Multiple sequence alignment - TraesCS3A01G146300
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 | TraesCS3A01G146300 | chr3A | 100.000 | 2267 | 0 | 0 | 1 | 2267 | 128163948 | 128166214 | 0.000000e+00 | 4187.0 |
1 | TraesCS3A01G146300 | chr3A | 84.615 | 494 | 31 | 12 | 944 | 1426 | 130896647 | 130896188 | 1.230000e-122 | 449.0 |
2 | TraesCS3A01G146300 | chr3A | 77.652 | 264 | 37 | 9 | 451 | 700 | 130897169 | 130896914 | 8.440000e-30 | 141.0 |
3 | TraesCS3A01G146300 | chr3B | 89.922 | 1419 | 61 | 33 | 200 | 1564 | 173557664 | 173559054 | 0.000000e+00 | 1753.0 |
4 | TraesCS3A01G146300 | chr3B | 90.066 | 453 | 37 | 5 | 1817 | 2265 | 173561809 | 173562257 | 4.200000e-162 | 580.0 |
5 | TraesCS3A01G146300 | chr3B | 87.298 | 433 | 38 | 9 | 944 | 1365 | 175953212 | 175952786 | 1.580000e-131 | 479.0 |
6 | TraesCS3A01G146300 | chr3B | 76.644 | 441 | 78 | 17 | 1580 | 2001 | 789030984 | 789030550 | 1.050000e-53 | 220.0 |
7 | TraesCS3A01G146300 | chr3B | 75.682 | 440 | 85 | 12 | 1580 | 2001 | 795050249 | 795049814 | 1.370000e-47 | 200.0 |
8 | TraesCS3A01G146300 | chr3B | 91.603 | 131 | 10 | 1 | 1702 | 1831 | 173559769 | 173559899 | 1.790000e-41 | 180.0 |
9 | TraesCS3A01G146300 | chr3B | 89.109 | 101 | 10 | 1 | 1574 | 1674 | 173559675 | 173559774 | 8.500000e-25 | 124.0 |
10 | TraesCS3A01G146300 | chr3B | 86.000 | 100 | 10 | 3 | 758 | 853 | 175953374 | 175953275 | 1.110000e-18 | 104.0 |
11 | TraesCS3A01G146300 | chr3B | 97.619 | 42 | 1 | 0 | 1580 | 1621 | 805559599 | 805559558 | 3.120000e-09 | 73.1 |
12 | TraesCS3A01G146300 | chr3D | 89.890 | 1088 | 39 | 21 | 519 | 1564 | 121976890 | 121977948 | 0.000000e+00 | 1334.0 |
13 | TraesCS3A01G146300 | chr3D | 91.056 | 682 | 48 | 6 | 1571 | 2244 | 121978639 | 121979315 | 0.000000e+00 | 909.0 |
14 | TraesCS3A01G146300 | chr3D | 94.030 | 335 | 13 | 2 | 200 | 534 | 121976545 | 121976872 | 3.360000e-138 | 501.0 |
15 | TraesCS3A01G146300 | chr3D | 85.976 | 164 | 9 | 8 | 612 | 761 | 123368358 | 123368195 | 1.800000e-36 | 163.0 |
16 | TraesCS3A01G146300 | chr3D | 92.683 | 41 | 3 | 0 | 1580 | 1620 | 4954575 | 4954535 | 2.430000e-05 | 60.2 |
17 | TraesCS3A01G146300 | chr7A | 78.132 | 439 | 75 | 15 | 1580 | 2001 | 26041365 | 26041799 | 2.230000e-65 | 259.0 |
18 | TraesCS3A01G146300 | chr7A | 76.279 | 430 | 69 | 19 | 1580 | 1989 | 263367323 | 263367739 | 4.940000e-47 | 198.0 |
19 | TraesCS3A01G146300 | chr1D | 77.727 | 440 | 76 | 15 | 1580 | 2001 | 65852767 | 65852332 | 1.340000e-62 | 250.0 |
20 | TraesCS3A01G146300 | chr1D | 87.234 | 188 | 17 | 5 | 13 | 199 | 202986586 | 202986767 | 8.210000e-50 | 207.0 |
21 | TraesCS3A01G146300 | chr1A | 77.778 | 441 | 74 | 13 | 1580 | 2001 | 516074179 | 516074614 | 1.340000e-62 | 250.0 |
22 | TraesCS3A01G146300 | chr7B | 77.221 | 439 | 76 | 14 | 1582 | 2001 | 456911004 | 456911437 | 3.760000e-58 | 235.0 |
23 | TraesCS3A01G146300 | chr7B | 77.241 | 435 | 75 | 15 | 1582 | 1998 | 749668408 | 749668836 | 1.350000e-57 | 233.0 |
24 | TraesCS3A01G146300 | chr7B | 100.000 | 33 | 0 | 0 | 1580 | 1612 | 525595833 | 525595865 | 6.760000e-06 | 62.1 |
25 | TraesCS3A01G146300 | chr5A | 76.417 | 441 | 80 | 17 | 1580 | 2001 | 673679585 | 673680020 | 1.360000e-52 | 217.0 |
26 | TraesCS3A01G146300 | chr2A | 84.239 | 184 | 23 | 3 | 17 | 199 | 37100964 | 37101142 | 8.320000e-40 | 174.0 |
27 | TraesCS3A01G146300 | chr5D | 100.000 | 33 | 0 | 0 | 1580 | 1612 | 388427770 | 388427738 | 6.760000e-06 | 62.1 |
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 | TraesCS3A01G146300 | chr3A | 128163948 | 128166214 | 2266 | False | 4187.000000 | 4187 | 100.000000 | 1 | 2267 | 1 | chr3A.!!$F1 | 2266 |
1 | TraesCS3A01G146300 | chr3A | 130896188 | 130897169 | 981 | True | 295.000000 | 449 | 81.133500 | 451 | 1426 | 2 | chr3A.!!$R1 | 975 |
2 | TraesCS3A01G146300 | chr3B | 173557664 | 173562257 | 4593 | False | 659.250000 | 1753 | 90.175000 | 200 | 2265 | 4 | chr3B.!!$F1 | 2065 |
3 | TraesCS3A01G146300 | chr3B | 175952786 | 175953374 | 588 | True | 291.500000 | 479 | 86.649000 | 758 | 1365 | 2 | chr3B.!!$R4 | 607 |
4 | TraesCS3A01G146300 | chr3D | 121976545 | 121979315 | 2770 | False | 914.666667 | 1334 | 91.658667 | 200 | 2244 | 3 | chr3D.!!$F1 | 2044 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
92 | 93 | 0.034863 | TCAATCAAACTACCGCCCCC | 60.035 | 55.0 | 0.0 | 0.0 | 0.0 | 5.4 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1674 | 2532 | 0.89972 | TCCGTTGTACATGGAGGTCC | 59.1 | 55.0 | 12.12 | 0.0 | 35.38 | 4.46 | 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 |
---|---|---|---|---|---|---|---|---|---|
29 | 30 | 4.644044 | GCAAAATTGCGAAAATGCTACA | 57.356 | 36.364 | 1.90 | 0.00 | 45.11 | 2.74 |
30 | 31 | 4.385379 | GCAAAATTGCGAAAATGCTACAC | 58.615 | 39.130 | 1.90 | 0.00 | 45.11 | 2.90 |
31 | 32 | 4.666402 | GCAAAATTGCGAAAATGCTACACC | 60.666 | 41.667 | 1.90 | 0.00 | 45.11 | 4.16 |
32 | 33 | 4.519540 | AAATTGCGAAAATGCTACACCT | 57.480 | 36.364 | 0.00 | 0.00 | 35.36 | 4.00 |
33 | 34 | 5.637006 | AAATTGCGAAAATGCTACACCTA | 57.363 | 34.783 | 0.00 | 0.00 | 35.36 | 3.08 |
34 | 35 | 4.616181 | ATTGCGAAAATGCTACACCTAC | 57.384 | 40.909 | 0.00 | 0.00 | 35.36 | 3.18 |
35 | 36 | 1.996898 | TGCGAAAATGCTACACCTACG | 59.003 | 47.619 | 0.00 | 0.00 | 35.36 | 3.51 |
36 | 37 | 2.264813 | GCGAAAATGCTACACCTACGA | 58.735 | 47.619 | 0.00 | 0.00 | 0.00 | 3.43 |
37 | 38 | 2.669434 | GCGAAAATGCTACACCTACGAA | 59.331 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
38 | 39 | 3.241995 | GCGAAAATGCTACACCTACGAAG | 60.242 | 47.826 | 0.00 | 0.00 | 0.00 | 3.79 |
39 | 40 | 4.171005 | CGAAAATGCTACACCTACGAAGA | 58.829 | 43.478 | 0.00 | 0.00 | 0.00 | 2.87 |
40 | 41 | 4.265556 | CGAAAATGCTACACCTACGAAGAG | 59.734 | 45.833 | 0.00 | 0.00 | 0.00 | 2.85 |
41 | 42 | 3.802948 | AATGCTACACCTACGAAGAGG | 57.197 | 47.619 | 0.00 | 0.00 | 42.89 | 3.69 |
47 | 48 | 4.913126 | CCTACGAAGAGGTGCCAC | 57.087 | 61.111 | 0.00 | 0.00 | 0.00 | 5.01 |
48 | 49 | 1.153823 | CCTACGAAGAGGTGCCACG | 60.154 | 63.158 | 0.00 | 0.00 | 0.00 | 4.94 |
49 | 50 | 1.585006 | CTACGAAGAGGTGCCACGT | 59.415 | 57.895 | 0.00 | 0.00 | 40.23 | 4.49 |
50 | 51 | 0.806868 | CTACGAAGAGGTGCCACGTA | 59.193 | 55.000 | 0.00 | 0.00 | 38.18 | 3.57 |
51 | 52 | 0.523072 | TACGAAGAGGTGCCACGTAC | 59.477 | 55.000 | 0.00 | 0.00 | 38.18 | 3.67 |
52 | 53 | 1.445582 | CGAAGAGGTGCCACGTACC | 60.446 | 63.158 | 0.00 | 0.00 | 38.59 | 3.34 |
53 | 54 | 1.079336 | GAAGAGGTGCCACGTACCC | 60.079 | 63.158 | 2.29 | 0.00 | 39.11 | 3.69 |
54 | 55 | 1.535687 | AAGAGGTGCCACGTACCCT | 60.536 | 57.895 | 2.29 | 0.00 | 39.11 | 4.34 |
55 | 56 | 0.251922 | AAGAGGTGCCACGTACCCTA | 60.252 | 55.000 | 2.29 | 0.00 | 39.11 | 3.53 |
56 | 57 | 0.969409 | AGAGGTGCCACGTACCCTAC | 60.969 | 60.000 | 2.29 | 0.00 | 39.11 | 3.18 |
67 | 68 | 3.848272 | CGTACCCTACGTAACTTTCCA | 57.152 | 47.619 | 0.00 | 0.00 | 46.41 | 3.53 |
68 | 69 | 4.173036 | CGTACCCTACGTAACTTTCCAA | 57.827 | 45.455 | 0.00 | 0.00 | 46.41 | 3.53 |
69 | 70 | 4.555262 | CGTACCCTACGTAACTTTCCAAA | 58.445 | 43.478 | 0.00 | 0.00 | 46.41 | 3.28 |
70 | 71 | 4.987912 | CGTACCCTACGTAACTTTCCAAAA | 59.012 | 41.667 | 0.00 | 0.00 | 46.41 | 2.44 |
71 | 72 | 5.107491 | CGTACCCTACGTAACTTTCCAAAAC | 60.107 | 44.000 | 0.00 | 0.00 | 46.41 | 2.43 |
72 | 73 | 4.779696 | ACCCTACGTAACTTTCCAAAACA | 58.220 | 39.130 | 0.00 | 0.00 | 0.00 | 2.83 |
73 | 74 | 5.379187 | ACCCTACGTAACTTTCCAAAACAT | 58.621 | 37.500 | 0.00 | 0.00 | 0.00 | 2.71 |
74 | 75 | 5.471116 | ACCCTACGTAACTTTCCAAAACATC | 59.529 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
75 | 76 | 5.470777 | CCCTACGTAACTTTCCAAAACATCA | 59.529 | 40.000 | 0.00 | 0.00 | 0.00 | 3.07 |
76 | 77 | 6.016943 | CCCTACGTAACTTTCCAAAACATCAA | 60.017 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
77 | 78 | 7.308951 | CCCTACGTAACTTTCCAAAACATCAAT | 60.309 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
78 | 79 | 7.749126 | CCTACGTAACTTTCCAAAACATCAATC | 59.251 | 37.037 | 0.00 | 0.00 | 0.00 | 2.67 |
79 | 80 | 7.033530 | ACGTAACTTTCCAAAACATCAATCA | 57.966 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
80 | 81 | 7.484975 | ACGTAACTTTCCAAAACATCAATCAA | 58.515 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
81 | 82 | 7.976734 | ACGTAACTTTCCAAAACATCAATCAAA | 59.023 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
82 | 83 | 8.265998 | CGTAACTTTCCAAAACATCAATCAAAC | 58.734 | 33.333 | 0.00 | 0.00 | 0.00 | 2.93 |
83 | 84 | 9.313118 | GTAACTTTCCAAAACATCAATCAAACT | 57.687 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
85 | 86 | 8.871686 | ACTTTCCAAAACATCAATCAAACTAC | 57.128 | 30.769 | 0.00 | 0.00 | 0.00 | 2.73 |
86 | 87 | 7.926018 | ACTTTCCAAAACATCAATCAAACTACC | 59.074 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
87 | 88 | 6.007936 | TCCAAAACATCAATCAAACTACCG | 57.992 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
88 | 89 | 4.621034 | CCAAAACATCAATCAAACTACCGC | 59.379 | 41.667 | 0.00 | 0.00 | 0.00 | 5.68 |
89 | 90 | 4.434713 | AAACATCAATCAAACTACCGCC | 57.565 | 40.909 | 0.00 | 0.00 | 0.00 | 6.13 |
90 | 91 | 2.365582 | ACATCAATCAAACTACCGCCC | 58.634 | 47.619 | 0.00 | 0.00 | 0.00 | 6.13 |
91 | 92 | 1.676006 | CATCAATCAAACTACCGCCCC | 59.324 | 52.381 | 0.00 | 0.00 | 0.00 | 5.80 |
92 | 93 | 0.034863 | TCAATCAAACTACCGCCCCC | 60.035 | 55.000 | 0.00 | 0.00 | 0.00 | 5.40 |
110 | 111 | 1.839894 | CCTGATTCTAGGGTGGGCC | 59.160 | 63.158 | 0.00 | 0.00 | 34.06 | 5.80 |
126 | 127 | 2.338257 | CCCGTGCGGCAAACAAAT | 59.662 | 55.556 | 3.23 | 0.00 | 0.00 | 2.32 |
127 | 128 | 1.581954 | CCCGTGCGGCAAACAAATA | 59.418 | 52.632 | 3.23 | 0.00 | 0.00 | 1.40 |
128 | 129 | 0.731174 | CCCGTGCGGCAAACAAATAC | 60.731 | 55.000 | 3.23 | 0.00 | 0.00 | 1.89 |
129 | 130 | 0.039978 | CCGTGCGGCAAACAAATACA | 60.040 | 50.000 | 3.23 | 0.00 | 0.00 | 2.29 |
130 | 131 | 1.600663 | CCGTGCGGCAAACAAATACAA | 60.601 | 47.619 | 3.23 | 0.00 | 0.00 | 2.41 |
131 | 132 | 2.120232 | CGTGCGGCAAACAAATACAAA | 58.880 | 42.857 | 3.23 | 0.00 | 0.00 | 2.83 |
132 | 133 | 2.728839 | CGTGCGGCAAACAAATACAAAT | 59.271 | 40.909 | 3.23 | 0.00 | 0.00 | 2.32 |
133 | 134 | 3.181545 | CGTGCGGCAAACAAATACAAATC | 60.182 | 43.478 | 3.23 | 0.00 | 0.00 | 2.17 |
134 | 135 | 3.738282 | GTGCGGCAAACAAATACAAATCA | 59.262 | 39.130 | 3.23 | 0.00 | 0.00 | 2.57 |
135 | 136 | 4.210120 | GTGCGGCAAACAAATACAAATCAA | 59.790 | 37.500 | 3.23 | 0.00 | 0.00 | 2.57 |
136 | 137 | 4.811024 | TGCGGCAAACAAATACAAATCAAA | 59.189 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
137 | 138 | 5.294306 | TGCGGCAAACAAATACAAATCAAAA | 59.706 | 32.000 | 0.00 | 0.00 | 0.00 | 2.44 |
138 | 139 | 5.845433 | GCGGCAAACAAATACAAATCAAAAG | 59.155 | 36.000 | 0.00 | 0.00 | 0.00 | 2.27 |
139 | 140 | 5.845433 | CGGCAAACAAATACAAATCAAAAGC | 59.155 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
140 | 141 | 6.292811 | CGGCAAACAAATACAAATCAAAAGCT | 60.293 | 34.615 | 0.00 | 0.00 | 0.00 | 3.74 |
141 | 142 | 6.852345 | GGCAAACAAATACAAATCAAAAGCTG | 59.148 | 34.615 | 0.00 | 0.00 | 0.00 | 4.24 |
142 | 143 | 6.357766 | GCAAACAAATACAAATCAAAAGCTGC | 59.642 | 34.615 | 0.00 | 0.00 | 0.00 | 5.25 |
143 | 144 | 6.544038 | AACAAATACAAATCAAAAGCTGCC | 57.456 | 33.333 | 0.00 | 0.00 | 0.00 | 4.85 |
144 | 145 | 5.609423 | ACAAATACAAATCAAAAGCTGCCA | 58.391 | 33.333 | 0.00 | 0.00 | 0.00 | 4.92 |
145 | 146 | 5.697633 | ACAAATACAAATCAAAAGCTGCCAG | 59.302 | 36.000 | 0.00 | 0.00 | 0.00 | 4.85 |
146 | 147 | 5.726980 | AATACAAATCAAAAGCTGCCAGA | 57.273 | 34.783 | 0.00 | 0.00 | 0.00 | 3.86 |
147 | 148 | 5.927281 | ATACAAATCAAAAGCTGCCAGAT | 57.073 | 34.783 | 0.00 | 0.00 | 0.00 | 2.90 |
148 | 149 | 4.184079 | ACAAATCAAAAGCTGCCAGATC | 57.816 | 40.909 | 0.00 | 0.00 | 0.00 | 2.75 |
149 | 150 | 3.575256 | ACAAATCAAAAGCTGCCAGATCA | 59.425 | 39.130 | 0.00 | 0.00 | 0.00 | 2.92 |
150 | 151 | 4.174009 | CAAATCAAAAGCTGCCAGATCAG | 58.826 | 43.478 | 0.00 | 0.00 | 37.15 | 2.90 |
159 | 160 | 2.283298 | CTGCCAGATCAGCAATTACGT | 58.717 | 47.619 | 11.11 | 0.00 | 40.35 | 3.57 |
160 | 161 | 2.279741 | TGCCAGATCAGCAATTACGTC | 58.720 | 47.619 | 7.89 | 0.00 | 37.28 | 4.34 |
161 | 162 | 2.279741 | GCCAGATCAGCAATTACGTCA | 58.720 | 47.619 | 0.00 | 0.00 | 0.00 | 4.35 |
162 | 163 | 2.677836 | GCCAGATCAGCAATTACGTCAA | 59.322 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
163 | 164 | 3.242543 | GCCAGATCAGCAATTACGTCAAG | 60.243 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
164 | 165 | 4.183865 | CCAGATCAGCAATTACGTCAAGA | 58.816 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
165 | 166 | 4.631377 | CCAGATCAGCAATTACGTCAAGAA | 59.369 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
166 | 167 | 5.446473 | CCAGATCAGCAATTACGTCAAGAAC | 60.446 | 44.000 | 0.00 | 0.00 | 0.00 | 3.01 |
186 | 187 | 4.900635 | ACGTAATAATCCGTTCGTAGGT | 57.099 | 40.909 | 0.00 | 0.00 | 32.50 | 3.08 |
187 | 188 | 4.601019 | ACGTAATAATCCGTTCGTAGGTG | 58.399 | 43.478 | 0.00 | 0.00 | 32.50 | 4.00 |
188 | 189 | 4.096382 | ACGTAATAATCCGTTCGTAGGTGT | 59.904 | 41.667 | 0.00 | 0.00 | 32.50 | 4.16 |
189 | 190 | 5.295787 | ACGTAATAATCCGTTCGTAGGTGTA | 59.704 | 40.000 | 0.00 | 0.00 | 32.50 | 2.90 |
190 | 191 | 5.848036 | CGTAATAATCCGTTCGTAGGTGTAG | 59.152 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
191 | 192 | 2.573941 | AATCCGTTCGTAGGTGTAGC | 57.426 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
192 | 193 | 1.466856 | ATCCGTTCGTAGGTGTAGCA | 58.533 | 50.000 | 0.00 | 0.00 | 0.00 | 3.49 |
193 | 194 | 1.246649 | TCCGTTCGTAGGTGTAGCAA | 58.753 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
194 | 195 | 1.612950 | TCCGTTCGTAGGTGTAGCAAA | 59.387 | 47.619 | 0.00 | 0.00 | 0.00 | 3.68 |
195 | 196 | 1.990563 | CCGTTCGTAGGTGTAGCAAAG | 59.009 | 52.381 | 0.00 | 0.00 | 0.00 | 2.77 |
196 | 197 | 1.389106 | CGTTCGTAGGTGTAGCAAAGC | 59.611 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
197 | 198 | 1.730612 | GTTCGTAGGTGTAGCAAAGCC | 59.269 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
198 | 199 | 0.248289 | TCGTAGGTGTAGCAAAGCCC | 59.752 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
208 | 209 | 0.603439 | AGCAAAGCCCGCAAAATTGG | 60.603 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
223 | 224 | 3.931907 | AATTGGCATCAGCTACACCTA | 57.068 | 42.857 | 0.00 | 0.00 | 41.70 | 3.08 |
359 | 360 | 2.211806 | CACGTTTCCGTCCCTACAAAA | 58.788 | 47.619 | 0.00 | 0.00 | 46.28 | 2.44 |
360 | 361 | 2.613133 | CACGTTTCCGTCCCTACAAAAA | 59.387 | 45.455 | 0.00 | 0.00 | 46.28 | 1.94 |
385 | 386 | 2.128035 | GTCCTCGACAATATCCGCAAG | 58.872 | 52.381 | 0.00 | 0.00 | 32.09 | 4.01 |
415 | 416 | 2.354103 | CCTCGACAAGAAAGCTGGATCA | 60.354 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
423 | 424 | 3.871485 | AGAAAGCTGGATCAAGCACTAG | 58.129 | 45.455 | 24.11 | 0.00 | 46.08 | 2.57 |
447 | 448 | 2.446341 | CGAGAAACGCAAGGTCTCC | 58.554 | 57.895 | 0.00 | 0.00 | 44.91 | 3.71 |
656 | 713 | 0.097499 | CGTCGTTGACATGCATGCAT | 59.903 | 50.000 | 27.46 | 27.46 | 37.08 | 3.96 |
779 | 895 | 2.357517 | CACACGGGCCACAGAGTC | 60.358 | 66.667 | 4.39 | 0.00 | 0.00 | 3.36 |
808 | 924 | 0.390340 | TCAGCTGCATTCCTCGTGAC | 60.390 | 55.000 | 9.47 | 0.00 | 0.00 | 3.67 |
840 | 959 | 4.623002 | GAACTCTCCGTCTGATATTTCCC | 58.377 | 47.826 | 0.00 | 0.00 | 0.00 | 3.97 |
953 | 1085 | 3.490759 | GACGCAGCCACATCACCG | 61.491 | 66.667 | 0.00 | 0.00 | 0.00 | 4.94 |
961 | 1093 | 4.033776 | CACATCACCGCCACCCCT | 62.034 | 66.667 | 0.00 | 0.00 | 0.00 | 4.79 |
979 | 1111 | 1.134068 | CCTTACAAAGCCTCCTAGCCC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 5.19 |
998 | 1130 | 0.582482 | CGATCTCGAGGTAGGACGTG | 59.418 | 60.000 | 13.56 | 0.00 | 43.02 | 4.49 |
1328 | 1483 | 2.749682 | AGCCGTGCTCATGAACCA | 59.250 | 55.556 | 0.00 | 0.00 | 30.62 | 3.67 |
1329 | 1484 | 1.300963 | AGCCGTGCTCATGAACCAT | 59.699 | 52.632 | 0.00 | 0.00 | 30.62 | 3.55 |
1330 | 1485 | 1.028330 | AGCCGTGCTCATGAACCATG | 61.028 | 55.000 | 0.00 | 2.72 | 42.60 | 3.66 |
1378 | 1540 | 4.361420 | CTGAGAGATGATGTGCTACTGTG | 58.639 | 47.826 | 0.00 | 0.00 | 0.00 | 3.66 |
1564 | 1733 | 2.105649 | TGGTGGCTGATGTGTGAAACTA | 59.894 | 45.455 | 0.00 | 0.00 | 38.04 | 2.24 |
1565 | 1734 | 2.744202 | GGTGGCTGATGTGTGAAACTAG | 59.256 | 50.000 | 0.00 | 0.00 | 38.04 | 2.57 |
1566 | 1735 | 3.403038 | GTGGCTGATGTGTGAAACTAGT | 58.597 | 45.455 | 0.00 | 0.00 | 38.04 | 2.57 |
1567 | 1736 | 3.815401 | GTGGCTGATGTGTGAAACTAGTT | 59.185 | 43.478 | 1.12 | 1.12 | 38.04 | 2.24 |
1571 | 1740 | 7.333423 | GTGGCTGATGTGTGAAACTAGTTATTA | 59.667 | 37.037 | 8.92 | 0.00 | 38.04 | 0.98 |
1572 | 1741 | 7.880713 | TGGCTGATGTGTGAAACTAGTTATTAA | 59.119 | 33.333 | 8.92 | 0.00 | 38.04 | 1.40 |
1634 | 2492 | 7.551974 | ACAATTCCAACAAATTTCACATTGTCA | 59.448 | 29.630 | 0.00 | 0.00 | 38.75 | 3.58 |
1649 | 2507 | 4.889409 | ACATTGTCAAATATTCTCCGCCAT | 59.111 | 37.500 | 0.00 | 0.00 | 0.00 | 4.40 |
1653 | 2511 | 4.576053 | TGTCAAATATTCTCCGCCATCTTG | 59.424 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
1674 | 2532 | 2.830772 | ATTCGTCCATGCATCAAACG | 57.169 | 45.000 | 15.38 | 15.38 | 34.80 | 3.60 |
1675 | 2533 | 0.801872 | TTCGTCCATGCATCAAACGG | 59.198 | 50.000 | 19.23 | 8.92 | 34.30 | 4.44 |
1676 | 2534 | 0.036858 | TCGTCCATGCATCAAACGGA | 60.037 | 50.000 | 19.23 | 10.87 | 34.30 | 4.69 |
1677 | 2535 | 0.096976 | CGTCCATGCATCAAACGGAC | 59.903 | 55.000 | 18.70 | 18.70 | 42.25 | 4.79 |
1678 | 2536 | 0.451783 | GTCCATGCATCAAACGGACC | 59.548 | 55.000 | 18.15 | 4.94 | 40.25 | 4.46 |
1679 | 2537 | 0.327924 | TCCATGCATCAAACGGACCT | 59.672 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1680 | 2538 | 0.734889 | CCATGCATCAAACGGACCTC | 59.265 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1708 | 2566 | 3.323979 | ACAACGGACTTGAGTTCATACCT | 59.676 | 43.478 | 0.00 | 0.00 | 33.59 | 3.08 |
1727 | 2585 | 4.605183 | ACCTTGAGTACTGATGCTACTCT | 58.395 | 43.478 | 0.00 | 0.00 | 40.54 | 3.24 |
1732 | 2590 | 5.689835 | TGAGTACTGATGCTACTCTCAGAT | 58.310 | 41.667 | 0.00 | 0.00 | 41.13 | 2.90 |
1744 | 2602 | 2.894126 | ACTCTCAGATTCCACGTGACTT | 59.106 | 45.455 | 19.30 | 0.00 | 0.00 | 3.01 |
1855 | 4637 | 1.005975 | GCAACGCTATCGCACACTAAG | 60.006 | 52.381 | 0.00 | 0.00 | 39.84 | 2.18 |
1865 | 4647 | 1.657594 | CGCACACTAAGCACTGATCTG | 59.342 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
1868 | 4650 | 1.625315 | ACACTAAGCACTGATCTGCCA | 59.375 | 47.619 | 3.46 | 0.00 | 37.96 | 4.92 |
1875 | 4657 | 2.157738 | GCACTGATCTGCCAGAAAGTT | 58.842 | 47.619 | 9.93 | 0.00 | 37.59 | 2.66 |
1878 | 4660 | 4.397417 | GCACTGATCTGCCAGAAAGTTAAT | 59.603 | 41.667 | 9.93 | 0.00 | 37.59 | 1.40 |
1883 | 4665 | 7.885399 | ACTGATCTGCCAGAAAGTTAATAACTT | 59.115 | 33.333 | 12.24 | 12.24 | 43.73 | 2.66 |
2009 | 4791 | 6.126863 | TCCTGAGTCAAATTCTTGGTACAT | 57.873 | 37.500 | 0.00 | 0.00 | 39.30 | 2.29 |
2011 | 4793 | 5.939883 | CCTGAGTCAAATTCTTGGTACATGA | 59.060 | 40.000 | 0.00 | 0.00 | 40.83 | 3.07 |
2014 | 4796 | 6.998074 | TGAGTCAAATTCTTGGTACATGACTT | 59.002 | 34.615 | 0.00 | 0.00 | 46.81 | 3.01 |
2027 | 4809 | 7.952671 | TGGTACATGACTTCAGGATATTACTC | 58.047 | 38.462 | 0.00 | 0.00 | 0.00 | 2.59 |
2083 | 4865 | 2.787473 | TCATGCTTTTCCCAGATCGT | 57.213 | 45.000 | 0.00 | 0.00 | 0.00 | 3.73 |
2092 | 4874 | 0.554305 | TCCCAGATCGTGGCCTAGTA | 59.446 | 55.000 | 3.32 | 0.00 | 46.45 | 1.82 |
2127 | 4909 | 4.357097 | ACCTTTCCTTCCCTTAGAAACCAT | 59.643 | 41.667 | 0.00 | 0.00 | 32.88 | 3.55 |
2130 | 4912 | 3.537337 | TCCTTCCCTTAGAAACCATGGA | 58.463 | 45.455 | 21.47 | 0.00 | 32.88 | 3.41 |
2147 | 4929 | 3.576078 | TGGATGTTGAGAGTGTGGTTT | 57.424 | 42.857 | 0.00 | 0.00 | 0.00 | 3.27 |
2209 | 4994 | 3.055385 | TCCTCTTATGGTTGGGAGTTTCG | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 3.46 |
2249 | 5034 | 4.082733 | TCTCATTCCTCACAGTTAGTCGTG | 60.083 | 45.833 | 0.00 | 0.00 | 34.34 | 4.35 |
2250 | 5035 | 3.572682 | TCATTCCTCACAGTTAGTCGTGT | 59.427 | 43.478 | 0.00 | 0.00 | 34.66 | 4.49 |
2260 | 5045 | 7.637229 | TCACAGTTAGTCGTGTAGAATATAGC | 58.363 | 38.462 | 0.00 | 0.00 | 34.66 | 2.97 |
2265 | 5050 | 9.733219 | AGTTAGTCGTGTAGAATATAGCTTTTC | 57.267 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
2266 | 5051 | 9.733219 | GTTAGTCGTGTAGAATATAGCTTTTCT | 57.267 | 33.333 | 0.00 | 1.22 | 36.26 | 2.52 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
9 | 10 | 4.685628 | AGGTGTAGCATTTTCGCAATTTTG | 59.314 | 37.500 | 0.00 | 0.00 | 0.00 | 2.44 |
10 | 11 | 4.881920 | AGGTGTAGCATTTTCGCAATTTT | 58.118 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
11 | 12 | 4.519540 | AGGTGTAGCATTTTCGCAATTT | 57.480 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
12 | 13 | 4.436852 | CGTAGGTGTAGCATTTTCGCAATT | 60.437 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
13 | 14 | 3.063452 | CGTAGGTGTAGCATTTTCGCAAT | 59.937 | 43.478 | 0.00 | 0.00 | 0.00 | 3.56 |
14 | 15 | 2.413796 | CGTAGGTGTAGCATTTTCGCAA | 59.586 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
15 | 16 | 1.996898 | CGTAGGTGTAGCATTTTCGCA | 59.003 | 47.619 | 0.00 | 0.00 | 0.00 | 5.10 |
16 | 17 | 2.264813 | TCGTAGGTGTAGCATTTTCGC | 58.735 | 47.619 | 0.00 | 0.00 | 0.00 | 4.70 |
17 | 18 | 4.171005 | TCTTCGTAGGTGTAGCATTTTCG | 58.829 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
18 | 19 | 4.567159 | CCTCTTCGTAGGTGTAGCATTTTC | 59.433 | 45.833 | 0.00 | 0.00 | 31.46 | 2.29 |
19 | 20 | 4.504858 | CCTCTTCGTAGGTGTAGCATTTT | 58.495 | 43.478 | 0.00 | 0.00 | 31.46 | 1.82 |
20 | 21 | 4.124851 | CCTCTTCGTAGGTGTAGCATTT | 57.875 | 45.455 | 0.00 | 0.00 | 31.46 | 2.32 |
21 | 22 | 3.802948 | CCTCTTCGTAGGTGTAGCATT | 57.197 | 47.619 | 0.00 | 0.00 | 31.46 | 3.56 |
30 | 31 | 1.153823 | CGTGGCACCTCTTCGTAGG | 60.154 | 63.158 | 12.86 | 0.00 | 42.82 | 3.18 |
31 | 32 | 0.806868 | TACGTGGCACCTCTTCGTAG | 59.193 | 55.000 | 12.86 | 0.00 | 36.24 | 3.51 |
32 | 33 | 0.523072 | GTACGTGGCACCTCTTCGTA | 59.477 | 55.000 | 12.86 | 6.87 | 36.24 | 3.43 |
33 | 34 | 1.288127 | GTACGTGGCACCTCTTCGT | 59.712 | 57.895 | 12.86 | 7.95 | 38.30 | 3.85 |
34 | 35 | 1.445582 | GGTACGTGGCACCTCTTCG | 60.446 | 63.158 | 12.86 | 1.19 | 32.98 | 3.79 |
35 | 36 | 1.079336 | GGGTACGTGGCACCTCTTC | 60.079 | 63.158 | 12.86 | 0.00 | 36.25 | 2.87 |
36 | 37 | 0.251922 | TAGGGTACGTGGCACCTCTT | 60.252 | 55.000 | 12.86 | 0.00 | 36.25 | 2.85 |
37 | 38 | 0.969409 | GTAGGGTACGTGGCACCTCT | 60.969 | 60.000 | 12.86 | 6.01 | 36.25 | 3.69 |
38 | 39 | 1.514553 | GTAGGGTACGTGGCACCTC | 59.485 | 63.158 | 12.86 | 0.00 | 36.25 | 3.85 |
39 | 40 | 2.345760 | CGTAGGGTACGTGGCACCT | 61.346 | 63.158 | 12.86 | 5.37 | 46.41 | 4.00 |
40 | 41 | 2.182537 | CGTAGGGTACGTGGCACC | 59.817 | 66.667 | 12.86 | 0.00 | 46.41 | 5.01 |
48 | 49 | 5.757808 | TGTTTTGGAAAGTTACGTAGGGTAC | 59.242 | 40.000 | 0.00 | 0.00 | 0.00 | 3.34 |
49 | 50 | 5.923204 | TGTTTTGGAAAGTTACGTAGGGTA | 58.077 | 37.500 | 0.00 | 0.00 | 0.00 | 3.69 |
50 | 51 | 4.779696 | TGTTTTGGAAAGTTACGTAGGGT | 58.220 | 39.130 | 0.00 | 0.00 | 0.00 | 4.34 |
51 | 52 | 5.470777 | TGATGTTTTGGAAAGTTACGTAGGG | 59.529 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
52 | 53 | 6.548441 | TGATGTTTTGGAAAGTTACGTAGG | 57.452 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
53 | 54 | 8.286800 | TGATTGATGTTTTGGAAAGTTACGTAG | 58.713 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
54 | 55 | 8.155821 | TGATTGATGTTTTGGAAAGTTACGTA | 57.844 | 30.769 | 0.00 | 0.00 | 0.00 | 3.57 |
55 | 56 | 7.033530 | TGATTGATGTTTTGGAAAGTTACGT | 57.966 | 32.000 | 0.00 | 0.00 | 0.00 | 3.57 |
56 | 57 | 7.922505 | TTGATTGATGTTTTGGAAAGTTACG | 57.077 | 32.000 | 0.00 | 0.00 | 0.00 | 3.18 |
57 | 58 | 9.313118 | AGTTTGATTGATGTTTTGGAAAGTTAC | 57.687 | 29.630 | 0.00 | 0.00 | 0.00 | 2.50 |
59 | 60 | 9.313118 | GTAGTTTGATTGATGTTTTGGAAAGTT | 57.687 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
60 | 61 | 7.926018 | GGTAGTTTGATTGATGTTTTGGAAAGT | 59.074 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
61 | 62 | 7.114811 | CGGTAGTTTGATTGATGTTTTGGAAAG | 59.885 | 37.037 | 0.00 | 0.00 | 0.00 | 2.62 |
62 | 63 | 6.920758 | CGGTAGTTTGATTGATGTTTTGGAAA | 59.079 | 34.615 | 0.00 | 0.00 | 0.00 | 3.13 |
63 | 64 | 6.442952 | CGGTAGTTTGATTGATGTTTTGGAA | 58.557 | 36.000 | 0.00 | 0.00 | 0.00 | 3.53 |
64 | 65 | 5.563867 | GCGGTAGTTTGATTGATGTTTTGGA | 60.564 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
65 | 66 | 4.621034 | GCGGTAGTTTGATTGATGTTTTGG | 59.379 | 41.667 | 0.00 | 0.00 | 0.00 | 3.28 |
66 | 67 | 4.621034 | GGCGGTAGTTTGATTGATGTTTTG | 59.379 | 41.667 | 0.00 | 0.00 | 0.00 | 2.44 |
67 | 68 | 4.321675 | GGGCGGTAGTTTGATTGATGTTTT | 60.322 | 41.667 | 0.00 | 0.00 | 0.00 | 2.43 |
68 | 69 | 3.192633 | GGGCGGTAGTTTGATTGATGTTT | 59.807 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
69 | 70 | 2.752903 | GGGCGGTAGTTTGATTGATGTT | 59.247 | 45.455 | 0.00 | 0.00 | 0.00 | 2.71 |
70 | 71 | 2.365582 | GGGCGGTAGTTTGATTGATGT | 58.634 | 47.619 | 0.00 | 0.00 | 0.00 | 3.06 |
71 | 72 | 1.676006 | GGGGCGGTAGTTTGATTGATG | 59.324 | 52.381 | 0.00 | 0.00 | 0.00 | 3.07 |
72 | 73 | 1.409661 | GGGGGCGGTAGTTTGATTGAT | 60.410 | 52.381 | 0.00 | 0.00 | 0.00 | 2.57 |
73 | 74 | 0.034863 | GGGGGCGGTAGTTTGATTGA | 60.035 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
74 | 75 | 2.489040 | GGGGGCGGTAGTTTGATTG | 58.511 | 57.895 | 0.00 | 0.00 | 0.00 | 2.67 |
92 | 93 | 1.839894 | GGCCCACCCTAGAATCAGG | 59.160 | 63.158 | 0.00 | 0.00 | 35.26 | 3.86 |
109 | 110 | 0.731174 | GTATTTGTTTGCCGCACGGG | 60.731 | 55.000 | 11.65 | 0.00 | 39.58 | 5.28 |
110 | 111 | 0.039978 | TGTATTTGTTTGCCGCACGG | 60.040 | 50.000 | 4.30 | 4.30 | 38.57 | 4.94 |
111 | 112 | 1.759994 | TTGTATTTGTTTGCCGCACG | 58.240 | 45.000 | 0.00 | 0.00 | 0.00 | 5.34 |
112 | 113 | 3.738282 | TGATTTGTATTTGTTTGCCGCAC | 59.262 | 39.130 | 0.00 | 0.00 | 0.00 | 5.34 |
113 | 114 | 3.982475 | TGATTTGTATTTGTTTGCCGCA | 58.018 | 36.364 | 0.00 | 0.00 | 0.00 | 5.69 |
114 | 115 | 4.981389 | TTGATTTGTATTTGTTTGCCGC | 57.019 | 36.364 | 0.00 | 0.00 | 0.00 | 6.53 |
115 | 116 | 5.845433 | GCTTTTGATTTGTATTTGTTTGCCG | 59.155 | 36.000 | 0.00 | 0.00 | 0.00 | 5.69 |
116 | 117 | 6.852345 | CAGCTTTTGATTTGTATTTGTTTGCC | 59.148 | 34.615 | 0.00 | 0.00 | 0.00 | 4.52 |
117 | 118 | 6.357766 | GCAGCTTTTGATTTGTATTTGTTTGC | 59.642 | 34.615 | 0.00 | 0.00 | 0.00 | 3.68 |
118 | 119 | 6.852345 | GGCAGCTTTTGATTTGTATTTGTTTG | 59.148 | 34.615 | 0.00 | 0.00 | 0.00 | 2.93 |
119 | 120 | 6.541641 | TGGCAGCTTTTGATTTGTATTTGTTT | 59.458 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
120 | 121 | 6.054295 | TGGCAGCTTTTGATTTGTATTTGTT | 58.946 | 32.000 | 0.00 | 0.00 | 0.00 | 2.83 |
121 | 122 | 5.609423 | TGGCAGCTTTTGATTTGTATTTGT | 58.391 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
122 | 123 | 5.927689 | TCTGGCAGCTTTTGATTTGTATTTG | 59.072 | 36.000 | 10.34 | 0.00 | 0.00 | 2.32 |
123 | 124 | 6.100404 | TCTGGCAGCTTTTGATTTGTATTT | 57.900 | 33.333 | 10.34 | 0.00 | 0.00 | 1.40 |
124 | 125 | 5.726980 | TCTGGCAGCTTTTGATTTGTATT | 57.273 | 34.783 | 10.34 | 0.00 | 0.00 | 1.89 |
125 | 126 | 5.419788 | TGATCTGGCAGCTTTTGATTTGTAT | 59.580 | 36.000 | 10.34 | 0.00 | 0.00 | 2.29 |
126 | 127 | 4.766373 | TGATCTGGCAGCTTTTGATTTGTA | 59.234 | 37.500 | 10.34 | 0.00 | 0.00 | 2.41 |
127 | 128 | 3.575256 | TGATCTGGCAGCTTTTGATTTGT | 59.425 | 39.130 | 10.34 | 0.00 | 0.00 | 2.83 |
128 | 129 | 4.174009 | CTGATCTGGCAGCTTTTGATTTG | 58.826 | 43.478 | 10.34 | 0.00 | 0.00 | 2.32 |
129 | 130 | 4.451629 | CTGATCTGGCAGCTTTTGATTT | 57.548 | 40.909 | 10.34 | 0.00 | 0.00 | 2.17 |
139 | 140 | 2.283298 | ACGTAATTGCTGATCTGGCAG | 58.717 | 47.619 | 8.58 | 8.58 | 40.90 | 4.85 |
140 | 141 | 2.279741 | GACGTAATTGCTGATCTGGCA | 58.720 | 47.619 | 9.27 | 9.27 | 37.97 | 4.92 |
141 | 142 | 2.279741 | TGACGTAATTGCTGATCTGGC | 58.720 | 47.619 | 1.46 | 3.25 | 0.00 | 4.85 |
142 | 143 | 4.183865 | TCTTGACGTAATTGCTGATCTGG | 58.816 | 43.478 | 1.46 | 0.00 | 0.00 | 3.86 |
143 | 144 | 5.554636 | GTTCTTGACGTAATTGCTGATCTG | 58.445 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
144 | 145 | 4.327357 | CGTTCTTGACGTAATTGCTGATCT | 59.673 | 41.667 | 0.00 | 0.00 | 46.49 | 2.75 |
145 | 146 | 4.569029 | CGTTCTTGACGTAATTGCTGATC | 58.431 | 43.478 | 0.00 | 0.00 | 46.49 | 2.92 |
146 | 147 | 4.584029 | CGTTCTTGACGTAATTGCTGAT | 57.416 | 40.909 | 0.00 | 0.00 | 46.49 | 2.90 |
165 | 166 | 4.096382 | ACACCTACGAACGGATTATTACGT | 59.904 | 41.667 | 0.00 | 0.00 | 46.48 | 3.57 |
166 | 167 | 4.601019 | ACACCTACGAACGGATTATTACG | 58.399 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
167 | 168 | 5.626955 | GCTACACCTACGAACGGATTATTAC | 59.373 | 44.000 | 0.00 | 0.00 | 0.00 | 1.89 |
168 | 169 | 5.299028 | TGCTACACCTACGAACGGATTATTA | 59.701 | 40.000 | 0.00 | 0.00 | 0.00 | 0.98 |
169 | 170 | 4.098349 | TGCTACACCTACGAACGGATTATT | 59.902 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
170 | 171 | 3.633525 | TGCTACACCTACGAACGGATTAT | 59.366 | 43.478 | 0.00 | 0.00 | 0.00 | 1.28 |
171 | 172 | 3.016031 | TGCTACACCTACGAACGGATTA | 58.984 | 45.455 | 0.00 | 0.00 | 0.00 | 1.75 |
172 | 173 | 1.820519 | TGCTACACCTACGAACGGATT | 59.179 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
173 | 174 | 1.466856 | TGCTACACCTACGAACGGAT | 58.533 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
174 | 175 | 1.246649 | TTGCTACACCTACGAACGGA | 58.753 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
175 | 176 | 1.990563 | CTTTGCTACACCTACGAACGG | 59.009 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
176 | 177 | 1.389106 | GCTTTGCTACACCTACGAACG | 59.611 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
177 | 178 | 1.730612 | GGCTTTGCTACACCTACGAAC | 59.269 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
178 | 179 | 1.338389 | GGGCTTTGCTACACCTACGAA | 60.338 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
179 | 180 | 0.248289 | GGGCTTTGCTACACCTACGA | 59.752 | 55.000 | 0.00 | 0.00 | 0.00 | 3.43 |
180 | 181 | 1.082117 | CGGGCTTTGCTACACCTACG | 61.082 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
181 | 182 | 1.366854 | GCGGGCTTTGCTACACCTAC | 61.367 | 60.000 | 0.00 | 0.00 | 0.00 | 3.18 |
182 | 183 | 1.078708 | GCGGGCTTTGCTACACCTA | 60.079 | 57.895 | 0.00 | 0.00 | 0.00 | 3.08 |
183 | 184 | 2.359975 | GCGGGCTTTGCTACACCT | 60.360 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
184 | 185 | 1.801309 | TTTGCGGGCTTTGCTACACC | 61.801 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
185 | 186 | 0.031449 | TTTTGCGGGCTTTGCTACAC | 59.969 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
186 | 187 | 0.965439 | ATTTTGCGGGCTTTGCTACA | 59.035 | 45.000 | 0.00 | 0.00 | 0.00 | 2.74 |
187 | 188 | 1.726248 | CAATTTTGCGGGCTTTGCTAC | 59.274 | 47.619 | 0.00 | 0.00 | 0.00 | 3.58 |
188 | 189 | 1.337635 | CCAATTTTGCGGGCTTTGCTA | 60.338 | 47.619 | 0.00 | 0.00 | 0.00 | 3.49 |
189 | 190 | 0.603439 | CCAATTTTGCGGGCTTTGCT | 60.603 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
190 | 191 | 1.868306 | CCAATTTTGCGGGCTTTGC | 59.132 | 52.632 | 0.00 | 0.00 | 0.00 | 3.68 |
191 | 192 | 1.868306 | GCCAATTTTGCGGGCTTTG | 59.132 | 52.632 | 0.00 | 0.00 | 44.32 | 2.77 |
192 | 193 | 4.377370 | GCCAATTTTGCGGGCTTT | 57.623 | 50.000 | 0.00 | 0.00 | 44.32 | 3.51 |
196 | 197 | 1.085501 | GCTGATGCCAATTTTGCGGG | 61.086 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
197 | 198 | 0.108520 | AGCTGATGCCAATTTTGCGG | 60.109 | 50.000 | 0.00 | 0.00 | 40.80 | 5.69 |
198 | 199 | 2.187707 | GTAGCTGATGCCAATTTTGCG | 58.812 | 47.619 | 0.00 | 0.00 | 40.80 | 4.85 |
208 | 209 | 3.134458 | GGATTGTAGGTGTAGCTGATGC | 58.866 | 50.000 | 0.00 | 0.00 | 40.05 | 3.91 |
223 | 224 | 1.139058 | GGCTCGTATCAGGTGGATTGT | 59.861 | 52.381 | 0.00 | 0.00 | 37.44 | 2.71 |
359 | 360 | 3.068307 | CGGATATTGTCGAGGACCTCTTT | 59.932 | 47.826 | 19.39 | 2.41 | 0.00 | 2.52 |
360 | 361 | 2.623889 | CGGATATTGTCGAGGACCTCTT | 59.376 | 50.000 | 19.39 | 2.08 | 0.00 | 2.85 |
361 | 362 | 2.231529 | CGGATATTGTCGAGGACCTCT | 58.768 | 52.381 | 19.39 | 2.69 | 0.00 | 3.69 |
362 | 363 | 1.336056 | GCGGATATTGTCGAGGACCTC | 60.336 | 57.143 | 11.87 | 11.87 | 0.00 | 3.85 |
363 | 364 | 0.674534 | GCGGATATTGTCGAGGACCT | 59.325 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
364 | 365 | 0.387929 | TGCGGATATTGTCGAGGACC | 59.612 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
385 | 386 | 3.662247 | TTCTTGTCGAGGACCTCTTTC | 57.338 | 47.619 | 19.39 | 9.65 | 0.00 | 2.62 |
415 | 416 | 1.195115 | TTCTCGCCCATCTAGTGCTT | 58.805 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
656 | 713 | 2.356553 | GCAGTTGACACCCGCGTA | 60.357 | 61.111 | 4.92 | 0.00 | 0.00 | 4.42 |
720 | 796 | 1.087202 | TGTGCCAGTGTGTGTTCGAC | 61.087 | 55.000 | 0.00 | 0.00 | 0.00 | 4.20 |
808 | 924 | 0.865769 | CGGAGAGTTCGGTTGGTTTG | 59.134 | 55.000 | 0.00 | 0.00 | 0.00 | 2.93 |
953 | 1085 | 0.965866 | GAGGCTTTGTAAGGGGTGGC | 60.966 | 60.000 | 0.00 | 0.00 | 0.00 | 5.01 |
959 | 1091 | 1.134068 | GGGCTAGGAGGCTTTGTAAGG | 60.134 | 57.143 | 0.00 | 0.00 | 41.09 | 2.69 |
961 | 1093 | 0.539986 | CGGGCTAGGAGGCTTTGTAA | 59.460 | 55.000 | 0.00 | 0.00 | 41.09 | 2.41 |
979 | 1111 | 0.582482 | CACGTCCTACCTCGAGATCG | 59.418 | 60.000 | 15.71 | 10.94 | 41.45 | 3.69 |
998 | 1130 | 2.182842 | GCCACCATCGTCTCCATGC | 61.183 | 63.158 | 0.00 | 0.00 | 0.00 | 4.06 |
1326 | 1481 | 5.523552 | TCGTAAGTTAGTCATGAATGCATGG | 59.476 | 40.000 | 13.98 | 0.00 | 44.84 | 3.66 |
1327 | 1482 | 6.588348 | TCGTAAGTTAGTCATGAATGCATG | 57.412 | 37.500 | 7.43 | 7.43 | 45.52 | 4.06 |
1328 | 1483 | 6.203530 | CCATCGTAAGTTAGTCATGAATGCAT | 59.796 | 38.462 | 5.80 | 0.00 | 39.48 | 3.96 |
1329 | 1484 | 5.523552 | CCATCGTAAGTTAGTCATGAATGCA | 59.476 | 40.000 | 5.80 | 0.00 | 39.48 | 3.96 |
1330 | 1485 | 5.753438 | TCCATCGTAAGTTAGTCATGAATGC | 59.247 | 40.000 | 5.80 | 0.00 | 39.48 | 3.56 |
1378 | 1540 | 8.343366 | TCGATCTCTGCATATACGGATAATAAC | 58.657 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
1478 | 1645 | 9.108284 | CCAAATTATCATACAGACACACACATA | 57.892 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
1479 | 1646 | 7.828717 | TCCAAATTATCATACAGACACACACAT | 59.171 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
1480 | 1647 | 7.119116 | GTCCAAATTATCATACAGACACACACA | 59.881 | 37.037 | 0.00 | 0.00 | 0.00 | 3.72 |
1481 | 1648 | 7.464358 | GTCCAAATTATCATACAGACACACAC | 58.536 | 38.462 | 0.00 | 0.00 | 0.00 | 3.82 |
1482 | 1649 | 6.312672 | CGTCCAAATTATCATACAGACACACA | 59.687 | 38.462 | 0.00 | 0.00 | 0.00 | 3.72 |
1483 | 1650 | 6.705782 | CGTCCAAATTATCATACAGACACAC | 58.294 | 40.000 | 0.00 | 0.00 | 0.00 | 3.82 |
1496 | 1664 | 5.560966 | AAAGATCAACGCGTCCAAATTAT | 57.439 | 34.783 | 14.44 | 0.00 | 0.00 | 1.28 |
1611 | 2465 | 8.503458 | TTTGACAATGTGAAATTTGTTGGAAT | 57.497 | 26.923 | 0.00 | 0.00 | 36.25 | 3.01 |
1612 | 2466 | 7.912056 | TTTGACAATGTGAAATTTGTTGGAA | 57.088 | 28.000 | 0.00 | 0.00 | 36.25 | 3.53 |
1634 | 2492 | 6.293626 | CGAATTCAAGATGGCGGAGAATATTT | 60.294 | 38.462 | 6.22 | 0.00 | 0.00 | 1.40 |
1649 | 2507 | 3.608796 | TGATGCATGGACGAATTCAAGA | 58.391 | 40.909 | 2.46 | 0.00 | 0.00 | 3.02 |
1653 | 2511 | 3.100817 | CGTTTGATGCATGGACGAATTC | 58.899 | 45.455 | 16.68 | 0.00 | 35.90 | 2.17 |
1674 | 2532 | 0.899720 | TCCGTTGTACATGGAGGTCC | 59.100 | 55.000 | 12.12 | 0.00 | 35.38 | 4.46 |
1675 | 2533 | 1.549170 | AGTCCGTTGTACATGGAGGTC | 59.451 | 52.381 | 15.59 | 6.62 | 41.74 | 3.85 |
1676 | 2534 | 1.640917 | AGTCCGTTGTACATGGAGGT | 58.359 | 50.000 | 15.59 | 5.84 | 41.74 | 3.85 |
1677 | 2535 | 2.028476 | TCAAGTCCGTTGTACATGGAGG | 60.028 | 50.000 | 15.59 | 8.41 | 41.74 | 4.30 |
1678 | 2536 | 3.254060 | CTCAAGTCCGTTGTACATGGAG | 58.746 | 50.000 | 15.59 | 6.78 | 41.74 | 3.86 |
1679 | 2537 | 2.631062 | ACTCAAGTCCGTTGTACATGGA | 59.369 | 45.455 | 12.12 | 12.12 | 38.38 | 3.41 |
1680 | 2538 | 3.040147 | ACTCAAGTCCGTTGTACATGG | 57.960 | 47.619 | 8.08 | 8.08 | 37.43 | 3.66 |
1708 | 2566 | 5.501156 | TCTGAGAGTAGCATCAGTACTCAA | 58.499 | 41.667 | 11.39 | 0.98 | 46.08 | 3.02 |
1727 | 2585 | 3.511540 | AGATGAAGTCACGTGGAATCTGA | 59.488 | 43.478 | 17.00 | 0.00 | 0.00 | 3.27 |
1732 | 2590 | 1.069978 | TGCAGATGAAGTCACGTGGAA | 59.930 | 47.619 | 17.00 | 0.00 | 0.00 | 3.53 |
1744 | 2602 | 4.769488 | AGAAGAGACTACAGTTGCAGATGA | 59.231 | 41.667 | 7.19 | 0.00 | 0.00 | 2.92 |
1799 | 2657 | 8.017946 | GGTGCAAACTAGATTAAAGAGAAACTG | 58.982 | 37.037 | 0.00 | 0.00 | 0.00 | 3.16 |
1846 | 4628 | 1.396301 | GCAGATCAGTGCTTAGTGTGC | 59.604 | 52.381 | 0.00 | 0.00 | 40.54 | 4.57 |
1855 | 4637 | 1.818642 | ACTTTCTGGCAGATCAGTGC | 58.181 | 50.000 | 22.57 | 0.00 | 43.19 | 4.40 |
1883 | 4665 | 8.812972 | ACTCTTATGTGTGACACCTAATAAGAA | 58.187 | 33.333 | 24.63 | 15.28 | 36.92 | 2.52 |
1973 | 4755 | 2.423892 | GACTCAGGATGACTACGAGCAA | 59.576 | 50.000 | 0.00 | 0.00 | 42.56 | 3.91 |
2009 | 4791 | 6.667848 | TGTCCTTGAGTAATATCCTGAAGTCA | 59.332 | 38.462 | 2.47 | 0.00 | 0.00 | 3.41 |
2011 | 4793 | 6.405953 | CGTGTCCTTGAGTAATATCCTGAAGT | 60.406 | 42.308 | 2.47 | 0.00 | 0.00 | 3.01 |
2014 | 4796 | 4.341235 | CCGTGTCCTTGAGTAATATCCTGA | 59.659 | 45.833 | 0.00 | 0.00 | 0.00 | 3.86 |
2027 | 4809 | 1.877443 | CAAGGTAAACCCGTGTCCTTG | 59.123 | 52.381 | 7.66 | 7.66 | 45.47 | 3.61 |
2066 | 4848 | 1.755179 | CCACGATCTGGGAAAAGCAT | 58.245 | 50.000 | 0.00 | 0.00 | 36.18 | 3.79 |
2083 | 4865 | 8.658840 | AAGGTTTTAATTCAAATACTAGGCCA | 57.341 | 30.769 | 5.01 | 0.00 | 0.00 | 5.36 |
2092 | 4874 | 8.275187 | AGGGAAGGAAAGGTTTTAATTCAAAT | 57.725 | 30.769 | 0.00 | 0.00 | 0.00 | 2.32 |
2127 | 4909 | 3.476552 | GAAACCACACTCTCAACATCCA | 58.523 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
2130 | 4912 | 3.136443 | TCTGGAAACCACACTCTCAACAT | 59.864 | 43.478 | 0.00 | 0.00 | 0.00 | 2.71 |
2147 | 4929 | 0.690192 | TCCGGAGCAAAATGTCTGGA | 59.310 | 50.000 | 0.00 | 0.00 | 44.55 | 3.86 |
2209 | 4994 | 2.038557 | TGAGAGGTGTTCCTTGCTTACC | 59.961 | 50.000 | 0.00 | 0.00 | 45.24 | 2.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.