Multiple sequence alignment - TraesCS1B01G230100
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 | TraesCS1B01G230100 | chr1B | 100.000 | 2349 | 0 | 0 | 962 | 3310 | 413205855 | 413203507 | 0.000000e+00 | 4338 |
1 | TraesCS1B01G230100 | chr1B | 100.000 | 623 | 0 | 0 | 1 | 623 | 413206816 | 413206194 | 0.000000e+00 | 1151 |
2 | TraesCS1B01G230100 | chr1B | 94.118 | 170 | 7 | 3 | 1 | 168 | 619696709 | 619696541 | 4.240000e-64 | 255 |
3 | TraesCS1B01G230100 | chr1A | 91.319 | 2304 | 104 | 39 | 962 | 3216 | 384776222 | 384773966 | 0.000000e+00 | 3059 |
4 | TraesCS1B01G230100 | chr1A | 90.092 | 434 | 18 | 9 | 164 | 576 | 384778338 | 384777909 | 1.040000e-149 | 540 |
5 | TraesCS1B01G230100 | chr1A | 95.050 | 101 | 5 | 0 | 3210 | 3310 | 384773926 | 384773826 | 3.420000e-35 | 159 |
6 | TraesCS1B01G230100 | chr1D | 93.204 | 1133 | 47 | 11 | 1453 | 2576 | 305769212 | 305768101 | 0.000000e+00 | 1639 |
7 | TraesCS1B01G230100 | chr1D | 96.950 | 459 | 11 | 2 | 984 | 1442 | 305769726 | 305769271 | 0.000000e+00 | 767 |
8 | TraesCS1B01G230100 | chr1D | 91.376 | 487 | 14 | 9 | 165 | 623 | 305770339 | 305769853 | 2.780000e-180 | 641 |
9 | TraesCS1B01G230100 | chr1D | 91.368 | 475 | 30 | 5 | 2648 | 3121 | 305768075 | 305767611 | 1.000000e-179 | 640 |
10 | TraesCS1B01G230100 | chr1D | 97.030 | 101 | 3 | 0 | 3210 | 3310 | 305767518 | 305767418 | 1.580000e-38 | 171 |
11 | TraesCS1B01G230100 | chr7B | 98.795 | 166 | 1 | 1 | 1 | 166 | 656511916 | 656511752 | 8.980000e-76 | 294 |
12 | TraesCS1B01G230100 | chr7B | 98.171 | 164 | 3 | 0 | 1 | 164 | 548479933 | 548480096 | 1.500000e-73 | 287 |
13 | TraesCS1B01G230100 | chr7B | 97.561 | 164 | 4 | 0 | 1 | 164 | 246380198 | 246380361 | 6.990000e-72 | 281 |
14 | TraesCS1B01G230100 | chr4A | 98.780 | 164 | 2 | 0 | 1 | 164 | 655164251 | 655164414 | 3.230000e-75 | 292 |
15 | TraesCS1B01G230100 | chr4A | 93.902 | 164 | 6 | 2 | 1 | 161 | 63013884 | 63014046 | 9.180000e-61 | 244 |
16 | TraesCS1B01G230100 | chr5A | 98.780 | 164 | 1 | 1 | 1 | 164 | 672756141 | 672756303 | 1.160000e-74 | 291 |
17 | TraesCS1B01G230100 | chr3A | 96.970 | 165 | 2 | 3 | 1 | 163 | 745271385 | 745271222 | 1.170000e-69 | 274 |
18 | TraesCS1B01G230100 | chr4B | 93.373 | 166 | 7 | 2 | 1 | 166 | 663880342 | 663880181 | 3.300000e-60 | 243 |
19 | TraesCS1B01G230100 | chr6B | 85.057 | 174 | 21 | 4 | 1983 | 2154 | 509259624 | 509259794 | 4.390000e-39 | 172 |
20 | TraesCS1B01G230100 | chr6D | 86.164 | 159 | 20 | 2 | 1997 | 2154 | 315817043 | 315816886 | 1.580000e-38 | 171 |
21 | TraesCS1B01G230100 | chr2D | 84.277 | 159 | 23 | 2 | 1997 | 2154 | 496637761 | 496637604 | 1.590000e-33 | 154 |
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 | TraesCS1B01G230100 | chr1B | 413203507 | 413206816 | 3309 | True | 2744.500000 | 4338 | 100.000000 | 1 | 3310 | 2 | chr1B.!!$R2 | 3309 |
1 | TraesCS1B01G230100 | chr1A | 384773826 | 384778338 | 4512 | True | 1252.666667 | 3059 | 92.153667 | 164 | 3310 | 3 | chr1A.!!$R1 | 3146 |
2 | TraesCS1B01G230100 | chr1D | 305767418 | 305770339 | 2921 | True | 771.600000 | 1639 | 93.985600 | 165 | 3310 | 5 | chr1D.!!$R1 | 3145 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
989 | 2560 | 0.250727 | CAAGAAACTGGGGGAGCGAA | 60.251 | 55.0 | 0.0 | 0.0 | 0.0 | 4.7 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2894 | 4551 | 0.108019 | GGAACGCCGAGGGGAATTAT | 59.892 | 55.0 | 13.32 | 0.0 | 34.06 | 1.28 | 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 | 5.913637 | CATTGTAGCAGAGAAGCGAATATG | 58.086 | 41.667 | 0.00 | 0.00 | 40.15 | 1.78 |
24 | 25 | 3.982475 | TGTAGCAGAGAAGCGAATATGG | 58.018 | 45.455 | 0.00 | 0.00 | 40.15 | 2.74 |
25 | 26 | 3.384789 | TGTAGCAGAGAAGCGAATATGGT | 59.615 | 43.478 | 0.00 | 0.00 | 40.15 | 3.55 |
26 | 27 | 4.583073 | TGTAGCAGAGAAGCGAATATGGTA | 59.417 | 41.667 | 0.00 | 0.00 | 40.15 | 3.25 |
27 | 28 | 4.250116 | AGCAGAGAAGCGAATATGGTAG | 57.750 | 45.455 | 0.00 | 0.00 | 40.15 | 3.18 |
28 | 29 | 2.734079 | GCAGAGAAGCGAATATGGTAGC | 59.266 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
29 | 30 | 2.983136 | CAGAGAAGCGAATATGGTAGCG | 59.017 | 50.000 | 0.00 | 0.00 | 34.34 | 4.26 |
30 | 31 | 2.029828 | AGAGAAGCGAATATGGTAGCGG | 60.030 | 50.000 | 0.00 | 0.00 | 34.34 | 5.52 |
31 | 32 | 1.961394 | AGAAGCGAATATGGTAGCGGA | 59.039 | 47.619 | 0.00 | 0.00 | 34.34 | 5.54 |
32 | 33 | 2.563179 | AGAAGCGAATATGGTAGCGGAT | 59.437 | 45.455 | 0.00 | 0.00 | 34.34 | 4.18 |
33 | 34 | 2.370281 | AGCGAATATGGTAGCGGATG | 57.630 | 50.000 | 0.00 | 0.00 | 34.34 | 3.51 |
34 | 35 | 1.066858 | AGCGAATATGGTAGCGGATGG | 60.067 | 52.381 | 0.00 | 0.00 | 34.34 | 3.51 |
35 | 36 | 1.359848 | CGAATATGGTAGCGGATGGC | 58.640 | 55.000 | 0.00 | 0.00 | 44.05 | 4.40 |
66 | 67 | 5.983540 | AGCATAGCTTTAGTCTTAGCAAGT | 58.016 | 37.500 | 0.00 | 0.00 | 39.85 | 3.16 |
67 | 68 | 6.045955 | AGCATAGCTTTAGTCTTAGCAAGTC | 58.954 | 40.000 | 0.00 | 0.00 | 39.85 | 3.01 |
68 | 69 | 6.045955 | GCATAGCTTTAGTCTTAGCAAGTCT | 58.954 | 40.000 | 0.00 | 0.00 | 39.85 | 3.24 |
69 | 70 | 6.019156 | GCATAGCTTTAGTCTTAGCAAGTCTG | 60.019 | 42.308 | 0.00 | 1.88 | 39.85 | 3.51 |
70 | 71 | 5.730296 | AGCTTTAGTCTTAGCAAGTCTGA | 57.270 | 39.130 | 8.76 | 0.00 | 39.85 | 3.27 |
71 | 72 | 6.102897 | AGCTTTAGTCTTAGCAAGTCTGAA | 57.897 | 37.500 | 8.76 | 0.00 | 39.85 | 3.02 |
72 | 73 | 6.525629 | AGCTTTAGTCTTAGCAAGTCTGAAA | 58.474 | 36.000 | 8.76 | 0.00 | 39.85 | 2.69 |
73 | 74 | 6.425417 | AGCTTTAGTCTTAGCAAGTCTGAAAC | 59.575 | 38.462 | 8.76 | 0.00 | 39.85 | 2.78 |
74 | 75 | 6.425417 | GCTTTAGTCTTAGCAAGTCTGAAACT | 59.575 | 38.462 | 0.00 | 0.00 | 41.10 | 2.66 |
76 | 77 | 7.948278 | TTAGTCTTAGCAAGTCTGAAACTTC | 57.052 | 36.000 | 0.00 | 0.00 | 45.28 | 3.01 |
77 | 78 | 4.985409 | AGTCTTAGCAAGTCTGAAACTTCG | 59.015 | 41.667 | 0.00 | 0.00 | 45.28 | 3.79 |
78 | 79 | 4.150804 | GTCTTAGCAAGTCTGAAACTTCGG | 59.849 | 45.833 | 0.00 | 0.00 | 45.28 | 4.30 |
79 | 80 | 2.910688 | AGCAAGTCTGAAACTTCGGA | 57.089 | 45.000 | 0.00 | 0.00 | 45.28 | 4.55 |
85 | 86 | 2.589798 | TCTGAAACTTCGGACGTTGT | 57.410 | 45.000 | 0.25 | 0.00 | 37.65 | 3.32 |
86 | 87 | 2.466846 | TCTGAAACTTCGGACGTTGTC | 58.533 | 47.619 | 0.25 | 2.62 | 37.65 | 3.18 |
94 | 95 | 2.739132 | GGACGTTGTCCCGGACTT | 59.261 | 61.111 | 18.54 | 0.51 | 46.19 | 3.01 |
95 | 96 | 1.070275 | GGACGTTGTCCCGGACTTT | 59.930 | 57.895 | 18.54 | 0.16 | 46.19 | 2.66 |
96 | 97 | 0.318120 | GGACGTTGTCCCGGACTTTA | 59.682 | 55.000 | 18.54 | 1.65 | 46.19 | 1.85 |
97 | 98 | 1.066645 | GGACGTTGTCCCGGACTTTAT | 60.067 | 52.381 | 18.54 | 2.17 | 46.19 | 1.40 |
98 | 99 | 2.613725 | GGACGTTGTCCCGGACTTTATT | 60.614 | 50.000 | 18.54 | 0.00 | 46.19 | 1.40 |
99 | 100 | 2.669924 | GACGTTGTCCCGGACTTTATTC | 59.330 | 50.000 | 18.54 | 5.30 | 33.15 | 1.75 |
100 | 101 | 2.301009 | ACGTTGTCCCGGACTTTATTCT | 59.699 | 45.455 | 18.54 | 0.00 | 33.15 | 2.40 |
101 | 102 | 2.671396 | CGTTGTCCCGGACTTTATTCTG | 59.329 | 50.000 | 18.54 | 0.00 | 33.15 | 3.02 |
102 | 103 | 2.396590 | TGTCCCGGACTTTATTCTGC | 57.603 | 50.000 | 18.54 | 0.00 | 33.15 | 4.26 |
103 | 104 | 1.626321 | TGTCCCGGACTTTATTCTGCA | 59.374 | 47.619 | 18.54 | 0.00 | 33.15 | 4.41 |
104 | 105 | 2.238646 | TGTCCCGGACTTTATTCTGCAT | 59.761 | 45.455 | 18.54 | 0.00 | 33.15 | 3.96 |
105 | 106 | 3.279434 | GTCCCGGACTTTATTCTGCATT | 58.721 | 45.455 | 10.59 | 0.00 | 0.00 | 3.56 |
106 | 107 | 3.312697 | GTCCCGGACTTTATTCTGCATTC | 59.687 | 47.826 | 10.59 | 0.00 | 0.00 | 2.67 |
107 | 108 | 3.199946 | TCCCGGACTTTATTCTGCATTCT | 59.800 | 43.478 | 0.73 | 0.00 | 0.00 | 2.40 |
108 | 109 | 3.947834 | CCCGGACTTTATTCTGCATTCTT | 59.052 | 43.478 | 0.73 | 0.00 | 0.00 | 2.52 |
109 | 110 | 5.104693 | TCCCGGACTTTATTCTGCATTCTTA | 60.105 | 40.000 | 0.73 | 0.00 | 0.00 | 2.10 |
110 | 111 | 5.765182 | CCCGGACTTTATTCTGCATTCTTAT | 59.235 | 40.000 | 0.73 | 0.00 | 0.00 | 1.73 |
111 | 112 | 6.293626 | CCCGGACTTTATTCTGCATTCTTATG | 60.294 | 42.308 | 0.73 | 0.00 | 34.76 | 1.90 |
112 | 113 | 6.260936 | CCGGACTTTATTCTGCATTCTTATGT | 59.739 | 38.462 | 0.00 | 0.00 | 34.12 | 2.29 |
113 | 114 | 7.441157 | CCGGACTTTATTCTGCATTCTTATGTA | 59.559 | 37.037 | 0.00 | 0.00 | 34.12 | 2.29 |
114 | 115 | 8.826710 | CGGACTTTATTCTGCATTCTTATGTAA | 58.173 | 33.333 | 0.00 | 0.00 | 34.12 | 2.41 |
124 | 125 | 8.347771 | TCTGCATTCTTATGTAAATGATCTTGC | 58.652 | 33.333 | 0.00 | 0.00 | 35.35 | 4.01 |
125 | 126 | 8.229253 | TGCATTCTTATGTAAATGATCTTGCT | 57.771 | 30.769 | 0.00 | 0.00 | 35.35 | 3.91 |
126 | 127 | 8.347771 | TGCATTCTTATGTAAATGATCTTGCTC | 58.652 | 33.333 | 0.00 | 0.00 | 35.35 | 4.26 |
127 | 128 | 8.566260 | GCATTCTTATGTAAATGATCTTGCTCT | 58.434 | 33.333 | 0.00 | 0.00 | 35.35 | 4.09 |
305 | 316 | 2.101185 | CGACACTCGCGATCTGCT | 59.899 | 61.111 | 10.36 | 0.00 | 43.27 | 4.24 |
461 | 487 | 0.910088 | GACCCCCAGAGTTACCAGCT | 60.910 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
465 | 491 | 1.078143 | CCAGAGTTACCAGCTGCCC | 60.078 | 63.158 | 8.66 | 0.00 | 0.00 | 5.36 |
466 | 492 | 1.679311 | CAGAGTTACCAGCTGCCCA | 59.321 | 57.895 | 8.66 | 0.00 | 0.00 | 5.36 |
468 | 494 | 0.545309 | AGAGTTACCAGCTGCCCAGA | 60.545 | 55.000 | 8.66 | 0.00 | 0.00 | 3.86 |
469 | 495 | 0.543749 | GAGTTACCAGCTGCCCAGAT | 59.456 | 55.000 | 8.66 | 0.00 | 0.00 | 2.90 |
470 | 496 | 0.995024 | AGTTACCAGCTGCCCAGATT | 59.005 | 50.000 | 8.66 | 0.00 | 0.00 | 2.40 |
587 | 2155 | 1.449601 | CTCCCACCCACGAATTCCG | 60.450 | 63.158 | 0.00 | 0.00 | 45.44 | 4.30 |
602 | 2173 | 0.541863 | TTCCGCCATCCTCTCCTTTC | 59.458 | 55.000 | 0.00 | 0.00 | 0.00 | 2.62 |
989 | 2560 | 0.250727 | CAAGAAACTGGGGGAGCGAA | 60.251 | 55.000 | 0.00 | 0.00 | 0.00 | 4.70 |
1138 | 2709 | 3.775654 | GGGACGTGGAGGAGCAGG | 61.776 | 72.222 | 0.00 | 0.00 | 0.00 | 4.85 |
1146 | 2720 | 1.002274 | GGAGGAGCAGGAGGAGGAA | 59.998 | 63.158 | 0.00 | 0.00 | 0.00 | 3.36 |
1148 | 2722 | 0.032615 | GAGGAGCAGGAGGAGGAAGA | 60.033 | 60.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1149 | 2723 | 0.032217 | AGGAGCAGGAGGAGGAAGAG | 60.032 | 60.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1150 | 2724 | 1.685355 | GGAGCAGGAGGAGGAAGAGC | 61.685 | 65.000 | 0.00 | 0.00 | 0.00 | 4.09 |
1159 | 2733 | 3.465871 | GAGGAGGAAGAGCATGATCAAC | 58.534 | 50.000 | 14.38 | 6.31 | 0.00 | 3.18 |
1160 | 2734 | 2.842496 | AGGAGGAAGAGCATGATCAACA | 59.158 | 45.455 | 14.38 | 0.00 | 0.00 | 3.33 |
1177 | 2751 | 0.759346 | ACAAGAAGACGGCAAGGAGT | 59.241 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1442 | 3016 | 2.677337 | TCGACGACATGTACGTATCCAA | 59.323 | 45.455 | 18.75 | 5.29 | 43.97 | 3.53 |
1443 | 3017 | 3.313249 | TCGACGACATGTACGTATCCAAT | 59.687 | 43.478 | 18.75 | 0.61 | 43.97 | 3.16 |
1447 | 3021 | 3.734231 | CGACATGTACGTATCCAATCCAC | 59.266 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
1448 | 3022 | 4.689071 | GACATGTACGTATCCAATCCACA | 58.311 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
1450 | 3024 | 3.530265 | TGTACGTATCCAATCCACACC | 57.470 | 47.619 | 0.00 | 0.00 | 0.00 | 4.16 |
1451 | 3025 | 2.832733 | TGTACGTATCCAATCCACACCA | 59.167 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
1473 | 3095 | 5.704978 | CCATCAAAATTTCGGTCCCAAATTT | 59.295 | 36.000 | 12.62 | 12.62 | 42.59 | 1.82 |
1475 | 3097 | 7.389053 | CCATCAAAATTTCGGTCCCAAATTTAA | 59.611 | 33.333 | 17.17 | 10.86 | 40.81 | 1.52 |
1476 | 3098 | 7.716768 | TCAAAATTTCGGTCCCAAATTTAAC | 57.283 | 32.000 | 17.17 | 0.00 | 40.81 | 2.01 |
1478 | 3100 | 7.769044 | TCAAAATTTCGGTCCCAAATTTAACAA | 59.231 | 29.630 | 17.17 | 4.47 | 40.81 | 2.83 |
1479 | 3101 | 7.485418 | AAATTTCGGTCCCAAATTTAACAAC | 57.515 | 32.000 | 15.80 | 0.00 | 40.20 | 3.32 |
1545 | 3167 | 7.306953 | CAGTAGGATTAAAGCGATCTACTACC | 58.693 | 42.308 | 0.00 | 0.00 | 31.21 | 3.18 |
1548 | 3170 | 5.834204 | AGGATTAAAGCGATCTACTACCACT | 59.166 | 40.000 | 0.00 | 0.00 | 0.00 | 4.00 |
1549 | 3171 | 7.002879 | AGGATTAAAGCGATCTACTACCACTA | 58.997 | 38.462 | 0.00 | 0.00 | 0.00 | 2.74 |
1557 | 3179 | 6.430616 | AGCGATCTACTACCACTAGATAAACC | 59.569 | 42.308 | 0.00 | 0.00 | 32.14 | 3.27 |
1574 | 3196 | 6.542370 | AGATAAACCGAACCATAATTGAGGTG | 59.458 | 38.462 | 4.61 | 0.00 | 38.37 | 4.00 |
1584 | 3206 | 4.201910 | CCATAATTGAGGTGGTTTAGTGCG | 60.202 | 45.833 | 0.00 | 0.00 | 0.00 | 5.34 |
1589 | 3211 | 0.676782 | AGGTGGTTTAGTGCGGCATC | 60.677 | 55.000 | 5.72 | 0.00 | 0.00 | 3.91 |
1594 | 3216 | 1.064060 | GGTTTAGTGCGGCATCATCAC | 59.936 | 52.381 | 5.72 | 0.00 | 0.00 | 3.06 |
1599 | 3221 | 2.923121 | AGTGCGGCATCATCACTTAAT | 58.077 | 42.857 | 5.72 | 0.00 | 37.78 | 1.40 |
1605 | 3227 | 3.879295 | CGGCATCATCACTTAATTGAGGT | 59.121 | 43.478 | 7.26 | 0.00 | 0.00 | 3.85 |
1606 | 3228 | 4.260907 | CGGCATCATCACTTAATTGAGGTG | 60.261 | 45.833 | 7.26 | 6.55 | 0.00 | 4.00 |
1608 | 3230 | 4.641989 | GCATCATCACTTAATTGAGGTGGT | 59.358 | 41.667 | 7.26 | 0.00 | 0.00 | 4.16 |
1609 | 3231 | 5.822519 | GCATCATCACTTAATTGAGGTGGTA | 59.177 | 40.000 | 7.26 | 0.00 | 0.00 | 3.25 |
1610 | 3232 | 6.017605 | GCATCATCACTTAATTGAGGTGGTAG | 60.018 | 42.308 | 7.26 | 0.00 | 0.00 | 3.18 |
1811 | 3437 | 1.224592 | CCAACCGGAGCCAAGCTAT | 59.775 | 57.895 | 9.46 | 0.00 | 39.88 | 2.97 |
1849 | 3475 | 1.442857 | GTCACGAGGACAGCTCACG | 60.443 | 63.158 | 7.03 | 0.00 | 46.19 | 4.35 |
1870 | 3496 | 3.623060 | CGGATGTCCAATTCGATGTCTTT | 59.377 | 43.478 | 0.00 | 0.00 | 35.14 | 2.52 |
1917 | 3546 | 3.253230 | GTCAAAACAAGCTTGCTGTTGT | 58.747 | 40.909 | 26.27 | 6.49 | 37.10 | 3.32 |
1935 | 3564 | 0.713883 | GTTGTTGATGCGTCGATCGT | 59.286 | 50.000 | 15.94 | 0.00 | 42.13 | 3.73 |
2342 | 3979 | 4.624913 | TCTTCCTCTCTCTCTCTCTCTCT | 58.375 | 47.826 | 0.00 | 0.00 | 0.00 | 3.10 |
2505 | 4146 | 0.374758 | CGGATTGAGATTGTGCGTGG | 59.625 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
2546 | 4187 | 4.633175 | AGATGCTGCTGATCTAATCTGTG | 58.367 | 43.478 | 0.00 | 0.00 | 0.00 | 3.66 |
2547 | 4188 | 3.900966 | TGCTGCTGATCTAATCTGTGT | 57.099 | 42.857 | 0.00 | 0.00 | 0.00 | 3.72 |
2548 | 4189 | 3.790091 | TGCTGCTGATCTAATCTGTGTC | 58.210 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
2549 | 4190 | 3.196254 | TGCTGCTGATCTAATCTGTGTCA | 59.804 | 43.478 | 0.00 | 0.00 | 0.00 | 3.58 |
2550 | 4191 | 3.555139 | GCTGCTGATCTAATCTGTGTCAC | 59.445 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
2551 | 4192 | 4.680172 | GCTGCTGATCTAATCTGTGTCACT | 60.680 | 45.833 | 4.27 | 0.00 | 0.00 | 3.41 |
2565 | 4206 | 0.786581 | GTCACTGTGCATGTGAGTCG | 59.213 | 55.000 | 20.77 | 4.43 | 43.90 | 4.18 |
2603 | 4244 | 0.756442 | TGCTTTGCTTGCCTCCTGTT | 60.756 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2633 | 4274 | 7.509546 | TCTTTTCCTCTGCTCTTCTTTTTCTA | 58.490 | 34.615 | 0.00 | 0.00 | 0.00 | 2.10 |
2637 | 4278 | 7.913674 | TCCTCTGCTCTTCTTTTTCTATTTC | 57.086 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
2678 | 4319 | 1.139455 | CTATTCGCCGGGGAAAAGGTA | 59.861 | 52.381 | 34.14 | 21.50 | 0.00 | 3.08 |
2879 | 4536 | 2.419990 | GGCCATGGGTTTATTTGCTTCC | 60.420 | 50.000 | 15.13 | 0.00 | 0.00 | 3.46 |
2885 | 4542 | 2.496070 | GGGTTTATTTGCTTCCCAGGAC | 59.504 | 50.000 | 0.00 | 0.00 | 38.15 | 3.85 |
2887 | 4544 | 3.193479 | GGTTTATTTGCTTCCCAGGACAG | 59.807 | 47.826 | 0.00 | 0.00 | 0.00 | 3.51 |
2894 | 4551 | 1.623811 | GCTTCCCAGGACAGTGAGTAA | 59.376 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
2926 | 4583 | 4.036977 | GTTCCGAACGTGCAGGAA | 57.963 | 55.556 | 14.38 | 13.69 | 41.28 | 3.36 |
2927 | 4584 | 2.313267 | GTTCCGAACGTGCAGGAAA | 58.687 | 52.632 | 17.76 | 4.19 | 44.56 | 3.13 |
2928 | 4585 | 0.872388 | GTTCCGAACGTGCAGGAAAT | 59.128 | 50.000 | 17.76 | 0.00 | 44.56 | 2.17 |
2929 | 4586 | 2.070783 | GTTCCGAACGTGCAGGAAATA | 58.929 | 47.619 | 17.76 | 0.00 | 44.56 | 1.40 |
2930 | 4587 | 2.004583 | TCCGAACGTGCAGGAAATAG | 57.995 | 50.000 | 14.38 | 0.00 | 0.00 | 1.73 |
2931 | 4588 | 1.006832 | CCGAACGTGCAGGAAATAGG | 58.993 | 55.000 | 14.38 | 5.07 | 0.00 | 2.57 |
2932 | 4589 | 1.404986 | CCGAACGTGCAGGAAATAGGA | 60.405 | 52.381 | 14.38 | 0.00 | 0.00 | 2.94 |
2933 | 4590 | 2.343101 | CGAACGTGCAGGAAATAGGAA | 58.657 | 47.619 | 14.38 | 0.00 | 0.00 | 3.36 |
3000 | 4659 | 2.037121 | TGAATTGTCTCTGAGGCAACGA | 59.963 | 45.455 | 25.38 | 10.51 | 43.26 | 3.85 |
3002 | 4661 | 1.040646 | TTGTCTCTGAGGCAACGAGT | 58.959 | 50.000 | 19.99 | 0.00 | 34.46 | 4.18 |
3063 | 4738 | 8.103305 | TGACCAGAAATAGCTTAGTCAGAAATT | 58.897 | 33.333 | 0.00 | 0.00 | 29.78 | 1.82 |
3064 | 4739 | 8.870075 | ACCAGAAATAGCTTAGTCAGAAATTT | 57.130 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
3065 | 4740 | 8.951243 | ACCAGAAATAGCTTAGTCAGAAATTTC | 58.049 | 33.333 | 10.33 | 10.33 | 36.40 | 2.17 |
3066 | 4741 | 8.950210 | CCAGAAATAGCTTAGTCAGAAATTTCA | 58.050 | 33.333 | 19.99 | 0.00 | 37.49 | 2.69 |
3067 | 4742 | 9.766277 | CAGAAATAGCTTAGTCAGAAATTTCAC | 57.234 | 33.333 | 19.99 | 10.33 | 37.49 | 3.18 |
3068 | 4743 | 9.732130 | AGAAATAGCTTAGTCAGAAATTTCACT | 57.268 | 29.630 | 19.99 | 16.52 | 37.49 | 3.41 |
3069 | 4744 | 9.766277 | GAAATAGCTTAGTCAGAAATTTCACTG | 57.234 | 33.333 | 19.99 | 10.56 | 36.30 | 3.66 |
3070 | 4745 | 7.856145 | ATAGCTTAGTCAGAAATTTCACTGG | 57.144 | 36.000 | 19.99 | 12.64 | 35.20 | 4.00 |
3071 | 4746 | 5.625150 | AGCTTAGTCAGAAATTTCACTGGT | 58.375 | 37.500 | 19.99 | 7.65 | 35.20 | 4.00 |
3072 | 4747 | 6.769512 | AGCTTAGTCAGAAATTTCACTGGTA | 58.230 | 36.000 | 19.99 | 2.68 | 35.20 | 3.25 |
3073 | 4748 | 6.651225 | AGCTTAGTCAGAAATTTCACTGGTAC | 59.349 | 38.462 | 19.99 | 6.16 | 35.20 | 3.34 |
3074 | 4749 | 6.426937 | GCTTAGTCAGAAATTTCACTGGTACA | 59.573 | 38.462 | 19.99 | 0.00 | 35.20 | 2.90 |
3075 | 4750 | 7.119846 | GCTTAGTCAGAAATTTCACTGGTACAT | 59.880 | 37.037 | 19.99 | 0.00 | 38.20 | 2.29 |
3076 | 4751 | 6.808008 | AGTCAGAAATTTCACTGGTACATG | 57.192 | 37.500 | 19.99 | 6.47 | 38.20 | 3.21 |
3077 | 4752 | 6.533730 | AGTCAGAAATTTCACTGGTACATGA | 58.466 | 36.000 | 19.99 | 8.61 | 38.20 | 3.07 |
3078 | 4753 | 7.170965 | AGTCAGAAATTTCACTGGTACATGAT | 58.829 | 34.615 | 19.99 | 0.89 | 38.20 | 2.45 |
3126 | 4801 | 4.630069 | GCTTCTTCAGACGCCTTTTATACA | 59.370 | 41.667 | 0.00 | 0.00 | 33.76 | 2.29 |
3132 | 4808 | 8.255206 | TCTTCAGACGCCTTTTATACAGAATTA | 58.745 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
3168 | 4844 | 5.474876 | CAGAGTTTAGTTCCCTCTTTGCAAT | 59.525 | 40.000 | 0.00 | 0.00 | 33.38 | 3.56 |
3225 | 4948 | 4.950050 | AGAACACCACAAGAGACAAGTAG | 58.050 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
3242 | 4965 | 5.009010 | ACAAGTAGAAGTCCAATGCACAAAG | 59.991 | 40.000 | 0.00 | 0.00 | 0.00 | 2.77 |
3263 | 4986 | 4.175962 | AGGATGAGACCCTACAAGGAAAA | 58.824 | 43.478 | 0.00 | 0.00 | 37.67 | 2.29 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 5.107182 | CCATATTCGCTTCTCTGCTACAATG | 60.107 | 44.000 | 0.00 | 0.00 | 0.00 | 2.82 |
1 | 2 | 4.993584 | CCATATTCGCTTCTCTGCTACAAT | 59.006 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
2 | 3 | 4.141937 | ACCATATTCGCTTCTCTGCTACAA | 60.142 | 41.667 | 0.00 | 0.00 | 0.00 | 2.41 |
3 | 4 | 3.384789 | ACCATATTCGCTTCTCTGCTACA | 59.615 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
4 | 5 | 3.983741 | ACCATATTCGCTTCTCTGCTAC | 58.016 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
5 | 6 | 4.321304 | GCTACCATATTCGCTTCTCTGCTA | 60.321 | 45.833 | 0.00 | 0.00 | 0.00 | 3.49 |
6 | 7 | 3.553922 | GCTACCATATTCGCTTCTCTGCT | 60.554 | 47.826 | 0.00 | 0.00 | 0.00 | 4.24 |
7 | 8 | 2.734079 | GCTACCATATTCGCTTCTCTGC | 59.266 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
8 | 9 | 2.983136 | CGCTACCATATTCGCTTCTCTG | 59.017 | 50.000 | 0.00 | 0.00 | 0.00 | 3.35 |
9 | 10 | 2.029828 | CCGCTACCATATTCGCTTCTCT | 60.030 | 50.000 | 0.00 | 0.00 | 0.00 | 3.10 |
10 | 11 | 2.030185 | TCCGCTACCATATTCGCTTCTC | 60.030 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
11 | 12 | 1.961394 | TCCGCTACCATATTCGCTTCT | 59.039 | 47.619 | 0.00 | 0.00 | 0.00 | 2.85 |
12 | 13 | 2.433868 | TCCGCTACCATATTCGCTTC | 57.566 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
13 | 14 | 2.612972 | CCATCCGCTACCATATTCGCTT | 60.613 | 50.000 | 0.00 | 0.00 | 0.00 | 4.68 |
14 | 15 | 1.066858 | CCATCCGCTACCATATTCGCT | 60.067 | 52.381 | 0.00 | 0.00 | 0.00 | 4.93 |
15 | 16 | 1.359848 | CCATCCGCTACCATATTCGC | 58.640 | 55.000 | 0.00 | 0.00 | 0.00 | 4.70 |
16 | 17 | 1.359848 | GCCATCCGCTACCATATTCG | 58.640 | 55.000 | 0.00 | 0.00 | 0.00 | 3.34 |
43 | 44 | 5.983540 | ACTTGCTAAGACTAAAGCTATGCT | 58.016 | 37.500 | 10.22 | 0.00 | 42.56 | 3.79 |
44 | 45 | 6.019156 | CAGACTTGCTAAGACTAAAGCTATGC | 60.019 | 42.308 | 10.22 | 0.00 | 39.53 | 3.14 |
45 | 46 | 7.261325 | TCAGACTTGCTAAGACTAAAGCTATG | 58.739 | 38.462 | 10.22 | 0.59 | 39.53 | 2.23 |
46 | 47 | 7.411486 | TCAGACTTGCTAAGACTAAAGCTAT | 57.589 | 36.000 | 10.22 | 0.00 | 39.53 | 2.97 |
47 | 48 | 6.835819 | TCAGACTTGCTAAGACTAAAGCTA | 57.164 | 37.500 | 10.22 | 3.38 | 39.53 | 3.32 |
48 | 49 | 5.730296 | TCAGACTTGCTAAGACTAAAGCT | 57.270 | 39.130 | 10.22 | 0.00 | 39.53 | 3.74 |
49 | 50 | 6.425417 | AGTTTCAGACTTGCTAAGACTAAAGC | 59.575 | 38.462 | 3.33 | 3.33 | 33.92 | 3.51 |
50 | 51 | 7.954788 | AGTTTCAGACTTGCTAAGACTAAAG | 57.045 | 36.000 | 3.37 | 0.00 | 33.92 | 1.85 |
64 | 65 | 2.159142 | ACAACGTCCGAAGTTTCAGACT | 60.159 | 45.455 | 6.65 | 0.00 | 41.47 | 3.24 |
65 | 66 | 2.199236 | ACAACGTCCGAAGTTTCAGAC | 58.801 | 47.619 | 0.00 | 0.00 | 32.58 | 3.51 |
66 | 67 | 2.466846 | GACAACGTCCGAAGTTTCAGA | 58.533 | 47.619 | 0.00 | 0.00 | 0.00 | 3.27 |
67 | 68 | 1.525619 | GGACAACGTCCGAAGTTTCAG | 59.474 | 52.381 | 0.00 | 0.00 | 43.14 | 3.02 |
68 | 69 | 1.574134 | GGACAACGTCCGAAGTTTCA | 58.426 | 50.000 | 0.00 | 0.00 | 43.14 | 2.69 |
78 | 79 | 2.375173 | ATAAAGTCCGGGACAACGTC | 57.625 | 50.000 | 27.87 | 0.67 | 34.60 | 4.34 |
79 | 80 | 2.301009 | AGAATAAAGTCCGGGACAACGT | 59.699 | 45.455 | 27.87 | 12.51 | 34.60 | 3.99 |
80 | 81 | 2.671396 | CAGAATAAAGTCCGGGACAACG | 59.329 | 50.000 | 27.87 | 4.73 | 34.60 | 4.10 |
81 | 82 | 2.418976 | GCAGAATAAAGTCCGGGACAAC | 59.581 | 50.000 | 27.87 | 12.15 | 34.60 | 3.32 |
82 | 83 | 2.039216 | TGCAGAATAAAGTCCGGGACAA | 59.961 | 45.455 | 27.87 | 13.78 | 34.60 | 3.18 |
83 | 84 | 1.626321 | TGCAGAATAAAGTCCGGGACA | 59.374 | 47.619 | 27.87 | 9.04 | 34.60 | 4.02 |
84 | 85 | 2.396590 | TGCAGAATAAAGTCCGGGAC | 57.603 | 50.000 | 19.61 | 19.61 | 0.00 | 4.46 |
85 | 86 | 3.199946 | AGAATGCAGAATAAAGTCCGGGA | 59.800 | 43.478 | 0.00 | 0.00 | 0.00 | 5.14 |
86 | 87 | 3.545703 | AGAATGCAGAATAAAGTCCGGG | 58.454 | 45.455 | 0.00 | 0.00 | 0.00 | 5.73 |
87 | 88 | 6.260936 | ACATAAGAATGCAGAATAAAGTCCGG | 59.739 | 38.462 | 0.00 | 0.00 | 36.50 | 5.14 |
88 | 89 | 7.251704 | ACATAAGAATGCAGAATAAAGTCCG | 57.748 | 36.000 | 0.00 | 0.00 | 36.50 | 4.79 |
98 | 99 | 8.347771 | GCAAGATCATTTACATAAGAATGCAGA | 58.652 | 33.333 | 0.00 | 0.00 | 36.50 | 4.26 |
99 | 100 | 8.350722 | AGCAAGATCATTTACATAAGAATGCAG | 58.649 | 33.333 | 0.00 | 0.00 | 36.50 | 4.41 |
100 | 101 | 8.229253 | AGCAAGATCATTTACATAAGAATGCA | 57.771 | 30.769 | 0.00 | 0.00 | 36.50 | 3.96 |
101 | 102 | 8.566260 | AGAGCAAGATCATTTACATAAGAATGC | 58.434 | 33.333 | 0.00 | 0.00 | 36.50 | 3.56 |
160 | 161 | 3.677976 | CGGGCGTAGTATCTCCAGTTTTT | 60.678 | 47.826 | 0.00 | 0.00 | 0.00 | 1.94 |
161 | 162 | 2.159142 | CGGGCGTAGTATCTCCAGTTTT | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
162 | 163 | 1.407979 | CGGGCGTAGTATCTCCAGTTT | 59.592 | 52.381 | 0.00 | 0.00 | 0.00 | 2.66 |
305 | 316 | 0.244450 | CGGTGACCACGCCTTAACTA | 59.756 | 55.000 | 1.11 | 0.00 | 43.77 | 2.24 |
384 | 399 | 2.937689 | ATGACAGCAGGCCCCAGT | 60.938 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
461 | 487 | 0.825425 | TGCGGTGAAAAATCTGGGCA | 60.825 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
587 | 2155 | 1.884926 | CGCGAAAGGAGAGGATGGC | 60.885 | 63.158 | 0.00 | 0.00 | 0.00 | 4.40 |
602 | 2173 | 1.203313 | GGAAAGTGAAACGGACGCG | 59.797 | 57.895 | 3.53 | 3.53 | 45.86 | 6.01 |
967 | 2538 | 1.770324 | CTCCCCCAGTTTCTTGGCT | 59.230 | 57.895 | 0.00 | 0.00 | 36.88 | 4.75 |
1138 | 2709 | 3.118482 | TGTTGATCATGCTCTTCCTCCTC | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 3.71 |
1146 | 2720 | 3.931468 | CGTCTTCTTGTTGATCATGCTCT | 59.069 | 43.478 | 0.00 | 0.00 | 0.00 | 4.09 |
1148 | 2722 | 3.005554 | CCGTCTTCTTGTTGATCATGCT | 58.994 | 45.455 | 0.00 | 0.00 | 0.00 | 3.79 |
1149 | 2723 | 2.476854 | GCCGTCTTCTTGTTGATCATGC | 60.477 | 50.000 | 0.00 | 0.00 | 0.00 | 4.06 |
1150 | 2724 | 2.743664 | TGCCGTCTTCTTGTTGATCATG | 59.256 | 45.455 | 0.00 | 0.00 | 0.00 | 3.07 |
1159 | 2733 | 1.433534 | GACTCCTTGCCGTCTTCTTG | 58.566 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1160 | 2734 | 0.038159 | CGACTCCTTGCCGTCTTCTT | 60.038 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
1177 | 2751 | 1.616872 | TTCGTCATCGTCGTCGTCGA | 61.617 | 55.000 | 16.35 | 16.35 | 41.45 | 4.20 |
1189 | 2763 | 2.611518 | CGCCTTCTTCTTCTTCGTCAT | 58.388 | 47.619 | 0.00 | 0.00 | 0.00 | 3.06 |
1190 | 2764 | 1.336887 | CCGCCTTCTTCTTCTTCGTCA | 60.337 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
1191 | 2765 | 1.336980 | ACCGCCTTCTTCTTCTTCGTC | 60.337 | 52.381 | 0.00 | 0.00 | 0.00 | 4.20 |
1192 | 2766 | 0.680061 | ACCGCCTTCTTCTTCTTCGT | 59.320 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1299 | 2873 | 1.261938 | TGTAGGCCACCACGTAGCAT | 61.262 | 55.000 | 5.01 | 0.00 | 0.00 | 3.79 |
1442 | 3016 | 3.831911 | ACCGAAATTTTGATGGTGTGGAT | 59.168 | 39.130 | 7.02 | 0.00 | 0.00 | 3.41 |
1443 | 3017 | 3.226777 | ACCGAAATTTTGATGGTGTGGA | 58.773 | 40.909 | 7.02 | 0.00 | 0.00 | 4.02 |
1447 | 3021 | 2.560542 | TGGGACCGAAATTTTGATGGTG | 59.439 | 45.455 | 7.02 | 0.00 | 31.86 | 4.17 |
1448 | 3022 | 2.883026 | TGGGACCGAAATTTTGATGGT | 58.117 | 42.857 | 7.02 | 6.08 | 35.14 | 3.55 |
1450 | 3024 | 6.799926 | AAATTTGGGACCGAAATTTTGATG | 57.200 | 33.333 | 25.75 | 0.00 | 39.05 | 3.07 |
1451 | 3025 | 7.934120 | TGTTAAATTTGGGACCGAAATTTTGAT | 59.066 | 29.630 | 32.06 | 18.26 | 41.23 | 2.57 |
1473 | 3095 | 5.816258 | TGTAATTCGGTGTCTGTTGTTGTTA | 59.184 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
1475 | 3097 | 4.034742 | GTGTAATTCGGTGTCTGTTGTTGT | 59.965 | 41.667 | 0.00 | 0.00 | 0.00 | 3.32 |
1476 | 3098 | 4.523813 | GTGTAATTCGGTGTCTGTTGTTG | 58.476 | 43.478 | 0.00 | 0.00 | 0.00 | 3.33 |
1478 | 3100 | 3.135994 | GGTGTAATTCGGTGTCTGTTGT | 58.864 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
1479 | 3101 | 3.135225 | TGGTGTAATTCGGTGTCTGTTG | 58.865 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
1545 | 3167 | 8.657074 | TCAATTATGGTTCGGTTTATCTAGTG | 57.343 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
1548 | 3170 | 7.713507 | CACCTCAATTATGGTTCGGTTTATCTA | 59.286 | 37.037 | 0.00 | 0.00 | 33.75 | 1.98 |
1549 | 3171 | 6.542370 | CACCTCAATTATGGTTCGGTTTATCT | 59.458 | 38.462 | 0.00 | 0.00 | 33.75 | 1.98 |
1574 | 3196 | 1.064060 | GTGATGATGCCGCACTAAACC | 59.936 | 52.381 | 0.00 | 0.00 | 0.00 | 3.27 |
1584 | 3206 | 4.037208 | CCACCTCAATTAAGTGATGATGCC | 59.963 | 45.833 | 13.92 | 0.00 | 33.21 | 4.40 |
1589 | 3211 | 9.613428 | TTAATCTACCACCTCAATTAAGTGATG | 57.387 | 33.333 | 6.00 | 6.36 | 33.21 | 3.07 |
1599 | 3221 | 6.061022 | TGCAGATTTAATCTACCACCTCAA | 57.939 | 37.500 | 7.18 | 0.00 | 37.58 | 3.02 |
1605 | 3227 | 5.692115 | TGGACTGCAGATTTAATCTACCA | 57.308 | 39.130 | 23.35 | 9.25 | 37.58 | 3.25 |
1606 | 3228 | 7.420800 | CAATTGGACTGCAGATTTAATCTACC | 58.579 | 38.462 | 23.35 | 7.11 | 37.58 | 3.18 |
1608 | 3230 | 6.547141 | CCCAATTGGACTGCAGATTTAATCTA | 59.453 | 38.462 | 26.60 | 0.53 | 35.92 | 1.98 |
1609 | 3231 | 5.361857 | CCCAATTGGACTGCAGATTTAATCT | 59.638 | 40.000 | 26.60 | 0.99 | 37.49 | 2.40 |
1610 | 3232 | 5.594926 | CCCAATTGGACTGCAGATTTAATC | 58.405 | 41.667 | 26.60 | 5.91 | 37.39 | 1.75 |
1811 | 3437 | 1.678728 | CCAGCTAGAAACGGCAATGGA | 60.679 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
1849 | 3475 | 4.731773 | GCAAAGACATCGAATTGGACATCC | 60.732 | 45.833 | 0.00 | 0.00 | 0.00 | 3.51 |
1870 | 3496 | 2.203408 | TGAATTGCGGTGGTGGCA | 60.203 | 55.556 | 0.00 | 0.00 | 38.93 | 4.92 |
1917 | 3546 | 0.713329 | CACGATCGACGCATCAACAA | 59.287 | 50.000 | 24.34 | 0.00 | 46.94 | 2.83 |
1969 | 3598 | 5.920840 | TCACAACAAACAAACATTCGTCAAA | 59.079 | 32.000 | 0.00 | 0.00 | 0.00 | 2.69 |
2264 | 3901 | 4.641645 | TGGCAGCCGGACTTGGTG | 62.642 | 66.667 | 5.05 | 0.00 | 0.00 | 4.17 |
2302 | 3939 | 1.507974 | GAGCCCGATCGATCAGACGA | 61.508 | 60.000 | 24.40 | 0.00 | 46.04 | 4.20 |
2505 | 4146 | 2.742053 | TCTCAGCTCGTTAAACAATGGC | 59.258 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
2534 | 4175 | 4.498241 | TGCACAGTGACACAGATTAGATC | 58.502 | 43.478 | 4.15 | 0.00 | 0.00 | 2.75 |
2546 | 4187 | 0.786581 | CGACTCACATGCACAGTGAC | 59.213 | 55.000 | 17.23 | 9.69 | 40.80 | 3.67 |
2547 | 4188 | 0.945743 | GCGACTCACATGCACAGTGA | 60.946 | 55.000 | 19.28 | 19.28 | 43.23 | 3.41 |
2548 | 4189 | 1.223417 | TGCGACTCACATGCACAGTG | 61.223 | 55.000 | 13.47 | 13.47 | 38.32 | 3.66 |
2549 | 4190 | 0.947660 | CTGCGACTCACATGCACAGT | 60.948 | 55.000 | 0.00 | 0.00 | 34.42 | 3.55 |
2550 | 4191 | 1.785951 | CTGCGACTCACATGCACAG | 59.214 | 57.895 | 0.00 | 0.00 | 34.42 | 3.66 |
2551 | 4192 | 2.319841 | GCTGCGACTCACATGCACA | 61.320 | 57.895 | 0.00 | 0.00 | 34.42 | 4.57 |
2603 | 4244 | 5.440610 | AGAAGAGCAGAGGAAAAGAAACAA | 58.559 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
2696 | 4337 | 0.389025 | CCACGATGTCCGATCCATCA | 59.611 | 55.000 | 10.02 | 0.00 | 38.90 | 3.07 |
2721 | 4362 | 1.339055 | CCGCTTGTTCTCCAATCTCCA | 60.339 | 52.381 | 0.00 | 0.00 | 31.20 | 3.86 |
2813 | 4470 | 3.450817 | TGAGGCGAATTCTGTCCTAATGA | 59.549 | 43.478 | 3.52 | 0.00 | 0.00 | 2.57 |
2814 | 4471 | 3.557595 | GTGAGGCGAATTCTGTCCTAATG | 59.442 | 47.826 | 3.52 | 0.00 | 0.00 | 1.90 |
2815 | 4472 | 3.432326 | GGTGAGGCGAATTCTGTCCTAAT | 60.432 | 47.826 | 3.52 | 0.00 | 0.00 | 1.73 |
2818 | 4475 | 0.250513 | GGTGAGGCGAATTCTGTCCT | 59.749 | 55.000 | 3.52 | 7.14 | 0.00 | 3.85 |
2824 | 4481 | 0.657840 | CATTCCGGTGAGGCGAATTC | 59.342 | 55.000 | 0.00 | 0.00 | 40.77 | 2.17 |
2879 | 4536 | 5.368989 | GGGAATTATTACTCACTGTCCTGG | 58.631 | 45.833 | 0.00 | 0.00 | 0.00 | 4.45 |
2885 | 4542 | 4.632153 | CCGAGGGGAATTATTACTCACTG | 58.368 | 47.826 | 0.00 | 0.00 | 34.06 | 3.66 |
2887 | 4544 | 3.400255 | GCCGAGGGGAATTATTACTCAC | 58.600 | 50.000 | 0.00 | 0.00 | 34.06 | 3.51 |
2894 | 4551 | 0.108019 | GGAACGCCGAGGGGAATTAT | 59.892 | 55.000 | 13.32 | 0.00 | 34.06 | 1.28 |
2926 | 4583 | 8.489489 | TCTGCTCATAAATTCAGAGTTCCTATT | 58.511 | 33.333 | 0.00 | 0.00 | 32.43 | 1.73 |
2927 | 4584 | 8.027524 | TCTGCTCATAAATTCAGAGTTCCTAT | 57.972 | 34.615 | 0.00 | 0.00 | 32.43 | 2.57 |
2928 | 4585 | 7.423844 | TCTGCTCATAAATTCAGAGTTCCTA | 57.576 | 36.000 | 0.00 | 0.00 | 32.43 | 2.94 |
2929 | 4586 | 6.305272 | TCTGCTCATAAATTCAGAGTTCCT | 57.695 | 37.500 | 0.00 | 0.00 | 32.43 | 3.36 |
2930 | 4587 | 6.601741 | CTCTGCTCATAAATTCAGAGTTCC | 57.398 | 41.667 | 10.12 | 0.00 | 44.43 | 3.62 |
2983 | 4640 | 1.040646 | ACTCGTTGCCTCAGAGACAA | 58.959 | 50.000 | 0.00 | 0.00 | 36.03 | 3.18 |
2985 | 4642 | 1.000163 | TCAACTCGTTGCCTCAGAGAC | 60.000 | 52.381 | 0.00 | 0.00 | 40.24 | 3.36 |
2986 | 4643 | 1.328279 | TCAACTCGTTGCCTCAGAGA | 58.672 | 50.000 | 0.00 | 0.00 | 40.24 | 3.10 |
2987 | 4644 | 2.154854 | TTCAACTCGTTGCCTCAGAG | 57.845 | 50.000 | 4.95 | 0.00 | 40.24 | 3.35 |
2988 | 4645 | 2.158957 | AGTTTCAACTCGTTGCCTCAGA | 60.159 | 45.455 | 4.95 | 0.00 | 40.24 | 3.27 |
2989 | 4646 | 2.032549 | CAGTTTCAACTCGTTGCCTCAG | 60.033 | 50.000 | 4.95 | 0.00 | 40.24 | 3.35 |
3047 | 4706 | 6.769512 | ACCAGTGAAATTTCTGACTAAGCTA | 58.230 | 36.000 | 18.64 | 0.00 | 34.02 | 3.32 |
3063 | 4738 | 7.607607 | GCATGGATTATATCATGTACCAGTGAA | 59.392 | 37.037 | 0.00 | 0.00 | 41.83 | 3.18 |
3064 | 4739 | 7.038088 | AGCATGGATTATATCATGTACCAGTGA | 60.038 | 37.037 | 0.00 | 0.00 | 41.83 | 3.41 |
3065 | 4740 | 7.108194 | AGCATGGATTATATCATGTACCAGTG | 58.892 | 38.462 | 0.00 | 0.00 | 41.83 | 3.66 |
3066 | 4741 | 7.262990 | AGCATGGATTATATCATGTACCAGT | 57.737 | 36.000 | 0.00 | 0.00 | 41.83 | 4.00 |
3067 | 4742 | 9.671279 | TTTAGCATGGATTATATCATGTACCAG | 57.329 | 33.333 | 0.00 | 0.00 | 41.83 | 4.00 |
3070 | 4745 | 9.994432 | GCTTTTAGCATGGATTATATCATGTAC | 57.006 | 33.333 | 0.00 | 0.00 | 41.89 | 2.90 |
3141 | 4817 | 5.049336 | GCAAAGAGGGAACTAAACTCTGAAC | 60.049 | 44.000 | 0.00 | 0.00 | 44.43 | 3.18 |
3149 | 4825 | 5.136828 | TGTCATTGCAAAGAGGGAACTAAA | 58.863 | 37.500 | 1.71 | 0.00 | 44.43 | 1.85 |
3151 | 4827 | 4.365514 | TGTCATTGCAAAGAGGGAACTA | 57.634 | 40.909 | 1.71 | 0.00 | 44.43 | 2.24 |
3182 | 4858 | 3.536158 | TTTCGCAGAAGTTGTGTATGC | 57.464 | 42.857 | 1.56 | 0.00 | 45.90 | 3.14 |
3191 | 4867 | 2.354821 | GTGGTGTTCTTTTCGCAGAAGT | 59.645 | 45.455 | 0.00 | 0.00 | 45.90 | 3.01 |
3225 | 4948 | 3.507233 | TCATCCTTTGTGCATTGGACTTC | 59.493 | 43.478 | 9.80 | 0.00 | 0.00 | 3.01 |
3242 | 4965 | 4.518249 | CTTTTCCTTGTAGGGTCTCATCC | 58.482 | 47.826 | 0.00 | 0.00 | 35.59 | 3.51 |
3263 | 4986 | 3.854669 | CCGAAGATGCTCGCCCCT | 61.855 | 66.667 | 0.00 | 0.00 | 37.51 | 4.79 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.