696 | TGTACAGCCGAAAAACCTAAGC | 59.190 | 45.455 | 0.00 | 0.00 | 0.00 | 3.09 |
88 | 89 | 2.271944 | ACAGCCGAAAAACCTAAGCT | 57.728 | 45.000 | 0.00 | 0.00 | 0.00 | 3.74 |
89 | 90 | 3.412237 | ACAGCCGAAAAACCTAAGCTA | 57.588 | 42.857 | 0.00 | 0.00 | 0.00 | 3.32 |
90 | 91 | 3.072211 | ACAGCCGAAAAACCTAAGCTAC | 58.928 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
91 | 92 | 3.244457 | ACAGCCGAAAAACCTAAGCTACT | 60.244 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
92 | 93 | 3.751698 | CAGCCGAAAAACCTAAGCTACTT | 59.248 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
93 | 94 | 3.751698 | AGCCGAAAAACCTAAGCTACTTG | 59.248 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
94 | 95 | 3.119955 | GCCGAAAAACCTAAGCTACTTGG | 60.120 | 47.826 | 0.00 | 0.00 | 0.00 | 3.61 |
95 | 96 | 3.439129 | CCGAAAAACCTAAGCTACTTGGG | 59.561 | 47.826 | 8.06 | 8.06 | 45.72 | 4.12 |
102 | 103 | 4.403585 | CCTAAGCTACTTGGGTCTAACC | 57.596 | 50.000 | 1.81 | 0.00 | 37.34 | 2.85 |
103 | 104 | 4.031611 | CCTAAGCTACTTGGGTCTAACCT | 58.968 | 47.826 | 1.81 | 0.00 | 37.34 | 3.50 |
104 | 105 | 5.206587 | CCTAAGCTACTTGGGTCTAACCTA | 58.793 | 45.833 | 1.81 | 0.00 | 37.34 | 3.08 |
105 | 106 | 5.659971 | CCTAAGCTACTTGGGTCTAACCTAA | 59.340 | 44.000 | 1.81 | 0.00 | 37.34 | 2.69 |
106 | 107 | 6.155737 | CCTAAGCTACTTGGGTCTAACCTAAA | 59.844 | 42.308 | 1.81 | 0.00 | 38.30 | 1.85 |
107 | 108 | 5.678955 | AGCTACTTGGGTCTAACCTAAAG | 57.321 | 43.478 | 9.24 | 9.24 | 38.30 | 1.85 |
108 | 109 | 4.081031 | AGCTACTTGGGTCTAACCTAAAGC | 60.081 | 45.833 | 9.60 | 9.60 | 40.65 | 3.51 |
109 | 110 | 4.081031 | GCTACTTGGGTCTAACCTAAAGCT | 60.081 | 45.833 | 10.11 | 0.00 | 38.65 | 3.74 |
110 | 111 | 5.128335 | GCTACTTGGGTCTAACCTAAAGCTA | 59.872 | 44.000 | 10.11 | 4.41 | 38.65 | 3.32 |
111 | 112 | 5.417754 | ACTTGGGTCTAACCTAAAGCTAC | 57.582 | 43.478 | 10.21 | 0.00 | 38.30 | 3.58 |
112 | 113 | 4.842380 | ACTTGGGTCTAACCTAAAGCTACA | 59.158 | 41.667 | 10.21 | 0.00 | 38.30 | 2.74 |
113 | 114 | 4.813750 | TGGGTCTAACCTAAAGCTACAC | 57.186 | 45.455 | 0.00 | 0.00 | 38.64 | 2.90 |
114 | 115 | 3.194116 | TGGGTCTAACCTAAAGCTACACG | 59.806 | 47.826 | 0.00 | 0.00 | 38.64 | 4.49 |
115 | 116 | 3.445096 | GGGTCTAACCTAAAGCTACACGA | 59.555 | 47.826 | 0.00 | 0.00 | 38.64 | 4.35 |
116 | 117 | 4.099113 | GGGTCTAACCTAAAGCTACACGAT | 59.901 | 45.833 | 0.00 | 0.00 | 38.64 | 3.73 |
117 | 118 | 5.280164 | GGTCTAACCTAAAGCTACACGATC | 58.720 | 45.833 | 0.00 | 0.00 | 34.73 | 3.69 |
118 | 119 | 5.280164 | GTCTAACCTAAAGCTACACGATCC | 58.720 | 45.833 | 0.00 | 0.00 | 0.00 | 3.36 |
119 | 120 | 4.951715 | TCTAACCTAAAGCTACACGATCCA | 59.048 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
120 | 121 | 3.521947 | ACCTAAAGCTACACGATCCAC | 57.478 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
121 | 122 | 2.829720 | ACCTAAAGCTACACGATCCACA | 59.170 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
122 | 123 | 3.187700 | CCTAAAGCTACACGATCCACAC | 58.812 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
123 | 124 | 2.831685 | AAAGCTACACGATCCACACA | 57.168 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
124 | 125 | 2.080286 | AAGCTACACGATCCACACAC | 57.920 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
125 | 126 | 0.966179 | AGCTACACGATCCACACACA | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
126 | 127 | 1.550524 | AGCTACACGATCCACACACAT | 59.449 | 47.619 | 0.00 | 0.00 | 0.00 | 3.21 |
127 | 128 | 2.758423 | AGCTACACGATCCACACACATA | 59.242 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
128 | 129 | 2.858344 | GCTACACGATCCACACACATAC | 59.142 | 50.000 | 0.00 | 0.00 | 0.00 | 2.39 |
129 | 130 | 3.674955 | GCTACACGATCCACACACATACA | 60.675 | 47.826 | 0.00 | 0.00 | 0.00 | 2.29 |
130 | 131 | 3.610040 | ACACGATCCACACACATACAT | 57.390 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
131 | 132 | 3.521560 | ACACGATCCACACACATACATC | 58.478 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
132 | 133 | 2.866156 | CACGATCCACACACATACATCC | 59.134 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
133 | 134 | 2.127251 | CGATCCACACACATACATCCG | 58.873 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
134 | 135 | 2.483876 | GATCCACACACATACATCCGG | 58.516 | 52.381 | 0.00 | 0.00 | 0.00 | 5.14 |
135 | 136 | 0.107897 | TCCACACACATACATCCGGC | 60.108 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
136 | 137 | 1.428370 | CCACACACATACATCCGGCG | 61.428 | 60.000 | 0.00 | 0.00 | 0.00 | 6.46 |
137 | 138 | 0.459411 | CACACACATACATCCGGCGA | 60.459 | 55.000 | 9.30 | 0.00 | 0.00 | 5.54 |
138 | 139 | 0.459585 | ACACACATACATCCGGCGAC | 60.460 | 55.000 | 9.30 | 0.00 | 0.00 | 5.19 |
139 | 140 | 1.143183 | ACACATACATCCGGCGACC | 59.857 | 57.895 | 9.30 | 0.00 | 0.00 | 4.79 |
334 | 335 | 2.184579 | GAAGGAACGAGGCGGAGG | 59.815 | 66.667 | 0.00 | 0.00 | 0.00 | 4.30 |
335 | 336 | 3.372554 | GAAGGAACGAGGCGGAGGG | 62.373 | 68.421 | 0.00 | 0.00 | 0.00 | 4.30 |
336 | 337 | 3.899545 | AAGGAACGAGGCGGAGGGA | 62.900 | 63.158 | 0.00 | 0.00 | 0.00 | 4.20 |
337 | 338 | 4.144703 | GGAACGAGGCGGAGGGAC | 62.145 | 72.222 | 0.00 | 0.00 | 0.00 | 4.46 |
405 | 406 | 3.005261 | TGTCTGAGAGAAGAGAAGCACAC | 59.995 | 47.826 | 0.00 | 0.00 | 0.00 | 3.82 |
420 | 421 | 1.732259 | GCACACTACCATTTCCACTCG | 59.268 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
673 | 685 | 0.740737 | AACAAGTTGTCTGCTGGTGC | 59.259 | 50.000 | 9.40 | 0.00 | 40.20 | 5.01 |
931 | 968 | 2.385803 | ACCTACCTAACCCTGTCATCG | 58.614 | 52.381 | 0.00 | 0.00 | 0.00 | 3.84 |
964 | 1001 | 8.909708 | TCAACAAGTTTTGTCAAGAAACATAG | 57.090 | 30.769 | 3.59 | 0.00 | 44.59 | 2.23 |
974 | 1011 | 4.505922 | GTCAAGAAACATAGGCTCGATCAG | 59.494 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
1208 | 1245 | 7.927683 | ATCTCCATCAACCTAGATATATGGG | 57.072 | 40.000 | 0.00 | 0.00 | 35.61 | 4.00 |
1235 | 1272 | 0.882042 | CTAACTAGCCAGGCGCATGG | 60.882 | 60.000 | 35.48 | 35.48 | 43.72 | 3.66 |
1237 | 1274 | 1.622607 | AACTAGCCAGGCGCATGGTA | 61.623 | 55.000 | 38.10 | 26.81 | 42.75 | 3.25 |
1251 | 1288 | 4.351192 | CGCATGGTATGATTCGATCGATA | 58.649 | 43.478 | 20.18 | 10.39 | 0.00 | 2.92 |
1270 | 1307 | 0.835971 | AAATTTGGGGGTGGCTGGTC | 60.836 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1447 | 1484 | 1.372748 | CATCTGCGAGATCTCCGGC | 60.373 | 63.158 | 17.13 | 15.30 | 31.32 | 6.13 |
1486 | 1523 | 2.504244 | CTCGCCGTCAACGTCTCC | 60.504 | 66.667 | 1.48 | 0.00 | 37.74 | 3.71 |
1537 | 1574 | 3.838271 | GACGCTCCGCCATCTCCA | 61.838 | 66.667 | 0.00 | 0.00 | 0.00 | 3.86 |
1540 | 1577 | 2.356793 | GCTCCGCCATCTCCATCG | 60.357 | 66.667 | 0.00 | 0.00 | 0.00 | 3.84 |
1546 | 1583 | 4.320456 | CCATCTCCATCGGCCGGG | 62.320 | 72.222 | 27.83 | 20.20 | 0.00 | 5.73 |
1621 | 1658 | 1.227999 | CGGTGCACGTCTTGGTCAAT | 61.228 | 55.000 | 11.45 | 0.00 | 37.93 | 2.57 |
1657 | 1694 | 2.297701 | GACCTGTTCAAAGTTGGCTCA | 58.702 | 47.619 | 0.00 | 0.00 | 0.00 | 4.26 |
1662 | 1699 | 4.320494 | CCTGTTCAAAGTTGGCTCATGTAC | 60.320 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
1686 | 1726 | 4.572795 | GCTAGCTGTTTATTCTTCTGTCCC | 59.427 | 45.833 | 7.70 | 0.00 | 0.00 | 4.46 |
1688 | 1728 | 4.583871 | AGCTGTTTATTCTTCTGTCCCTG | 58.416 | 43.478 | 0.00 | 0.00 | 0.00 | 4.45 |
1693 | 1733 | 5.163141 | TGTTTATTCTTCTGTCCCTGTCCAA | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
1753 | 1793 | 7.825761 | AGTCATGATTCACAGATACAACATTCA | 59.174 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
1768 | 1808 | 4.274602 | ACATTCAATTCAATTGCAGCCA | 57.725 | 36.364 | 5.12 | 0.00 | 40.05 | 4.75 |
1799 | 1839 | 5.978322 | GCCACAAACATTTGCATGAAATTTT | 59.022 | 32.000 | 0.00 | 0.00 | 41.79 | 1.82 |
1800 | 1840 | 7.137426 | GCCACAAACATTTGCATGAAATTTTA | 58.863 | 30.769 | 0.00 | 0.00 | 41.79 | 1.52 |
1868 | 1912 | 3.618690 | ATCTAGCTCTGTTCAACCACC | 57.381 | 47.619 | 0.00 | 0.00 | 0.00 | 4.61 |
1872 | 1916 | 2.949447 | AGCTCTGTTCAACCACCAATT | 58.051 | 42.857 | 0.00 | 0.00 | 0.00 | 2.32 |
1873 | 1917 | 4.098914 | AGCTCTGTTCAACCACCAATTA | 57.901 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
1874 | 1918 | 4.074970 | AGCTCTGTTCAACCACCAATTAG | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
1875 | 1919 | 3.821033 | GCTCTGTTCAACCACCAATTAGT | 59.179 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
1898 | 1942 | 5.974751 | GTCTTCGTCATTTTAAGTTTTGGCA | 59.025 | 36.000 | 0.00 | 0.00 | 0.00 | 4.92 |
1909 | 1953 | 6.793492 | TTAAGTTTTGGCATATGCAAAACC | 57.207 | 33.333 | 34.47 | 27.57 | 43.08 | 3.27 |
1913 | 1958 | 3.977134 | TTGGCATATGCAAAACCATGT | 57.023 | 38.095 | 28.07 | 0.00 | 44.36 | 3.21 |
1925 | 1970 | 2.307496 | AACCATGTCAAATCCAGCCA | 57.693 | 45.000 | 0.00 | 0.00 | 0.00 | 4.75 |
1926 | 1971 | 1.843368 | ACCATGTCAAATCCAGCCAG | 58.157 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
1956 | 2001 | 6.670695 | AACTCCAATTACTCTTTTTGCCAT | 57.329 | 33.333 | 0.00 | 0.00 | 0.00 | 4.40 |
1957 | 2002 | 7.775053 | AACTCCAATTACTCTTTTTGCCATA | 57.225 | 32.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1968 | 2014 | 8.785329 | ACTCTTTTTGCCATAAAAAGTTTTCA | 57.215 | 26.923 | 18.73 | 0.00 | 43.81 | 2.69 |
1983 | 2029 | 6.757897 | AAGTTTTCACACTGTCAATGAGAA | 57.242 | 33.333 | 0.00 | 0.00 | 0.00 | 2.87 |
2014 | 2060 | 7.276878 | AGTTGTTATACAAACAAAGGTGCAAAC | 59.723 | 33.333 | 4.98 | 0.00 | 40.15 | 2.93 |
2015 | 2061 | 6.043411 | TGTTATACAAACAAAGGTGCAAACC | 58.957 | 36.000 | 0.00 | 0.00 | 0.00 | 3.27 |
2079 | 2125 | 6.825610 | TCCATTACATGCCAAAAGTTCTTTT | 58.174 | 32.000 | 4.91 | 4.91 | 0.00 | 2.27 |
2080 | 2126 | 6.705381 | TCCATTACATGCCAAAAGTTCTTTTG | 59.295 | 34.615 | 23.14 | 23.14 | 40.57 | 2.44 |
2081 | 2127 | 6.482973 | CCATTACATGCCAAAAGTTCTTTTGT | 59.517 | 34.615 | 25.90 | 16.06 | 39.57 | 2.83 |
2082 | 2128 | 7.012232 | CCATTACATGCCAAAAGTTCTTTTGTT | 59.988 | 33.333 | 25.90 | 14.12 | 39.57 | 2.83 |
2083 | 2129 | 5.799681 | ACATGCCAAAAGTTCTTTTGTTG | 57.200 | 34.783 | 25.90 | 22.23 | 39.57 | 3.33 |
2084 | 2130 | 4.094739 | ACATGCCAAAAGTTCTTTTGTTGC | 59.905 | 37.500 | 25.90 | 23.31 | 39.57 | 4.17 |
2085 | 2131 | 3.936564 | TGCCAAAAGTTCTTTTGTTGCT | 58.063 | 36.364 | 25.90 | 0.00 | 39.57 | 3.91 |
2086 | 2132 | 4.322567 | TGCCAAAAGTTCTTTTGTTGCTT | 58.677 | 34.783 | 25.90 | 0.00 | 39.57 | 3.91 |
2087 | 2133 | 5.482908 | TGCCAAAAGTTCTTTTGTTGCTTA | 58.517 | 33.333 | 25.90 | 12.58 | 39.57 | 3.09 |
2088 | 2134 | 5.580297 | TGCCAAAAGTTCTTTTGTTGCTTAG | 59.420 | 36.000 | 25.90 | 15.36 | 39.57 | 2.18 |
2089 | 2135 | 5.810074 | GCCAAAAGTTCTTTTGTTGCTTAGA | 59.190 | 36.000 | 25.90 | 0.00 | 39.57 | 2.10 |
2090 | 2136 | 6.479990 | GCCAAAAGTTCTTTTGTTGCTTAGAT | 59.520 | 34.615 | 25.90 | 0.00 | 39.57 | 1.98 |
2091 | 2137 | 7.011389 | GCCAAAAGTTCTTTTGTTGCTTAGATT | 59.989 | 33.333 | 25.90 | 0.00 | 39.57 | 2.40 |
2092 | 2138 | 8.882736 | CCAAAAGTTCTTTTGTTGCTTAGATTT | 58.117 | 29.630 | 25.90 | 0.00 | 39.57 | 2.17 |
2150 | 2196 | 5.295950 | CCATTGCTTACCACAATTTGACAA | 58.704 | 37.500 | 2.79 | 0.00 | 35.58 | 3.18 |
2203 | 2250 | 1.036481 | ATAATGCACATGTGGCGGCA | 61.036 | 50.000 | 26.55 | 18.43 | 41.00 | 5.69 |
2239 | 2286 | 2.991250 | TGAGCATAACAGGGAAGAAGC | 58.009 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
2240 | 2287 | 2.305635 | TGAGCATAACAGGGAAGAAGCA | 59.694 | 45.455 | 0.00 | 0.00 | 0.00 | 3.91 |
2241 | 2288 | 2.941720 | GAGCATAACAGGGAAGAAGCAG | 59.058 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
2242 | 2289 | 2.019984 | GCATAACAGGGAAGAAGCAGG | 58.980 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
2243 | 2290 | 2.356125 | GCATAACAGGGAAGAAGCAGGA | 60.356 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2244 | 2291 | 3.873801 | GCATAACAGGGAAGAAGCAGGAA | 60.874 | 47.826 | 0.00 | 0.00 | 0.00 | 3.36 |
2260 | 2307 | 6.186420 | AGCAGGAAAATGGTGGTAAAAATT | 57.814 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
2275 | 2322 | 6.584563 | TGGTAAAAATTCGAAAGTGCTATTGC | 59.415 | 34.615 | 0.00 | 0.00 | 40.20 | 3.56 |
2276 | 2323 | 5.745653 | AAAAATTCGAAAGTGCTATTGCG | 57.254 | 34.783 | 0.00 | 0.00 | 43.34 | 4.85 |
2277 | 2324 | 4.678509 | AAATTCGAAAGTGCTATTGCGA | 57.321 | 36.364 | 0.00 | 1.00 | 43.34 | 5.10 |
2400 | 2449 | 8.939201 | TTTTTCTACACTCATGCAAATTTTCA | 57.061 | 26.923 | 0.00 | 0.00 | 0.00 | 2.69 |
2409 | 2458 | 5.536260 | TCATGCAAATTTTCACGATGGAAA | 58.464 | 33.333 | 0.00 | 0.00 | 35.11 | 3.13 |
2430 | 2479 | 1.608590 | CACATTTGTGGAGGTGTGGAC | 59.391 | 52.381 | 2.69 | 0.00 | 42.10 | 4.02 |
2454 | 2503 | 4.647424 | AAAACAAAGTTGATGCTCCGAA | 57.353 | 36.364 | 0.00 | 0.00 | 0.00 | 4.30 |
2463 | 2512 | 0.729690 | GATGCTCCGAAAAGAGTGCC | 59.270 | 55.000 | 0.00 | 0.00 | 36.20 | 5.01 |
2484 | 2533 | 6.090358 | GTGCCTCTTGAATCATCAATTTTGTG | 59.910 | 38.462 | 0.00 | 0.00 | 44.29 | 3.33 |
2491 | 2540 | 8.838452 | TTGAATCATCAATTTTGTGTTTTTGC | 57.162 | 26.923 | 0.00 | 0.00 | 40.59 | 3.68 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 6.270000 | AGAAGATTCATATATGTCCCCAACGA | 59.730 | 38.462 | 12.42 | 0.00 | 0.00 | 3.85 |
1 | 2 | 6.467677 | AGAAGATTCATATATGTCCCCAACG | 58.532 | 40.000 | 12.42 | 0.00 | 0.00 | 4.10 |
2 | 3 | 8.697507 | AAAGAAGATTCATATATGTCCCCAAC | 57.302 | 34.615 | 12.42 | 1.66 | 0.00 | 3.77 |
14 | 15 | 9.309516 | GGTGACGTTGTATAAAGAAGATTCATA | 57.690 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
15 | 16 | 7.822334 | TGGTGACGTTGTATAAAGAAGATTCAT | 59.178 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
16 | 17 | 7.117236 | GTGGTGACGTTGTATAAAGAAGATTCA | 59.883 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
17 | 18 | 7.412672 | GGTGGTGACGTTGTATAAAGAAGATTC | 60.413 | 40.741 | 0.00 | 0.00 | 0.00 | 2.52 |
18 | 19 | 6.370718 | GGTGGTGACGTTGTATAAAGAAGATT | 59.629 | 38.462 | 0.00 | 0.00 | 0.00 | 2.40 |
19 | 20 | 5.873164 | GGTGGTGACGTTGTATAAAGAAGAT | 59.127 | 40.000 | 0.00 | 0.00 | 0.00 | 2.40 |
20 | 21 | 5.232463 | GGTGGTGACGTTGTATAAAGAAGA | 58.768 | 41.667 | 0.00 | 0.00 | 0.00 | 2.87 |
21 | 22 | 4.090930 | CGGTGGTGACGTTGTATAAAGAAG | 59.909 | 45.833 | 0.00 | 0.00 | 0.00 | 2.85 |
22 | 23 | 3.989167 | CGGTGGTGACGTTGTATAAAGAA | 59.011 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
23 | 24 | 3.577667 | CGGTGGTGACGTTGTATAAAGA | 58.422 | 45.455 | 0.00 | 0.00 | 0.00 | 2.52 |
24 | 25 | 2.093152 | GCGGTGGTGACGTTGTATAAAG | 59.907 | 50.000 | 0.00 | 0.00 | 0.00 | 1.85 |
25 | 26 | 2.067766 | GCGGTGGTGACGTTGTATAAA | 58.932 | 47.619 | 0.00 | 0.00 | 0.00 | 1.40 |
26 | 27 | 1.273048 | AGCGGTGGTGACGTTGTATAA | 59.727 | 47.619 | 0.00 | 0.00 | 0.00 | 0.98 |
27 | 28 | 0.889994 | AGCGGTGGTGACGTTGTATA | 59.110 | 50.000 | 0.00 | 0.00 | 0.00 | 1.47 |
28 | 29 | 0.669318 | CAGCGGTGGTGACGTTGTAT | 60.669 | 55.000 | 6.74 | 0.00 | 37.69 | 2.29 |
29 | 30 | 1.300311 | CAGCGGTGGTGACGTTGTA | 60.300 | 57.895 | 6.74 | 0.00 | 37.69 | 2.41 |
30 | 31 | 2.587753 | CAGCGGTGGTGACGTTGT | 60.588 | 61.111 | 6.74 | 0.00 | 37.69 | 3.32 |
31 | 32 | 4.012895 | GCAGCGGTGGTGACGTTG | 62.013 | 66.667 | 17.54 | 0.00 | 43.87 | 4.10 |
45 | 46 | 4.735132 | TCTTCGTTCCGGCGGCAG | 62.735 | 66.667 | 23.83 | 14.82 | 0.00 | 4.85 |
47 | 48 | 2.624437 | ATAGTCTTCGTTCCGGCGGC | 62.624 | 60.000 | 23.83 | 7.36 | 0.00 | 6.53 |
48 | 49 | 0.870307 | CATAGTCTTCGTTCCGGCGG | 60.870 | 60.000 | 22.51 | 22.51 | 0.00 | 6.13 |
49 | 50 | 0.179145 | ACATAGTCTTCGTTCCGGCG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 6.46 |
50 | 51 | 2.159338 | TGTACATAGTCTTCGTTCCGGC | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
51 | 52 | 3.692576 | CTGTACATAGTCTTCGTTCCGG | 58.307 | 50.000 | 0.00 | 0.00 | 0.00 | 5.14 |
52 | 53 | 3.106672 | GCTGTACATAGTCTTCGTTCCG | 58.893 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
53 | 54 | 3.445857 | GGCTGTACATAGTCTTCGTTCC | 58.554 | 50.000 | 0.00 | 0.00 | 0.00 | 3.62 |
54 | 55 | 3.106672 | CGGCTGTACATAGTCTTCGTTC | 58.893 | 50.000 | 0.00 | 0.00 | 0.00 | 3.95 |
55 | 56 | 2.751259 | TCGGCTGTACATAGTCTTCGTT | 59.249 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
56 | 57 | 2.362736 | TCGGCTGTACATAGTCTTCGT | 58.637 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
57 | 58 | 3.416119 | TTCGGCTGTACATAGTCTTCG | 57.584 | 47.619 | 0.00 | 0.00 | 0.00 | 3.79 |
58 | 59 | 5.163884 | GGTTTTTCGGCTGTACATAGTCTTC | 60.164 | 44.000 | 0.00 | 0.00 | 0.00 | 2.87 |
59 | 60 | 4.694037 | GGTTTTTCGGCTGTACATAGTCTT | 59.306 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
60 | 61 | 4.020485 | AGGTTTTTCGGCTGTACATAGTCT | 60.020 | 41.667 | 0.00 | 0.00 | 0.00 | 3.24 |
61 | 62 | 4.251268 | AGGTTTTTCGGCTGTACATAGTC | 58.749 | 43.478 | 0.00 | 0.00 | 0.00 | 2.59 |
62 | 63 | 4.281898 | AGGTTTTTCGGCTGTACATAGT | 57.718 | 40.909 | 0.00 | 0.00 | 0.00 | 2.12 |
63 | 64 | 5.220605 | GCTTAGGTTTTTCGGCTGTACATAG | 60.221 | 44.000 | 0.00 | 0.00 | 0.00 | 2.23 |
64 | 65 | 4.632688 | GCTTAGGTTTTTCGGCTGTACATA | 59.367 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
65 | 66 | 3.439129 | GCTTAGGTTTTTCGGCTGTACAT | 59.561 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
66 | 67 | 2.809696 | GCTTAGGTTTTTCGGCTGTACA | 59.190 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
67 | 68 | 3.072211 | AGCTTAGGTTTTTCGGCTGTAC | 58.928 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
68 | 69 | 3.412237 | AGCTTAGGTTTTTCGGCTGTA | 57.588 | 42.857 | 0.00 | 0.00 | 0.00 | 2.74 |
69 | 70 | 2.271944 | AGCTTAGGTTTTTCGGCTGT | 57.728 | 45.000 | 0.00 | 0.00 | 0.00 | 4.40 |
70 | 71 | 3.335579 | AGTAGCTTAGGTTTTTCGGCTG | 58.664 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
71 | 72 | 3.697619 | AGTAGCTTAGGTTTTTCGGCT | 57.302 | 42.857 | 0.00 | 0.00 | 0.00 | 5.52 |
72 | 73 | 3.119955 | CCAAGTAGCTTAGGTTTTTCGGC | 60.120 | 47.826 | 0.00 | 0.00 | 0.00 | 5.54 |
73 | 74 | 3.439129 | CCCAAGTAGCTTAGGTTTTTCGG | 59.561 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
74 | 75 | 4.070009 | ACCCAAGTAGCTTAGGTTTTTCG | 58.930 | 43.478 | 0.00 | 0.00 | 31.86 | 3.46 |
75 | 76 | 5.314529 | AGACCCAAGTAGCTTAGGTTTTTC | 58.685 | 41.667 | 0.00 | 0.00 | 35.75 | 2.29 |
76 | 77 | 5.320488 | AGACCCAAGTAGCTTAGGTTTTT | 57.680 | 39.130 | 0.00 | 0.00 | 35.75 | 1.94 |
77 | 78 | 4.995624 | AGACCCAAGTAGCTTAGGTTTT | 57.004 | 40.909 | 0.00 | 0.00 | 35.75 | 2.43 |
78 | 79 | 5.280368 | GGTTAGACCCAAGTAGCTTAGGTTT | 60.280 | 44.000 | 0.00 | 0.00 | 35.75 | 3.27 |
79 | 80 | 4.224594 | GGTTAGACCCAAGTAGCTTAGGTT | 59.775 | 45.833 | 0.00 | 0.00 | 35.75 | 3.50 |
80 | 81 | 3.773667 | GGTTAGACCCAAGTAGCTTAGGT | 59.226 | 47.826 | 0.00 | 0.00 | 38.12 | 3.08 |
81 | 82 | 4.031611 | AGGTTAGACCCAAGTAGCTTAGG | 58.968 | 47.826 | 0.00 | 0.00 | 39.75 | 2.69 |
82 | 83 | 6.786967 | TTAGGTTAGACCCAAGTAGCTTAG | 57.213 | 41.667 | 0.00 | 0.00 | 39.75 | 2.18 |
83 | 84 | 6.351626 | GCTTTAGGTTAGACCCAAGTAGCTTA | 60.352 | 42.308 | 0.00 | 0.00 | 39.75 | 3.09 |
84 | 85 | 5.571047 | GCTTTAGGTTAGACCCAAGTAGCTT | 60.571 | 44.000 | 0.00 | 0.00 | 39.75 | 3.74 |
85 | 86 | 4.081031 | GCTTTAGGTTAGACCCAAGTAGCT | 60.081 | 45.833 | 0.00 | 0.00 | 39.75 | 3.32 |
86 | 87 | 4.081031 | AGCTTTAGGTTAGACCCAAGTAGC | 60.081 | 45.833 | 7.91 | 0.00 | 39.75 | 3.58 |
87 | 88 | 5.678955 | AGCTTTAGGTTAGACCCAAGTAG | 57.321 | 43.478 | 7.91 | 0.00 | 39.75 | 2.57 |
88 | 89 | 6.018469 | TGTAGCTTTAGGTTAGACCCAAGTA | 58.982 | 40.000 | 0.00 | 0.26 | 39.75 | 2.24 |
89 | 90 | 4.842380 | TGTAGCTTTAGGTTAGACCCAAGT | 59.158 | 41.667 | 0.00 | 0.00 | 39.75 | 3.16 |
90 | 91 | 5.176592 | GTGTAGCTTTAGGTTAGACCCAAG | 58.823 | 45.833 | 0.00 | 0.00 | 39.75 | 3.61 |
91 | 92 | 4.322198 | CGTGTAGCTTTAGGTTAGACCCAA | 60.322 | 45.833 | 0.00 | 0.00 | 39.75 | 4.12 |
92 | 93 | 3.194116 | CGTGTAGCTTTAGGTTAGACCCA | 59.806 | 47.826 | 0.00 | 0.00 | 39.75 | 4.51 |
93 | 94 | 3.445096 | TCGTGTAGCTTTAGGTTAGACCC | 59.555 | 47.826 | 0.00 | 0.00 | 39.75 | 4.46 |
94 | 95 | 4.708726 | TCGTGTAGCTTTAGGTTAGACC | 57.291 | 45.455 | 0.00 | 0.00 | 38.99 | 3.85 |
95 | 96 | 5.163581 | TGGATCGTGTAGCTTTAGGTTAGAC | 60.164 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
96 | 97 | 4.951715 | TGGATCGTGTAGCTTTAGGTTAGA | 59.048 | 41.667 | 0.00 | 0.00 | 0.00 | 2.10 |
97 | 98 | 5.041940 | GTGGATCGTGTAGCTTTAGGTTAG | 58.958 | 45.833 | 0.00 | 0.00 | 0.00 | 2.34 |
98 | 99 | 4.463539 | TGTGGATCGTGTAGCTTTAGGTTA | 59.536 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
99 | 100 | 3.259876 | TGTGGATCGTGTAGCTTTAGGTT | 59.740 | 43.478 | 0.00 | 0.00 | 0.00 | 3.50 |
100 | 101 | 2.829720 | TGTGGATCGTGTAGCTTTAGGT | 59.170 | 45.455 | 0.00 | 0.00 | 0.00 | 3.08 |
101 | 102 | 3.187700 | GTGTGGATCGTGTAGCTTTAGG | 58.812 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
102 | 103 | 3.612860 | GTGTGTGGATCGTGTAGCTTTAG | 59.387 | 47.826 | 0.00 | 0.00 | 0.00 | 1.85 |
103 | 104 | 3.006003 | TGTGTGTGGATCGTGTAGCTTTA | 59.994 | 43.478 | 0.00 | 0.00 | 0.00 | 1.85 |
104 | 105 | 2.224185 | TGTGTGTGGATCGTGTAGCTTT | 60.224 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
105 | 106 | 1.343142 | TGTGTGTGGATCGTGTAGCTT | 59.657 | 47.619 | 0.00 | 0.00 | 0.00 | 3.74 |
106 | 107 | 0.966179 | TGTGTGTGGATCGTGTAGCT | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
107 | 108 | 2.010145 | ATGTGTGTGGATCGTGTAGC | 57.990 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
108 | 109 | 4.104696 | TGTATGTGTGTGGATCGTGTAG | 57.895 | 45.455 | 0.00 | 0.00 | 0.00 | 2.74 |
109 | 110 | 4.440940 | GGATGTATGTGTGTGGATCGTGTA | 60.441 | 45.833 | 0.00 | 0.00 | 0.00 | 2.90 |
110 | 111 | 3.521560 | GATGTATGTGTGTGGATCGTGT | 58.478 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
111 | 112 | 2.866156 | GGATGTATGTGTGTGGATCGTG | 59.134 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
112 | 113 | 2.481276 | CGGATGTATGTGTGTGGATCGT | 60.481 | 50.000 | 0.00 | 0.00 | 0.00 | 3.73 |
113 | 114 | 2.127251 | CGGATGTATGTGTGTGGATCG | 58.873 | 52.381 | 0.00 | 0.00 | 0.00 | 3.69 |
114 | 115 | 2.483876 | CCGGATGTATGTGTGTGGATC | 58.516 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
115 | 116 | 1.475034 | GCCGGATGTATGTGTGTGGAT | 60.475 | 52.381 | 5.05 | 0.00 | 0.00 | 3.41 |
116 | 117 | 0.107897 | GCCGGATGTATGTGTGTGGA | 60.108 | 55.000 | 5.05 | 0.00 | 0.00 | 4.02 |
117 | 118 | 1.428370 | CGCCGGATGTATGTGTGTGG | 61.428 | 60.000 | 5.05 | 0.00 | 0.00 | 4.17 |
118 | 119 | 0.459411 | TCGCCGGATGTATGTGTGTG | 60.459 | 55.000 | 5.05 | 0.00 | 0.00 | 3.82 |
119 | 120 | 0.459585 | GTCGCCGGATGTATGTGTGT | 60.460 | 55.000 | 5.05 | 0.00 | 0.00 | 3.72 |
120 | 121 | 1.151777 | GGTCGCCGGATGTATGTGTG | 61.152 | 60.000 | 5.05 | 0.00 | 0.00 | 3.82 |
121 | 122 | 1.143183 | GGTCGCCGGATGTATGTGT | 59.857 | 57.895 | 5.05 | 0.00 | 0.00 | 3.72 |
122 | 123 | 4.027755 | GGTCGCCGGATGTATGTG | 57.972 | 61.111 | 5.05 | 0.00 | 0.00 | 3.21 |
317 | 318 | 2.184579 | CCTCCGCCTCGTTCCTTC | 59.815 | 66.667 | 0.00 | 0.00 | 0.00 | 3.46 |
318 | 319 | 3.391382 | CCCTCCGCCTCGTTCCTT | 61.391 | 66.667 | 0.00 | 0.00 | 0.00 | 3.36 |
319 | 320 | 4.377760 | TCCCTCCGCCTCGTTCCT | 62.378 | 66.667 | 0.00 | 0.00 | 0.00 | 3.36 |
320 | 321 | 4.144703 | GTCCCTCCGCCTCGTTCC | 62.145 | 72.222 | 0.00 | 0.00 | 0.00 | 3.62 |
321 | 322 | 3.066233 | GAGTCCCTCCGCCTCGTTC | 62.066 | 68.421 | 0.00 | 0.00 | 0.00 | 3.95 |
322 | 323 | 3.069318 | GAGTCCCTCCGCCTCGTT | 61.069 | 66.667 | 0.00 | 0.00 | 0.00 | 3.85 |
323 | 324 | 3.999297 | GAGAGTCCCTCCGCCTCGT | 62.999 | 68.421 | 0.00 | 0.00 | 35.87 | 4.18 |
324 | 325 | 3.213402 | GAGAGTCCCTCCGCCTCG | 61.213 | 72.222 | 0.00 | 0.00 | 35.87 | 4.63 |
331 | 332 | 3.151022 | CCGCCAGGAGAGTCCCTC | 61.151 | 72.222 | 0.00 | 0.00 | 41.02 | 4.30 |
345 | 346 | 3.971109 | AAGAAACCCTAGCCGCCGC | 62.971 | 63.158 | 0.00 | 0.00 | 0.00 | 6.53 |
346 | 347 | 2.106683 | CAAGAAACCCTAGCCGCCG | 61.107 | 63.158 | 0.00 | 0.00 | 0.00 | 6.46 |
347 | 348 | 0.107165 | ATCAAGAAACCCTAGCCGCC | 60.107 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
348 | 349 | 1.751437 | AATCAAGAAACCCTAGCCGC | 58.249 | 50.000 | 0.00 | 0.00 | 0.00 | 6.53 |
349 | 350 | 6.934645 | TCATATTAATCAAGAAACCCTAGCCG | 59.065 | 38.462 | 0.00 | 0.00 | 0.00 | 5.52 |
405 | 406 | 3.600388 | AGCTTTCGAGTGGAAATGGTAG | 58.400 | 45.455 | 0.41 | 0.00 | 43.40 | 3.18 |
420 | 421 | 2.880890 | TGAAAGAGCAGGTGAAGCTTTC | 59.119 | 45.455 | 0.00 | 0.00 | 43.58 | 2.62 |
673 | 685 | 8.702163 | TGTCAAAGCGTATATGGTATATGATG | 57.298 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
931 | 968 | 4.024893 | TGACAAAACTTGTTGATCGAGCTC | 60.025 | 41.667 | 2.73 | 2.73 | 45.52 | 4.09 |
974 | 1011 | 3.567797 | GGAGCGACGGATGCTTGC | 61.568 | 66.667 | 0.00 | 0.00 | 44.18 | 4.01 |
1038 | 1075 | 1.595993 | GGAGCAGTACGCAGACCAGA | 61.596 | 60.000 | 11.30 | 0.00 | 46.13 | 3.86 |
1235 | 1272 | 7.414098 | CCCCCAAATTTATCGATCGAATCATAC | 60.414 | 40.741 | 23.50 | 0.00 | 0.00 | 2.39 |
1237 | 1274 | 5.415701 | CCCCCAAATTTATCGATCGAATCAT | 59.584 | 40.000 | 23.50 | 10.93 | 0.00 | 2.45 |
1251 | 1288 | 0.835971 | GACCAGCCACCCCCAAATTT | 60.836 | 55.000 | 0.00 | 0.00 | 0.00 | 1.82 |
1270 | 1307 | 1.334992 | CGTACTCGAACACTGCGTGG | 61.335 | 60.000 | 12.18 | 0.00 | 37.25 | 4.94 |
1462 | 1499 | 1.421485 | GTTGACGGCGAGCTTCATG | 59.579 | 57.895 | 16.62 | 0.00 | 0.00 | 3.07 |
1525 | 1562 | 3.928779 | GCCGATGGAGATGGCGGA | 61.929 | 66.667 | 0.00 | 0.00 | 46.29 | 5.54 |
1603 | 1640 | 0.951558 | AATTGACCAAGACGTGCACC | 59.048 | 50.000 | 12.15 | 0.00 | 0.00 | 5.01 |
1621 | 1658 | 3.578716 | ACAGGTCAAACTAGCTAGCTCAA | 59.421 | 43.478 | 23.26 | 3.28 | 0.00 | 3.02 |
1649 | 1686 | 0.931005 | GCTAGCGTACATGAGCCAAC | 59.069 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
1657 | 1694 | 6.477033 | CAGAAGAATAAACAGCTAGCGTACAT | 59.523 | 38.462 | 9.55 | 4.92 | 0.00 | 2.29 |
1662 | 1699 | 4.268884 | GGACAGAAGAATAAACAGCTAGCG | 59.731 | 45.833 | 9.55 | 7.05 | 0.00 | 4.26 |
1728 | 1768 | 7.977904 | TGAATGTTGTATCTGTGAATCATGAC | 58.022 | 34.615 | 0.00 | 0.00 | 0.00 | 3.06 |
1753 | 1793 | 3.756933 | AACAGTGGCTGCAATTGAATT | 57.243 | 38.095 | 10.34 | 0.00 | 34.37 | 2.17 |
1768 | 1808 | 2.677337 | GCAAATGTTTGTGGCAAACAGT | 59.323 | 40.909 | 24.92 | 21.61 | 42.57 | 3.55 |
1799 | 1839 | 7.935520 | TGCCGCATAAATTCTATTCAACATTA | 58.064 | 30.769 | 0.00 | 0.00 | 0.00 | 1.90 |
1800 | 1840 | 6.804677 | TGCCGCATAAATTCTATTCAACATT | 58.195 | 32.000 | 0.00 | 0.00 | 0.00 | 2.71 |
1806 | 1846 | 7.755582 | AAAACTTGCCGCATAAATTCTATTC | 57.244 | 32.000 | 0.00 | 0.00 | 0.00 | 1.75 |
1810 | 1850 | 5.296748 | ACAAAAACTTGCCGCATAAATTCT | 58.703 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
1872 | 1916 | 7.012515 | TGCCAAAACTTAAAATGACGAAGACTA | 59.987 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
1873 | 1917 | 6.183360 | TGCCAAAACTTAAAATGACGAAGACT | 60.183 | 34.615 | 0.00 | 0.00 | 0.00 | 3.24 |
1874 | 1918 | 5.974751 | TGCCAAAACTTAAAATGACGAAGAC | 59.025 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
1875 | 1919 | 6.137794 | TGCCAAAACTTAAAATGACGAAGA | 57.862 | 33.333 | 0.00 | 0.00 | 0.00 | 2.87 |
1898 | 1942 | 6.297080 | TGGATTTGACATGGTTTTGCATAT | 57.703 | 33.333 | 0.00 | 0.00 | 0.00 | 1.78 |
1909 | 1953 | 2.422479 | CACTCTGGCTGGATTTGACATG | 59.578 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
1913 | 1958 | 0.401356 | TGCACTCTGGCTGGATTTGA | 59.599 | 50.000 | 0.00 | 0.00 | 34.04 | 2.69 |
1956 | 2001 | 8.735315 | TCTCATTGACAGTGTGAAAACTTTTTA | 58.265 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
1957 | 2002 | 7.601856 | TCTCATTGACAGTGTGAAAACTTTTT | 58.398 | 30.769 | 0.00 | 0.00 | 0.00 | 1.94 |
1968 | 2014 | 5.543507 | ACTTCTCTTCTCATTGACAGTGT | 57.456 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
1983 | 2029 | 8.621286 | CACCTTTGTTTGTATAACAACTTCTCT | 58.379 | 33.333 | 2.80 | 0.00 | 37.90 | 3.10 |
2014 | 2060 | 2.895372 | GTTATCCCGGCGCACAGG | 60.895 | 66.667 | 10.83 | 9.48 | 0.00 | 4.00 |
2015 | 2061 | 1.523711 | ATGTTATCCCGGCGCACAG | 60.524 | 57.895 | 10.83 | 0.00 | 0.00 | 3.66 |
2096 | 2142 | 7.328277 | TCTGTTTAGAACTAAGCAGCAAAAA | 57.672 | 32.000 | 23.65 | 10.91 | 46.86 | 1.94 |
2097 | 2143 | 6.935741 | TCTGTTTAGAACTAAGCAGCAAAA | 57.064 | 33.333 | 23.65 | 11.17 | 46.86 | 2.44 |
2098 | 2144 | 6.935741 | TTCTGTTTAGAACTAAGCAGCAAA | 57.064 | 33.333 | 23.65 | 15.58 | 46.86 | 3.68 |
2117 | 2163 | 3.320541 | TGGTAAGCAATGGGTTTGTTCTG | 59.679 | 43.478 | 0.00 | 0.00 | 37.65 | 3.02 |
2174 | 2221 | 7.746034 | CGCCACATGTGCATTATACTTATAAAG | 59.254 | 37.037 | 20.81 | 1.58 | 32.45 | 1.85 |
2177 | 2224 | 5.641636 | CCGCCACATGTGCATTATACTTATA | 59.358 | 40.000 | 20.81 | 0.00 | 0.00 | 0.98 |
2184 | 2231 | 1.036481 | TGCCGCCACATGTGCATTAT | 61.036 | 50.000 | 20.81 | 0.00 | 0.00 | 1.28 |
2193 | 2240 | 0.180171 | TAATAGTGCTGCCGCCACAT | 59.820 | 50.000 | 0.00 | 0.00 | 34.43 | 3.21 |
2194 | 2241 | 0.035915 | TTAATAGTGCTGCCGCCACA | 60.036 | 50.000 | 0.00 | 0.00 | 34.43 | 4.17 |
2216 | 2263 | 5.163163 | TGCTTCTTCCCTGTTATGCTCATAT | 60.163 | 40.000 | 0.00 | 0.00 | 0.00 | 1.78 |
2231 | 2278 | 2.232208 | CCACCATTTTCCTGCTTCTTCC | 59.768 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
2236 | 2283 | 5.622346 | TTTTTACCACCATTTTCCTGCTT | 57.378 | 34.783 | 0.00 | 0.00 | 0.00 | 3.91 |
2237 | 2284 | 5.823861 | ATTTTTACCACCATTTTCCTGCT | 57.176 | 34.783 | 0.00 | 0.00 | 0.00 | 4.24 |
2239 | 2286 | 6.451393 | TCGAATTTTTACCACCATTTTCCTG | 58.549 | 36.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2240 | 2287 | 6.658188 | TCGAATTTTTACCACCATTTTCCT | 57.342 | 33.333 | 0.00 | 0.00 | 0.00 | 3.36 |
2241 | 2288 | 7.439955 | ACTTTCGAATTTTTACCACCATTTTCC | 59.560 | 33.333 | 0.00 | 0.00 | 0.00 | 3.13 |
2242 | 2289 | 8.272866 | CACTTTCGAATTTTTACCACCATTTTC | 58.727 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
2243 | 2290 | 7.254624 | GCACTTTCGAATTTTTACCACCATTTT | 60.255 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
2244 | 2291 | 6.201997 | GCACTTTCGAATTTTTACCACCATTT | 59.798 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
2260 | 2307 | 0.999406 | GCTCGCAATAGCACTTTCGA | 59.001 | 50.000 | 0.00 | 0.00 | 42.30 | 3.71 |
2375 | 2424 | 8.816144 | GTGAAAATTTGCATGAGTGTAGAAAAA | 58.184 | 29.630 | 1.18 | 0.00 | 0.00 | 1.94 |
2376 | 2425 | 7.167302 | CGTGAAAATTTGCATGAGTGTAGAAAA | 59.833 | 33.333 | 12.46 | 0.00 | 0.00 | 2.29 |
2377 | 2426 | 6.636447 | CGTGAAAATTTGCATGAGTGTAGAAA | 59.364 | 34.615 | 12.46 | 0.00 | 0.00 | 2.52 |
2378 | 2427 | 6.017523 | TCGTGAAAATTTGCATGAGTGTAGAA | 60.018 | 34.615 | 15.92 | 0.00 | 0.00 | 2.10 |
2379 | 2428 | 5.468409 | TCGTGAAAATTTGCATGAGTGTAGA | 59.532 | 36.000 | 15.92 | 0.00 | 0.00 | 2.59 |
2386 | 2435 | 4.780275 | TCCATCGTGAAAATTTGCATGA | 57.220 | 36.364 | 20.97 | 20.97 | 34.82 | 3.07 |
2400 | 2449 | 3.218453 | TCCACAAATGTGTTTCCATCGT | 58.782 | 40.909 | 12.21 | 0.00 | 44.21 | 3.73 |
2409 | 2458 | 1.214175 | TCCACACCTCCACAAATGTGT | 59.786 | 47.619 | 12.21 | 0.00 | 44.21 | 3.72 |
2436 | 2485 | 3.882888 | TCTTTTCGGAGCATCAACTTTGT | 59.117 | 39.130 | 0.00 | 0.00 | 36.25 | 2.83 |
2484 | 2533 | 1.205893 | TGTGGAAGTGTGGGCAAAAAC | 59.794 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
2491 | 2540 | 2.305928 | TCACATTTGTGGAAGTGTGGG | 58.694 | 47.619 | 10.60 | 0.00 | 45.65 | 4.61 |
2517 | 2566 | 6.824305 | ATACATGCTTGCTACTTTTCAAGT | 57.176 | 33.333 | 0.00 | 0.00 | 45.40 | 3.16 |
2519 | 2568 | 9.973450 | TTTTTATACATGCTTGCTACTTTTCAA | 57.027 | 25.926 | 0.00 | 0.00 | 0.00 | 2.69 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.