Multiple sequence alignment - TraesCS5B01G475600
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 | TraesCS5B01G475600 | chr5B | 100.000 | 3094 | 0 | 0 | 1 | 3094 | 648279355 | 648282448 | 0.000000e+00 | 5714.0 |
1 | TraesCS5B01G475600 | chr5B | 86.021 | 1724 | 102 | 46 | 780 | 2434 | 648616020 | 648614367 | 0.000000e+00 | 1720.0 |
2 | TraesCS5B01G475600 | chr5B | 88.288 | 999 | 78 | 21 | 319 | 1284 | 648331103 | 648332095 | 0.000000e+00 | 1160.0 |
3 | TraesCS5B01G475600 | chr5B | 79.204 | 553 | 83 | 18 | 2423 | 2974 | 648613427 | 648612906 | 3.790000e-94 | 355.0 |
4 | TraesCS5B01G475600 | chr5B | 91.176 | 204 | 15 | 3 | 1 | 202 | 594099183 | 594098981 | 1.090000e-69 | 274.0 |
5 | TraesCS5B01G475600 | chr5B | 85.514 | 214 | 31 | 0 | 2631 | 2844 | 325067376 | 325067163 | 1.120000e-54 | 224.0 |
6 | TraesCS5B01G475600 | chr5B | 93.220 | 59 | 3 | 1 | 2574 | 2632 | 513708518 | 513708461 | 5.500000e-13 | 86.1 |
7 | TraesCS5B01G475600 | chr5A | 88.770 | 2342 | 160 | 44 | 282 | 2544 | 643916845 | 643919162 | 0.000000e+00 | 2772.0 |
8 | TraesCS5B01G475600 | chr5A | 86.057 | 459 | 64 | 0 | 2636 | 3094 | 643919212 | 643919670 | 7.710000e-136 | 494.0 |
9 | TraesCS5B01G475600 | chr5A | 90.270 | 185 | 18 | 0 | 1 | 185 | 623008692 | 623008876 | 3.080000e-60 | 243.0 |
10 | TraesCS5B01G475600 | chr5D | 87.500 | 2480 | 198 | 60 | 184 | 2573 | 515666720 | 515669177 | 0.000000e+00 | 2760.0 |
11 | TraesCS5B01G475600 | chr5D | 93.503 | 354 | 21 | 2 | 2742 | 3094 | 515669346 | 515669698 | 2.730000e-145 | 525.0 |
12 | TraesCS5B01G475600 | chr5D | 95.000 | 100 | 5 | 0 | 2572 | 2671 | 515669218 | 515669317 | 1.150000e-34 | 158.0 |
13 | TraesCS5B01G475600 | chr5D | 90.476 | 63 | 2 | 1 | 2574 | 2632 | 330709247 | 330709185 | 2.560000e-11 | 80.5 |
14 | TraesCS5B01G475600 | chr5D | 90.476 | 63 | 2 | 2 | 2574 | 2632 | 350371886 | 350371824 | 2.560000e-11 | 80.5 |
15 | TraesCS5B01G475600 | chr2A | 90.052 | 191 | 17 | 2 | 1 | 190 | 747680964 | 747681153 | 2.380000e-61 | 246.0 |
16 | TraesCS5B01G475600 | chr2A | 93.220 | 59 | 4 | 0 | 2574 | 2632 | 752273681 | 752273739 | 1.530000e-13 | 87.9 |
17 | TraesCS5B01G475600 | chr7B | 88.000 | 200 | 24 | 0 | 2631 | 2830 | 401548045 | 401548244 | 1.430000e-58 | 237.0 |
18 | TraesCS5B01G475600 | chr6A | 86.449 | 214 | 29 | 0 | 2631 | 2844 | 381088850 | 381089063 | 5.160000e-58 | 235.0 |
19 | TraesCS5B01G475600 | chr6A | 92.308 | 65 | 2 | 1 | 2573 | 2634 | 552743016 | 552742952 | 4.250000e-14 | 89.8 |
20 | TraesCS5B01G475600 | chr2B | 91.617 | 167 | 14 | 0 | 22 | 188 | 338749631 | 338749465 | 6.670000e-57 | 231.0 |
21 | TraesCS5B01G475600 | chr4B | 90.751 | 173 | 14 | 1 | 15 | 185 | 22899216 | 22899044 | 2.400000e-56 | 230.0 |
22 | TraesCS5B01G475600 | chr2D | 86.829 | 205 | 27 | 0 | 2639 | 2843 | 310306234 | 310306438 | 2.400000e-56 | 230.0 |
23 | TraesCS5B01G475600 | chr2D | 85.581 | 215 | 29 | 2 | 2631 | 2844 | 68513128 | 68512915 | 1.120000e-54 | 224.0 |
24 | TraesCS5B01G475600 | chr2D | 91.411 | 163 | 12 | 2 | 42 | 204 | 155439858 | 155440018 | 4.020000e-54 | 222.0 |
25 | TraesCS5B01G475600 | chr3D | 91.515 | 165 | 14 | 0 | 21 | 185 | 376343407 | 376343571 | 8.630000e-56 | 228.0 |
26 | TraesCS5B01G475600 | chr3D | 92.405 | 158 | 12 | 0 | 40 | 197 | 105119325 | 105119482 | 3.100000e-55 | 226.0 |
27 | TraesCS5B01G475600 | chr6B | 85.253 | 217 | 32 | 0 | 2631 | 2847 | 368473405 | 368473189 | 1.120000e-54 | 224.0 |
28 | TraesCS5B01G475600 | chr4D | 85.849 | 212 | 29 | 1 | 2636 | 2847 | 346468036 | 346467826 | 1.120000e-54 | 224.0 |
29 | TraesCS5B01G475600 | chr4D | 92.308 | 156 | 12 | 0 | 33 | 188 | 77835622 | 77835467 | 4.020000e-54 | 222.0 |
30 | TraesCS5B01G475600 | chr4D | 88.710 | 62 | 3 | 1 | 2573 | 2634 | 323102033 | 323102090 | 4.280000e-09 | 73.1 |
31 | TraesCS5B01G475600 | chr1D | 85.514 | 214 | 31 | 0 | 2631 | 2844 | 138276244 | 138276031 | 1.120000e-54 | 224.0 |
32 | TraesCS5B01G475600 | chr1D | 88.333 | 60 | 2 | 1 | 2574 | 2633 | 472562653 | 472562707 | 1.990000e-07 | 67.6 |
33 | TraesCS5B01G475600 | chr1B | 89.831 | 59 | 4 | 1 | 2574 | 2632 | 355296485 | 355296429 | 1.190000e-09 | 75.0 |
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 | TraesCS5B01G475600 | chr5B | 648279355 | 648282448 | 3093 | False | 5714.000000 | 5714 | 100.0000 | 1 | 3094 | 1 | chr5B.!!$F1 | 3093 |
1 | TraesCS5B01G475600 | chr5B | 648331103 | 648332095 | 992 | False | 1160.000000 | 1160 | 88.2880 | 319 | 1284 | 1 | chr5B.!!$F2 | 965 |
2 | TraesCS5B01G475600 | chr5B | 648612906 | 648616020 | 3114 | True | 1037.500000 | 1720 | 82.6125 | 780 | 2974 | 2 | chr5B.!!$R4 | 2194 |
3 | TraesCS5B01G475600 | chr5A | 643916845 | 643919670 | 2825 | False | 1633.000000 | 2772 | 87.4135 | 282 | 3094 | 2 | chr5A.!!$F2 | 2812 |
4 | TraesCS5B01G475600 | chr5D | 515666720 | 515669698 | 2978 | False | 1147.666667 | 2760 | 92.0010 | 184 | 3094 | 3 | chr5D.!!$F1 | 2910 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
912 | 955 | 0.108585 | TGCGCATCTAATTCCCCTCC | 59.891 | 55.0 | 5.66 | 0.0 | 0.00 | 4.30 | F |
1366 | 1453 | 0.320247 | CAGGGACGAGATGCATAGGC | 60.320 | 60.0 | 0.00 | 0.0 | 41.68 | 3.93 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1851 | 1944 | 0.674895 | ACAGACGCAGAATTCCAGGC | 60.675 | 55.000 | 0.65 | 3.1 | 0.00 | 4.85 | R |
2740 | 3867 | 1.001641 | AGCGCAGGCCTTCAGAAAT | 60.002 | 52.632 | 11.47 | 0.0 | 41.24 | 2.17 | 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 |
---|---|---|---|---|---|---|---|---|---|
26 | 27 | 8.994429 | AGTACAAAGTTGAGTCATCTATTCTG | 57.006 | 34.615 | 4.14 | 3.46 | 0.00 | 3.02 |
27 | 28 | 8.037758 | AGTACAAAGTTGAGTCATCTATTCTGG | 58.962 | 37.037 | 4.14 | 0.00 | 0.00 | 3.86 |
28 | 29 | 7.009179 | ACAAAGTTGAGTCATCTATTCTGGA | 57.991 | 36.000 | 4.14 | 0.00 | 0.00 | 3.86 |
29 | 30 | 7.453393 | ACAAAGTTGAGTCATCTATTCTGGAA | 58.547 | 34.615 | 4.14 | 0.00 | 0.00 | 3.53 |
30 | 31 | 7.389053 | ACAAAGTTGAGTCATCTATTCTGGAAC | 59.611 | 37.037 | 4.14 | 0.00 | 0.00 | 3.62 |
31 | 32 | 5.655488 | AGTTGAGTCATCTATTCTGGAACG | 58.345 | 41.667 | 1.70 | 0.00 | 0.00 | 3.95 |
32 | 33 | 4.655762 | TGAGTCATCTATTCTGGAACGG | 57.344 | 45.455 | 0.00 | 0.00 | 0.00 | 4.44 |
33 | 34 | 4.278310 | TGAGTCATCTATTCTGGAACGGA | 58.722 | 43.478 | 0.00 | 0.00 | 45.11 | 4.69 |
43 | 44 | 3.675348 | TCTGGAACGGAGGGAGTATAA | 57.325 | 47.619 | 0.00 | 0.00 | 39.80 | 0.98 |
44 | 45 | 3.563223 | TCTGGAACGGAGGGAGTATAAG | 58.437 | 50.000 | 0.00 | 0.00 | 39.80 | 1.73 |
45 | 46 | 3.053095 | TCTGGAACGGAGGGAGTATAAGT | 60.053 | 47.826 | 0.00 | 0.00 | 39.80 | 2.24 |
46 | 47 | 3.294214 | TGGAACGGAGGGAGTATAAGTC | 58.706 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
47 | 48 | 3.053095 | TGGAACGGAGGGAGTATAAGTCT | 60.053 | 47.826 | 0.00 | 0.00 | 0.00 | 3.24 |
48 | 49 | 3.959449 | GGAACGGAGGGAGTATAAGTCTT | 59.041 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
49 | 50 | 4.405036 | GGAACGGAGGGAGTATAAGTCTTT | 59.595 | 45.833 | 0.00 | 0.00 | 0.00 | 2.52 |
50 | 51 | 5.105023 | GGAACGGAGGGAGTATAAGTCTTTT | 60.105 | 44.000 | 0.00 | 0.00 | 0.00 | 2.27 |
51 | 52 | 6.370186 | AACGGAGGGAGTATAAGTCTTTTT | 57.630 | 37.500 | 0.00 | 0.00 | 0.00 | 1.94 |
52 | 53 | 7.364144 | GGAACGGAGGGAGTATAAGTCTTTTTA | 60.364 | 40.741 | 0.00 | 0.00 | 0.00 | 1.52 |
53 | 54 | 7.110043 | ACGGAGGGAGTATAAGTCTTTTTAG | 57.890 | 40.000 | 0.00 | 0.00 | 0.00 | 1.85 |
54 | 55 | 6.894103 | ACGGAGGGAGTATAAGTCTTTTTAGA | 59.106 | 38.462 | 0.00 | 0.00 | 0.00 | 2.10 |
55 | 56 | 7.147932 | ACGGAGGGAGTATAAGTCTTTTTAGAC | 60.148 | 40.741 | 0.00 | 0.00 | 39.00 | 2.59 |
56 | 57 | 7.147949 | CGGAGGGAGTATAAGTCTTTTTAGACA | 60.148 | 40.741 | 7.92 | 0.00 | 41.02 | 3.41 |
57 | 58 | 8.706521 | GGAGGGAGTATAAGTCTTTTTAGACAT | 58.293 | 37.037 | 7.92 | 0.00 | 41.02 | 3.06 |
68 | 69 | 9.750125 | AAGTCTTTTTAGACATTTCAAATGGAC | 57.250 | 29.630 | 14.70 | 8.92 | 41.02 | 4.02 |
69 | 70 | 9.136323 | AGTCTTTTTAGACATTTCAAATGGACT | 57.864 | 29.630 | 14.70 | 14.18 | 41.02 | 3.85 |
75 | 76 | 9.567776 | TTTAGACATTTCAAATGGACTACAAGA | 57.432 | 29.630 | 14.70 | 1.25 | 0.00 | 3.02 |
76 | 77 | 9.739276 | TTAGACATTTCAAATGGACTACAAGAT | 57.261 | 29.630 | 14.70 | 0.00 | 0.00 | 2.40 |
78 | 79 | 9.167311 | AGACATTTCAAATGGACTACAAGATAC | 57.833 | 33.333 | 14.70 | 0.00 | 0.00 | 2.24 |
79 | 80 | 7.974675 | ACATTTCAAATGGACTACAAGATACG | 58.025 | 34.615 | 14.70 | 0.00 | 0.00 | 3.06 |
80 | 81 | 6.978343 | TTTCAAATGGACTACAAGATACGG | 57.022 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
81 | 82 | 5.925506 | TCAAATGGACTACAAGATACGGA | 57.074 | 39.130 | 0.00 | 0.00 | 0.00 | 4.69 |
82 | 83 | 6.479972 | TCAAATGGACTACAAGATACGGAT | 57.520 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
83 | 84 | 6.280643 | TCAAATGGACTACAAGATACGGATG | 58.719 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
84 | 85 | 5.871396 | AATGGACTACAAGATACGGATGT | 57.129 | 39.130 | 0.00 | 0.00 | 0.00 | 3.06 |
85 | 86 | 6.971726 | AATGGACTACAAGATACGGATGTA | 57.028 | 37.500 | 0.00 | 0.00 | 34.45 | 2.29 |
86 | 87 | 7.540474 | AATGGACTACAAGATACGGATGTAT | 57.460 | 36.000 | 0.00 | 0.00 | 43.97 | 2.29 |
87 | 88 | 6.327279 | TGGACTACAAGATACGGATGTATG | 57.673 | 41.667 | 0.00 | 0.00 | 41.37 | 2.39 |
88 | 89 | 5.831525 | TGGACTACAAGATACGGATGTATGT | 59.168 | 40.000 | 0.00 | 0.00 | 41.37 | 2.29 |
89 | 90 | 6.999871 | TGGACTACAAGATACGGATGTATGTA | 59.000 | 38.462 | 0.00 | 0.00 | 41.37 | 2.29 |
90 | 91 | 7.174426 | TGGACTACAAGATACGGATGTATGTAG | 59.826 | 40.741 | 17.68 | 17.68 | 42.27 | 2.74 |
91 | 92 | 7.174599 | GGACTACAAGATACGGATGTATGTAGT | 59.825 | 40.741 | 21.66 | 21.66 | 46.94 | 2.73 |
92 | 93 | 8.097078 | ACTACAAGATACGGATGTATGTAGTC | 57.903 | 38.462 | 18.53 | 0.00 | 44.12 | 2.59 |
93 | 94 | 6.954487 | ACAAGATACGGATGTATGTAGTCA | 57.046 | 37.500 | 0.00 | 0.00 | 41.37 | 3.41 |
94 | 95 | 7.526142 | ACAAGATACGGATGTATGTAGTCAT | 57.474 | 36.000 | 0.00 | 0.00 | 41.37 | 3.06 |
95 | 96 | 8.631480 | ACAAGATACGGATGTATGTAGTCATA | 57.369 | 34.615 | 0.00 | 0.00 | 41.37 | 2.15 |
96 | 97 | 9.244292 | ACAAGATACGGATGTATGTAGTCATAT | 57.756 | 33.333 | 0.00 | 0.00 | 41.37 | 1.78 |
126 | 127 | 8.203485 | AGAATGTAGATTCTCTCATCTTGTTCC | 58.797 | 37.037 | 9.25 | 0.00 | 44.30 | 3.62 |
127 | 128 | 5.895928 | TGTAGATTCTCTCATCTTGTTCCG | 58.104 | 41.667 | 0.00 | 0.00 | 35.08 | 4.30 |
128 | 129 | 5.419155 | TGTAGATTCTCTCATCTTGTTCCGT | 59.581 | 40.000 | 0.00 | 0.00 | 35.08 | 4.69 |
129 | 130 | 6.602009 | TGTAGATTCTCTCATCTTGTTCCGTA | 59.398 | 38.462 | 0.00 | 0.00 | 35.08 | 4.02 |
130 | 131 | 6.723298 | AGATTCTCTCATCTTGTTCCGTAT | 57.277 | 37.500 | 0.00 | 0.00 | 28.19 | 3.06 |
131 | 132 | 6.511416 | AGATTCTCTCATCTTGTTCCGTATG | 58.489 | 40.000 | 0.00 | 0.00 | 28.19 | 2.39 |
132 | 133 | 5.661056 | TTCTCTCATCTTGTTCCGTATGT | 57.339 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
133 | 134 | 6.769134 | TTCTCTCATCTTGTTCCGTATGTA | 57.231 | 37.500 | 0.00 | 0.00 | 0.00 | 2.29 |
134 | 135 | 6.378710 | TCTCTCATCTTGTTCCGTATGTAG | 57.621 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
135 | 136 | 5.886474 | TCTCTCATCTTGTTCCGTATGTAGT | 59.114 | 40.000 | 0.00 | 0.00 | 0.00 | 2.73 |
136 | 137 | 6.038382 | TCTCTCATCTTGTTCCGTATGTAGTC | 59.962 | 42.308 | 0.00 | 0.00 | 0.00 | 2.59 |
137 | 138 | 5.650703 | TCTCATCTTGTTCCGTATGTAGTCA | 59.349 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
138 | 139 | 5.647589 | TCATCTTGTTCCGTATGTAGTCAC | 58.352 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
139 | 140 | 5.417894 | TCATCTTGTTCCGTATGTAGTCACT | 59.582 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
140 | 141 | 5.717078 | TCTTGTTCCGTATGTAGTCACTT | 57.283 | 39.130 | 0.00 | 0.00 | 0.00 | 3.16 |
141 | 142 | 5.466819 | TCTTGTTCCGTATGTAGTCACTTG | 58.533 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
142 | 143 | 4.859304 | TGTTCCGTATGTAGTCACTTGT | 57.141 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
143 | 144 | 5.204409 | TGTTCCGTATGTAGTCACTTGTT | 57.796 | 39.130 | 0.00 | 0.00 | 0.00 | 2.83 |
144 | 145 | 4.986034 | TGTTCCGTATGTAGTCACTTGTTG | 59.014 | 41.667 | 0.00 | 0.00 | 0.00 | 3.33 |
145 | 146 | 5.221283 | TGTTCCGTATGTAGTCACTTGTTGA | 60.221 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
146 | 147 | 5.456548 | TCCGTATGTAGTCACTTGTTGAA | 57.543 | 39.130 | 0.00 | 0.00 | 35.39 | 2.69 |
147 | 148 | 5.845103 | TCCGTATGTAGTCACTTGTTGAAA | 58.155 | 37.500 | 0.00 | 0.00 | 35.39 | 2.69 |
148 | 149 | 6.460781 | TCCGTATGTAGTCACTTGTTGAAAT | 58.539 | 36.000 | 0.00 | 0.00 | 35.39 | 2.17 |
149 | 150 | 6.588756 | TCCGTATGTAGTCACTTGTTGAAATC | 59.411 | 38.462 | 0.00 | 0.00 | 35.39 | 2.17 |
150 | 151 | 6.590292 | CCGTATGTAGTCACTTGTTGAAATCT | 59.410 | 38.462 | 0.00 | 0.00 | 35.39 | 2.40 |
151 | 152 | 7.201444 | CCGTATGTAGTCACTTGTTGAAATCTC | 60.201 | 40.741 | 0.00 | 0.00 | 35.39 | 2.75 |
152 | 153 | 7.542477 | CGTATGTAGTCACTTGTTGAAATCTCT | 59.458 | 37.037 | 0.00 | 0.00 | 35.39 | 3.10 |
153 | 154 | 9.856488 | GTATGTAGTCACTTGTTGAAATCTCTA | 57.144 | 33.333 | 0.00 | 0.00 | 35.39 | 2.43 |
155 | 156 | 9.778741 | ATGTAGTCACTTGTTGAAATCTCTAAA | 57.221 | 29.630 | 0.00 | 0.00 | 35.39 | 1.85 |
156 | 157 | 9.607988 | TGTAGTCACTTGTTGAAATCTCTAAAA | 57.392 | 29.630 | 0.00 | 0.00 | 35.39 | 1.52 |
159 | 160 | 9.396022 | AGTCACTTGTTGAAATCTCTAAAAAGA | 57.604 | 29.630 | 0.00 | 0.00 | 35.39 | 2.52 |
160 | 161 | 9.439537 | GTCACTTGTTGAAATCTCTAAAAAGAC | 57.560 | 33.333 | 0.00 | 0.00 | 35.39 | 3.01 |
161 | 162 | 9.396022 | TCACTTGTTGAAATCTCTAAAAAGACT | 57.604 | 29.630 | 0.00 | 0.00 | 0.00 | 3.24 |
176 | 177 | 9.169592 | TCTAAAAAGACTTATATTTGGGAACGG | 57.830 | 33.333 | 0.00 | 0.00 | 0.00 | 4.44 |
177 | 178 | 9.169592 | CTAAAAAGACTTATATTTGGGAACGGA | 57.830 | 33.333 | 0.00 | 0.00 | 0.00 | 4.69 |
178 | 179 | 7.625828 | AAAAGACTTATATTTGGGAACGGAG | 57.374 | 36.000 | 0.00 | 0.00 | 0.00 | 4.63 |
179 | 180 | 5.291905 | AGACTTATATTTGGGAACGGAGG | 57.708 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
180 | 181 | 4.102681 | AGACTTATATTTGGGAACGGAGGG | 59.897 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
181 | 182 | 4.042174 | ACTTATATTTGGGAACGGAGGGA | 58.958 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
182 | 183 | 4.102681 | ACTTATATTTGGGAACGGAGGGAG | 59.897 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
186 | 187 | 0.178926 | TTGGGAACGGAGGGAGTACA | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 2.90 |
191 | 192 | 0.907704 | AACGGAGGGAGTACATGCCA | 60.908 | 55.000 | 0.00 | 0.00 | 43.31 | 4.92 |
221 | 223 | 9.840427 | ACTAAATTTGTAAAATCGGTTCTGATG | 57.160 | 29.630 | 0.00 | 0.00 | 0.00 | 3.07 |
230 | 232 | 2.076100 | TCGGTTCTGATGTGTTCATGC | 58.924 | 47.619 | 0.00 | 0.00 | 34.06 | 4.06 |
240 | 242 | 0.939106 | GTGTTCATGCACGGCCAAAC | 60.939 | 55.000 | 2.24 | 0.00 | 0.00 | 2.93 |
244 | 246 | 0.461548 | TCATGCACGGCCAAACAAAA | 59.538 | 45.000 | 2.24 | 0.00 | 0.00 | 2.44 |
245 | 247 | 1.069823 | TCATGCACGGCCAAACAAAAT | 59.930 | 42.857 | 2.24 | 0.00 | 0.00 | 1.82 |
256 | 258 | 5.276631 | CGGCCAAACAAAATTGTAGTCAAAC | 60.277 | 40.000 | 2.24 | 0.00 | 41.31 | 2.93 |
309 | 319 | 1.370064 | CGTCAAGTCGGGGGTTCTT | 59.630 | 57.895 | 0.00 | 0.00 | 0.00 | 2.52 |
343 | 353 | 2.064014 | GACCGAGAAACAAGTAACCCG | 58.936 | 52.381 | 0.00 | 0.00 | 0.00 | 5.28 |
369 | 379 | 5.758296 | AGACGACTCAAAATTAGCAGACAAA | 59.242 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
385 | 395 | 3.947834 | AGACAAATATAGTTGTGCAGCCC | 59.052 | 43.478 | 22.20 | 7.55 | 41.78 | 5.19 |
390 | 400 | 2.584835 | ATAGTTGTGCAGCCCTTTGA | 57.415 | 45.000 | 0.00 | 0.00 | 0.00 | 2.69 |
402 | 412 | 3.512724 | CAGCCCTTTGATGGTTGAGATTT | 59.487 | 43.478 | 0.00 | 0.00 | 36.29 | 2.17 |
417 | 427 | 5.545658 | TGAGATTTATGGAGCGTGTTTTC | 57.454 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
419 | 429 | 5.705441 | TGAGATTTATGGAGCGTGTTTTCTT | 59.295 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
427 | 437 | 3.796717 | GGAGCGTGTTTTCTTGGAAAAAG | 59.203 | 43.478 | 6.96 | 4.25 | 0.00 | 2.27 |
502 | 513 | 6.881065 | ACATTGACATATGGATGCATACTACC | 59.119 | 38.462 | 11.02 | 2.56 | 36.43 | 3.18 |
567 | 578 | 4.502016 | ACACAACACATGACAAATTTGCA | 58.498 | 34.783 | 18.12 | 16.14 | 0.00 | 4.08 |
784 | 806 | 2.130426 | GGCCTCATGGAGCTCGAGA | 61.130 | 63.158 | 18.75 | 9.31 | 34.57 | 4.04 |
785 | 807 | 1.363443 | GCCTCATGGAGCTCGAGAG | 59.637 | 63.158 | 18.75 | 16.65 | 34.57 | 3.20 |
786 | 808 | 1.106351 | GCCTCATGGAGCTCGAGAGA | 61.106 | 60.000 | 18.75 | 14.15 | 34.99 | 3.10 |
787 | 809 | 1.619654 | CCTCATGGAGCTCGAGAGAT | 58.380 | 55.000 | 18.75 | 0.00 | 35.57 | 2.75 |
788 | 810 | 1.270274 | CCTCATGGAGCTCGAGAGATG | 59.730 | 57.143 | 18.75 | 11.31 | 35.57 | 2.90 |
833 | 876 | 1.819632 | GCCCGAAGCCATCATCGTT | 60.820 | 57.895 | 0.00 | 0.00 | 37.36 | 3.85 |
870 | 913 | 2.414594 | GCGCCATCTTTCCCATGC | 59.585 | 61.111 | 0.00 | 0.00 | 0.00 | 4.06 |
901 | 944 | 0.251341 | AAAACCCTTCCTGCGCATCT | 60.251 | 50.000 | 12.24 | 0.00 | 0.00 | 2.90 |
912 | 955 | 0.108585 | TGCGCATCTAATTCCCCTCC | 59.891 | 55.000 | 5.66 | 0.00 | 0.00 | 4.30 |
913 | 956 | 0.951040 | GCGCATCTAATTCCCCTCCG | 60.951 | 60.000 | 0.30 | 0.00 | 0.00 | 4.63 |
914 | 957 | 0.951040 | CGCATCTAATTCCCCTCCGC | 60.951 | 60.000 | 0.00 | 0.00 | 0.00 | 5.54 |
953 | 997 | 9.213799 | CATTTTCTTTCTCTAGCTACAAACTCT | 57.786 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
1284 | 1366 | 6.070995 | TCCGTCAAGAATAGCTTCCTTTCTTA | 60.071 | 38.462 | 11.11 | 2.37 | 37.55 | 2.10 |
1285 | 1367 | 6.594159 | CCGTCAAGAATAGCTTCCTTTCTTAA | 59.406 | 38.462 | 11.11 | 0.00 | 37.55 | 1.85 |
1286 | 1368 | 7.119262 | CCGTCAAGAATAGCTTCCTTTCTTAAA | 59.881 | 37.037 | 11.11 | 3.88 | 37.55 | 1.52 |
1301 | 1383 | 6.704050 | CCTTTCTTAAATTCTTTTCCGGCAAA | 59.296 | 34.615 | 0.00 | 0.00 | 0.00 | 3.68 |
1326 | 1408 | 0.666274 | TTCGGCTGACATGACACGAC | 60.666 | 55.000 | 9.64 | 1.56 | 0.00 | 4.34 |
1366 | 1453 | 0.320247 | CAGGGACGAGATGCATAGGC | 60.320 | 60.000 | 0.00 | 0.00 | 41.68 | 3.93 |
1487 | 1580 | 3.739613 | GGAACCCGGGAAGGCCAT | 61.740 | 66.667 | 32.02 | 0.00 | 39.21 | 4.40 |
1569 | 1662 | 3.611674 | TGGACGAGGCAGCACGAA | 61.612 | 61.111 | 16.17 | 1.50 | 0.00 | 3.85 |
1581 | 1674 | 2.866028 | CACGAAGCCAAGCTGCTC | 59.134 | 61.111 | 1.00 | 0.00 | 41.80 | 4.26 |
1587 | 1680 | 1.544825 | AAGCCAAGCTGCTCGACCTA | 61.545 | 55.000 | 1.00 | 0.00 | 41.80 | 3.08 |
1848 | 1941 | 1.135603 | CGCTACACGCTGGTAAGTACA | 60.136 | 52.381 | 0.00 | 0.00 | 36.13 | 2.90 |
1851 | 1944 | 2.380084 | ACACGCTGGTAAGTACATGG | 57.620 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1865 | 1958 | 1.033746 | ACATGGCCTGGAATTCTGCG | 61.034 | 55.000 | 3.32 | 0.00 | 0.00 | 5.18 |
1893 | 1986 | 2.293677 | TCGATTGATCCACCGTGAAG | 57.706 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
2175 | 2288 | 4.084066 | GCGGATTTGAACAATTTGTTTCCC | 60.084 | 41.667 | 15.54 | 11.06 | 41.28 | 3.97 |
2184 | 2297 | 5.628797 | ACAATTTGTTTCCCTTGGACATT | 57.371 | 34.783 | 0.00 | 0.00 | 0.00 | 2.71 |
2229 | 2347 | 0.603569 | AGAACGTCAGTAGCCAGTGG | 59.396 | 55.000 | 4.20 | 4.20 | 0.00 | 4.00 |
2420 | 2552 | 6.677781 | ACCCGTCATGTATTTGTAAATCTG | 57.322 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
2470 | 3554 | 8.718734 | AGGTGTAAGTCGACAGAAAATAAATTC | 58.281 | 33.333 | 19.50 | 0.00 | 0.00 | 2.17 |
2472 | 3556 | 9.872757 | GTGTAAGTCGACAGAAAATAAATTCAA | 57.127 | 29.630 | 19.50 | 0.00 | 0.00 | 2.69 |
2547 | 3631 | 2.038975 | TACCTGCGCCCCTCTCTT | 59.961 | 61.111 | 4.18 | 0.00 | 0.00 | 2.85 |
2633 | 3760 | 9.155785 | CTTATATTTCTTTAGGGAGGGAGTACA | 57.844 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
2634 | 3761 | 5.695424 | ATTTCTTTAGGGAGGGAGTACAC | 57.305 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
2688 | 3815 | 2.232941 | TCATGTCAAGTTCGGTCTACCC | 59.767 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2698 | 3825 | 0.663688 | CGGTCTACCCTGACATCTCG | 59.336 | 60.000 | 0.00 | 0.00 | 38.61 | 4.04 |
2714 | 3841 | 7.488322 | TGACATCTCGTGACATTATCAACATA | 58.512 | 34.615 | 0.00 | 0.00 | 39.72 | 2.29 |
2715 | 3842 | 7.978975 | TGACATCTCGTGACATTATCAACATAA | 59.021 | 33.333 | 0.00 | 0.00 | 39.72 | 1.90 |
2723 | 3850 | 9.153952 | CGTGACATTATCAACATAATTTAACCG | 57.846 | 33.333 | 0.00 | 0.00 | 39.72 | 4.44 |
2728 | 3855 | 7.846644 | TTATCAACATAATTTAACCGTCCGT | 57.153 | 32.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2740 | 3867 | 0.390603 | CCGTCCGTTATGCACTGGAA | 60.391 | 55.000 | 0.00 | 0.00 | 32.19 | 3.53 |
2747 | 3874 | 3.689161 | CCGTTATGCACTGGAATTTCTGA | 59.311 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
2782 | 3909 | 6.131264 | TGAATATGCCCAAACAATCTCAGAT | 58.869 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2808 | 3935 | 5.976458 | TGTTGGACAAGCTTTTCTTCAATT | 58.024 | 33.333 | 12.17 | 0.00 | 31.27 | 2.32 |
2816 | 3943 | 5.990120 | AGCTTTTCTTCAATTGGTGCTAT | 57.010 | 34.783 | 5.42 | 0.00 | 0.00 | 2.97 |
3007 | 4136 | 1.334160 | TCGTTTCTAGACCAGTGGCA | 58.666 | 50.000 | 9.78 | 0.00 | 0.00 | 4.92 |
3021 | 4150 | 4.012374 | CCAGTGGCAGTGAGTATTTGAAT | 58.988 | 43.478 | 23.61 | 0.00 | 0.00 | 2.57 |
3080 | 4209 | 8.356657 | CCTCAAATGTGATGGTTTTGTAACTTA | 58.643 | 33.333 | 0.00 | 0.00 | 32.05 | 2.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
1 | 2 | 8.037758 | CCAGAATAGATGACTCAACTTTGTACT | 58.962 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
2 | 3 | 8.035394 | TCCAGAATAGATGACTCAACTTTGTAC | 58.965 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
3 | 4 | 8.134202 | TCCAGAATAGATGACTCAACTTTGTA | 57.866 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
4 | 5 | 7.009179 | TCCAGAATAGATGACTCAACTTTGT | 57.991 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5 | 6 | 7.412346 | CGTTCCAGAATAGATGACTCAACTTTG | 60.412 | 40.741 | 0.00 | 0.00 | 0.00 | 2.77 |
6 | 7 | 6.591834 | CGTTCCAGAATAGATGACTCAACTTT | 59.408 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
7 | 8 | 6.102663 | CGTTCCAGAATAGATGACTCAACTT | 58.897 | 40.000 | 0.00 | 0.00 | 0.00 | 2.66 |
8 | 9 | 5.394663 | CCGTTCCAGAATAGATGACTCAACT | 60.395 | 44.000 | 0.00 | 0.00 | 0.00 | 3.16 |
9 | 10 | 4.806247 | CCGTTCCAGAATAGATGACTCAAC | 59.194 | 45.833 | 0.00 | 0.00 | 0.00 | 3.18 |
10 | 11 | 4.709886 | TCCGTTCCAGAATAGATGACTCAA | 59.290 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
11 | 12 | 4.278310 | TCCGTTCCAGAATAGATGACTCA | 58.722 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
12 | 13 | 4.261825 | CCTCCGTTCCAGAATAGATGACTC | 60.262 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
13 | 14 | 3.639094 | CCTCCGTTCCAGAATAGATGACT | 59.361 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
14 | 15 | 3.243907 | CCCTCCGTTCCAGAATAGATGAC | 60.244 | 52.174 | 0.00 | 0.00 | 0.00 | 3.06 |
15 | 16 | 2.965831 | CCCTCCGTTCCAGAATAGATGA | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
16 | 17 | 2.965831 | TCCCTCCGTTCCAGAATAGATG | 59.034 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
17 | 18 | 3.235200 | CTCCCTCCGTTCCAGAATAGAT | 58.765 | 50.000 | 0.00 | 0.00 | 0.00 | 1.98 |
18 | 19 | 2.024273 | ACTCCCTCCGTTCCAGAATAGA | 60.024 | 50.000 | 0.00 | 0.00 | 0.00 | 1.98 |
19 | 20 | 2.389715 | ACTCCCTCCGTTCCAGAATAG | 58.610 | 52.381 | 0.00 | 0.00 | 0.00 | 1.73 |
20 | 21 | 2.544844 | ACTCCCTCCGTTCCAGAATA | 57.455 | 50.000 | 0.00 | 0.00 | 0.00 | 1.75 |
21 | 22 | 2.544844 | TACTCCCTCCGTTCCAGAAT | 57.455 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
22 | 23 | 2.544844 | ATACTCCCTCCGTTCCAGAA | 57.455 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
23 | 24 | 3.053095 | ACTTATACTCCCTCCGTTCCAGA | 60.053 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
24 | 25 | 3.297736 | ACTTATACTCCCTCCGTTCCAG | 58.702 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
25 | 26 | 3.053095 | AGACTTATACTCCCTCCGTTCCA | 60.053 | 47.826 | 0.00 | 0.00 | 0.00 | 3.53 |
26 | 27 | 3.564264 | AGACTTATACTCCCTCCGTTCC | 58.436 | 50.000 | 0.00 | 0.00 | 0.00 | 3.62 |
27 | 28 | 5.595257 | AAAGACTTATACTCCCTCCGTTC | 57.405 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
28 | 29 | 6.370186 | AAAAAGACTTATACTCCCTCCGTT | 57.630 | 37.500 | 0.00 | 0.00 | 0.00 | 4.44 |
29 | 30 | 6.894103 | TCTAAAAAGACTTATACTCCCTCCGT | 59.106 | 38.462 | 0.00 | 0.00 | 0.00 | 4.69 |
30 | 31 | 7.147949 | TGTCTAAAAAGACTTATACTCCCTCCG | 60.148 | 40.741 | 7.04 | 0.00 | 39.41 | 4.63 |
31 | 32 | 8.075761 | TGTCTAAAAAGACTTATACTCCCTCC | 57.924 | 38.462 | 7.04 | 0.00 | 39.41 | 4.30 |
42 | 43 | 9.750125 | GTCCATTTGAAATGTCTAAAAAGACTT | 57.250 | 29.630 | 15.93 | 0.00 | 39.41 | 3.01 |
43 | 44 | 9.136323 | AGTCCATTTGAAATGTCTAAAAAGACT | 57.864 | 29.630 | 15.93 | 14.21 | 39.41 | 3.24 |
49 | 50 | 9.567776 | TCTTGTAGTCCATTTGAAATGTCTAAA | 57.432 | 29.630 | 15.93 | 10.39 | 0.00 | 1.85 |
50 | 51 | 9.739276 | ATCTTGTAGTCCATTTGAAATGTCTAA | 57.261 | 29.630 | 15.93 | 6.36 | 0.00 | 2.10 |
52 | 53 | 9.167311 | GTATCTTGTAGTCCATTTGAAATGTCT | 57.833 | 33.333 | 15.93 | 14.81 | 0.00 | 3.41 |
53 | 54 | 8.116753 | CGTATCTTGTAGTCCATTTGAAATGTC | 58.883 | 37.037 | 15.93 | 9.10 | 0.00 | 3.06 |
54 | 55 | 7.065803 | CCGTATCTTGTAGTCCATTTGAAATGT | 59.934 | 37.037 | 15.93 | 1.43 | 0.00 | 2.71 |
55 | 56 | 7.279981 | TCCGTATCTTGTAGTCCATTTGAAATG | 59.720 | 37.037 | 10.84 | 10.84 | 0.00 | 2.32 |
56 | 57 | 7.335627 | TCCGTATCTTGTAGTCCATTTGAAAT | 58.664 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
57 | 58 | 6.703319 | TCCGTATCTTGTAGTCCATTTGAAA | 58.297 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
58 | 59 | 6.288941 | TCCGTATCTTGTAGTCCATTTGAA | 57.711 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
59 | 60 | 5.925506 | TCCGTATCTTGTAGTCCATTTGA | 57.074 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
60 | 61 | 6.049149 | ACATCCGTATCTTGTAGTCCATTTG | 58.951 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
61 | 62 | 6.235231 | ACATCCGTATCTTGTAGTCCATTT | 57.765 | 37.500 | 0.00 | 0.00 | 0.00 | 2.32 |
62 | 63 | 5.871396 | ACATCCGTATCTTGTAGTCCATT | 57.129 | 39.130 | 0.00 | 0.00 | 0.00 | 3.16 |
63 | 64 | 6.493802 | ACATACATCCGTATCTTGTAGTCCAT | 59.506 | 38.462 | 0.00 | 0.00 | 36.11 | 3.41 |
64 | 65 | 5.831525 | ACATACATCCGTATCTTGTAGTCCA | 59.168 | 40.000 | 0.00 | 0.00 | 36.11 | 4.02 |
65 | 66 | 6.328641 | ACATACATCCGTATCTTGTAGTCC | 57.671 | 41.667 | 0.00 | 0.00 | 36.11 | 3.85 |
66 | 67 | 8.097078 | ACTACATACATCCGTATCTTGTAGTC | 57.903 | 38.462 | 6.93 | 0.00 | 42.68 | 2.59 |
67 | 68 | 7.718314 | TGACTACATACATCCGTATCTTGTAGT | 59.282 | 37.037 | 11.40 | 11.40 | 45.69 | 2.73 |
68 | 69 | 8.095937 | TGACTACATACATCCGTATCTTGTAG | 57.904 | 38.462 | 0.00 | 0.00 | 40.93 | 2.74 |
69 | 70 | 8.631480 | ATGACTACATACATCCGTATCTTGTA | 57.369 | 34.615 | 0.00 | 0.00 | 36.11 | 2.41 |
70 | 71 | 6.954487 | TGACTACATACATCCGTATCTTGT | 57.046 | 37.500 | 0.00 | 0.00 | 36.11 | 3.16 |
108 | 109 | 6.276847 | ACATACGGAACAAGATGAGAGAATC | 58.723 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
109 | 110 | 6.227298 | ACATACGGAACAAGATGAGAGAAT | 57.773 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
110 | 111 | 5.661056 | ACATACGGAACAAGATGAGAGAA | 57.339 | 39.130 | 0.00 | 0.00 | 0.00 | 2.87 |
111 | 112 | 5.886474 | ACTACATACGGAACAAGATGAGAGA | 59.114 | 40.000 | 0.00 | 0.00 | 0.00 | 3.10 |
112 | 113 | 6.137794 | ACTACATACGGAACAAGATGAGAG | 57.862 | 41.667 | 0.00 | 0.00 | 0.00 | 3.20 |
113 | 114 | 5.650703 | TGACTACATACGGAACAAGATGAGA | 59.349 | 40.000 | 0.00 | 0.00 | 0.00 | 3.27 |
114 | 115 | 5.744345 | GTGACTACATACGGAACAAGATGAG | 59.256 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
115 | 116 | 5.417894 | AGTGACTACATACGGAACAAGATGA | 59.582 | 40.000 | 0.00 | 0.00 | 0.00 | 2.92 |
116 | 117 | 5.651530 | AGTGACTACATACGGAACAAGATG | 58.348 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
117 | 118 | 5.916661 | AGTGACTACATACGGAACAAGAT | 57.083 | 39.130 | 0.00 | 0.00 | 0.00 | 2.40 |
118 | 119 | 5.010314 | ACAAGTGACTACATACGGAACAAGA | 59.990 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
119 | 120 | 5.227908 | ACAAGTGACTACATACGGAACAAG | 58.772 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
120 | 121 | 5.204409 | ACAAGTGACTACATACGGAACAA | 57.796 | 39.130 | 0.00 | 0.00 | 0.00 | 2.83 |
121 | 122 | 4.859304 | ACAAGTGACTACATACGGAACA | 57.141 | 40.909 | 0.00 | 0.00 | 0.00 | 3.18 |
122 | 123 | 5.224888 | TCAACAAGTGACTACATACGGAAC | 58.775 | 41.667 | 0.00 | 0.00 | 0.00 | 3.62 |
123 | 124 | 5.456548 | TCAACAAGTGACTACATACGGAA | 57.543 | 39.130 | 0.00 | 0.00 | 0.00 | 4.30 |
124 | 125 | 5.456548 | TTCAACAAGTGACTACATACGGA | 57.543 | 39.130 | 0.00 | 0.00 | 35.39 | 4.69 |
125 | 126 | 6.590292 | AGATTTCAACAAGTGACTACATACGG | 59.410 | 38.462 | 0.00 | 0.00 | 35.39 | 4.02 |
126 | 127 | 7.542477 | AGAGATTTCAACAAGTGACTACATACG | 59.458 | 37.037 | 0.00 | 0.00 | 35.39 | 3.06 |
127 | 128 | 8.764524 | AGAGATTTCAACAAGTGACTACATAC | 57.235 | 34.615 | 0.00 | 0.00 | 35.39 | 2.39 |
129 | 130 | 9.778741 | TTTAGAGATTTCAACAAGTGACTACAT | 57.221 | 29.630 | 0.00 | 0.00 | 35.39 | 2.29 |
130 | 131 | 9.607988 | TTTTAGAGATTTCAACAAGTGACTACA | 57.392 | 29.630 | 0.00 | 0.00 | 35.39 | 2.74 |
133 | 134 | 9.396022 | TCTTTTTAGAGATTTCAACAAGTGACT | 57.604 | 29.630 | 0.00 | 0.00 | 35.39 | 3.41 |
134 | 135 | 9.439537 | GTCTTTTTAGAGATTTCAACAAGTGAC | 57.560 | 33.333 | 0.00 | 0.00 | 35.39 | 3.67 |
135 | 136 | 9.396022 | AGTCTTTTTAGAGATTTCAACAAGTGA | 57.604 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
150 | 151 | 9.169592 | CCGTTCCCAAATATAAGTCTTTTTAGA | 57.830 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
151 | 152 | 9.169592 | TCCGTTCCCAAATATAAGTCTTTTTAG | 57.830 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
152 | 153 | 9.169592 | CTCCGTTCCCAAATATAAGTCTTTTTA | 57.830 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
153 | 154 | 7.122204 | CCTCCGTTCCCAAATATAAGTCTTTTT | 59.878 | 37.037 | 0.00 | 0.00 | 0.00 | 1.94 |
154 | 155 | 6.602009 | CCTCCGTTCCCAAATATAAGTCTTTT | 59.398 | 38.462 | 0.00 | 0.00 | 0.00 | 2.27 |
155 | 156 | 6.120220 | CCTCCGTTCCCAAATATAAGTCTTT | 58.880 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
156 | 157 | 5.397559 | CCCTCCGTTCCCAAATATAAGTCTT | 60.398 | 44.000 | 0.00 | 0.00 | 0.00 | 3.01 |
157 | 158 | 4.102681 | CCCTCCGTTCCCAAATATAAGTCT | 59.897 | 45.833 | 0.00 | 0.00 | 0.00 | 3.24 |
158 | 159 | 4.102054 | TCCCTCCGTTCCCAAATATAAGTC | 59.898 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
159 | 160 | 4.042174 | TCCCTCCGTTCCCAAATATAAGT | 58.958 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
160 | 161 | 4.102681 | ACTCCCTCCGTTCCCAAATATAAG | 59.897 | 45.833 | 0.00 | 0.00 | 0.00 | 1.73 |
161 | 162 | 4.042174 | ACTCCCTCCGTTCCCAAATATAA | 58.958 | 43.478 | 0.00 | 0.00 | 0.00 | 0.98 |
162 | 163 | 3.660959 | ACTCCCTCCGTTCCCAAATATA | 58.339 | 45.455 | 0.00 | 0.00 | 0.00 | 0.86 |
163 | 164 | 2.488836 | ACTCCCTCCGTTCCCAAATAT | 58.511 | 47.619 | 0.00 | 0.00 | 0.00 | 1.28 |
164 | 165 | 1.961133 | ACTCCCTCCGTTCCCAAATA | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
165 | 166 | 1.558294 | GTACTCCCTCCGTTCCCAAAT | 59.442 | 52.381 | 0.00 | 0.00 | 0.00 | 2.32 |
166 | 167 | 0.978907 | GTACTCCCTCCGTTCCCAAA | 59.021 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
167 | 168 | 0.178926 | TGTACTCCCTCCGTTCCCAA | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.12 |
168 | 169 | 0.042131 | ATGTACTCCCTCCGTTCCCA | 59.958 | 55.000 | 0.00 | 0.00 | 0.00 | 4.37 |
169 | 170 | 0.464452 | CATGTACTCCCTCCGTTCCC | 59.536 | 60.000 | 0.00 | 0.00 | 0.00 | 3.97 |
170 | 171 | 0.179081 | GCATGTACTCCCTCCGTTCC | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 3.62 |
171 | 172 | 0.179081 | GGCATGTACTCCCTCCGTTC | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 3.95 |
172 | 173 | 0.907704 | TGGCATGTACTCCCTCCGTT | 60.908 | 55.000 | 0.00 | 0.00 | 0.00 | 4.44 |
173 | 174 | 0.907704 | TTGGCATGTACTCCCTCCGT | 60.908 | 55.000 | 0.00 | 0.00 | 0.00 | 4.69 |
174 | 175 | 0.469917 | ATTGGCATGTACTCCCTCCG | 59.530 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
175 | 176 | 1.490490 | TCATTGGCATGTACTCCCTCC | 59.510 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
176 | 177 | 2.171448 | AGTCATTGGCATGTACTCCCTC | 59.829 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
177 | 178 | 2.200081 | AGTCATTGGCATGTACTCCCT | 58.800 | 47.619 | 0.00 | 0.00 | 0.00 | 4.20 |
178 | 179 | 2.717639 | AGTCATTGGCATGTACTCCC | 57.282 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
179 | 180 | 6.699575 | AATTTAGTCATTGGCATGTACTCC | 57.300 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
180 | 181 | 7.538575 | ACAAATTTAGTCATTGGCATGTACTC | 58.461 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
181 | 182 | 7.466746 | ACAAATTTAGTCATTGGCATGTACT | 57.533 | 32.000 | 0.00 | 0.00 | 0.00 | 2.73 |
182 | 183 | 9.632807 | TTTACAAATTTAGTCATTGGCATGTAC | 57.367 | 29.630 | 0.00 | 0.00 | 0.00 | 2.90 |
186 | 187 | 9.086336 | CGATTTTACAAATTTAGTCATTGGCAT | 57.914 | 29.630 | 0.00 | 0.00 | 0.00 | 4.40 |
220 | 222 | 1.387295 | TTTGGCCGTGCATGAACACA | 61.387 | 50.000 | 7.72 | 0.00 | 40.73 | 3.72 |
221 | 223 | 0.939106 | GTTTGGCCGTGCATGAACAC | 60.939 | 55.000 | 7.72 | 0.00 | 37.19 | 3.32 |
230 | 232 | 3.712187 | ACTACAATTTTGTTTGGCCGTG | 58.288 | 40.909 | 0.00 | 0.00 | 42.35 | 4.94 |
278 | 280 | 3.734902 | CGACTTGACGTCATGATCCATGA | 60.735 | 47.826 | 31.26 | 9.23 | 46.84 | 3.07 |
297 | 307 | 1.829222 | TGAGACATAAGAACCCCCGAC | 59.171 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
301 | 311 | 3.871594 | CGATGTTGAGACATAAGAACCCC | 59.128 | 47.826 | 0.00 | 0.00 | 46.27 | 4.95 |
309 | 319 | 3.275999 | TCTCGGTCGATGTTGAGACATA | 58.724 | 45.455 | 0.00 | 0.00 | 46.27 | 2.29 |
343 | 353 | 4.327627 | GTCTGCTAATTTTGAGTCGTCTCC | 59.672 | 45.833 | 7.21 | 0.00 | 39.75 | 3.71 |
369 | 379 | 4.235079 | TCAAAGGGCTGCACAACTATAT | 57.765 | 40.909 | 4.01 | 0.00 | 0.00 | 0.86 |
385 | 395 | 6.501781 | GCTCCATAAATCTCAACCATCAAAG | 58.498 | 40.000 | 0.00 | 0.00 | 0.00 | 2.77 |
390 | 400 | 3.879295 | CACGCTCCATAAATCTCAACCAT | 59.121 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
402 | 412 | 3.410631 | TCCAAGAAAACACGCTCCATA | 57.589 | 42.857 | 0.00 | 0.00 | 0.00 | 2.74 |
567 | 578 | 8.844441 | CATGCACTTTTCATGTTTTCAAAATT | 57.156 | 26.923 | 0.00 | 0.00 | 37.22 | 1.82 |
633 | 645 | 3.251479 | AGATTGACATGCGAGCTACAA | 57.749 | 42.857 | 0.00 | 0.00 | 0.00 | 2.41 |
720 | 737 | 9.857957 | ACAATTGCATTTCAAAGTTTCAAAATT | 57.142 | 22.222 | 5.05 | 0.00 | 38.34 | 1.82 |
721 | 738 | 9.857957 | AACAATTGCATTTCAAAGTTTCAAAAT | 57.142 | 22.222 | 5.05 | 0.00 | 38.34 | 1.82 |
758 | 776 | 1.303236 | TCCATGAGGCCCGTTTGTG | 60.303 | 57.895 | 0.00 | 0.00 | 33.74 | 3.33 |
821 | 864 | 0.250038 | CGATCCCAACGATGATGGCT | 60.250 | 55.000 | 0.00 | 0.00 | 36.58 | 4.75 |
870 | 913 | 2.573340 | GGTTTTGGCTGGCGATGG | 59.427 | 61.111 | 0.00 | 0.00 | 0.00 | 3.51 |
901 | 944 | 2.844348 | AGAAAAGAGCGGAGGGGAATTA | 59.156 | 45.455 | 0.00 | 0.00 | 0.00 | 1.40 |
912 | 955 | 5.126396 | AGAAAATGGGAAAGAAAAGAGCG | 57.874 | 39.130 | 0.00 | 0.00 | 0.00 | 5.03 |
913 | 956 | 7.212976 | AGAAAGAAAATGGGAAAGAAAAGAGC | 58.787 | 34.615 | 0.00 | 0.00 | 0.00 | 4.09 |
914 | 957 | 8.637099 | AGAGAAAGAAAATGGGAAAGAAAAGAG | 58.363 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
953 | 997 | 5.070001 | ACGTCTTCATGATGGGAAAGAAAA | 58.930 | 37.500 | 8.60 | 0.00 | 36.05 | 2.29 |
1179 | 1261 | 1.202952 | AGGAAGAGGACAGAGTCGTGT | 60.203 | 52.381 | 0.00 | 0.00 | 32.65 | 4.49 |
1290 | 1372 | 1.268133 | CGAACGTCTTTTGCCGGAAAA | 60.268 | 47.619 | 5.05 | 3.64 | 32.44 | 2.29 |
1291 | 1373 | 0.305313 | CGAACGTCTTTTGCCGGAAA | 59.695 | 50.000 | 5.05 | 0.00 | 0.00 | 3.13 |
1301 | 1383 | 0.317160 | TCATGTCAGCCGAACGTCTT | 59.683 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
1581 | 1674 | 1.226603 | GTGGCGCTGTAGTAGGTCG | 60.227 | 63.158 | 7.64 | 0.00 | 0.00 | 4.79 |
1843 | 1936 | 2.684927 | GCAGAATTCCAGGCCATGTACT | 60.685 | 50.000 | 5.01 | 0.00 | 0.00 | 2.73 |
1848 | 1941 | 0.749454 | GACGCAGAATTCCAGGCCAT | 60.749 | 55.000 | 5.01 | 0.00 | 0.00 | 4.40 |
1851 | 1944 | 0.674895 | ACAGACGCAGAATTCCAGGC | 60.675 | 55.000 | 0.65 | 3.10 | 0.00 | 4.85 |
1893 | 1986 | 5.055812 | CAGATGGAGATAAGAAAGAGGCAC | 58.944 | 45.833 | 0.00 | 0.00 | 0.00 | 5.01 |
1961 | 2070 | 4.148825 | CGGAGGAGAACCAGGCGG | 62.149 | 72.222 | 0.00 | 0.00 | 38.94 | 6.13 |
1964 | 2073 | 1.954362 | CTGCTCGGAGGAGAACCAGG | 61.954 | 65.000 | 20.51 | 0.00 | 43.27 | 4.45 |
1969 | 2078 | 1.336887 | CGAAAACTGCTCGGAGGAGAA | 60.337 | 52.381 | 29.87 | 0.00 | 43.27 | 2.87 |
2019 | 2128 | 2.815647 | CCGCGACTCCTGGCTTTC | 60.816 | 66.667 | 8.23 | 0.00 | 0.00 | 2.62 |
2214 | 2329 | 1.878953 | AAAACCACTGGCTACTGACG | 58.121 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
2248 | 2367 | 1.204941 | CGGCAGAGCTACTACCTTTGT | 59.795 | 52.381 | 0.00 | 0.00 | 30.11 | 2.83 |
2254 | 2373 | 3.438297 | TGAAATCGGCAGAGCTACTAC | 57.562 | 47.619 | 0.00 | 0.00 | 0.00 | 2.73 |
2435 | 3519 | 2.239150 | TCGACTTACACCTAGCCTCTCT | 59.761 | 50.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2470 | 3554 | 2.672714 | TGAAACGATCGACTGACCTTG | 58.327 | 47.619 | 24.34 | 0.00 | 0.00 | 3.61 |
2472 | 3556 | 2.609737 | GGTTGAAACGATCGACTGACCT | 60.610 | 50.000 | 24.34 | 0.00 | 41.53 | 3.85 |
2547 | 3631 | 4.566004 | CGGAGGTAGAAAATGAACAGTGA | 58.434 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
2633 | 3760 | 6.897966 | TGTAAAGAGAGATATGAAGGACTGGT | 59.102 | 38.462 | 0.00 | 0.00 | 0.00 | 4.00 |
2634 | 3761 | 7.069331 | ACTGTAAAGAGAGATATGAAGGACTGG | 59.931 | 40.741 | 0.00 | 0.00 | 0.00 | 4.00 |
2688 | 3815 | 5.807011 | TGTTGATAATGTCACGAGATGTCAG | 59.193 | 40.000 | 0.00 | 0.00 | 36.32 | 3.51 |
2698 | 3825 | 9.997482 | ACGGTTAAATTATGTTGATAATGTCAC | 57.003 | 29.630 | 0.00 | 0.00 | 35.34 | 3.67 |
2714 | 3841 | 4.004982 | AGTGCATAACGGACGGTTAAATT | 58.995 | 39.130 | 9.37 | 0.00 | 43.93 | 1.82 |
2715 | 3842 | 3.372822 | CAGTGCATAACGGACGGTTAAAT | 59.627 | 43.478 | 9.37 | 0.00 | 43.93 | 1.40 |
2720 | 3847 | 1.079405 | CCAGTGCATAACGGACGGT | 60.079 | 57.895 | 0.00 | 0.00 | 41.69 | 4.83 |
2723 | 3850 | 3.689649 | AGAAATTCCAGTGCATAACGGAC | 59.310 | 43.478 | 0.00 | 0.00 | 33.20 | 4.79 |
2728 | 3855 | 4.158394 | GCCTTCAGAAATTCCAGTGCATAA | 59.842 | 41.667 | 0.00 | 0.00 | 0.00 | 1.90 |
2740 | 3867 | 1.001641 | AGCGCAGGCCTTCAGAAAT | 60.002 | 52.632 | 11.47 | 0.00 | 41.24 | 2.17 |
2747 | 3874 | 1.450531 | GCATATTCAGCGCAGGCCTT | 61.451 | 55.000 | 11.47 | 0.00 | 41.24 | 4.35 |
2782 | 3909 | 4.644234 | TGAAGAAAAGCTTGTCCAACATCA | 59.356 | 37.500 | 13.25 | 7.60 | 36.83 | 3.07 |
2808 | 3935 | 2.972713 | GGATAGAGTTGGGATAGCACCA | 59.027 | 50.000 | 0.00 | 0.00 | 35.88 | 4.17 |
2970 | 4099 | 8.166422 | AGAAACGAAGACTTTTCAAATACCAT | 57.834 | 30.769 | 0.00 | 0.00 | 36.94 | 3.55 |
3021 | 4150 | 3.491342 | TGCCACCACATTTGCTAAAGTA | 58.509 | 40.909 | 0.00 | 0.00 | 0.00 | 2.24 |
3026 | 4155 | 1.342819 | GGTTTGCCACCACATTTGCTA | 59.657 | 47.619 | 0.00 | 0.00 | 46.42 | 3.49 |
![](/static/images/cyverse_long.png)
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.