Multiple sequence alignment - TraesCS7A01G320700
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 | TraesCS7A01G320700 | chr7A | 100.000 | 3190 | 0 | 0 | 1 | 3190 | 462962040 | 462965229 | 0.000000e+00 | 5891 |
1 | TraesCS7A01G320700 | chr7A | 98.027 | 2939 | 21 | 11 | 283 | 3190 | 204164365 | 204167297 | 0.000000e+00 | 5072 |
2 | TraesCS7A01G320700 | chr7A | 96.383 | 2931 | 34 | 21 | 283 | 3190 | 5632884 | 5635765 | 0.000000e+00 | 4759 |
3 | TraesCS7A01G320700 | chr7A | 98.608 | 2371 | 13 | 1 | 840 | 3190 | 424544001 | 424541631 | 0.000000e+00 | 4178 |
4 | TraesCS7A01G320700 | chr5B | 97.671 | 2963 | 14 | 4 | 283 | 3190 | 513600268 | 513603230 | 0.000000e+00 | 5038 |
5 | TraesCS7A01G320700 | chr7B | 97.604 | 2963 | 16 | 6 | 277 | 3187 | 245983997 | 245986956 | 0.000000e+00 | 5027 |
6 | TraesCS7A01G320700 | chr7B | 97.657 | 2945 | 26 | 11 | 283 | 3190 | 263144460 | 263141522 | 0.000000e+00 | 5016 |
7 | TraesCS7A01G320700 | chr7B | 97.341 | 2971 | 16 | 5 | 282 | 3190 | 446152840 | 446155809 | 0.000000e+00 | 4990 |
8 | TraesCS7A01G320700 | chr7B | 97.162 | 2960 | 29 | 18 | 282 | 3190 | 156960753 | 156963708 | 0.000000e+00 | 4950 |
9 | TraesCS7A01G320700 | chr7B | 96.937 | 2971 | 35 | 23 | 276 | 3190 | 582235314 | 582238284 | 0.000000e+00 | 4931 |
10 | TraesCS7A01G320700 | chr7B | 96.973 | 2973 | 12 | 6 | 279 | 3190 | 169298166 | 169301121 | 0.000000e+00 | 4920 |
11 | TraesCS7A01G320700 | chr7B | 97.733 | 2779 | 15 | 4 | 459 | 3190 | 446171846 | 446174623 | 0.000000e+00 | 4739 |
12 | TraesCS7A01G320700 | chr7B | 99.291 | 282 | 2 | 0 | 1 | 282 | 413564536 | 413564817 | 7.890000e-141 | 510 |
13 | TraesCS7A01G320700 | chr4B | 97.652 | 2939 | 26 | 16 | 283 | 3190 | 660455224 | 660452298 | 0.000000e+00 | 5005 |
14 | TraesCS7A01G320700 | chr4B | 96.795 | 2964 | 33 | 6 | 282 | 3190 | 15939350 | 15936394 | 0.000000e+00 | 4891 |
15 | TraesCS7A01G320700 | chr2A | 97.327 | 2956 | 26 | 12 | 282 | 3190 | 61657793 | 61660742 | 0.000000e+00 | 4972 |
16 | TraesCS7A01G320700 | chr2A | 97.264 | 2960 | 29 | 4 | 283 | 3190 | 568410549 | 568407590 | 0.000000e+00 | 4970 |
17 | TraesCS7A01G320700 | chr6B | 97.828 | 2762 | 23 | 9 | 460 | 3190 | 417231859 | 417234614 | 0.000000e+00 | 4734 |
18 | TraesCS7A01G320700 | chr1A | 97.663 | 2610 | 25 | 13 | 606 | 3190 | 252511242 | 252508644 | 0.000000e+00 | 4449 |
19 | TraesCS7A01G320700 | chr1B | 97.721 | 2501 | 19 | 12 | 283 | 2755 | 242246335 | 242243845 | 0.000000e+00 | 4268 |
20 | TraesCS7A01G320700 | chr7D | 98.936 | 282 | 2 | 1 | 1 | 282 | 404050443 | 404050723 | 1.320000e-138 | 503 |
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 | TraesCS7A01G320700 | chr7A | 462962040 | 462965229 | 3189 | False | 5891 | 5891 | 100.000 | 1 | 3190 | 1 | chr7A.!!$F3 | 3189 |
1 | TraesCS7A01G320700 | chr7A | 204164365 | 204167297 | 2932 | False | 5072 | 5072 | 98.027 | 283 | 3190 | 1 | chr7A.!!$F2 | 2907 |
2 | TraesCS7A01G320700 | chr7A | 5632884 | 5635765 | 2881 | False | 4759 | 4759 | 96.383 | 283 | 3190 | 1 | chr7A.!!$F1 | 2907 |
3 | TraesCS7A01G320700 | chr7A | 424541631 | 424544001 | 2370 | True | 4178 | 4178 | 98.608 | 840 | 3190 | 1 | chr7A.!!$R1 | 2350 |
4 | TraesCS7A01G320700 | chr5B | 513600268 | 513603230 | 2962 | False | 5038 | 5038 | 97.671 | 283 | 3190 | 1 | chr5B.!!$F1 | 2907 |
5 | TraesCS7A01G320700 | chr7B | 245983997 | 245986956 | 2959 | False | 5027 | 5027 | 97.604 | 277 | 3187 | 1 | chr7B.!!$F3 | 2910 |
6 | TraesCS7A01G320700 | chr7B | 263141522 | 263144460 | 2938 | True | 5016 | 5016 | 97.657 | 283 | 3190 | 1 | chr7B.!!$R1 | 2907 |
7 | TraesCS7A01G320700 | chr7B | 446152840 | 446155809 | 2969 | False | 4990 | 4990 | 97.341 | 282 | 3190 | 1 | chr7B.!!$F5 | 2908 |
8 | TraesCS7A01G320700 | chr7B | 156960753 | 156963708 | 2955 | False | 4950 | 4950 | 97.162 | 282 | 3190 | 1 | chr7B.!!$F1 | 2908 |
9 | TraesCS7A01G320700 | chr7B | 582235314 | 582238284 | 2970 | False | 4931 | 4931 | 96.937 | 276 | 3190 | 1 | chr7B.!!$F7 | 2914 |
10 | TraesCS7A01G320700 | chr7B | 169298166 | 169301121 | 2955 | False | 4920 | 4920 | 96.973 | 279 | 3190 | 1 | chr7B.!!$F2 | 2911 |
11 | TraesCS7A01G320700 | chr7B | 446171846 | 446174623 | 2777 | False | 4739 | 4739 | 97.733 | 459 | 3190 | 1 | chr7B.!!$F6 | 2731 |
12 | TraesCS7A01G320700 | chr4B | 660452298 | 660455224 | 2926 | True | 5005 | 5005 | 97.652 | 283 | 3190 | 1 | chr4B.!!$R2 | 2907 |
13 | TraesCS7A01G320700 | chr4B | 15936394 | 15939350 | 2956 | True | 4891 | 4891 | 96.795 | 282 | 3190 | 1 | chr4B.!!$R1 | 2908 |
14 | TraesCS7A01G320700 | chr2A | 61657793 | 61660742 | 2949 | False | 4972 | 4972 | 97.327 | 282 | 3190 | 1 | chr2A.!!$F1 | 2908 |
15 | TraesCS7A01G320700 | chr2A | 568407590 | 568410549 | 2959 | True | 4970 | 4970 | 97.264 | 283 | 3190 | 1 | chr2A.!!$R1 | 2907 |
16 | TraesCS7A01G320700 | chr6B | 417231859 | 417234614 | 2755 | False | 4734 | 4734 | 97.828 | 460 | 3190 | 1 | chr6B.!!$F1 | 2730 |
17 | TraesCS7A01G320700 | chr1A | 252508644 | 252511242 | 2598 | True | 4449 | 4449 | 97.663 | 606 | 3190 | 1 | chr1A.!!$R1 | 2584 |
18 | TraesCS7A01G320700 | chr1B | 242243845 | 242246335 | 2490 | True | 4268 | 4268 | 97.721 | 283 | 2755 | 1 | chr1B.!!$R1 | 2472 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
33 | 34 | 0.108424 | GCGAATCTGCCTCAGTGTCT | 60.108 | 55.0 | 0.0 | 0.0 | 32.61 | 3.41 | F |
40 | 41 | 0.109153 | TGCCTCAGTGTCTGCATTGT | 59.891 | 50.0 | 0.0 | 0.0 | 34.46 | 2.71 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1872 | 2093 | 2.243221 | CCCAGAATCAAGAATCCAGGGT | 59.757 | 50.000 | 5.52 | 0.0 | 30.62 | 4.34 | R |
2450 | 2677 | 7.439381 | AGGTCGTTGAGAAACAGAATTACTAA | 58.561 | 34.615 | 0.00 | 0.0 | 0.00 | 2.24 | 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 |
---|---|---|---|---|---|---|---|---|---|
24 | 25 | 6.545504 | TCTTCTTATTTATGCGAATCTGCC | 57.454 | 37.500 | 0.00 | 0.00 | 0.00 | 4.85 |
25 | 26 | 6.291377 | TCTTCTTATTTATGCGAATCTGCCT | 58.709 | 36.000 | 0.00 | 0.00 | 0.00 | 4.75 |
26 | 27 | 6.425114 | TCTTCTTATTTATGCGAATCTGCCTC | 59.575 | 38.462 | 0.00 | 0.00 | 0.00 | 4.70 |
27 | 28 | 5.610398 | TCTTATTTATGCGAATCTGCCTCA | 58.390 | 37.500 | 0.00 | 0.00 | 0.00 | 3.86 |
28 | 29 | 5.698089 | TCTTATTTATGCGAATCTGCCTCAG | 59.302 | 40.000 | 0.00 | 0.00 | 0.00 | 3.35 |
29 | 30 | 2.988010 | TTATGCGAATCTGCCTCAGT | 57.012 | 45.000 | 0.00 | 0.00 | 32.61 | 3.41 |
30 | 31 | 2.229675 | TATGCGAATCTGCCTCAGTG | 57.770 | 50.000 | 0.00 | 0.00 | 32.61 | 3.66 |
31 | 32 | 0.251354 | ATGCGAATCTGCCTCAGTGT | 59.749 | 50.000 | 0.00 | 0.00 | 32.61 | 3.55 |
32 | 33 | 0.390340 | TGCGAATCTGCCTCAGTGTC | 60.390 | 55.000 | 0.00 | 0.00 | 32.61 | 3.67 |
33 | 34 | 0.108424 | GCGAATCTGCCTCAGTGTCT | 60.108 | 55.000 | 0.00 | 0.00 | 32.61 | 3.41 |
34 | 35 | 1.638133 | CGAATCTGCCTCAGTGTCTG | 58.362 | 55.000 | 0.00 | 0.00 | 32.61 | 3.51 |
35 | 36 | 1.367659 | GAATCTGCCTCAGTGTCTGC | 58.632 | 55.000 | 0.00 | 0.00 | 32.61 | 4.26 |
36 | 37 | 0.689055 | AATCTGCCTCAGTGTCTGCA | 59.311 | 50.000 | 0.00 | 0.00 | 32.61 | 4.41 |
37 | 38 | 0.910338 | ATCTGCCTCAGTGTCTGCAT | 59.090 | 50.000 | 0.00 | 0.00 | 32.53 | 3.96 |
38 | 39 | 0.689055 | TCTGCCTCAGTGTCTGCATT | 59.311 | 50.000 | 0.00 | 0.00 | 32.53 | 3.56 |
39 | 40 | 0.803117 | CTGCCTCAGTGTCTGCATTG | 59.197 | 55.000 | 0.00 | 0.00 | 34.17 | 2.82 |
40 | 41 | 0.109153 | TGCCTCAGTGTCTGCATTGT | 59.891 | 50.000 | 0.00 | 0.00 | 34.46 | 2.71 |
41 | 42 | 0.520404 | GCCTCAGTGTCTGCATTGTG | 59.480 | 55.000 | 0.00 | 0.00 | 34.46 | 3.33 |
42 | 43 | 1.888215 | CCTCAGTGTCTGCATTGTGT | 58.112 | 50.000 | 0.00 | 0.00 | 34.46 | 3.72 |
43 | 44 | 2.871637 | GCCTCAGTGTCTGCATTGTGTA | 60.872 | 50.000 | 0.00 | 0.00 | 34.46 | 2.90 |
44 | 45 | 3.603532 | CCTCAGTGTCTGCATTGTGTAT | 58.396 | 45.455 | 0.00 | 0.00 | 34.46 | 2.29 |
45 | 46 | 4.758688 | CCTCAGTGTCTGCATTGTGTATA | 58.241 | 43.478 | 0.00 | 0.00 | 34.46 | 1.47 |
46 | 47 | 5.178061 | CCTCAGTGTCTGCATTGTGTATAA | 58.822 | 41.667 | 0.00 | 0.00 | 34.46 | 0.98 |
47 | 48 | 5.819379 | CCTCAGTGTCTGCATTGTGTATAAT | 59.181 | 40.000 | 0.00 | 0.00 | 34.46 | 1.28 |
48 | 49 | 6.317140 | CCTCAGTGTCTGCATTGTGTATAATT | 59.683 | 38.462 | 0.00 | 0.00 | 34.46 | 1.40 |
49 | 50 | 7.495606 | CCTCAGTGTCTGCATTGTGTATAATTA | 59.504 | 37.037 | 0.00 | 0.00 | 34.46 | 1.40 |
50 | 51 | 8.962884 | TCAGTGTCTGCATTGTGTATAATTAT | 57.037 | 30.769 | 2.97 | 2.97 | 34.46 | 1.28 |
51 | 52 | 9.394767 | TCAGTGTCTGCATTGTGTATAATTATT | 57.605 | 29.630 | 2.68 | 0.00 | 34.46 | 1.40 |
69 | 70 | 9.902684 | ATAATTATTATCTGATTCTCTGCCAGG | 57.097 | 33.333 | 0.00 | 0.00 | 0.00 | 4.45 |
70 | 71 | 7.565190 | ATTATTATCTGATTCTCTGCCAGGA | 57.435 | 36.000 | 0.00 | 0.00 | 0.00 | 3.86 |
71 | 72 | 7.565190 | TTATTATCTGATTCTCTGCCAGGAT | 57.435 | 36.000 | 0.00 | 0.00 | 0.00 | 3.24 |
72 | 73 | 3.773418 | ATCTGATTCTCTGCCAGGATG | 57.227 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
73 | 74 | 2.755686 | TCTGATTCTCTGCCAGGATGA | 58.244 | 47.619 | 0.00 | 0.00 | 39.69 | 2.92 |
74 | 75 | 2.699321 | TCTGATTCTCTGCCAGGATGAG | 59.301 | 50.000 | 0.00 | 0.00 | 39.69 | 2.90 |
75 | 76 | 2.435069 | CTGATTCTCTGCCAGGATGAGT | 59.565 | 50.000 | 8.46 | 0.00 | 39.69 | 3.41 |
76 | 77 | 2.842496 | TGATTCTCTGCCAGGATGAGTT | 59.158 | 45.455 | 8.46 | 0.29 | 39.69 | 3.01 |
77 | 78 | 2.775911 | TTCTCTGCCAGGATGAGTTG | 57.224 | 50.000 | 8.46 | 0.00 | 39.69 | 3.16 |
78 | 79 | 0.251354 | TCTCTGCCAGGATGAGTTGC | 59.749 | 55.000 | 8.46 | 0.00 | 39.69 | 4.17 |
79 | 80 | 1.078918 | TCTGCCAGGATGAGTTGCG | 60.079 | 57.895 | 0.00 | 0.00 | 39.69 | 4.85 |
80 | 81 | 1.376424 | CTGCCAGGATGAGTTGCGT | 60.376 | 57.895 | 0.00 | 0.00 | 39.69 | 5.24 |
81 | 82 | 1.364626 | CTGCCAGGATGAGTTGCGTC | 61.365 | 60.000 | 0.00 | 0.00 | 39.69 | 5.19 |
82 | 83 | 1.375908 | GCCAGGATGAGTTGCGTCA | 60.376 | 57.895 | 0.00 | 0.00 | 39.69 | 4.35 |
83 | 84 | 0.955428 | GCCAGGATGAGTTGCGTCAA | 60.955 | 55.000 | 0.00 | 0.00 | 39.69 | 3.18 |
84 | 85 | 0.798776 | CCAGGATGAGTTGCGTCAAC | 59.201 | 55.000 | 12.81 | 12.81 | 43.83 | 3.18 |
85 | 86 | 1.511850 | CAGGATGAGTTGCGTCAACA | 58.488 | 50.000 | 19.82 | 5.71 | 45.66 | 3.33 |
86 | 87 | 1.462283 | CAGGATGAGTTGCGTCAACAG | 59.538 | 52.381 | 19.82 | 3.06 | 45.66 | 3.16 |
87 | 88 | 1.344438 | AGGATGAGTTGCGTCAACAGA | 59.656 | 47.619 | 19.82 | 9.56 | 45.66 | 3.41 |
88 | 89 | 2.143122 | GGATGAGTTGCGTCAACAGAA | 58.857 | 47.619 | 19.82 | 8.93 | 45.66 | 3.02 |
89 | 90 | 2.548057 | GGATGAGTTGCGTCAACAGAAA | 59.452 | 45.455 | 19.82 | 7.08 | 45.66 | 2.52 |
90 | 91 | 3.364366 | GGATGAGTTGCGTCAACAGAAAG | 60.364 | 47.826 | 19.82 | 0.00 | 45.66 | 2.62 |
91 | 92 | 2.899976 | TGAGTTGCGTCAACAGAAAGA | 58.100 | 42.857 | 19.82 | 0.84 | 45.66 | 2.52 |
92 | 93 | 3.266636 | TGAGTTGCGTCAACAGAAAGAA | 58.733 | 40.909 | 19.82 | 1.13 | 45.66 | 2.52 |
93 | 94 | 3.309682 | TGAGTTGCGTCAACAGAAAGAAG | 59.690 | 43.478 | 19.82 | 0.00 | 45.66 | 2.85 |
94 | 95 | 3.531538 | AGTTGCGTCAACAGAAAGAAGA | 58.468 | 40.909 | 19.82 | 0.00 | 45.66 | 2.87 |
95 | 96 | 3.557595 | AGTTGCGTCAACAGAAAGAAGAG | 59.442 | 43.478 | 19.82 | 0.00 | 45.66 | 2.85 |
96 | 97 | 2.483876 | TGCGTCAACAGAAAGAAGAGG | 58.516 | 47.619 | 0.00 | 0.00 | 0.00 | 3.69 |
97 | 98 | 2.102420 | TGCGTCAACAGAAAGAAGAGGA | 59.898 | 45.455 | 0.00 | 0.00 | 0.00 | 3.71 |
98 | 99 | 3.131396 | GCGTCAACAGAAAGAAGAGGAA | 58.869 | 45.455 | 0.00 | 0.00 | 0.00 | 3.36 |
99 | 100 | 3.560068 | GCGTCAACAGAAAGAAGAGGAAA | 59.440 | 43.478 | 0.00 | 0.00 | 0.00 | 3.13 |
100 | 101 | 4.552961 | GCGTCAACAGAAAGAAGAGGAAAC | 60.553 | 45.833 | 0.00 | 0.00 | 0.00 | 2.78 |
101 | 102 | 4.570772 | CGTCAACAGAAAGAAGAGGAAACA | 59.429 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
102 | 103 | 5.277058 | CGTCAACAGAAAGAAGAGGAAACAG | 60.277 | 44.000 | 0.00 | 0.00 | 0.00 | 3.16 |
103 | 104 | 5.817816 | GTCAACAGAAAGAAGAGGAAACAGA | 59.182 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
104 | 105 | 6.484977 | GTCAACAGAAAGAAGAGGAAACAGAT | 59.515 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
105 | 106 | 6.484643 | TCAACAGAAAGAAGAGGAAACAGATG | 59.515 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
106 | 107 | 6.179906 | ACAGAAAGAAGAGGAAACAGATGA | 57.820 | 37.500 | 0.00 | 0.00 | 0.00 | 2.92 |
107 | 108 | 6.777782 | ACAGAAAGAAGAGGAAACAGATGAT | 58.222 | 36.000 | 0.00 | 0.00 | 0.00 | 2.45 |
108 | 109 | 7.230027 | ACAGAAAGAAGAGGAAACAGATGATT | 58.770 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
109 | 110 | 8.378565 | ACAGAAAGAAGAGGAAACAGATGATTA | 58.621 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
110 | 111 | 8.663911 | CAGAAAGAAGAGGAAACAGATGATTAC | 58.336 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
111 | 112 | 8.601546 | AGAAAGAAGAGGAAACAGATGATTACT | 58.398 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
112 | 113 | 8.558973 | AAAGAAGAGGAAACAGATGATTACTG | 57.441 | 34.615 | 0.00 | 0.00 | 40.68 | 2.74 |
113 | 114 | 6.112058 | AGAAGAGGAAACAGATGATTACTGC | 58.888 | 40.000 | 0.00 | 0.00 | 38.74 | 4.40 |
114 | 115 | 5.690464 | AGAGGAAACAGATGATTACTGCT | 57.310 | 39.130 | 0.00 | 0.00 | 38.74 | 4.24 |
115 | 116 | 5.669477 | AGAGGAAACAGATGATTACTGCTC | 58.331 | 41.667 | 0.00 | 0.00 | 38.74 | 4.26 |
116 | 117 | 5.424895 | AGAGGAAACAGATGATTACTGCTCT | 59.575 | 40.000 | 0.00 | 0.00 | 38.74 | 4.09 |
117 | 118 | 5.669477 | AGGAAACAGATGATTACTGCTCTC | 58.331 | 41.667 | 0.00 | 0.00 | 38.74 | 3.20 |
118 | 119 | 5.188555 | AGGAAACAGATGATTACTGCTCTCA | 59.811 | 40.000 | 0.00 | 0.00 | 38.74 | 3.27 |
119 | 120 | 5.523188 | GGAAACAGATGATTACTGCTCTCAG | 59.477 | 44.000 | 0.00 | 0.00 | 45.71 | 3.35 |
120 | 121 | 4.669206 | ACAGATGATTACTGCTCTCAGG | 57.331 | 45.455 | 0.00 | 0.00 | 44.54 | 3.86 |
121 | 122 | 4.029520 | ACAGATGATTACTGCTCTCAGGT | 58.970 | 43.478 | 0.00 | 0.00 | 44.54 | 4.00 |
122 | 123 | 5.204292 | ACAGATGATTACTGCTCTCAGGTA | 58.796 | 41.667 | 0.00 | 0.00 | 44.54 | 3.08 |
123 | 124 | 5.837979 | ACAGATGATTACTGCTCTCAGGTAT | 59.162 | 40.000 | 0.00 | 0.00 | 44.54 | 2.73 |
124 | 125 | 6.326064 | ACAGATGATTACTGCTCTCAGGTATT | 59.674 | 38.462 | 0.00 | 0.00 | 44.54 | 1.89 |
125 | 126 | 7.147585 | ACAGATGATTACTGCTCTCAGGTATTT | 60.148 | 37.037 | 0.00 | 0.00 | 44.54 | 1.40 |
126 | 127 | 8.363390 | CAGATGATTACTGCTCTCAGGTATTTA | 58.637 | 37.037 | 0.00 | 0.00 | 44.54 | 1.40 |
127 | 128 | 9.099071 | AGATGATTACTGCTCTCAGGTATTTAT | 57.901 | 33.333 | 0.00 | 0.00 | 44.54 | 1.40 |
128 | 129 | 9.717942 | GATGATTACTGCTCTCAGGTATTTATT | 57.282 | 33.333 | 0.00 | 0.00 | 44.54 | 1.40 |
129 | 130 | 8.893219 | TGATTACTGCTCTCAGGTATTTATTG | 57.107 | 34.615 | 0.00 | 0.00 | 44.54 | 1.90 |
130 | 131 | 8.486210 | TGATTACTGCTCTCAGGTATTTATTGT | 58.514 | 33.333 | 0.00 | 0.00 | 44.54 | 2.71 |
131 | 132 | 9.331282 | GATTACTGCTCTCAGGTATTTATTGTT | 57.669 | 33.333 | 0.00 | 0.00 | 44.54 | 2.83 |
132 | 133 | 9.686683 | ATTACTGCTCTCAGGTATTTATTGTTT | 57.313 | 29.630 | 0.00 | 0.00 | 44.54 | 2.83 |
133 | 134 | 7.617041 | ACTGCTCTCAGGTATTTATTGTTTC | 57.383 | 36.000 | 0.00 | 0.00 | 44.54 | 2.78 |
134 | 135 | 7.168219 | ACTGCTCTCAGGTATTTATTGTTTCA | 58.832 | 34.615 | 0.00 | 0.00 | 44.54 | 2.69 |
135 | 136 | 7.335422 | ACTGCTCTCAGGTATTTATTGTTTCAG | 59.665 | 37.037 | 0.00 | 0.00 | 44.54 | 3.02 |
136 | 137 | 7.394016 | TGCTCTCAGGTATTTATTGTTTCAGA | 58.606 | 34.615 | 0.00 | 0.00 | 0.00 | 3.27 |
137 | 138 | 7.334421 | TGCTCTCAGGTATTTATTGTTTCAGAC | 59.666 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
138 | 139 | 7.334421 | GCTCTCAGGTATTTATTGTTTCAGACA | 59.666 | 37.037 | 0.00 | 0.00 | 36.19 | 3.41 |
139 | 140 | 9.388506 | CTCTCAGGTATTTATTGTTTCAGACAT | 57.611 | 33.333 | 0.00 | 0.00 | 38.26 | 3.06 |
140 | 141 | 9.383519 | TCTCAGGTATTTATTGTTTCAGACATC | 57.616 | 33.333 | 0.00 | 0.00 | 38.26 | 3.06 |
141 | 142 | 9.388506 | CTCAGGTATTTATTGTTTCAGACATCT | 57.611 | 33.333 | 0.00 | 0.00 | 38.26 | 2.90 |
142 | 143 | 9.166173 | TCAGGTATTTATTGTTTCAGACATCTG | 57.834 | 33.333 | 2.24 | 2.24 | 45.08 | 2.90 |
143 | 144 | 8.950210 | CAGGTATTTATTGTTTCAGACATCTGT | 58.050 | 33.333 | 8.70 | 0.00 | 44.12 | 3.41 |
144 | 145 | 9.520515 | AGGTATTTATTGTTTCAGACATCTGTT | 57.479 | 29.630 | 8.70 | 0.00 | 44.12 | 3.16 |
145 | 146 | 9.774742 | GGTATTTATTGTTTCAGACATCTGTTC | 57.225 | 33.333 | 8.70 | 2.30 | 44.12 | 3.18 |
148 | 149 | 8.908786 | TTTATTGTTTCAGACATCTGTTCTCT | 57.091 | 30.769 | 8.70 | 0.00 | 44.12 | 3.10 |
149 | 150 | 8.908786 | TTATTGTTTCAGACATCTGTTCTCTT | 57.091 | 30.769 | 8.70 | 0.00 | 44.12 | 2.85 |
150 | 151 | 9.996554 | TTATTGTTTCAGACATCTGTTCTCTTA | 57.003 | 29.630 | 8.70 | 0.00 | 44.12 | 2.10 |
152 | 153 | 8.539770 | TTGTTTCAGACATCTGTTCTCTTATC | 57.460 | 34.615 | 8.70 | 0.00 | 44.12 | 1.75 |
153 | 154 | 7.670364 | TGTTTCAGACATCTGTTCTCTTATCA | 58.330 | 34.615 | 8.70 | 0.00 | 44.12 | 2.15 |
154 | 155 | 7.600375 | TGTTTCAGACATCTGTTCTCTTATCAC | 59.400 | 37.037 | 8.70 | 0.00 | 44.12 | 3.06 |
155 | 156 | 6.840780 | TCAGACATCTGTTCTCTTATCACA | 57.159 | 37.500 | 8.70 | 0.00 | 44.12 | 3.58 |
156 | 157 | 6.861144 | TCAGACATCTGTTCTCTTATCACAG | 58.139 | 40.000 | 8.70 | 0.00 | 44.12 | 3.66 |
157 | 158 | 6.435591 | TCAGACATCTGTTCTCTTATCACAGT | 59.564 | 38.462 | 8.70 | 0.00 | 44.12 | 3.55 |
158 | 159 | 7.611855 | TCAGACATCTGTTCTCTTATCACAGTA | 59.388 | 37.037 | 8.70 | 0.00 | 44.12 | 2.74 |
159 | 160 | 7.914871 | CAGACATCTGTTCTCTTATCACAGTAG | 59.085 | 40.741 | 0.40 | 0.00 | 39.24 | 2.57 |
160 | 161 | 6.568869 | ACATCTGTTCTCTTATCACAGTAGC | 58.431 | 40.000 | 0.00 | 0.00 | 39.24 | 3.58 |
161 | 162 | 5.584253 | TCTGTTCTCTTATCACAGTAGCC | 57.416 | 43.478 | 0.00 | 0.00 | 39.24 | 3.93 |
162 | 163 | 5.265191 | TCTGTTCTCTTATCACAGTAGCCT | 58.735 | 41.667 | 0.00 | 0.00 | 39.24 | 4.58 |
163 | 164 | 5.717178 | TCTGTTCTCTTATCACAGTAGCCTT | 59.283 | 40.000 | 0.00 | 0.00 | 39.24 | 4.35 |
164 | 165 | 6.211584 | TCTGTTCTCTTATCACAGTAGCCTTT | 59.788 | 38.462 | 0.00 | 0.00 | 39.24 | 3.11 |
165 | 166 | 7.396339 | TCTGTTCTCTTATCACAGTAGCCTTTA | 59.604 | 37.037 | 0.00 | 0.00 | 39.24 | 1.85 |
166 | 167 | 8.079211 | TGTTCTCTTATCACAGTAGCCTTTAT | 57.921 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
167 | 168 | 7.981789 | TGTTCTCTTATCACAGTAGCCTTTATG | 59.018 | 37.037 | 0.00 | 0.00 | 0.00 | 1.90 |
168 | 169 | 7.898014 | TCTCTTATCACAGTAGCCTTTATGA | 57.102 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
169 | 170 | 8.484214 | TCTCTTATCACAGTAGCCTTTATGAT | 57.516 | 34.615 | 0.00 | 0.00 | 0.00 | 2.45 |
170 | 171 | 9.588096 | TCTCTTATCACAGTAGCCTTTATGATA | 57.412 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
178 | 179 | 9.593134 | CACAGTAGCCTTTATGATATTATCTCC | 57.407 | 37.037 | 5.33 | 0.00 | 0.00 | 3.71 |
179 | 180 | 8.763601 | ACAGTAGCCTTTATGATATTATCTCCC | 58.236 | 37.037 | 5.33 | 0.00 | 0.00 | 4.30 |
180 | 181 | 8.762645 | CAGTAGCCTTTATGATATTATCTCCCA | 58.237 | 37.037 | 5.33 | 0.00 | 0.00 | 4.37 |
181 | 182 | 9.338968 | AGTAGCCTTTATGATATTATCTCCCAA | 57.661 | 33.333 | 5.33 | 0.00 | 0.00 | 4.12 |
182 | 183 | 9.384764 | GTAGCCTTTATGATATTATCTCCCAAC | 57.615 | 37.037 | 5.33 | 0.00 | 0.00 | 3.77 |
183 | 184 | 7.406104 | AGCCTTTATGATATTATCTCCCAACC | 58.594 | 38.462 | 5.33 | 0.00 | 0.00 | 3.77 |
184 | 185 | 7.018550 | AGCCTTTATGATATTATCTCCCAACCA | 59.981 | 37.037 | 5.33 | 0.00 | 0.00 | 3.67 |
185 | 186 | 7.669722 | GCCTTTATGATATTATCTCCCAACCAA | 59.330 | 37.037 | 5.33 | 0.00 | 0.00 | 3.67 |
186 | 187 | 9.586732 | CCTTTATGATATTATCTCCCAACCAAA | 57.413 | 33.333 | 5.33 | 0.00 | 0.00 | 3.28 |
188 | 189 | 9.586732 | TTTATGATATTATCTCCCAACCAAAGG | 57.413 | 33.333 | 5.33 | 0.00 | 0.00 | 3.11 |
189 | 190 | 6.840090 | TGATATTATCTCCCAACCAAAGGA | 57.160 | 37.500 | 5.33 | 0.00 | 0.00 | 3.36 |
190 | 191 | 7.406620 | TGATATTATCTCCCAACCAAAGGAT | 57.593 | 36.000 | 5.33 | 0.00 | 0.00 | 3.24 |
191 | 192 | 7.825709 | TGATATTATCTCCCAACCAAAGGATT | 58.174 | 34.615 | 5.33 | 0.00 | 0.00 | 3.01 |
192 | 193 | 8.288812 | TGATATTATCTCCCAACCAAAGGATTT | 58.711 | 33.333 | 5.33 | 0.00 | 40.26 | 2.17 |
193 | 194 | 9.807921 | GATATTATCTCCCAACCAAAGGATTTA | 57.192 | 33.333 | 0.00 | 0.00 | 35.03 | 1.40 |
202 | 203 | 9.802039 | TCCCAACCAAAGGATTTATATATACAC | 57.198 | 33.333 | 0.00 | 0.00 | 35.03 | 2.90 |
203 | 204 | 9.581289 | CCCAACCAAAGGATTTATATATACACA | 57.419 | 33.333 | 0.00 | 0.00 | 35.03 | 3.72 |
245 | 246 | 8.492415 | AGTTTATAGTATTATGCTCCACTGGA | 57.508 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
246 | 247 | 8.934697 | AGTTTATAGTATTATGCTCCACTGGAA | 58.065 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
247 | 248 | 9.726438 | GTTTATAGTATTATGCTCCACTGGAAT | 57.274 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
251 | 252 | 7.805083 | AGTATTATGCTCCACTGGAATATCT | 57.195 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
252 | 253 | 7.619050 | AGTATTATGCTCCACTGGAATATCTG | 58.381 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
253 | 254 | 3.784511 | ATGCTCCACTGGAATATCTGG | 57.215 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
254 | 255 | 1.141657 | TGCTCCACTGGAATATCTGGC | 59.858 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
255 | 256 | 1.419387 | GCTCCACTGGAATATCTGGCT | 59.581 | 52.381 | 0.00 | 0.00 | 0.00 | 4.75 |
256 | 257 | 2.549778 | GCTCCACTGGAATATCTGGCTC | 60.550 | 54.545 | 0.00 | 0.00 | 0.00 | 4.70 |
257 | 258 | 2.702478 | CTCCACTGGAATATCTGGCTCA | 59.298 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
258 | 259 | 3.321039 | TCCACTGGAATATCTGGCTCAT | 58.679 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
259 | 260 | 3.326006 | TCCACTGGAATATCTGGCTCATC | 59.674 | 47.826 | 0.00 | 0.00 | 0.00 | 2.92 |
260 | 261 | 3.327172 | CCACTGGAATATCTGGCTCATCT | 59.673 | 47.826 | 0.00 | 0.00 | 0.00 | 2.90 |
261 | 262 | 4.316645 | CACTGGAATATCTGGCTCATCTG | 58.683 | 47.826 | 0.00 | 0.00 | 0.00 | 2.90 |
262 | 263 | 4.040095 | CACTGGAATATCTGGCTCATCTGA | 59.960 | 45.833 | 0.00 | 0.00 | 0.00 | 3.27 |
263 | 264 | 4.657504 | ACTGGAATATCTGGCTCATCTGAA | 59.342 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
264 | 265 | 5.310068 | ACTGGAATATCTGGCTCATCTGAAT | 59.690 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
265 | 266 | 6.183361 | ACTGGAATATCTGGCTCATCTGAATT | 60.183 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
266 | 267 | 6.236409 | TGGAATATCTGGCTCATCTGAATTC | 58.764 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
267 | 268 | 5.647225 | GGAATATCTGGCTCATCTGAATTCC | 59.353 | 44.000 | 2.27 | 0.00 | 34.78 | 3.01 |
268 | 269 | 5.837770 | ATATCTGGCTCATCTGAATTCCA | 57.162 | 39.130 | 2.27 | 0.00 | 0.00 | 3.53 |
269 | 270 | 4.726035 | ATCTGGCTCATCTGAATTCCAT | 57.274 | 40.909 | 2.27 | 0.00 | 0.00 | 3.41 |
270 | 271 | 4.515028 | TCTGGCTCATCTGAATTCCATT | 57.485 | 40.909 | 2.27 | 0.00 | 0.00 | 3.16 |
271 | 272 | 4.458397 | TCTGGCTCATCTGAATTCCATTC | 58.542 | 43.478 | 2.27 | 0.00 | 39.70 | 2.67 |
272 | 273 | 4.165565 | TCTGGCTCATCTGAATTCCATTCT | 59.834 | 41.667 | 2.27 | 0.00 | 39.96 | 2.40 |
273 | 274 | 4.204799 | TGGCTCATCTGAATTCCATTCTG | 58.795 | 43.478 | 2.27 | 0.00 | 39.96 | 3.02 |
274 | 275 | 3.004524 | GGCTCATCTGAATTCCATTCTGC | 59.995 | 47.826 | 2.27 | 1.39 | 39.96 | 4.26 |
275 | 276 | 3.630769 | GCTCATCTGAATTCCATTCTGCA | 59.369 | 43.478 | 2.27 | 0.00 | 39.96 | 4.41 |
276 | 277 | 4.278669 | GCTCATCTGAATTCCATTCTGCAT | 59.721 | 41.667 | 2.27 | 0.00 | 39.96 | 3.96 |
277 | 278 | 5.563085 | GCTCATCTGAATTCCATTCTGCATC | 60.563 | 44.000 | 2.27 | 0.00 | 39.96 | 3.91 |
278 | 279 | 5.691896 | TCATCTGAATTCCATTCTGCATCT | 58.308 | 37.500 | 2.27 | 0.00 | 39.96 | 2.90 |
279 | 280 | 6.834107 | TCATCTGAATTCCATTCTGCATCTA | 58.166 | 36.000 | 2.27 | 0.00 | 39.96 | 1.98 |
280 | 281 | 7.459234 | TCATCTGAATTCCATTCTGCATCTAT | 58.541 | 34.615 | 2.27 | 0.00 | 39.96 | 1.98 |
1872 | 2093 | 5.621555 | GCACTCTTCGTCAGGTACATCTTTA | 60.622 | 44.000 | 0.00 | 0.00 | 0.00 | 1.85 |
2161 | 2388 | 1.379642 | GGATCGTCGTACGGGGACTT | 61.380 | 60.000 | 16.52 | 0.00 | 42.81 | 3.01 |
2450 | 2677 | 5.370880 | AGCAGATACAACTTCCATATCCCTT | 59.629 | 40.000 | 0.00 | 0.00 | 0.00 | 3.95 |
3139 | 3366 | 6.603599 | TCGAAGACTGAGAATCTCCAAAGATA | 59.396 | 38.462 | 7.91 | 0.00 | 41.54 | 1.98 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
4 | 5 | 5.610398 | TGAGGCAGATTCGCATAAATAAGA | 58.390 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
5 | 6 | 5.468072 | ACTGAGGCAGATTCGCATAAATAAG | 59.532 | 40.000 | 0.82 | 0.00 | 35.18 | 1.73 |
6 | 7 | 5.237127 | CACTGAGGCAGATTCGCATAAATAA | 59.763 | 40.000 | 0.82 | 0.00 | 35.18 | 1.40 |
8 | 9 | 3.562973 | CACTGAGGCAGATTCGCATAAAT | 59.437 | 43.478 | 0.82 | 0.00 | 35.18 | 1.40 |
9 | 10 | 2.938451 | CACTGAGGCAGATTCGCATAAA | 59.062 | 45.455 | 0.82 | 0.00 | 35.18 | 1.40 |
10 | 11 | 2.093500 | ACACTGAGGCAGATTCGCATAA | 60.093 | 45.455 | 0.82 | 0.00 | 35.18 | 1.90 |
11 | 12 | 1.482182 | ACACTGAGGCAGATTCGCATA | 59.518 | 47.619 | 0.82 | 0.00 | 35.18 | 3.14 |
12 | 13 | 0.251354 | ACACTGAGGCAGATTCGCAT | 59.749 | 50.000 | 0.82 | 0.00 | 35.18 | 4.73 |
13 | 14 | 0.390340 | GACACTGAGGCAGATTCGCA | 60.390 | 55.000 | 0.82 | 0.00 | 35.18 | 5.10 |
14 | 15 | 0.108424 | AGACACTGAGGCAGATTCGC | 60.108 | 55.000 | 0.82 | 0.00 | 35.18 | 4.70 |
15 | 16 | 1.638133 | CAGACACTGAGGCAGATTCG | 58.362 | 55.000 | 0.82 | 0.00 | 35.18 | 3.34 |
16 | 17 | 1.338484 | TGCAGACACTGAGGCAGATTC | 60.338 | 52.381 | 0.82 | 0.00 | 35.18 | 2.52 |
17 | 18 | 0.689055 | TGCAGACACTGAGGCAGATT | 59.311 | 50.000 | 0.82 | 0.00 | 35.18 | 2.40 |
18 | 19 | 0.910338 | ATGCAGACACTGAGGCAGAT | 59.090 | 50.000 | 0.82 | 0.00 | 39.95 | 2.90 |
19 | 20 | 0.689055 | AATGCAGACACTGAGGCAGA | 59.311 | 50.000 | 0.82 | 0.00 | 39.95 | 4.26 |
20 | 21 | 0.803117 | CAATGCAGACACTGAGGCAG | 59.197 | 55.000 | 2.81 | 0.00 | 39.95 | 4.85 |
21 | 22 | 0.109153 | ACAATGCAGACACTGAGGCA | 59.891 | 50.000 | 2.81 | 0.00 | 41.00 | 4.75 |
22 | 23 | 0.520404 | CACAATGCAGACACTGAGGC | 59.480 | 55.000 | 2.81 | 0.00 | 32.44 | 4.70 |
23 | 24 | 1.888215 | ACACAATGCAGACACTGAGG | 58.112 | 50.000 | 2.81 | 0.00 | 32.44 | 3.86 |
24 | 25 | 6.915544 | ATTATACACAATGCAGACACTGAG | 57.084 | 37.500 | 2.81 | 0.00 | 32.44 | 3.35 |
25 | 26 | 8.962884 | ATAATTATACACAATGCAGACACTGA | 57.037 | 30.769 | 0.00 | 0.00 | 32.44 | 3.41 |
43 | 44 | 9.902684 | CCTGGCAGAGAATCAGATAATAATTAT | 57.097 | 33.333 | 17.94 | 0.00 | 37.82 | 1.28 |
44 | 45 | 9.104713 | TCCTGGCAGAGAATCAGATAATAATTA | 57.895 | 33.333 | 17.94 | 0.00 | 37.82 | 1.40 |
45 | 46 | 7.982252 | TCCTGGCAGAGAATCAGATAATAATT | 58.018 | 34.615 | 17.94 | 0.00 | 37.82 | 1.40 |
46 | 47 | 7.565190 | TCCTGGCAGAGAATCAGATAATAAT | 57.435 | 36.000 | 17.94 | 0.00 | 37.82 | 1.28 |
47 | 48 | 7.236225 | TCATCCTGGCAGAGAATCAGATAATAA | 59.764 | 37.037 | 17.94 | 0.00 | 37.82 | 1.40 |
48 | 49 | 6.727697 | TCATCCTGGCAGAGAATCAGATAATA | 59.272 | 38.462 | 17.94 | 0.00 | 37.82 | 0.98 |
49 | 50 | 5.546887 | TCATCCTGGCAGAGAATCAGATAAT | 59.453 | 40.000 | 17.94 | 0.00 | 37.82 | 1.28 |
50 | 51 | 4.903649 | TCATCCTGGCAGAGAATCAGATAA | 59.096 | 41.667 | 17.94 | 0.00 | 37.82 | 1.75 |
51 | 52 | 4.486839 | TCATCCTGGCAGAGAATCAGATA | 58.513 | 43.478 | 17.94 | 0.00 | 37.82 | 1.98 |
52 | 53 | 3.315596 | TCATCCTGGCAGAGAATCAGAT | 58.684 | 45.455 | 17.94 | 5.17 | 37.82 | 2.90 |
53 | 54 | 2.699321 | CTCATCCTGGCAGAGAATCAGA | 59.301 | 50.000 | 17.94 | 2.63 | 37.82 | 3.27 |
54 | 55 | 2.435069 | ACTCATCCTGGCAGAGAATCAG | 59.565 | 50.000 | 17.94 | 5.01 | 37.82 | 2.90 |
55 | 56 | 2.475155 | ACTCATCCTGGCAGAGAATCA | 58.525 | 47.619 | 17.94 | 0.00 | 37.82 | 2.57 |
56 | 57 | 3.204526 | CAACTCATCCTGGCAGAGAATC | 58.795 | 50.000 | 17.94 | 0.00 | 33.69 | 2.52 |
57 | 58 | 2.683152 | GCAACTCATCCTGGCAGAGAAT | 60.683 | 50.000 | 17.94 | 3.54 | 33.69 | 2.40 |
58 | 59 | 1.339438 | GCAACTCATCCTGGCAGAGAA | 60.339 | 52.381 | 17.94 | 0.89 | 33.69 | 2.87 |
59 | 60 | 0.251354 | GCAACTCATCCTGGCAGAGA | 59.749 | 55.000 | 17.94 | 12.07 | 33.69 | 3.10 |
60 | 61 | 1.088340 | CGCAACTCATCCTGGCAGAG | 61.088 | 60.000 | 17.94 | 8.07 | 35.56 | 3.35 |
61 | 62 | 1.078918 | CGCAACTCATCCTGGCAGA | 60.079 | 57.895 | 17.94 | 2.24 | 0.00 | 4.26 |
62 | 63 | 1.364626 | GACGCAACTCATCCTGGCAG | 61.365 | 60.000 | 7.75 | 7.75 | 0.00 | 4.85 |
63 | 64 | 1.375908 | GACGCAACTCATCCTGGCA | 60.376 | 57.895 | 0.00 | 0.00 | 0.00 | 4.92 |
64 | 65 | 0.955428 | TTGACGCAACTCATCCTGGC | 60.955 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
65 | 66 | 0.798776 | GTTGACGCAACTCATCCTGG | 59.201 | 55.000 | 13.26 | 0.00 | 40.73 | 4.45 |
66 | 67 | 1.462283 | CTGTTGACGCAACTCATCCTG | 59.538 | 52.381 | 18.81 | 0.00 | 43.85 | 3.86 |
67 | 68 | 1.344438 | TCTGTTGACGCAACTCATCCT | 59.656 | 47.619 | 18.81 | 0.00 | 43.85 | 3.24 |
68 | 69 | 1.795768 | TCTGTTGACGCAACTCATCC | 58.204 | 50.000 | 18.81 | 0.00 | 43.85 | 3.51 |
69 | 70 | 3.494626 | TCTTTCTGTTGACGCAACTCATC | 59.505 | 43.478 | 18.81 | 0.88 | 43.85 | 2.92 |
70 | 71 | 3.466836 | TCTTTCTGTTGACGCAACTCAT | 58.533 | 40.909 | 18.81 | 0.00 | 43.85 | 2.90 |
71 | 72 | 2.899976 | TCTTTCTGTTGACGCAACTCA | 58.100 | 42.857 | 18.81 | 7.01 | 43.85 | 3.41 |
72 | 73 | 3.555956 | TCTTCTTTCTGTTGACGCAACTC | 59.444 | 43.478 | 18.81 | 0.00 | 43.85 | 3.01 |
73 | 74 | 3.531538 | TCTTCTTTCTGTTGACGCAACT | 58.468 | 40.909 | 18.81 | 0.00 | 43.85 | 3.16 |
74 | 75 | 3.303395 | CCTCTTCTTTCTGTTGACGCAAC | 60.303 | 47.826 | 13.54 | 13.54 | 43.78 | 4.17 |
75 | 76 | 2.872245 | CCTCTTCTTTCTGTTGACGCAA | 59.128 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
76 | 77 | 2.102420 | TCCTCTTCTTTCTGTTGACGCA | 59.898 | 45.455 | 0.00 | 0.00 | 0.00 | 5.24 |
77 | 78 | 2.755650 | TCCTCTTCTTTCTGTTGACGC | 58.244 | 47.619 | 0.00 | 0.00 | 0.00 | 5.19 |
78 | 79 | 4.570772 | TGTTTCCTCTTCTTTCTGTTGACG | 59.429 | 41.667 | 0.00 | 0.00 | 0.00 | 4.35 |
79 | 80 | 5.817816 | TCTGTTTCCTCTTCTTTCTGTTGAC | 59.182 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
80 | 81 | 5.989477 | TCTGTTTCCTCTTCTTTCTGTTGA | 58.011 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
81 | 82 | 6.484643 | TCATCTGTTTCCTCTTCTTTCTGTTG | 59.515 | 38.462 | 0.00 | 0.00 | 0.00 | 3.33 |
82 | 83 | 6.595682 | TCATCTGTTTCCTCTTCTTTCTGTT | 58.404 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
83 | 84 | 6.179906 | TCATCTGTTTCCTCTTCTTTCTGT | 57.820 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
84 | 85 | 7.684937 | AATCATCTGTTTCCTCTTCTTTCTG | 57.315 | 36.000 | 0.00 | 0.00 | 0.00 | 3.02 |
85 | 86 | 8.601546 | AGTAATCATCTGTTTCCTCTTCTTTCT | 58.398 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
86 | 87 | 8.663911 | CAGTAATCATCTGTTTCCTCTTCTTTC | 58.336 | 37.037 | 0.00 | 0.00 | 0.00 | 2.62 |
87 | 88 | 7.120432 | GCAGTAATCATCTGTTTCCTCTTCTTT | 59.880 | 37.037 | 0.00 | 0.00 | 35.60 | 2.52 |
88 | 89 | 6.597280 | GCAGTAATCATCTGTTTCCTCTTCTT | 59.403 | 38.462 | 0.00 | 0.00 | 35.60 | 2.52 |
89 | 90 | 6.070309 | AGCAGTAATCATCTGTTTCCTCTTCT | 60.070 | 38.462 | 0.00 | 0.00 | 35.60 | 2.85 |
90 | 91 | 6.112058 | AGCAGTAATCATCTGTTTCCTCTTC | 58.888 | 40.000 | 0.00 | 0.00 | 35.60 | 2.87 |
91 | 92 | 6.059787 | AGCAGTAATCATCTGTTTCCTCTT | 57.940 | 37.500 | 0.00 | 0.00 | 35.60 | 2.85 |
92 | 93 | 5.424895 | AGAGCAGTAATCATCTGTTTCCTCT | 59.575 | 40.000 | 0.00 | 0.00 | 35.60 | 3.69 |
93 | 94 | 5.669477 | AGAGCAGTAATCATCTGTTTCCTC | 58.331 | 41.667 | 0.00 | 0.00 | 35.60 | 3.71 |
94 | 95 | 5.188555 | TGAGAGCAGTAATCATCTGTTTCCT | 59.811 | 40.000 | 0.00 | 0.00 | 35.60 | 3.36 |
95 | 96 | 5.423015 | TGAGAGCAGTAATCATCTGTTTCC | 58.577 | 41.667 | 0.00 | 0.00 | 35.60 | 3.13 |
96 | 97 | 5.523188 | CCTGAGAGCAGTAATCATCTGTTTC | 59.477 | 44.000 | 0.00 | 0.00 | 40.63 | 2.78 |
97 | 98 | 5.046014 | ACCTGAGAGCAGTAATCATCTGTTT | 60.046 | 40.000 | 0.00 | 0.00 | 40.63 | 2.83 |
98 | 99 | 4.469227 | ACCTGAGAGCAGTAATCATCTGTT | 59.531 | 41.667 | 0.00 | 0.00 | 40.63 | 3.16 |
99 | 100 | 4.029520 | ACCTGAGAGCAGTAATCATCTGT | 58.970 | 43.478 | 0.00 | 0.00 | 40.63 | 3.41 |
100 | 101 | 4.669206 | ACCTGAGAGCAGTAATCATCTG | 57.331 | 45.455 | 0.00 | 0.00 | 40.63 | 2.90 |
101 | 102 | 6.992664 | AATACCTGAGAGCAGTAATCATCT | 57.007 | 37.500 | 0.00 | 0.00 | 40.63 | 2.90 |
102 | 103 | 9.717942 | AATAAATACCTGAGAGCAGTAATCATC | 57.282 | 33.333 | 0.00 | 0.00 | 40.63 | 2.92 |
103 | 104 | 9.499479 | CAATAAATACCTGAGAGCAGTAATCAT | 57.501 | 33.333 | 0.00 | 0.00 | 40.63 | 2.45 |
104 | 105 | 8.486210 | ACAATAAATACCTGAGAGCAGTAATCA | 58.514 | 33.333 | 0.00 | 0.00 | 40.63 | 2.57 |
105 | 106 | 8.894768 | ACAATAAATACCTGAGAGCAGTAATC | 57.105 | 34.615 | 0.00 | 0.00 | 40.63 | 1.75 |
106 | 107 | 9.686683 | AAACAATAAATACCTGAGAGCAGTAAT | 57.313 | 29.630 | 0.00 | 0.00 | 40.63 | 1.89 |
107 | 108 | 9.162764 | GAAACAATAAATACCTGAGAGCAGTAA | 57.837 | 33.333 | 0.00 | 0.00 | 40.63 | 2.24 |
108 | 109 | 8.318412 | TGAAACAATAAATACCTGAGAGCAGTA | 58.682 | 33.333 | 0.00 | 0.00 | 40.63 | 2.74 |
109 | 110 | 7.168219 | TGAAACAATAAATACCTGAGAGCAGT | 58.832 | 34.615 | 0.00 | 0.00 | 40.63 | 4.40 |
110 | 111 | 7.550551 | TCTGAAACAATAAATACCTGAGAGCAG | 59.449 | 37.037 | 0.00 | 0.00 | 41.93 | 4.24 |
111 | 112 | 7.334421 | GTCTGAAACAATAAATACCTGAGAGCA | 59.666 | 37.037 | 0.00 | 0.00 | 0.00 | 4.26 |
112 | 113 | 7.334421 | TGTCTGAAACAATAAATACCTGAGAGC | 59.666 | 37.037 | 0.00 | 0.00 | 34.03 | 4.09 |
113 | 114 | 8.777865 | TGTCTGAAACAATAAATACCTGAGAG | 57.222 | 34.615 | 0.00 | 0.00 | 34.03 | 3.20 |
114 | 115 | 9.383519 | GATGTCTGAAACAATAAATACCTGAGA | 57.616 | 33.333 | 0.00 | 0.00 | 42.37 | 3.27 |
115 | 116 | 9.388506 | AGATGTCTGAAACAATAAATACCTGAG | 57.611 | 33.333 | 0.00 | 0.00 | 42.37 | 3.35 |
116 | 117 | 9.166173 | CAGATGTCTGAAACAATAAATACCTGA | 57.834 | 33.333 | 3.96 | 0.00 | 46.59 | 3.86 |
117 | 118 | 8.950210 | ACAGATGTCTGAAACAATAAATACCTG | 58.050 | 33.333 | 16.41 | 0.00 | 46.59 | 4.00 |
118 | 119 | 9.520515 | AACAGATGTCTGAAACAATAAATACCT | 57.479 | 29.630 | 16.41 | 0.00 | 46.59 | 3.08 |
119 | 120 | 9.774742 | GAACAGATGTCTGAAACAATAAATACC | 57.225 | 33.333 | 16.41 | 0.00 | 46.59 | 2.73 |
122 | 123 | 9.512588 | AGAGAACAGATGTCTGAAACAATAAAT | 57.487 | 29.630 | 16.41 | 0.00 | 46.59 | 1.40 |
123 | 124 | 8.908786 | AGAGAACAGATGTCTGAAACAATAAA | 57.091 | 30.769 | 16.41 | 0.00 | 46.59 | 1.40 |
124 | 125 | 8.908786 | AAGAGAACAGATGTCTGAAACAATAA | 57.091 | 30.769 | 16.41 | 0.00 | 46.59 | 1.40 |
126 | 127 | 9.160496 | GATAAGAGAACAGATGTCTGAAACAAT | 57.840 | 33.333 | 16.41 | 2.01 | 46.59 | 2.71 |
127 | 128 | 8.150296 | TGATAAGAGAACAGATGTCTGAAACAA | 58.850 | 33.333 | 16.41 | 0.00 | 46.59 | 2.83 |
128 | 129 | 7.600375 | GTGATAAGAGAACAGATGTCTGAAACA | 59.400 | 37.037 | 16.41 | 1.96 | 46.59 | 2.83 |
129 | 130 | 7.600375 | TGTGATAAGAGAACAGATGTCTGAAAC | 59.400 | 37.037 | 16.41 | 7.22 | 46.59 | 2.78 |
130 | 131 | 7.670364 | TGTGATAAGAGAACAGATGTCTGAAA | 58.330 | 34.615 | 16.41 | 0.00 | 46.59 | 2.69 |
131 | 132 | 7.039434 | ACTGTGATAAGAGAACAGATGTCTGAA | 60.039 | 37.037 | 16.41 | 0.00 | 46.59 | 3.02 |
132 | 133 | 6.435591 | ACTGTGATAAGAGAACAGATGTCTGA | 59.564 | 38.462 | 16.41 | 0.00 | 46.59 | 3.27 |
134 | 135 | 6.849085 | ACTGTGATAAGAGAACAGATGTCT | 57.151 | 37.500 | 8.90 | 0.00 | 43.22 | 3.41 |
135 | 136 | 6.695278 | GCTACTGTGATAAGAGAACAGATGTC | 59.305 | 42.308 | 8.90 | 0.00 | 43.22 | 3.06 |
136 | 137 | 6.406400 | GGCTACTGTGATAAGAGAACAGATGT | 60.406 | 42.308 | 8.90 | 0.00 | 43.22 | 3.06 |
137 | 138 | 5.982516 | GGCTACTGTGATAAGAGAACAGATG | 59.017 | 44.000 | 8.90 | 2.82 | 43.22 | 2.90 |
138 | 139 | 5.896678 | AGGCTACTGTGATAAGAGAACAGAT | 59.103 | 40.000 | 8.90 | 0.00 | 43.22 | 2.90 |
139 | 140 | 5.265191 | AGGCTACTGTGATAAGAGAACAGA | 58.735 | 41.667 | 8.90 | 0.00 | 43.22 | 3.41 |
140 | 141 | 5.590530 | AGGCTACTGTGATAAGAGAACAG | 57.409 | 43.478 | 0.67 | 0.67 | 45.46 | 3.16 |
141 | 142 | 6.360370 | AAAGGCTACTGTGATAAGAGAACA | 57.640 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
142 | 143 | 8.198109 | TCATAAAGGCTACTGTGATAAGAGAAC | 58.802 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
143 | 144 | 8.306313 | TCATAAAGGCTACTGTGATAAGAGAA | 57.694 | 34.615 | 0.00 | 0.00 | 0.00 | 2.87 |
144 | 145 | 7.898014 | TCATAAAGGCTACTGTGATAAGAGA | 57.102 | 36.000 | 0.00 | 0.00 | 0.00 | 3.10 |
152 | 153 | 9.593134 | GGAGATAATATCATAAAGGCTACTGTG | 57.407 | 37.037 | 2.84 | 0.00 | 0.00 | 3.66 |
153 | 154 | 8.763601 | GGGAGATAATATCATAAAGGCTACTGT | 58.236 | 37.037 | 2.84 | 0.00 | 0.00 | 3.55 |
154 | 155 | 8.762645 | TGGGAGATAATATCATAAAGGCTACTG | 58.237 | 37.037 | 2.84 | 0.00 | 0.00 | 2.74 |
155 | 156 | 8.917414 | TGGGAGATAATATCATAAAGGCTACT | 57.083 | 34.615 | 2.84 | 0.00 | 0.00 | 2.57 |
156 | 157 | 9.384764 | GTTGGGAGATAATATCATAAAGGCTAC | 57.615 | 37.037 | 2.84 | 0.00 | 0.00 | 3.58 |
157 | 158 | 8.548877 | GGTTGGGAGATAATATCATAAAGGCTA | 58.451 | 37.037 | 2.84 | 0.00 | 0.00 | 3.93 |
158 | 159 | 7.018550 | TGGTTGGGAGATAATATCATAAAGGCT | 59.981 | 37.037 | 2.84 | 0.00 | 0.00 | 4.58 |
159 | 160 | 7.175104 | TGGTTGGGAGATAATATCATAAAGGC | 58.825 | 38.462 | 2.84 | 0.00 | 0.00 | 4.35 |
160 | 161 | 9.586732 | TTTGGTTGGGAGATAATATCATAAAGG | 57.413 | 33.333 | 2.84 | 0.00 | 0.00 | 3.11 |
162 | 163 | 9.586732 | CCTTTGGTTGGGAGATAATATCATAAA | 57.413 | 33.333 | 2.84 | 0.00 | 0.00 | 1.40 |
163 | 164 | 8.954729 | TCCTTTGGTTGGGAGATAATATCATAA | 58.045 | 33.333 | 2.84 | 0.00 | 0.00 | 1.90 |
164 | 165 | 8.518720 | TCCTTTGGTTGGGAGATAATATCATA | 57.481 | 34.615 | 2.84 | 0.00 | 0.00 | 2.15 |
165 | 166 | 7.406620 | TCCTTTGGTTGGGAGATAATATCAT | 57.593 | 36.000 | 2.84 | 0.00 | 0.00 | 2.45 |
166 | 167 | 6.840090 | TCCTTTGGTTGGGAGATAATATCA | 57.160 | 37.500 | 2.84 | 0.00 | 0.00 | 2.15 |
167 | 168 | 8.712228 | AAATCCTTTGGTTGGGAGATAATATC | 57.288 | 34.615 | 0.00 | 0.00 | 34.89 | 1.63 |
176 | 177 | 9.802039 | GTGTATATATAAATCCTTTGGTTGGGA | 57.198 | 33.333 | 0.00 | 0.00 | 35.96 | 4.37 |
177 | 178 | 9.581289 | TGTGTATATATAAATCCTTTGGTTGGG | 57.419 | 33.333 | 0.00 | 0.00 | 0.00 | 4.12 |
219 | 220 | 9.596308 | TCCAGTGGAGCATAATACTATAAACTA | 57.404 | 33.333 | 8.12 | 0.00 | 0.00 | 2.24 |
220 | 221 | 8.492415 | TCCAGTGGAGCATAATACTATAAACT | 57.508 | 34.615 | 8.12 | 0.00 | 0.00 | 2.66 |
221 | 222 | 9.726438 | ATTCCAGTGGAGCATAATACTATAAAC | 57.274 | 33.333 | 12.67 | 0.00 | 31.21 | 2.01 |
225 | 226 | 9.499369 | AGATATTCCAGTGGAGCATAATACTAT | 57.501 | 33.333 | 12.67 | 1.44 | 31.21 | 2.12 |
226 | 227 | 8.753133 | CAGATATTCCAGTGGAGCATAATACTA | 58.247 | 37.037 | 12.67 | 0.00 | 31.21 | 1.82 |
227 | 228 | 7.310921 | CCAGATATTCCAGTGGAGCATAATACT | 60.311 | 40.741 | 12.67 | 7.20 | 31.21 | 2.12 |
228 | 229 | 6.820656 | CCAGATATTCCAGTGGAGCATAATAC | 59.179 | 42.308 | 12.67 | 5.30 | 31.21 | 1.89 |
229 | 230 | 6.577039 | GCCAGATATTCCAGTGGAGCATAATA | 60.577 | 42.308 | 12.67 | 7.44 | 31.21 | 0.98 |
230 | 231 | 5.805751 | GCCAGATATTCCAGTGGAGCATAAT | 60.806 | 44.000 | 12.67 | 5.23 | 31.21 | 1.28 |
231 | 232 | 4.505566 | GCCAGATATTCCAGTGGAGCATAA | 60.506 | 45.833 | 12.67 | 0.00 | 31.21 | 1.90 |
232 | 233 | 3.008375 | GCCAGATATTCCAGTGGAGCATA | 59.992 | 47.826 | 12.67 | 8.94 | 31.21 | 3.14 |
233 | 234 | 2.224719 | GCCAGATATTCCAGTGGAGCAT | 60.225 | 50.000 | 12.67 | 9.52 | 31.21 | 3.79 |
234 | 235 | 1.141657 | GCCAGATATTCCAGTGGAGCA | 59.858 | 52.381 | 12.67 | 4.55 | 31.21 | 4.26 |
235 | 236 | 1.419387 | AGCCAGATATTCCAGTGGAGC | 59.581 | 52.381 | 12.67 | 10.48 | 31.21 | 4.70 |
236 | 237 | 2.702478 | TGAGCCAGATATTCCAGTGGAG | 59.298 | 50.000 | 12.67 | 0.00 | 31.21 | 3.86 |
237 | 238 | 2.763039 | TGAGCCAGATATTCCAGTGGA | 58.237 | 47.619 | 8.12 | 8.12 | 31.04 | 4.02 |
238 | 239 | 3.327172 | AGATGAGCCAGATATTCCAGTGG | 59.673 | 47.826 | 1.40 | 1.40 | 0.00 | 4.00 |
239 | 240 | 4.040095 | TCAGATGAGCCAGATATTCCAGTG | 59.960 | 45.833 | 0.00 | 0.00 | 0.00 | 3.66 |
240 | 241 | 4.229639 | TCAGATGAGCCAGATATTCCAGT | 58.770 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
241 | 242 | 4.886496 | TCAGATGAGCCAGATATTCCAG | 57.114 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
242 | 243 | 5.837770 | ATTCAGATGAGCCAGATATTCCA | 57.162 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
243 | 244 | 5.647225 | GGAATTCAGATGAGCCAGATATTCC | 59.353 | 44.000 | 7.93 | 0.00 | 33.88 | 3.01 |
244 | 245 | 6.236409 | TGGAATTCAGATGAGCCAGATATTC | 58.764 | 40.000 | 7.93 | 0.00 | 0.00 | 1.75 |
245 | 246 | 6.196918 | TGGAATTCAGATGAGCCAGATATT | 57.803 | 37.500 | 7.93 | 0.00 | 0.00 | 1.28 |
246 | 247 | 5.837770 | TGGAATTCAGATGAGCCAGATAT | 57.162 | 39.130 | 7.93 | 0.00 | 0.00 | 1.63 |
247 | 248 | 5.837770 | ATGGAATTCAGATGAGCCAGATA | 57.162 | 39.130 | 7.93 | 0.00 | 0.00 | 1.98 |
248 | 249 | 4.726035 | ATGGAATTCAGATGAGCCAGAT | 57.274 | 40.909 | 7.93 | 0.00 | 0.00 | 2.90 |
249 | 250 | 4.515028 | AATGGAATTCAGATGAGCCAGA | 57.485 | 40.909 | 7.93 | 0.00 | 0.00 | 3.86 |
261 | 262 | 8.719648 | CTAACAGATAGATGCAGAATGGAATTC | 58.280 | 37.037 | 0.00 | 0.00 | 42.43 | 2.17 |
262 | 263 | 8.435187 | TCTAACAGATAGATGCAGAATGGAATT | 58.565 | 33.333 | 0.00 | 0.00 | 42.43 | 2.17 |
263 | 264 | 7.971201 | TCTAACAGATAGATGCAGAATGGAAT | 58.029 | 34.615 | 0.00 | 0.00 | 42.43 | 3.01 |
264 | 265 | 7.365497 | TCTAACAGATAGATGCAGAATGGAA | 57.635 | 36.000 | 0.00 | 0.00 | 42.43 | 3.53 |
265 | 266 | 6.983906 | TCTAACAGATAGATGCAGAATGGA | 57.016 | 37.500 | 0.00 | 0.00 | 44.23 | 3.41 |
266 | 267 | 6.988580 | TGTTCTAACAGATAGATGCAGAATGG | 59.011 | 38.462 | 0.00 | 0.00 | 40.32 | 3.16 |
1872 | 2093 | 2.243221 | CCCAGAATCAAGAATCCAGGGT | 59.757 | 50.000 | 5.52 | 0.00 | 30.62 | 4.34 |
2450 | 2677 | 7.439381 | AGGTCGTTGAGAAACAGAATTACTAA | 58.561 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
3139 | 3366 | 4.180057 | GAGCGAGACTCATCAAAAGTGAT | 58.820 | 43.478 | 2.82 | 0.00 | 45.80 | 3.06 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.