Multiple sequence alignment - TraesCS7A01G006500
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 | TraesCS7A01G006500 | chr7A | 100.000 | 5447 | 0 | 0 | 1 | 5447 | 3156992 | 3151546 | 0.000000e+00 | 10059.0 |
1 | TraesCS7A01G006500 | chr7A | 94.615 | 1207 | 64 | 1 | 2351 | 3557 | 2685985 | 2684780 | 0.000000e+00 | 1868.0 |
2 | TraesCS7A01G006500 | chr7A | 92.511 | 1135 | 44 | 9 | 4252 | 5377 | 2684018 | 2682916 | 0.000000e+00 | 1587.0 |
3 | TraesCS7A01G006500 | chr7A | 96.493 | 941 | 33 | 0 | 981 | 1921 | 2688417 | 2687477 | 0.000000e+00 | 1555.0 |
4 | TraesCS7A01G006500 | chr7A | 85.844 | 883 | 124 | 1 | 981 | 1862 | 2805903 | 2805021 | 0.000000e+00 | 937.0 |
5 | TraesCS7A01G006500 | chr7A | 96.627 | 504 | 17 | 0 | 3753 | 4256 | 2684780 | 2684277 | 0.000000e+00 | 837.0 |
6 | TraesCS7A01G006500 | chr7A | 80.037 | 1092 | 196 | 15 | 981 | 2056 | 3844171 | 3843086 | 0.000000e+00 | 789.0 |
7 | TraesCS7A01G006500 | chr7A | 88.743 | 382 | 32 | 6 | 463 | 842 | 2689112 | 2688740 | 1.790000e-124 | 457.0 |
8 | TraesCS7A01G006500 | chr7A | 85.373 | 335 | 26 | 14 | 1928 | 2240 | 2687422 | 2687089 | 5.260000e-85 | 326.0 |
9 | TraesCS7A01G006500 | chr7A | 100.000 | 38 | 0 | 0 | 5364 | 5401 | 2682868 | 2682831 | 2.720000e-08 | 71.3 |
10 | TraesCS7A01G006500 | chr7D | 92.495 | 3451 | 197 | 18 | 981 | 4373 | 3552637 | 3549191 | 0.000000e+00 | 4881.0 |
11 | TraesCS7A01G006500 | chr7D | 91.327 | 3482 | 235 | 23 | 983 | 4403 | 2904906 | 2901431 | 0.000000e+00 | 4695.0 |
12 | TraesCS7A01G006500 | chr7D | 84.823 | 2003 | 232 | 28 | 1812 | 3761 | 2687464 | 2685481 | 0.000000e+00 | 1949.0 |
13 | TraesCS7A01G006500 | chr7D | 83.566 | 858 | 139 | 2 | 981 | 1837 | 3425025 | 3424169 | 0.000000e+00 | 802.0 |
14 | TraesCS7A01G006500 | chr7D | 83.391 | 861 | 135 | 8 | 981 | 1837 | 2522449 | 2521593 | 0.000000e+00 | 791.0 |
15 | TraesCS7A01G006500 | chr7D | 91.684 | 469 | 24 | 6 | 4779 | 5246 | 3548323 | 3547869 | 2.140000e-178 | 636.0 |
16 | TraesCS7A01G006500 | chr7D | 79.545 | 748 | 139 | 12 | 3707 | 4448 | 2672076 | 2671337 | 6.250000e-144 | 521.0 |
17 | TraesCS7A01G006500 | chr7D | 90.331 | 362 | 19 | 5 | 99 | 460 | 3553443 | 3553098 | 1.380000e-125 | 460.0 |
18 | TraesCS7A01G006500 | chr7D | 96.899 | 258 | 8 | 0 | 474 | 731 | 3553015 | 3552758 | 3.010000e-117 | 433.0 |
19 | TraesCS7A01G006500 | chr7D | 89.426 | 331 | 21 | 8 | 467 | 791 | 2905389 | 2905067 | 6.570000e-109 | 405.0 |
20 | TraesCS7A01G006500 | chr7D | 91.964 | 224 | 10 | 5 | 472 | 694 | 2719937 | 2719721 | 1.910000e-79 | 307.0 |
21 | TraesCS7A01G006500 | chr7D | 87.562 | 201 | 19 | 5 | 4591 | 4790 | 3548970 | 3548775 | 1.530000e-55 | 228.0 |
22 | TraesCS7A01G006500 | chr7D | 91.250 | 160 | 12 | 2 | 680 | 837 | 2687735 | 2687576 | 3.300000e-52 | 217.0 |
23 | TraesCS7A01G006500 | chr7D | 96.800 | 125 | 4 | 0 | 5323 | 5447 | 3547824 | 3547700 | 5.530000e-50 | 209.0 |
24 | TraesCS7A01G006500 | chr7D | 93.798 | 129 | 8 | 0 | 4779 | 4907 | 2900640 | 2900512 | 1.550000e-45 | 195.0 |
25 | TraesCS7A01G006500 | chr7D | 83.920 | 199 | 25 | 5 | 4784 | 4982 | 3404000 | 3404191 | 3.350000e-42 | 183.0 |
26 | TraesCS7A01G006500 | chr7D | 94.898 | 98 | 5 | 0 | 1 | 98 | 601165465 | 601165562 | 2.630000e-33 | 154.0 |
27 | TraesCS7A01G006500 | chr7D | 93.407 | 91 | 6 | 0 | 893 | 983 | 2905039 | 2904949 | 9.520000e-28 | 135.0 |
28 | TraesCS7A01G006500 | chr7D | 95.238 | 84 | 4 | 0 | 900 | 983 | 3552761 | 3552678 | 3.420000e-27 | 134.0 |
29 | TraesCS7A01G006500 | chr7D | 90.123 | 81 | 7 | 1 | 280 | 359 | 3426072 | 3425992 | 2.680000e-18 | 104.0 |
30 | TraesCS7A01G006500 | chr4A | 81.666 | 3398 | 494 | 84 | 981 | 4292 | 742019792 | 742023146 | 0.000000e+00 | 2704.0 |
31 | TraesCS7A01G006500 | chr4A | 79.714 | 3421 | 523 | 96 | 1453 | 4778 | 740494221 | 740497565 | 0.000000e+00 | 2314.0 |
32 | TraesCS7A01G006500 | chr4A | 84.736 | 2162 | 275 | 34 | 2242 | 4371 | 739606904 | 739609042 | 0.000000e+00 | 2113.0 |
33 | TraesCS7A01G006500 | chr4A | 82.970 | 2296 | 333 | 45 | 2031 | 4292 | 740122964 | 740120693 | 0.000000e+00 | 2021.0 |
34 | TraesCS7A01G006500 | chr4A | 84.556 | 2059 | 296 | 19 | 2242 | 4292 | 742159785 | 742157741 | 0.000000e+00 | 2021.0 |
35 | TraesCS7A01G006500 | chr4A | 82.329 | 2224 | 354 | 34 | 2242 | 4448 | 733805960 | 733808161 | 0.000000e+00 | 1893.0 |
36 | TraesCS7A01G006500 | chr4A | 83.020 | 2126 | 302 | 30 | 2293 | 4385 | 739886359 | 739888458 | 0.000000e+00 | 1871.0 |
37 | TraesCS7A01G006500 | chr4A | 83.639 | 2017 | 301 | 21 | 2289 | 4292 | 741421960 | 741423960 | 0.000000e+00 | 1869.0 |
38 | TraesCS7A01G006500 | chr4A | 81.365 | 1363 | 233 | 17 | 3100 | 4448 | 741505836 | 741504481 | 0.000000e+00 | 1090.0 |
39 | TraesCS7A01G006500 | chr4A | 83.597 | 884 | 137 | 7 | 981 | 1860 | 741420769 | 741421648 | 0.000000e+00 | 822.0 |
40 | TraesCS7A01G006500 | chr4A | 80.713 | 954 | 180 | 4 | 981 | 1931 | 742161105 | 742160153 | 0.000000e+00 | 739.0 |
41 | TraesCS7A01G006500 | chr4A | 85.965 | 342 | 38 | 7 | 4779 | 5112 | 742156805 | 742156466 | 1.870000e-94 | 357.0 |
42 | TraesCS7A01G006500 | chr4A | 89.247 | 93 | 8 | 2 | 6 | 98 | 59286845 | 59286755 | 1.240000e-21 | 115.0 |
43 | TraesCS7A01G006500 | chr4A | 92.308 | 39 | 3 | 0 | 5144 | 5182 | 742156463 | 742156425 | 7.620000e-04 | 56.5 |
44 | TraesCS7A01G006500 | chr1D | 83.792 | 1962 | 283 | 27 | 2258 | 4204 | 464795416 | 464797357 | 0.000000e+00 | 1829.0 |
45 | TraesCS7A01G006500 | chr1D | 96.825 | 63 | 2 | 0 | 4779 | 4841 | 464798699 | 464798761 | 7.460000e-19 | 106.0 |
46 | TraesCS7A01G006500 | chr4D | 95.918 | 98 | 4 | 0 | 1 | 98 | 341704167 | 341704264 | 5.650000e-35 | 159.0 |
47 | TraesCS7A01G006500 | chr4D | 91.919 | 99 | 6 | 1 | 1 | 97 | 461391413 | 461391315 | 2.650000e-28 | 137.0 |
48 | TraesCS7A01G006500 | chr4D | 89.796 | 98 | 9 | 1 | 1 | 98 | 107740162 | 107740258 | 2.060000e-24 | 124.0 |
49 | TraesCS7A01G006500 | chr6D | 91.000 | 100 | 7 | 1 | 1 | 98 | 98104201 | 98104300 | 3.420000e-27 | 134.0 |
50 | TraesCS7A01G006500 | chr7B | 89.362 | 94 | 10 | 0 | 4 | 97 | 238526533 | 238526626 | 9.580000e-23 | 119.0 |
51 | TraesCS7A01G006500 | chr5A | 89.362 | 94 | 10 | 0 | 5 | 98 | 640717584 | 640717491 | 9.580000e-23 | 119.0 |
52 | TraesCS7A01G006500 | chr3B | 88.776 | 98 | 10 | 1 | 1 | 98 | 489983601 | 489983697 | 9.580000e-23 | 119.0 |
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 | TraesCS7A01G006500 | chr7A | 3151546 | 3156992 | 5446 | True | 10059.000000 | 10059 | 100.000000 | 1 | 5447 | 1 | chr7A.!!$R2 | 5446 |
1 | TraesCS7A01G006500 | chr7A | 2682831 | 2689112 | 6281 | True | 957.328571 | 1868 | 93.480286 | 463 | 5401 | 7 | chr7A.!!$R4 | 4938 |
2 | TraesCS7A01G006500 | chr7A | 2805021 | 2805903 | 882 | True | 937.000000 | 937 | 85.844000 | 981 | 1862 | 1 | chr7A.!!$R1 | 881 |
3 | TraesCS7A01G006500 | chr7A | 3843086 | 3844171 | 1085 | True | 789.000000 | 789 | 80.037000 | 981 | 2056 | 1 | chr7A.!!$R3 | 1075 |
4 | TraesCS7A01G006500 | chr7D | 2900512 | 2905389 | 4877 | True | 1357.500000 | 4695 | 91.989500 | 467 | 4907 | 4 | chr7D.!!$R5 | 4440 |
5 | TraesCS7A01G006500 | chr7D | 2685481 | 2687735 | 2254 | True | 1083.000000 | 1949 | 88.036500 | 680 | 3761 | 2 | chr7D.!!$R4 | 3081 |
6 | TraesCS7A01G006500 | chr7D | 3547700 | 3553443 | 5743 | True | 997.285714 | 4881 | 93.001286 | 99 | 5447 | 7 | chr7D.!!$R7 | 5348 |
7 | TraesCS7A01G006500 | chr7D | 2521593 | 2522449 | 856 | True | 791.000000 | 791 | 83.391000 | 981 | 1837 | 1 | chr7D.!!$R1 | 856 |
8 | TraesCS7A01G006500 | chr7D | 2671337 | 2672076 | 739 | True | 521.000000 | 521 | 79.545000 | 3707 | 4448 | 1 | chr7D.!!$R2 | 741 |
9 | TraesCS7A01G006500 | chr7D | 3424169 | 3426072 | 1903 | True | 453.000000 | 802 | 86.844500 | 280 | 1837 | 2 | chr7D.!!$R6 | 1557 |
10 | TraesCS7A01G006500 | chr4A | 742019792 | 742023146 | 3354 | False | 2704.000000 | 2704 | 81.666000 | 981 | 4292 | 1 | chr4A.!!$F5 | 3311 |
11 | TraesCS7A01G006500 | chr4A | 740494221 | 740497565 | 3344 | False | 2314.000000 | 2314 | 79.714000 | 1453 | 4778 | 1 | chr4A.!!$F4 | 3325 |
12 | TraesCS7A01G006500 | chr4A | 739606904 | 739609042 | 2138 | False | 2113.000000 | 2113 | 84.736000 | 2242 | 4371 | 1 | chr4A.!!$F2 | 2129 |
13 | TraesCS7A01G006500 | chr4A | 740120693 | 740122964 | 2271 | True | 2021.000000 | 2021 | 82.970000 | 2031 | 4292 | 1 | chr4A.!!$R2 | 2261 |
14 | TraesCS7A01G006500 | chr4A | 733805960 | 733808161 | 2201 | False | 1893.000000 | 1893 | 82.329000 | 2242 | 4448 | 1 | chr4A.!!$F1 | 2206 |
15 | TraesCS7A01G006500 | chr4A | 739886359 | 739888458 | 2099 | False | 1871.000000 | 1871 | 83.020000 | 2293 | 4385 | 1 | chr4A.!!$F3 | 2092 |
16 | TraesCS7A01G006500 | chr4A | 741420769 | 741423960 | 3191 | False | 1345.500000 | 1869 | 83.618000 | 981 | 4292 | 2 | chr4A.!!$F6 | 3311 |
17 | TraesCS7A01G006500 | chr4A | 741504481 | 741505836 | 1355 | True | 1090.000000 | 1090 | 81.365000 | 3100 | 4448 | 1 | chr4A.!!$R3 | 1348 |
18 | TraesCS7A01G006500 | chr4A | 742156425 | 742161105 | 4680 | True | 793.375000 | 2021 | 85.885500 | 981 | 5182 | 4 | chr4A.!!$R4 | 4201 |
19 | TraesCS7A01G006500 | chr1D | 464795416 | 464798761 | 3345 | False | 967.500000 | 1829 | 90.308500 | 2258 | 4841 | 2 | chr1D.!!$F1 | 2583 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
186 | 187 | 0.037046 | CTCCATTGCTTTTGGGCCAC | 60.037 | 55.000 | 5.23 | 0.0 | 34.85 | 5.01 | F |
189 | 190 | 0.247185 | CATTGCTTTTGGGCCACGAT | 59.753 | 50.000 | 5.23 | 0.0 | 0.00 | 3.73 | F |
874 | 1407 | 0.515127 | TAGCGTGCACACAAATTCCG | 59.485 | 50.000 | 18.64 | 0.0 | 0.00 | 4.30 | F |
1008 | 1748 | 1.005097 | TGAGAGCAAGCAATGGACCAT | 59.995 | 47.619 | 0.00 | 0.0 | 0.00 | 3.55 | F |
2260 | 3252 | 1.134461 | GGTGCATGCATGTCTCTCTCT | 60.134 | 52.381 | 25.64 | 0.0 | 0.00 | 3.10 | F |
2497 | 4555 | 1.370900 | CAAGAGCGCTTTGGTGTGC | 60.371 | 57.895 | 13.26 | 0.0 | 43.09 | 4.57 | F |
3478 | 5568 | 0.555769 | TGGACTTGGCTGGGAAAAGT | 59.444 | 50.000 | 0.00 | 0.0 | 36.87 | 2.66 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2106 | 3068 | 0.107410 | TGGGCGAACAGTCAACAGTT | 60.107 | 50.000 | 0.00 | 0.0 | 0.00 | 3.16 | R |
2217 | 3188 | 6.039941 | ACCATCTACGAGAACTCTATTTCTGG | 59.960 | 42.308 | 0.00 | 0.0 | 35.90 | 3.86 | R |
2484 | 4542 | 1.994916 | ATTATTGCACACCAAAGCGC | 58.005 | 45.000 | 0.00 | 0.0 | 36.92 | 5.92 | R |
2773 | 4835 | 2.549082 | TCATGCCCAAAACCCATTGAT | 58.451 | 42.857 | 0.00 | 0.0 | 31.84 | 2.57 | R |
3412 | 5502 | 1.549203 | TTTCCTTTGGGAGCTCATGC | 58.451 | 50.000 | 17.19 | 0.0 | 43.29 | 4.06 | R |
3817 | 5911 | 2.040412 | GAGTTGTGGAGGGAGGATGTTT | 59.960 | 50.000 | 0.00 | 0.0 | 0.00 | 2.83 | R |
5362 | 8761 | 0.108945 | GCTGCATGCTTTGGTCTTCC | 60.109 | 55.000 | 20.33 | 0.0 | 38.95 | 3.46 | 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 |
---|---|---|---|---|---|---|---|---|---|
56 | 57 | 9.465985 | TCCGAAACTTTAAAATATGGTTTTCAC | 57.534 | 29.630 | 4.58 | 0.00 | 31.51 | 3.18 |
57 | 58 | 8.421701 | CCGAAACTTTAAAATATGGTTTTCACG | 58.578 | 33.333 | 4.58 | 4.36 | 31.51 | 4.35 |
58 | 59 | 9.171701 | CGAAACTTTAAAATATGGTTTTCACGA | 57.828 | 29.630 | 0.00 | 0.00 | 31.51 | 4.35 |
66 | 67 | 8.934507 | AAAATATGGTTTTCACGAAGTTTTCA | 57.065 | 26.923 | 0.00 | 0.00 | 41.61 | 2.69 |
67 | 68 | 9.541143 | AAAATATGGTTTTCACGAAGTTTTCAT | 57.459 | 25.926 | 0.00 | 0.00 | 41.61 | 2.57 |
68 | 69 | 8.519492 | AATATGGTTTTCACGAAGTTTTCATG | 57.481 | 30.769 | 0.00 | 0.00 | 41.61 | 3.07 |
69 | 70 | 4.677584 | TGGTTTTCACGAAGTTTTCATGG | 58.322 | 39.130 | 0.00 | 0.00 | 41.61 | 3.66 |
70 | 71 | 4.399618 | TGGTTTTCACGAAGTTTTCATGGA | 59.600 | 37.500 | 0.00 | 0.00 | 41.61 | 3.41 |
71 | 72 | 5.105716 | TGGTTTTCACGAAGTTTTCATGGAA | 60.106 | 36.000 | 0.00 | 0.00 | 41.61 | 3.53 |
72 | 73 | 5.983118 | GGTTTTCACGAAGTTTTCATGGAAT | 59.017 | 36.000 | 0.00 | 0.00 | 41.61 | 3.01 |
73 | 74 | 7.142680 | GGTTTTCACGAAGTTTTCATGGAATA | 58.857 | 34.615 | 0.00 | 0.00 | 41.61 | 1.75 |
74 | 75 | 7.812669 | GGTTTTCACGAAGTTTTCATGGAATAT | 59.187 | 33.333 | 0.00 | 0.00 | 41.61 | 1.28 |
75 | 76 | 9.191995 | GTTTTCACGAAGTTTTCATGGAATATT | 57.808 | 29.630 | 0.00 | 0.00 | 41.61 | 1.28 |
76 | 77 | 9.757227 | TTTTCACGAAGTTTTCATGGAATATTT | 57.243 | 25.926 | 0.00 | 0.00 | 41.61 | 1.40 |
77 | 78 | 8.741101 | TTCACGAAGTTTTCATGGAATATTTG | 57.259 | 30.769 | 0.00 | 0.00 | 41.61 | 2.32 |
78 | 79 | 7.881142 | TCACGAAGTTTTCATGGAATATTTGT | 58.119 | 30.769 | 0.00 | 0.00 | 41.61 | 2.83 |
79 | 80 | 8.356657 | TCACGAAGTTTTCATGGAATATTTGTT | 58.643 | 29.630 | 0.00 | 0.00 | 41.61 | 2.83 |
80 | 81 | 8.977505 | CACGAAGTTTTCATGGAATATTTGTTT | 58.022 | 29.630 | 0.00 | 0.00 | 41.61 | 2.83 |
81 | 82 | 9.191995 | ACGAAGTTTTCATGGAATATTTGTTTC | 57.808 | 29.630 | 0.00 | 0.00 | 37.78 | 2.78 |
82 | 83 | 8.647226 | CGAAGTTTTCATGGAATATTTGTTTCC | 58.353 | 33.333 | 0.00 | 0.00 | 42.52 | 3.13 |
83 | 84 | 8.532977 | AAGTTTTCATGGAATATTTGTTTCCG | 57.467 | 30.769 | 0.00 | 0.00 | 44.67 | 4.30 |
84 | 85 | 7.666623 | AGTTTTCATGGAATATTTGTTTCCGT | 58.333 | 30.769 | 0.00 | 0.00 | 44.67 | 4.69 |
85 | 86 | 8.798402 | AGTTTTCATGGAATATTTGTTTCCGTA | 58.202 | 29.630 | 0.00 | 0.00 | 44.67 | 4.02 |
86 | 87 | 9.581099 | GTTTTCATGGAATATTTGTTTCCGTAT | 57.419 | 29.630 | 0.00 | 0.00 | 44.67 | 3.06 |
110 | 111 | 5.648330 | ATATTCTCCCCCAAGAGGTAAAC | 57.352 | 43.478 | 0.00 | 0.00 | 34.46 | 2.01 |
182 | 183 | 2.220653 | TCTCCTCCATTGCTTTTGGG | 57.779 | 50.000 | 1.20 | 0.00 | 34.85 | 4.12 |
184 | 185 | 0.904394 | TCCTCCATTGCTTTTGGGCC | 60.904 | 55.000 | 0.00 | 0.00 | 34.85 | 5.80 |
185 | 186 | 1.193462 | CCTCCATTGCTTTTGGGCCA | 61.193 | 55.000 | 0.00 | 0.00 | 34.85 | 5.36 |
186 | 187 | 0.037046 | CTCCATTGCTTTTGGGCCAC | 60.037 | 55.000 | 5.23 | 0.00 | 34.85 | 5.01 |
187 | 188 | 1.374505 | CCATTGCTTTTGGGCCACG | 60.375 | 57.895 | 5.23 | 0.00 | 0.00 | 4.94 |
188 | 189 | 1.664873 | CATTGCTTTTGGGCCACGA | 59.335 | 52.632 | 5.23 | 0.00 | 0.00 | 4.35 |
189 | 190 | 0.247185 | CATTGCTTTTGGGCCACGAT | 59.753 | 50.000 | 5.23 | 0.00 | 0.00 | 3.73 |
190 | 191 | 0.975887 | ATTGCTTTTGGGCCACGATT | 59.024 | 45.000 | 5.23 | 0.00 | 0.00 | 3.34 |
191 | 192 | 1.621992 | TTGCTTTTGGGCCACGATTA | 58.378 | 45.000 | 5.23 | 0.00 | 0.00 | 1.75 |
192 | 193 | 1.846007 | TGCTTTTGGGCCACGATTAT | 58.154 | 45.000 | 5.23 | 0.00 | 0.00 | 1.28 |
193 | 194 | 2.175202 | TGCTTTTGGGCCACGATTATT | 58.825 | 42.857 | 5.23 | 0.00 | 0.00 | 1.40 |
194 | 195 | 2.165437 | TGCTTTTGGGCCACGATTATTC | 59.835 | 45.455 | 5.23 | 0.00 | 0.00 | 1.75 |
195 | 196 | 2.481276 | GCTTTTGGGCCACGATTATTCC | 60.481 | 50.000 | 5.23 | 0.00 | 0.00 | 3.01 |
196 | 197 | 2.516227 | TTTGGGCCACGATTATTCCA | 57.484 | 45.000 | 5.23 | 0.00 | 0.00 | 3.53 |
197 | 198 | 2.746279 | TTGGGCCACGATTATTCCAT | 57.254 | 45.000 | 5.23 | 0.00 | 0.00 | 3.41 |
207 | 208 | 3.062763 | CGATTATTCCATCGCTCTGCTT | 58.937 | 45.455 | 0.00 | 0.00 | 39.69 | 3.91 |
214 | 215 | 1.016130 | CATCGCTCTGCTTTCACCGT | 61.016 | 55.000 | 0.00 | 0.00 | 0.00 | 4.83 |
237 | 238 | 0.593128 | CCCGCAGAAACCTTGTCTTG | 59.407 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
244 | 245 | 2.092429 | AGAAACCTTGTCTTGAGCACCA | 60.092 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
250 | 251 | 3.306989 | CCTTGTCTTGAGCACCATCACTA | 60.307 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
251 | 252 | 3.599730 | TGTCTTGAGCACCATCACTAG | 57.400 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
256 | 257 | 3.548745 | TGAGCACCATCACTAGGATTG | 57.451 | 47.619 | 0.00 | 0.00 | 32.57 | 2.67 |
257 | 258 | 2.216898 | GAGCACCATCACTAGGATTGC | 58.783 | 52.381 | 0.00 | 2.75 | 39.16 | 3.56 |
278 | 279 | 1.519455 | GCGTCCCTCCAGATGAACG | 60.519 | 63.158 | 0.00 | 0.00 | 0.00 | 3.95 |
309 | 310 | 7.444792 | AGTCCATTGAAGATTGATAGATTGAGC | 59.555 | 37.037 | 0.00 | 0.00 | 0.00 | 4.26 |
359 | 361 | 2.053244 | CTAGATTGGGCCTGGTGATCT | 58.947 | 52.381 | 4.53 | 8.39 | 0.00 | 2.75 |
513 | 582 | 5.560966 | ATTACAACCAAAATGAGGCTACG | 57.439 | 39.130 | 0.00 | 0.00 | 0.00 | 3.51 |
820 | 1323 | 3.558931 | TCAATGGTTACATCGCAGGAT | 57.441 | 42.857 | 0.00 | 0.00 | 35.94 | 3.24 |
852 | 1385 | 4.023792 | GCAATTTTTCAAAAGAGGCCCTTG | 60.024 | 41.667 | 0.00 | 0.00 | 34.79 | 3.61 |
874 | 1407 | 0.515127 | TAGCGTGCACACAAATTCCG | 59.485 | 50.000 | 18.64 | 0.00 | 0.00 | 4.30 |
1008 | 1748 | 1.005097 | TGAGAGCAAGCAATGGACCAT | 59.995 | 47.619 | 0.00 | 0.00 | 0.00 | 3.55 |
1106 | 1846 | 5.613360 | GCGTCAAGGATGATATCAAACATCG | 60.613 | 44.000 | 9.99 | 9.86 | 42.34 | 3.84 |
1305 | 2045 | 1.401530 | CGCACATGCTCAAACAACTG | 58.598 | 50.000 | 1.82 | 0.00 | 39.32 | 3.16 |
1542 | 2282 | 7.649533 | TGATTCATTGAATGAGCTAACCAAT | 57.350 | 32.000 | 16.41 | 0.00 | 40.94 | 3.16 |
1586 | 2326 | 4.756642 | TGATGTGTCCAAGCAACTAAAGAG | 59.243 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
1818 | 2670 | 9.635520 | CGAGTATTACTTGAGAAAAAGAGGTAA | 57.364 | 33.333 | 5.26 | 0.00 | 31.05 | 2.85 |
1922 | 2785 | 7.433719 | GCGATAAAGAGGTATGCATCTACTATG | 59.566 | 40.741 | 0.19 | 0.00 | 34.31 | 2.23 |
1926 | 2789 | 8.713708 | AAAGAGGTATGCATCTACTATGTAGT | 57.286 | 34.615 | 0.19 | 0.00 | 34.31 | 2.73 |
2002 | 2939 | 9.855361 | GTGATAAATTATGTTTGAGACATCTCG | 57.145 | 33.333 | 4.49 | 0.00 | 45.88 | 4.04 |
2024 | 2963 | 4.320348 | CGTATAGAAGAGTTCGGATGGACC | 60.320 | 50.000 | 0.00 | 0.00 | 34.02 | 4.46 |
2098 | 3060 | 9.178758 | CAAGTTTTCCTACCTTCTTTGCTATAT | 57.821 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
2105 | 3067 | 9.747898 | TCCTACCTTCTTTGCTATATTTTCAAA | 57.252 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
2127 | 3096 | 1.831389 | CTGTTGACTGTTCGCCCACG | 61.831 | 60.000 | 0.00 | 0.00 | 42.01 | 4.94 |
2140 | 3109 | 4.061357 | TCGCCCACGATTCATATGTTTA | 57.939 | 40.909 | 1.90 | 0.00 | 45.12 | 2.01 |
2217 | 3188 | 7.581011 | ATCTGGATTGCGAAATTTTGTTAAC | 57.419 | 32.000 | 7.27 | 0.00 | 0.00 | 2.01 |
2260 | 3252 | 1.134461 | GGTGCATGCATGTCTCTCTCT | 60.134 | 52.381 | 25.64 | 0.00 | 0.00 | 3.10 |
2276 | 3284 | 4.955335 | TCTCTCTTGTACCCCTCCATTTA | 58.045 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
2446 | 4503 | 6.097356 | TGACAGGTACTTAATCGTCATTGAC | 58.903 | 40.000 | 6.73 | 6.73 | 34.60 | 3.18 |
2484 | 4542 | 6.944234 | AAAAACTTGGGAACTAGTCAAGAG | 57.056 | 37.500 | 22.78 | 9.67 | 45.84 | 2.85 |
2497 | 4555 | 1.370900 | CAAGAGCGCTTTGGTGTGC | 60.371 | 57.895 | 13.26 | 0.00 | 43.09 | 4.57 |
2666 | 4724 | 5.306114 | TCCTAATCATCTACCGTCAGAGA | 57.694 | 43.478 | 0.00 | 0.00 | 0.00 | 3.10 |
2773 | 4835 | 5.105064 | GGAGCTTTGGTCTAAGGTATACACA | 60.105 | 44.000 | 5.01 | 0.00 | 36.09 | 3.72 |
3159 | 5246 | 6.256539 | ACTGTATTCGATAGTGACAAGCAATG | 59.743 | 38.462 | 0.00 | 0.00 | 37.40 | 2.82 |
3256 | 5343 | 3.221771 | ACAAGCAAGGTCACTTAATGCA | 58.778 | 40.909 | 0.00 | 0.00 | 34.49 | 3.96 |
3265 | 5352 | 6.498309 | AAGGTCACTTAATGCAATGTGCAGA | 61.498 | 40.000 | 9.06 | 0.00 | 45.94 | 4.26 |
3266 | 5353 | 7.750934 | AAGGTCACTTAATGCAATGTGCAGAT | 61.751 | 38.462 | 9.06 | 0.00 | 45.94 | 2.90 |
3412 | 5502 | 3.814842 | TCAAATTAGCGAGCATGGGTATG | 59.185 | 43.478 | 0.00 | 0.00 | 37.36 | 2.39 |
3472 | 5562 | 3.136443 | TGATAGTATTGGACTTGGCTGGG | 59.864 | 47.826 | 0.00 | 0.00 | 39.81 | 4.45 |
3478 | 5568 | 0.555769 | TGGACTTGGCTGGGAAAAGT | 59.444 | 50.000 | 0.00 | 0.00 | 36.87 | 2.66 |
3558 | 5648 | 3.316308 | AGCGAAACAAAGATTGAAGTGCT | 59.684 | 39.130 | 0.00 | 0.00 | 0.00 | 4.40 |
3559 | 5649 | 3.423206 | GCGAAACAAAGATTGAAGTGCTG | 59.577 | 43.478 | 0.00 | 0.00 | 0.00 | 4.41 |
3606 | 5696 | 2.247358 | AGAAGAGCTATGCCTAGGAGC | 58.753 | 52.381 | 14.75 | 13.16 | 36.42 | 4.70 |
3629 | 5719 | 6.770785 | AGCAGTTGGTATTCACTCAAACTTTA | 59.229 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
3741 | 5834 | 3.243907 | GCGGAGTCTATAGCCAAACTGAT | 60.244 | 47.826 | 0.00 | 0.00 | 0.00 | 2.90 |
3791 | 5885 | 3.759527 | TTCTCGTGTACAGATTCTCCG | 57.240 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
3798 | 5892 | 3.096852 | TGTACAGATTCTCCGGTCATGT | 58.903 | 45.455 | 0.00 | 2.13 | 0.00 | 3.21 |
3817 | 5911 | 2.874664 | CGACAACCCCTGGGAACGA | 61.875 | 63.158 | 16.20 | 0.00 | 38.96 | 3.85 |
4109 | 6206 | 1.149288 | AGGGAGATATGCCGGTCCTTA | 59.851 | 52.381 | 1.90 | 0.00 | 0.00 | 2.69 |
4391 | 6838 | 0.462581 | GCGCTGATCTCCATGGACAA | 60.463 | 55.000 | 11.44 | 1.92 | 0.00 | 3.18 |
4397 | 6844 | 4.746089 | GCTGATCTCCATGGACAATTAGCT | 60.746 | 45.833 | 26.61 | 7.05 | 0.00 | 3.32 |
4902 | 8277 | 8.276252 | TGTCTTATTTATTTGTAGGTCTTGCC | 57.724 | 34.615 | 0.00 | 0.00 | 37.58 | 4.52 |
5036 | 8428 | 4.911514 | TCAAGTTTGGCTAAGTTGGAAC | 57.088 | 40.909 | 22.83 | 0.00 | 44.07 | 3.62 |
5038 | 8430 | 4.578928 | TCAAGTTTGGCTAAGTTGGAACTC | 59.421 | 41.667 | 22.83 | 0.00 | 44.07 | 3.01 |
5121 | 8520 | 2.409055 | CCGGCACCACCATGATGTG | 61.409 | 63.158 | 0.00 | 0.00 | 39.03 | 3.21 |
5213 | 8612 | 5.247337 | AGGTAGAGGAAGAGCTTAATATGCC | 59.753 | 44.000 | 0.00 | 0.00 | 0.00 | 4.40 |
5236 | 8635 | 4.378874 | CGAGCCTTGAATCTCTGGAAAAAC | 60.379 | 45.833 | 0.00 | 0.00 | 0.00 | 2.43 |
5241 | 8640 | 6.088824 | CCTTGAATCTCTGGAAAAACGAATG | 58.911 | 40.000 | 0.00 | 0.00 | 0.00 | 2.67 |
5253 | 8652 | 5.452302 | GGAAAAACGAATGCTTGTATCATCG | 59.548 | 40.000 | 0.00 | 0.00 | 0.00 | 3.84 |
5290 | 8689 | 6.718454 | ACTTCACGATCTTTTCTCAATCTG | 57.282 | 37.500 | 0.00 | 0.00 | 0.00 | 2.90 |
5295 | 8694 | 4.932200 | ACGATCTTTTCTCAATCTGACCAC | 59.068 | 41.667 | 0.00 | 0.00 | 0.00 | 4.16 |
5298 | 8697 | 6.073058 | CGATCTTTTCTCAATCTGACCACAAA | 60.073 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
5302 | 8701 | 3.149196 | TCTCAATCTGACCACAAAAGGC | 58.851 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
5303 | 8702 | 3.152341 | CTCAATCTGACCACAAAAGGCT | 58.848 | 45.455 | 0.00 | 0.00 | 0.00 | 4.58 |
5314 | 8713 | 4.040339 | ACCACAAAAGGCTTTTTATGAGGG | 59.960 | 41.667 | 25.00 | 20.56 | 33.53 | 4.30 |
5362 | 8761 | 4.695455 | TGGTAATTGCTTCCTTTCTTCTCG | 59.305 | 41.667 | 0.00 | 0.00 | 0.00 | 4.04 |
5407 | 8867 | 6.473758 | GGTTTTTGGATAGGACACTACTTCT | 58.526 | 40.000 | 0.00 | 0.00 | 30.59 | 2.85 |
5408 | 8868 | 6.594547 | GGTTTTTGGATAGGACACTACTTCTC | 59.405 | 42.308 | 0.00 | 0.00 | 30.59 | 2.87 |
5424 | 8884 | 2.630889 | TCTCTGGAAGTGGAGTGGAT | 57.369 | 50.000 | 0.00 | 0.00 | 33.76 | 3.41 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
30 | 31 | 9.465985 | GTGAAAACCATATTTTAAAGTTTCGGA | 57.534 | 29.630 | 0.00 | 0.00 | 30.66 | 4.55 |
31 | 32 | 8.421701 | CGTGAAAACCATATTTTAAAGTTTCGG | 58.578 | 33.333 | 0.00 | 0.00 | 30.66 | 4.30 |
32 | 33 | 9.171701 | TCGTGAAAACCATATTTTAAAGTTTCG | 57.828 | 29.630 | 0.00 | 4.21 | 30.66 | 3.46 |
41 | 42 | 8.934507 | TGAAAACTTCGTGAAAACCATATTTT | 57.065 | 26.923 | 0.00 | 0.00 | 0.00 | 1.82 |
54 | 55 | 8.519492 | AACAAATATTCCATGAAAACTTCGTG | 57.481 | 30.769 | 0.00 | 2.24 | 44.41 | 4.35 |
55 | 56 | 9.191995 | GAAACAAATATTCCATGAAAACTTCGT | 57.808 | 29.630 | 0.00 | 0.00 | 0.00 | 3.85 |
56 | 57 | 8.647226 | GGAAACAAATATTCCATGAAAACTTCG | 58.353 | 33.333 | 0.00 | 0.00 | 44.70 | 3.79 |
57 | 58 | 8.647226 | CGGAAACAAATATTCCATGAAAACTTC | 58.353 | 33.333 | 0.00 | 0.00 | 45.44 | 3.01 |
58 | 59 | 8.147704 | ACGGAAACAAATATTCCATGAAAACTT | 58.852 | 29.630 | 0.00 | 0.00 | 45.44 | 2.66 |
59 | 60 | 7.666623 | ACGGAAACAAATATTCCATGAAAACT | 58.333 | 30.769 | 0.00 | 0.00 | 45.44 | 2.66 |
60 | 61 | 7.883229 | ACGGAAACAAATATTCCATGAAAAC | 57.117 | 32.000 | 0.00 | 0.00 | 45.44 | 2.43 |
72 | 73 | 9.729281 | GGGGAGAATATTATACGGAAACAAATA | 57.271 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
73 | 74 | 7.668469 | GGGGGAGAATATTATACGGAAACAAAT | 59.332 | 37.037 | 0.00 | 0.00 | 0.00 | 2.32 |
74 | 75 | 6.999871 | GGGGGAGAATATTATACGGAAACAAA | 59.000 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
75 | 76 | 6.101442 | TGGGGGAGAATATTATACGGAAACAA | 59.899 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
76 | 77 | 5.607592 | TGGGGGAGAATATTATACGGAAACA | 59.392 | 40.000 | 0.00 | 0.00 | 0.00 | 2.83 |
77 | 78 | 6.117975 | TGGGGGAGAATATTATACGGAAAC | 57.882 | 41.667 | 0.00 | 0.00 | 0.00 | 2.78 |
78 | 79 | 6.559539 | TCTTGGGGGAGAATATTATACGGAAA | 59.440 | 38.462 | 0.00 | 0.00 | 0.00 | 3.13 |
79 | 80 | 6.086095 | TCTTGGGGGAGAATATTATACGGAA | 58.914 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
80 | 81 | 5.657446 | TCTTGGGGGAGAATATTATACGGA | 58.343 | 41.667 | 0.00 | 0.00 | 0.00 | 4.69 |
81 | 82 | 5.104900 | CCTCTTGGGGGAGAATATTATACGG | 60.105 | 48.000 | 0.00 | 0.00 | 35.52 | 4.02 |
82 | 83 | 5.484290 | ACCTCTTGGGGGAGAATATTATACG | 59.516 | 44.000 | 0.00 | 0.00 | 40.03 | 3.06 |
83 | 84 | 6.954352 | ACCTCTTGGGGGAGAATATTATAC | 57.046 | 41.667 | 0.00 | 0.00 | 40.03 | 1.47 |
84 | 85 | 8.887393 | GTTTACCTCTTGGGGGAGAATATTATA | 58.113 | 37.037 | 0.00 | 0.00 | 40.03 | 0.98 |
85 | 86 | 7.576649 | AGTTTACCTCTTGGGGGAGAATATTAT | 59.423 | 37.037 | 0.00 | 0.00 | 40.03 | 1.28 |
86 | 87 | 6.912561 | AGTTTACCTCTTGGGGGAGAATATTA | 59.087 | 38.462 | 0.00 | 0.00 | 40.03 | 0.98 |
87 | 88 | 5.736616 | AGTTTACCTCTTGGGGGAGAATATT | 59.263 | 40.000 | 0.00 | 0.00 | 40.03 | 1.28 |
88 | 89 | 5.132816 | CAGTTTACCTCTTGGGGGAGAATAT | 59.867 | 44.000 | 0.00 | 0.00 | 40.03 | 1.28 |
89 | 90 | 4.473559 | CAGTTTACCTCTTGGGGGAGAATA | 59.526 | 45.833 | 0.00 | 0.00 | 40.03 | 1.75 |
90 | 91 | 3.267031 | CAGTTTACCTCTTGGGGGAGAAT | 59.733 | 47.826 | 0.00 | 0.00 | 40.03 | 2.40 |
91 | 92 | 2.642807 | CAGTTTACCTCTTGGGGGAGAA | 59.357 | 50.000 | 0.00 | 0.00 | 40.03 | 2.87 |
92 | 93 | 2.266279 | CAGTTTACCTCTTGGGGGAGA | 58.734 | 52.381 | 0.00 | 0.00 | 40.03 | 3.71 |
93 | 94 | 1.985895 | ACAGTTTACCTCTTGGGGGAG | 59.014 | 52.381 | 0.00 | 0.00 | 40.03 | 4.30 |
94 | 95 | 2.127651 | ACAGTTTACCTCTTGGGGGA | 57.872 | 50.000 | 0.00 | 0.00 | 40.03 | 4.81 |
95 | 96 | 4.444449 | GCTATACAGTTTACCTCTTGGGGG | 60.444 | 50.000 | 0.00 | 0.00 | 40.03 | 5.40 |
96 | 97 | 4.163458 | TGCTATACAGTTTACCTCTTGGGG | 59.837 | 45.833 | 0.00 | 0.00 | 40.03 | 4.96 |
97 | 98 | 5.353394 | TGCTATACAGTTTACCTCTTGGG | 57.647 | 43.478 | 0.00 | 0.00 | 41.89 | 4.12 |
187 | 188 | 4.512944 | TGAAAGCAGAGCGATGGAATAATC | 59.487 | 41.667 | 0.00 | 0.00 | 0.00 | 1.75 |
188 | 189 | 4.274459 | GTGAAAGCAGAGCGATGGAATAAT | 59.726 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
189 | 190 | 3.623060 | GTGAAAGCAGAGCGATGGAATAA | 59.377 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
190 | 191 | 3.198068 | GTGAAAGCAGAGCGATGGAATA | 58.802 | 45.455 | 0.00 | 0.00 | 0.00 | 1.75 |
191 | 192 | 2.012673 | GTGAAAGCAGAGCGATGGAAT | 58.987 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
192 | 193 | 1.442769 | GTGAAAGCAGAGCGATGGAA | 58.557 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
193 | 194 | 0.391661 | GGTGAAAGCAGAGCGATGGA | 60.392 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
194 | 195 | 1.699656 | CGGTGAAAGCAGAGCGATGG | 61.700 | 60.000 | 0.00 | 0.00 | 35.10 | 3.51 |
195 | 196 | 1.016130 | ACGGTGAAAGCAGAGCGATG | 61.016 | 55.000 | 0.00 | 0.00 | 36.89 | 3.84 |
196 | 197 | 1.016130 | CACGGTGAAAGCAGAGCGAT | 61.016 | 55.000 | 0.74 | 0.00 | 36.89 | 4.58 |
197 | 198 | 1.664649 | CACGGTGAAAGCAGAGCGA | 60.665 | 57.895 | 0.74 | 0.00 | 36.89 | 4.93 |
207 | 208 | 1.746322 | TTCTGCGGGTACACGGTGAA | 61.746 | 55.000 | 20.88 | 6.56 | 0.00 | 3.18 |
214 | 215 | 0.470766 | ACAAGGTTTCTGCGGGTACA | 59.529 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
237 | 238 | 2.216898 | GCAATCCTAGTGATGGTGCTC | 58.783 | 52.381 | 9.10 | 0.00 | 35.31 | 4.26 |
244 | 245 | 1.069765 | CGCGGGCAATCCTAGTGAT | 59.930 | 57.895 | 0.00 | 0.00 | 34.22 | 3.06 |
257 | 258 | 4.227134 | CATCTGGAGGGACGCGGG | 62.227 | 72.222 | 12.47 | 0.00 | 0.00 | 6.13 |
278 | 279 | 1.098050 | AATCTTCAATGGACTGCGCC | 58.902 | 50.000 | 4.18 | 0.00 | 0.00 | 6.53 |
341 | 342 | 0.549950 | CAGATCACCAGGCCCAATCT | 59.450 | 55.000 | 0.00 | 0.00 | 0.00 | 2.40 |
342 | 343 | 0.257039 | ACAGATCACCAGGCCCAATC | 59.743 | 55.000 | 0.00 | 0.00 | 0.00 | 2.67 |
343 | 344 | 0.257039 | GACAGATCACCAGGCCCAAT | 59.743 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
359 | 361 | 3.106827 | TGGACATGGAAGAGCTATGACA | 58.893 | 45.455 | 0.00 | 0.00 | 37.65 | 3.58 |
461 | 463 | 0.741221 | GGAGACTTGCACGGATGGTC | 60.741 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
465 | 515 | 1.202758 | TGTTTGGAGACTTGCACGGAT | 60.203 | 47.619 | 0.00 | 0.00 | 0.00 | 4.18 |
513 | 582 | 1.228245 | TCTCCTTGTTGCTGTGGCC | 60.228 | 57.895 | 0.00 | 0.00 | 37.74 | 5.36 |
759 | 852 | 1.804372 | CGACCTATCAAGTCAGCAGCC | 60.804 | 57.143 | 0.00 | 0.00 | 33.70 | 4.85 |
768 | 861 | 6.576662 | ATCACTACCATACGACCTATCAAG | 57.423 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
820 | 1323 | 7.041235 | CCTCTTTTGAAAAATTGCCTGCATTTA | 60.041 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
852 | 1385 | 3.171277 | GGAATTTGTGTGCACGCTATTC | 58.829 | 45.455 | 30.03 | 30.03 | 32.57 | 1.75 |
874 | 1407 | 1.745653 | GGAAGGTTCATGCTAGTTGCC | 59.254 | 52.381 | 0.00 | 0.00 | 42.00 | 4.52 |
966 | 1554 | 0.612174 | AGCTGGAACGAGTGGCTAGA | 60.612 | 55.000 | 0.00 | 0.00 | 0.00 | 2.43 |
1106 | 1846 | 1.312815 | GCTCTCCAGCTCTCTCTCTC | 58.687 | 60.000 | 0.00 | 0.00 | 43.09 | 3.20 |
1305 | 2045 | 0.179034 | AGCCGCCCATCTTCTTCATC | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 2.92 |
1441 | 2181 | 1.135603 | CGTGGTTGCAACATCTGGATG | 60.136 | 52.381 | 29.55 | 8.81 | 44.15 | 3.51 |
1542 | 2282 | 0.752658 | CATCCCCGTCACTCAGCATA | 59.247 | 55.000 | 0.00 | 0.00 | 0.00 | 3.14 |
1586 | 2326 | 5.755861 | CCTCCGAATCCAAAAATAGAGAGTC | 59.244 | 44.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1697 | 2437 | 1.732809 | GAAGTTTCTTCACGCTAGGGC | 59.267 | 52.381 | 6.73 | 0.00 | 0.00 | 5.19 |
1839 | 2692 | 8.702819 | ACTCCCCATTTACTACTTGAACTATAC | 58.297 | 37.037 | 0.00 | 0.00 | 0.00 | 1.47 |
1922 | 2785 | 6.823497 | TGCCCCATTTACTACTTGATACTAC | 58.177 | 40.000 | 0.00 | 0.00 | 0.00 | 2.73 |
1924 | 2787 | 5.968676 | TGCCCCATTTACTACTTGATACT | 57.031 | 39.130 | 0.00 | 0.00 | 0.00 | 2.12 |
1925 | 2788 | 6.826741 | TCTTTGCCCCATTTACTACTTGATAC | 59.173 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
1926 | 2789 | 6.964464 | TCTTTGCCCCATTTACTACTTGATA | 58.036 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
1940 | 2858 | 0.392461 | GTGACGCTATCTTTGCCCCA | 60.392 | 55.000 | 0.00 | 0.00 | 0.00 | 4.96 |
2002 | 2939 | 4.583489 | TGGTCCATCCGAACTCTTCTATAC | 59.417 | 45.833 | 0.00 | 0.00 | 39.52 | 1.47 |
2098 | 3060 | 5.117897 | GCGAACAGTCAACAGTTTTTGAAAA | 59.882 | 36.000 | 0.00 | 0.00 | 37.24 | 2.29 |
2102 | 3064 | 2.851824 | GGCGAACAGTCAACAGTTTTTG | 59.148 | 45.455 | 0.00 | 0.00 | 0.00 | 2.44 |
2105 | 3067 | 1.021968 | GGGCGAACAGTCAACAGTTT | 58.978 | 50.000 | 0.00 | 0.00 | 0.00 | 2.66 |
2106 | 3068 | 0.107410 | TGGGCGAACAGTCAACAGTT | 60.107 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2217 | 3188 | 6.039941 | ACCATCTACGAGAACTCTATTTCTGG | 59.960 | 42.308 | 0.00 | 0.00 | 35.90 | 3.86 |
2484 | 4542 | 1.994916 | ATTATTGCACACCAAAGCGC | 58.005 | 45.000 | 0.00 | 0.00 | 36.92 | 5.92 |
2497 | 4555 | 7.434307 | GTGATGATTCTGCTTCCACAATTATTG | 59.566 | 37.037 | 3.07 | 3.07 | 0.00 | 1.90 |
2644 | 4702 | 5.306114 | TCTCTGACGGTAGATGATTAGGA | 57.694 | 43.478 | 0.00 | 0.00 | 0.00 | 2.94 |
2773 | 4835 | 2.549082 | TCATGCCCAAAACCCATTGAT | 58.451 | 42.857 | 0.00 | 0.00 | 31.84 | 2.57 |
3007 | 5070 | 3.068024 | TCATGCTTTTGTTCACCAACTCC | 59.932 | 43.478 | 0.00 | 0.00 | 33.17 | 3.85 |
3142 | 5229 | 5.348724 | AGTTGTACATTGCTTGTCACTATCG | 59.651 | 40.000 | 0.00 | 0.00 | 39.87 | 2.92 |
3159 | 5246 | 5.424121 | AGAGTTGCAATGTGAAGTTGTAC | 57.576 | 39.130 | 0.59 | 0.00 | 0.00 | 2.90 |
3256 | 5343 | 4.277672 | GGCAACATCTCATATCTGCACATT | 59.722 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
3412 | 5502 | 1.549203 | TTTCCTTTGGGAGCTCATGC | 58.451 | 50.000 | 17.19 | 0.00 | 43.29 | 4.06 |
3558 | 5648 | 5.351948 | TGTCAAATCTCCGATCCAATACA | 57.648 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
3559 | 5649 | 5.760253 | ACATGTCAAATCTCCGATCCAATAC | 59.240 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
3606 | 5696 | 8.783093 | TCATAAAGTTTGAGTGAATACCAACTG | 58.217 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
3629 | 5719 | 4.263462 | TGTCAGCTTACCCAATTCTGTCAT | 60.263 | 41.667 | 0.00 | 0.00 | 0.00 | 3.06 |
3741 | 5834 | 7.186570 | TCAATGTCTATGACTTGGATCTTGA | 57.813 | 36.000 | 0.00 | 0.00 | 33.15 | 3.02 |
3798 | 5892 | 2.874664 | CGTTCCCAGGGGTTGTCGA | 61.875 | 63.158 | 5.33 | 0.00 | 36.47 | 4.20 |
3817 | 5911 | 2.040412 | GAGTTGTGGAGGGAGGATGTTT | 59.960 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
4537 | 7071 | 4.274978 | AGGAGAGAACTAGGTAAGCTGAC | 58.725 | 47.826 | 0.00 | 0.00 | 0.00 | 3.51 |
4897 | 8272 | 8.453320 | AGAAAATGAAGAAAAACAAAAGGCAAG | 58.547 | 29.630 | 0.00 | 0.00 | 0.00 | 4.01 |
5121 | 8520 | 3.567478 | AATACACCTTCAGCTCCCATC | 57.433 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
5213 | 8612 | 2.680312 | TTCCAGAGATTCAAGGCTCG | 57.320 | 50.000 | 0.00 | 0.00 | 36.29 | 5.03 |
5236 | 8635 | 3.183172 | CCAGACGATGATACAAGCATTCG | 59.817 | 47.826 | 0.00 | 0.00 | 0.00 | 3.34 |
5241 | 8640 | 5.545658 | TTTTTCCAGACGATGATACAAGC | 57.454 | 39.130 | 0.00 | 0.00 | 0.00 | 4.01 |
5253 | 8652 | 7.807680 | AGATCGTGAAGTTAATTTTTCCAGAC | 58.192 | 34.615 | 0.00 | 0.00 | 0.00 | 3.51 |
5290 | 8689 | 5.230182 | CCTCATAAAAAGCCTTTTGTGGTC | 58.770 | 41.667 | 14.86 | 0.00 | 41.48 | 4.02 |
5295 | 8694 | 7.416817 | CAAAAACCCTCATAAAAAGCCTTTTG | 58.583 | 34.615 | 2.64 | 0.00 | 35.50 | 2.44 |
5298 | 8697 | 5.063204 | GCAAAAACCCTCATAAAAAGCCTT | 58.937 | 37.500 | 0.00 | 0.00 | 0.00 | 4.35 |
5302 | 8701 | 5.759763 | AGCTTGCAAAAACCCTCATAAAAAG | 59.240 | 36.000 | 0.00 | 0.00 | 0.00 | 2.27 |
5303 | 8702 | 5.679601 | AGCTTGCAAAAACCCTCATAAAAA | 58.320 | 33.333 | 0.00 | 0.00 | 0.00 | 1.94 |
5314 | 8713 | 6.587608 | AGAGCAAATATGTAGCTTGCAAAAAC | 59.412 | 34.615 | 10.77 | 0.00 | 46.26 | 2.43 |
5362 | 8761 | 0.108945 | GCTGCATGCTTTGGTCTTCC | 60.109 | 55.000 | 20.33 | 0.00 | 38.95 | 3.46 |
5407 | 8867 | 9.256228 | GTATATATAATCCACTCCACTTCCAGA | 57.744 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
5408 | 8868 | 9.035890 | TGTATATATAATCCACTCCACTTCCAG | 57.964 | 37.037 | 0.00 | 0.00 | 0.00 | 3.86 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.