Multiple sequence alignment - TraesCS7D01G082100
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 | TraesCS7D01G082100 | chr7D | 100.000 | 2822 | 0 | 0 | 1 | 2822 | 49186232 | 49189053 | 0.000000e+00 | 5212.0 |
1 | TraesCS7D01G082100 | chr7D | 97.967 | 1771 | 31 | 4 | 1057 | 2822 | 12160926 | 12159156 | 0.000000e+00 | 3066.0 |
2 | TraesCS7D01G082100 | chr7D | 93.558 | 1009 | 54 | 7 | 1057 | 2060 | 49171418 | 49172420 | 0.000000e+00 | 1493.0 |
3 | TraesCS7D01G082100 | chr7D | 82.423 | 751 | 109 | 21 | 275 | 1018 | 12168925 | 12168191 | 3.970000e-178 | 634.0 |
4 | TraesCS7D01G082100 | chr7D | 91.923 | 260 | 19 | 2 | 761 | 1019 | 49163947 | 49164205 | 2.070000e-96 | 363.0 |
5 | TraesCS7D01G082100 | chr7D | 87.829 | 304 | 14 | 4 | 2071 | 2366 | 49172534 | 49172822 | 4.500000e-88 | 335.0 |
6 | TraesCS7D01G082100 | chr7D | 88.827 | 179 | 19 | 1 | 2642 | 2820 | 16321360 | 16321183 | 4.730000e-53 | 219.0 |
7 | TraesCS7D01G082100 | chr7D | 94.828 | 58 | 3 | 0 | 1013 | 1070 | 49164232 | 49164289 | 1.080000e-14 | 91.6 |
8 | TraesCS7D01G082100 | chrUn | 97.648 | 978 | 21 | 1 | 904 | 1881 | 455117250 | 455118225 | 0.000000e+00 | 1677.0 |
9 | TraesCS7D01G082100 | chrUn | 94.404 | 554 | 25 | 3 | 131 | 678 | 416275390 | 416274837 | 0.000000e+00 | 846.0 |
10 | TraesCS7D01G082100 | chrUn | 96.907 | 485 | 12 | 3 | 1883 | 2366 | 360089781 | 360089299 | 0.000000e+00 | 809.0 |
11 | TraesCS7D01G082100 | chrUn | 96.907 | 485 | 12 | 3 | 1883 | 2366 | 416058833 | 416058351 | 0.000000e+00 | 809.0 |
12 | TraesCS7D01G082100 | chrUn | 94.455 | 523 | 23 | 3 | 162 | 678 | 474454787 | 474455309 | 0.000000e+00 | 800.0 |
13 | TraesCS7D01G082100 | chr4A | 91.862 | 897 | 65 | 3 | 1136 | 2032 | 725878220 | 725879108 | 0.000000e+00 | 1245.0 |
14 | TraesCS7D01G082100 | chr4A | 80.984 | 752 | 77 | 33 | 275 | 1007 | 725872123 | 725872827 | 1.150000e-148 | 536.0 |
15 | TraesCS7D01G082100 | chr4A | 91.089 | 303 | 19 | 2 | 2071 | 2366 | 725880175 | 725880476 | 1.220000e-108 | 403.0 |
16 | TraesCS7D01G082100 | chr4A | 82.135 | 431 | 64 | 10 | 537 | 957 | 726107486 | 726107913 | 9.610000e-95 | 357.0 |
17 | TraesCS7D01G082100 | chr4A | 81.853 | 259 | 33 | 8 | 1964 | 2209 | 726109173 | 726109430 | 3.680000e-49 | 206.0 |
18 | TraesCS7D01G082100 | chr4A | 87.730 | 163 | 18 | 1 | 1768 | 1928 | 726086510 | 726086348 | 3.710000e-44 | 189.0 |
19 | TraesCS7D01G082100 | chr4A | 90.511 | 137 | 13 | 0 | 1007 | 1143 | 725872860 | 725872996 | 6.210000e-42 | 182.0 |
20 | TraesCS7D01G082100 | chr4A | 76.382 | 199 | 41 | 5 | 1516 | 1713 | 703564510 | 703564703 | 4.970000e-18 | 102.0 |
21 | TraesCS7D01G082100 | chr7A | 92.891 | 633 | 45 | 0 | 531 | 1163 | 11452458 | 11451826 | 0.000000e+00 | 920.0 |
22 | TraesCS7D01G082100 | chr7A | 79.832 | 357 | 64 | 7 | 619 | 974 | 11230321 | 11229972 | 1.300000e-63 | 254.0 |
23 | TraesCS7D01G082100 | chr7B | 77.591 | 714 | 146 | 11 | 1013 | 1722 | 750116184 | 750115481 | 1.210000e-113 | 420.0 |
24 | TraesCS7D01G082100 | chr3A | 73.833 | 1093 | 228 | 34 | 649 | 1715 | 730851538 | 730850478 | 5.700000e-102 | 381.0 |
25 | TraesCS7D01G082100 | chr3D | 73.228 | 1016 | 211 | 35 | 649 | 1626 | 602235221 | 602236213 | 2.110000e-81 | 313.0 |
26 | TraesCS7D01G082100 | chr3D | 91.758 | 182 | 11 | 4 | 2639 | 2820 | 458607658 | 458607481 | 1.680000e-62 | 250.0 |
27 | TraesCS7D01G082100 | chr3D | 88.950 | 181 | 14 | 6 | 2642 | 2821 | 1063202 | 1063027 | 4.730000e-53 | 219.0 |
28 | TraesCS7D01G082100 | chr3B | 72.736 | 1016 | 216 | 38 | 649 | 1626 | 809437941 | 809438933 | 4.600000e-73 | 285.0 |
29 | TraesCS7D01G082100 | chr2D | 91.160 | 181 | 13 | 2 | 2640 | 2820 | 637586708 | 637586531 | 2.810000e-60 | 243.0 |
30 | TraesCS7D01G082100 | chr1D | 90.503 | 179 | 13 | 2 | 2642 | 2820 | 9914201 | 9914027 | 1.690000e-57 | 233.0 |
31 | TraesCS7D01G082100 | chr1D | 89.385 | 179 | 15 | 2 | 2642 | 2820 | 10046790 | 10046964 | 3.660000e-54 | 222.0 |
32 | TraesCS7D01G082100 | chr5D | 89.674 | 184 | 16 | 3 | 2638 | 2820 | 434423984 | 434423803 | 6.080000e-57 | 231.0 |
33 | TraesCS7D01G082100 | chr5D | 88.525 | 183 | 18 | 3 | 2639 | 2820 | 324352667 | 324352487 | 4.730000e-53 | 219.0 |
34 | TraesCS7D01G082100 | chr5B | 87.117 | 163 | 19 | 1 | 1768 | 1928 | 672822764 | 672822602 | 1.730000e-42 | 183.0 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS7D01G082100 | chr7D | 49186232 | 49189053 | 2821 | False | 5212.0 | 5212 | 100.0000 | 1 | 2822 | 1 | chr7D.!!$F1 | 2821 |
1 | TraesCS7D01G082100 | chr7D | 12159156 | 12160926 | 1770 | True | 3066.0 | 3066 | 97.9670 | 1057 | 2822 | 1 | chr7D.!!$R1 | 1765 |
2 | TraesCS7D01G082100 | chr7D | 49171418 | 49172822 | 1404 | False | 914.0 | 1493 | 90.6935 | 1057 | 2366 | 2 | chr7D.!!$F3 | 1309 |
3 | TraesCS7D01G082100 | chr7D | 12168191 | 12168925 | 734 | True | 634.0 | 634 | 82.4230 | 275 | 1018 | 1 | chr7D.!!$R2 | 743 |
4 | TraesCS7D01G082100 | chrUn | 455117250 | 455118225 | 975 | False | 1677.0 | 1677 | 97.6480 | 904 | 1881 | 1 | chrUn.!!$F1 | 977 |
5 | TraesCS7D01G082100 | chrUn | 416274837 | 416275390 | 553 | True | 846.0 | 846 | 94.4040 | 131 | 678 | 1 | chrUn.!!$R3 | 547 |
6 | TraesCS7D01G082100 | chrUn | 474454787 | 474455309 | 522 | False | 800.0 | 800 | 94.4550 | 162 | 678 | 1 | chrUn.!!$F2 | 516 |
7 | TraesCS7D01G082100 | chr4A | 725878220 | 725880476 | 2256 | False | 824.0 | 1245 | 91.4755 | 1136 | 2366 | 2 | chr4A.!!$F3 | 1230 |
8 | TraesCS7D01G082100 | chr4A | 725872123 | 725872996 | 873 | False | 359.0 | 536 | 85.7475 | 275 | 1143 | 2 | chr4A.!!$F2 | 868 |
9 | TraesCS7D01G082100 | chr4A | 726107486 | 726109430 | 1944 | False | 281.5 | 357 | 81.9940 | 537 | 2209 | 2 | chr4A.!!$F4 | 1672 |
10 | TraesCS7D01G082100 | chr7A | 11451826 | 11452458 | 632 | True | 920.0 | 920 | 92.8910 | 531 | 1163 | 1 | chr7A.!!$R2 | 632 |
11 | TraesCS7D01G082100 | chr7B | 750115481 | 750116184 | 703 | True | 420.0 | 420 | 77.5910 | 1013 | 1722 | 1 | chr7B.!!$R1 | 709 |
12 | TraesCS7D01G082100 | chr3A | 730850478 | 730851538 | 1060 | True | 381.0 | 381 | 73.8330 | 649 | 1715 | 1 | chr3A.!!$R1 | 1066 |
13 | TraesCS7D01G082100 | chr3D | 602235221 | 602236213 | 992 | False | 313.0 | 313 | 73.2280 | 649 | 1626 | 1 | chr3D.!!$F1 | 977 |
14 | TraesCS7D01G082100 | chr3B | 809437941 | 809438933 | 992 | False | 285.0 | 285 | 72.7360 | 649 | 1626 | 1 | chr3B.!!$F1 | 977 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
90 | 91 | 0.316689 | GCGCGCTACAAAGTTGTTGT | 60.317 | 50.0 | 26.67 | 0.00 | 42.35 | 3.32 | F |
294 | 295 | 0.327576 | ACTCCCCCATGAACCCTAGG | 60.328 | 60.0 | 0.06 | 0.06 | 0.00 | 3.02 | F |
737 | 778 | 0.327924 | TCCTTCCGCCACATCATTGT | 59.672 | 50.0 | 0.00 | 0.00 | 36.15 | 2.71 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1023 | 1124 | 0.741915 | TGATATAGCGACGGTGCACA | 59.258 | 50.000 | 20.43 | 0.00 | 37.31 | 4.57 | R |
1745 | 1887 | 1.129811 | GGTTTGGGAAATCAGCGTACG | 59.870 | 52.381 | 11.84 | 11.84 | 0.00 | 3.67 | R |
2465 | 3925 | 3.118408 | ACCTAATTATCCTGACGCTGCAA | 60.118 | 43.478 | 0.00 | 0.00 | 0.00 | 4.08 | 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 |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 8.443953 | ACTGATAAAAGTTCTAAGATGCATCC | 57.556 | 34.615 | 23.06 | 6.67 | 0.00 | 3.51 |
26 | 27 | 8.049117 | ACTGATAAAAGTTCTAAGATGCATCCA | 58.951 | 33.333 | 23.06 | 10.54 | 0.00 | 3.41 |
27 | 28 | 8.806429 | TGATAAAAGTTCTAAGATGCATCCAA | 57.194 | 30.769 | 23.06 | 10.52 | 0.00 | 3.53 |
28 | 29 | 8.677300 | TGATAAAAGTTCTAAGATGCATCCAAC | 58.323 | 33.333 | 23.06 | 18.53 | 0.00 | 3.77 |
29 | 30 | 6.899393 | AAAAGTTCTAAGATGCATCCAACA | 57.101 | 33.333 | 23.06 | 5.13 | 0.00 | 3.33 |
30 | 31 | 6.899393 | AAAGTTCTAAGATGCATCCAACAA | 57.101 | 33.333 | 23.06 | 8.67 | 0.00 | 2.83 |
31 | 32 | 6.506500 | AAGTTCTAAGATGCATCCAACAAG | 57.493 | 37.500 | 23.06 | 12.83 | 0.00 | 3.16 |
32 | 33 | 4.946157 | AGTTCTAAGATGCATCCAACAAGG | 59.054 | 41.667 | 23.06 | 7.01 | 39.47 | 3.61 |
47 | 48 | 7.475137 | TCCAACAAGGAGAAAAGAAAGAAAA | 57.525 | 32.000 | 0.00 | 0.00 | 43.07 | 2.29 |
48 | 49 | 7.902087 | TCCAACAAGGAGAAAAGAAAGAAAAA | 58.098 | 30.769 | 0.00 | 0.00 | 43.07 | 1.94 |
49 | 50 | 8.539544 | TCCAACAAGGAGAAAAGAAAGAAAAAT | 58.460 | 29.630 | 0.00 | 0.00 | 43.07 | 1.82 |
50 | 51 | 8.606602 | CCAACAAGGAGAAAAGAAAGAAAAATG | 58.393 | 33.333 | 0.00 | 0.00 | 41.22 | 2.32 |
51 | 52 | 9.154847 | CAACAAGGAGAAAAGAAAGAAAAATGT | 57.845 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
52 | 53 | 8.932945 | ACAAGGAGAAAAGAAAGAAAAATGTC | 57.067 | 30.769 | 0.00 | 0.00 | 0.00 | 3.06 |
53 | 54 | 8.531146 | ACAAGGAGAAAAGAAAGAAAAATGTCA | 58.469 | 29.630 | 0.00 | 0.00 | 0.00 | 3.58 |
54 | 55 | 9.028185 | CAAGGAGAAAAGAAAGAAAAATGTCAG | 57.972 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
55 | 56 | 8.525290 | AGGAGAAAAGAAAGAAAAATGTCAGA | 57.475 | 30.769 | 0.00 | 0.00 | 0.00 | 3.27 |
56 | 57 | 8.409371 | AGGAGAAAAGAAAGAAAAATGTCAGAC | 58.591 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
57 | 58 | 7.377131 | GGAGAAAAGAAAGAAAAATGTCAGACG | 59.623 | 37.037 | 0.00 | 0.00 | 0.00 | 4.18 |
58 | 59 | 7.985476 | AGAAAAGAAAGAAAAATGTCAGACGA | 58.015 | 30.769 | 0.00 | 0.00 | 0.00 | 4.20 |
59 | 60 | 8.624776 | AGAAAAGAAAGAAAAATGTCAGACGAT | 58.375 | 29.630 | 0.00 | 0.00 | 0.00 | 3.73 |
60 | 61 | 9.237846 | GAAAAGAAAGAAAAATGTCAGACGATT | 57.762 | 29.630 | 0.00 | 0.00 | 0.00 | 3.34 |
61 | 62 | 8.566008 | AAAGAAAGAAAAATGTCAGACGATTG | 57.434 | 30.769 | 0.00 | 0.00 | 0.00 | 2.67 |
62 | 63 | 7.264373 | AGAAAGAAAAATGTCAGACGATTGT | 57.736 | 32.000 | 0.00 | 0.00 | 0.00 | 2.71 |
63 | 64 | 7.707104 | AGAAAGAAAAATGTCAGACGATTGTT | 58.293 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
64 | 65 | 7.645340 | AGAAAGAAAAATGTCAGACGATTGTTG | 59.355 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
65 | 66 | 6.377327 | AGAAAAATGTCAGACGATTGTTGT | 57.623 | 33.333 | 0.00 | 0.00 | 0.00 | 3.32 |
66 | 67 | 7.490962 | AGAAAAATGTCAGACGATTGTTGTA | 57.509 | 32.000 | 0.00 | 0.00 | 0.00 | 2.41 |
67 | 68 | 7.576236 | AGAAAAATGTCAGACGATTGTTGTAG | 58.424 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
68 | 69 | 6.861065 | AAAATGTCAGACGATTGTTGTAGT | 57.139 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
69 | 70 | 6.467723 | AAATGTCAGACGATTGTTGTAGTC | 57.532 | 37.500 | 0.00 | 0.00 | 0.00 | 2.59 |
70 | 71 | 3.561503 | TGTCAGACGATTGTTGTAGTCG | 58.438 | 45.455 | 0.00 | 0.00 | 43.33 | 4.18 |
71 | 72 | 2.915463 | GTCAGACGATTGTTGTAGTCGG | 59.085 | 50.000 | 0.00 | 0.00 | 42.17 | 4.79 |
72 | 73 | 1.654105 | CAGACGATTGTTGTAGTCGGC | 59.346 | 52.381 | 0.00 | 0.00 | 45.99 | 5.54 |
73 | 74 | 0.638746 | GACGATTGTTGTAGTCGGCG | 59.361 | 55.000 | 0.00 | 0.00 | 42.17 | 6.46 |
74 | 75 | 1.343821 | CGATTGTTGTAGTCGGCGC | 59.656 | 57.895 | 0.00 | 0.00 | 35.18 | 6.53 |
75 | 76 | 1.343821 | GATTGTTGTAGTCGGCGCG | 59.656 | 57.895 | 0.00 | 0.00 | 0.00 | 6.86 |
76 | 77 | 2.612335 | GATTGTTGTAGTCGGCGCGC | 62.612 | 60.000 | 25.94 | 25.94 | 0.00 | 6.86 |
77 | 78 | 3.851845 | TTGTTGTAGTCGGCGCGCT | 62.852 | 57.895 | 32.29 | 14.07 | 0.00 | 5.92 |
78 | 79 | 2.202518 | GTTGTAGTCGGCGCGCTA | 60.203 | 61.111 | 32.29 | 17.14 | 0.00 | 4.26 |
79 | 80 | 2.202518 | TTGTAGTCGGCGCGCTAC | 60.203 | 61.111 | 32.29 | 27.19 | 37.17 | 3.58 |
80 | 81 | 2.980378 | TTGTAGTCGGCGCGCTACA | 61.980 | 57.895 | 32.29 | 26.55 | 41.03 | 2.74 |
81 | 82 | 2.202518 | GTAGTCGGCGCGCTACAA | 60.203 | 61.111 | 32.29 | 11.14 | 36.90 | 2.41 |
82 | 83 | 1.802715 | GTAGTCGGCGCGCTACAAA | 60.803 | 57.895 | 32.29 | 17.51 | 36.90 | 2.83 |
83 | 84 | 1.515519 | TAGTCGGCGCGCTACAAAG | 60.516 | 57.895 | 32.29 | 14.97 | 0.00 | 2.77 |
84 | 85 | 2.203972 | TAGTCGGCGCGCTACAAAGT | 62.204 | 55.000 | 32.29 | 16.09 | 0.00 | 2.66 |
85 | 86 | 2.356553 | TCGGCGCGCTACAAAGTT | 60.357 | 55.556 | 32.29 | 0.00 | 0.00 | 2.66 |
86 | 87 | 2.202171 | CGGCGCGCTACAAAGTTG | 60.202 | 61.111 | 32.29 | 5.80 | 0.00 | 3.16 |
87 | 88 | 2.943653 | GGCGCGCTACAAAGTTGT | 59.056 | 55.556 | 32.29 | 1.75 | 44.86 | 3.32 |
88 | 89 | 1.281656 | GGCGCGCTACAAAGTTGTT | 59.718 | 52.632 | 32.29 | 0.00 | 42.35 | 2.83 |
89 | 90 | 0.996727 | GGCGCGCTACAAAGTTGTTG | 60.997 | 55.000 | 32.29 | 1.63 | 42.35 | 3.33 |
90 | 91 | 0.316689 | GCGCGCTACAAAGTTGTTGT | 60.317 | 50.000 | 26.67 | 0.00 | 42.35 | 3.32 |
91 | 92 | 1.858399 | GCGCGCTACAAAGTTGTTGTT | 60.858 | 47.619 | 26.67 | 0.00 | 42.35 | 2.83 |
92 | 93 | 2.034076 | CGCGCTACAAAGTTGTTGTTC | 58.966 | 47.619 | 5.56 | 0.00 | 42.35 | 3.18 |
93 | 94 | 2.537931 | CGCGCTACAAAGTTGTTGTTCA | 60.538 | 45.455 | 5.56 | 0.00 | 42.35 | 3.18 |
94 | 95 | 3.628017 | GCGCTACAAAGTTGTTGTTCAT | 58.372 | 40.909 | 0.00 | 0.00 | 42.35 | 2.57 |
95 | 96 | 3.421888 | GCGCTACAAAGTTGTTGTTCATG | 59.578 | 43.478 | 0.00 | 0.00 | 42.35 | 3.07 |
96 | 97 | 3.974401 | CGCTACAAAGTTGTTGTTCATGG | 59.026 | 43.478 | 1.35 | 0.00 | 42.35 | 3.66 |
97 | 98 | 4.260990 | CGCTACAAAGTTGTTGTTCATGGA | 60.261 | 41.667 | 1.35 | 0.00 | 42.35 | 3.41 |
98 | 99 | 5.587289 | GCTACAAAGTTGTTGTTCATGGAA | 58.413 | 37.500 | 1.35 | 0.00 | 42.35 | 3.53 |
99 | 100 | 6.039616 | GCTACAAAGTTGTTGTTCATGGAAA | 58.960 | 36.000 | 1.35 | 0.00 | 42.35 | 3.13 |
100 | 101 | 6.701400 | GCTACAAAGTTGTTGTTCATGGAAAT | 59.299 | 34.615 | 1.35 | 0.00 | 42.35 | 2.17 |
101 | 102 | 7.096065 | GCTACAAAGTTGTTGTTCATGGAAATC | 60.096 | 37.037 | 1.35 | 0.00 | 42.35 | 2.17 |
102 | 103 | 6.638610 | ACAAAGTTGTTGTTCATGGAAATCA | 58.361 | 32.000 | 0.00 | 0.00 | 38.47 | 2.57 |
103 | 104 | 6.757947 | ACAAAGTTGTTGTTCATGGAAATCAG | 59.242 | 34.615 | 0.00 | 0.00 | 38.47 | 2.90 |
104 | 105 | 6.713762 | AAGTTGTTGTTCATGGAAATCAGA | 57.286 | 33.333 | 0.00 | 0.00 | 0.00 | 3.27 |
105 | 106 | 6.713762 | AGTTGTTGTTCATGGAAATCAGAA | 57.286 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
106 | 107 | 6.507023 | AGTTGTTGTTCATGGAAATCAGAAC | 58.493 | 36.000 | 0.00 | 0.00 | 40.45 | 3.01 |
107 | 108 | 6.322201 | AGTTGTTGTTCATGGAAATCAGAACT | 59.678 | 34.615 | 0.00 | 0.00 | 40.62 | 3.01 |
108 | 109 | 6.075762 | TGTTGTTCATGGAAATCAGAACTG | 57.924 | 37.500 | 0.00 | 0.00 | 40.62 | 3.16 |
109 | 110 | 4.771590 | TGTTCATGGAAATCAGAACTGC | 57.228 | 40.909 | 0.00 | 0.00 | 40.62 | 4.40 |
110 | 111 | 4.401022 | TGTTCATGGAAATCAGAACTGCT | 58.599 | 39.130 | 0.00 | 0.00 | 40.62 | 4.24 |
111 | 112 | 4.828939 | TGTTCATGGAAATCAGAACTGCTT | 59.171 | 37.500 | 0.00 | 0.00 | 40.62 | 3.91 |
112 | 113 | 5.302568 | TGTTCATGGAAATCAGAACTGCTTT | 59.697 | 36.000 | 3.79 | 3.79 | 40.62 | 3.51 |
113 | 114 | 5.381174 | TCATGGAAATCAGAACTGCTTTG | 57.619 | 39.130 | 8.09 | 0.00 | 30.17 | 2.77 |
114 | 115 | 3.648339 | TGGAAATCAGAACTGCTTTGC | 57.352 | 42.857 | 12.97 | 12.97 | 37.48 | 3.68 |
115 | 116 | 2.957680 | TGGAAATCAGAACTGCTTTGCA | 59.042 | 40.909 | 16.70 | 16.70 | 42.00 | 4.08 |
116 | 117 | 3.575256 | TGGAAATCAGAACTGCTTTGCAT | 59.425 | 39.130 | 16.70 | 0.00 | 40.35 | 3.96 |
117 | 118 | 3.924686 | GGAAATCAGAACTGCTTTGCATG | 59.075 | 43.478 | 14.30 | 0.00 | 37.12 | 4.06 |
118 | 119 | 2.649331 | ATCAGAACTGCTTTGCATGC | 57.351 | 45.000 | 11.82 | 11.82 | 38.13 | 4.06 |
119 | 120 | 1.320507 | TCAGAACTGCTTTGCATGCA | 58.679 | 45.000 | 18.46 | 18.46 | 38.13 | 3.96 |
120 | 121 | 1.890489 | TCAGAACTGCTTTGCATGCAT | 59.110 | 42.857 | 23.37 | 3.89 | 38.13 | 3.96 |
121 | 122 | 3.083293 | TCAGAACTGCTTTGCATGCATA | 58.917 | 40.909 | 23.37 | 16.39 | 38.13 | 3.14 |
122 | 123 | 3.128068 | TCAGAACTGCTTTGCATGCATAG | 59.872 | 43.478 | 27.72 | 27.72 | 38.13 | 2.23 |
123 | 124 | 3.128068 | CAGAACTGCTTTGCATGCATAGA | 59.872 | 43.478 | 33.67 | 20.41 | 38.13 | 1.98 |
124 | 125 | 3.952323 | AGAACTGCTTTGCATGCATAGAT | 59.048 | 39.130 | 33.67 | 19.05 | 38.13 | 1.98 |
125 | 126 | 3.984508 | ACTGCTTTGCATGCATAGATC | 57.015 | 42.857 | 33.67 | 20.71 | 38.13 | 2.75 |
126 | 127 | 2.621998 | ACTGCTTTGCATGCATAGATCC | 59.378 | 45.455 | 33.67 | 20.12 | 38.13 | 3.36 |
127 | 128 | 1.958579 | TGCTTTGCATGCATAGATCCC | 59.041 | 47.619 | 33.67 | 19.82 | 35.31 | 3.85 |
128 | 129 | 1.068748 | GCTTTGCATGCATAGATCCCG | 60.069 | 52.381 | 33.67 | 13.73 | 0.00 | 5.14 |
129 | 130 | 2.497138 | CTTTGCATGCATAGATCCCGA | 58.503 | 47.619 | 27.99 | 5.57 | 0.00 | 5.14 |
243 | 244 | 4.844349 | AATATCGTGGGCTAGCCAATAT | 57.156 | 40.909 | 34.09 | 24.25 | 37.98 | 1.28 |
262 | 263 | 5.864418 | ATATTCTGGTAAGGTCAGCGTTA | 57.136 | 39.130 | 0.00 | 0.00 | 32.63 | 3.18 |
294 | 295 | 0.327576 | ACTCCCCCATGAACCCTAGG | 60.328 | 60.000 | 0.06 | 0.06 | 0.00 | 3.02 |
556 | 588 | 2.506438 | CGCCGTTCCCGAGAGAAC | 60.506 | 66.667 | 3.66 | 3.66 | 42.25 | 3.01 |
575 | 607 | 0.679640 | CAAAAGCTCCACGGGCCATA | 60.680 | 55.000 | 4.39 | 0.00 | 0.00 | 2.74 |
699 | 740 | 4.821589 | GCCGAAGACCTCGCCCTG | 62.822 | 72.222 | 0.00 | 0.00 | 46.71 | 4.45 |
728 | 769 | 3.393970 | CTGCCTCTCCTTCCGCCA | 61.394 | 66.667 | 0.00 | 0.00 | 0.00 | 5.69 |
735 | 776 | 0.911769 | TCTCCTTCCGCCACATCATT | 59.088 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
737 | 778 | 0.327924 | TCCTTCCGCCACATCATTGT | 59.672 | 50.000 | 0.00 | 0.00 | 36.15 | 2.71 |
920 | 964 | 3.542676 | CACCGCCGGCCATACCTA | 61.543 | 66.667 | 23.46 | 0.00 | 35.61 | 3.08 |
962 | 1006 | 4.988716 | ACGTGTCCTCCTGGCCGA | 62.989 | 66.667 | 0.00 | 0.00 | 0.00 | 5.54 |
998 | 1042 | 1.816074 | TTTGTTGGTAGACGCATCCC | 58.184 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
1023 | 1124 | 3.515316 | CTTCACGGTGTGCGACCCT | 62.515 | 63.158 | 8.17 | 0.00 | 42.62 | 4.34 |
1117 | 1221 | 3.307059 | CCTCGATGTGGAGACTTTCCTTT | 60.307 | 47.826 | 0.00 | 0.00 | 46.92 | 3.11 |
1281 | 1411 | 4.990426 | GCCACACTTGCTTCATTTGTAAAT | 59.010 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
1745 | 1887 | 0.984995 | AAGCACTTACCTGGAGGACC | 59.015 | 55.000 | 0.00 | 0.00 | 38.94 | 4.46 |
2157 | 3599 | 5.998981 | CAGATAGTTCGTCTACTAGGTCCAT | 59.001 | 44.000 | 0.00 | 0.00 | 34.32 | 3.41 |
2660 | 4122 | 3.728864 | CGAAAATCCAAATCGGTGCTCAG | 60.729 | 47.826 | 0.00 | 0.00 | 35.57 | 3.35 |
2674 | 4136 | 1.067749 | CTCAGGCTCATCTGCTCCG | 59.932 | 63.158 | 0.00 | 0.00 | 34.91 | 4.63 |
2755 | 4218 | 8.744568 | TTATGTGTGGTAGATAATTTGATGCA | 57.255 | 30.769 | 0.00 | 0.00 | 0.00 | 3.96 |
2765 | 4228 | 2.425143 | ATTTGATGCATGAGGTCCGT | 57.575 | 45.000 | 2.46 | 0.00 | 0.00 | 4.69 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 8.049117 | TGGATGCATCTTAGAACTTTTATCAGT | 58.951 | 33.333 | 25.28 | 0.00 | 0.00 | 3.41 |
1 | 2 | 8.442632 | TGGATGCATCTTAGAACTTTTATCAG | 57.557 | 34.615 | 25.28 | 0.00 | 0.00 | 2.90 |
2 | 3 | 8.677300 | GTTGGATGCATCTTAGAACTTTTATCA | 58.323 | 33.333 | 25.28 | 7.45 | 0.00 | 2.15 |
3 | 4 | 8.677300 | TGTTGGATGCATCTTAGAACTTTTATC | 58.323 | 33.333 | 25.28 | 4.91 | 0.00 | 1.75 |
4 | 5 | 8.579850 | TGTTGGATGCATCTTAGAACTTTTAT | 57.420 | 30.769 | 25.28 | 0.00 | 0.00 | 1.40 |
5 | 6 | 7.994425 | TGTTGGATGCATCTTAGAACTTTTA | 57.006 | 32.000 | 25.28 | 6.05 | 0.00 | 1.52 |
6 | 7 | 6.899393 | TGTTGGATGCATCTTAGAACTTTT | 57.101 | 33.333 | 25.28 | 0.00 | 0.00 | 2.27 |
7 | 8 | 6.071728 | CCTTGTTGGATGCATCTTAGAACTTT | 60.072 | 38.462 | 25.28 | 0.00 | 38.35 | 2.66 |
8 | 9 | 5.416952 | CCTTGTTGGATGCATCTTAGAACTT | 59.583 | 40.000 | 25.28 | 0.00 | 38.35 | 2.66 |
9 | 10 | 4.946157 | CCTTGTTGGATGCATCTTAGAACT | 59.054 | 41.667 | 25.28 | 0.00 | 38.35 | 3.01 |
10 | 11 | 4.943705 | TCCTTGTTGGATGCATCTTAGAAC | 59.056 | 41.667 | 25.28 | 20.38 | 40.56 | 3.01 |
11 | 12 | 5.045651 | TCTCCTTGTTGGATGCATCTTAGAA | 60.046 | 40.000 | 25.28 | 16.13 | 45.16 | 2.10 |
12 | 13 | 4.471025 | TCTCCTTGTTGGATGCATCTTAGA | 59.529 | 41.667 | 25.28 | 10.05 | 45.16 | 2.10 |
13 | 14 | 4.774124 | TCTCCTTGTTGGATGCATCTTAG | 58.226 | 43.478 | 25.28 | 14.48 | 45.16 | 2.18 |
14 | 15 | 4.842531 | TCTCCTTGTTGGATGCATCTTA | 57.157 | 40.909 | 25.28 | 12.71 | 45.16 | 2.10 |
15 | 16 | 3.726557 | TCTCCTTGTTGGATGCATCTT | 57.273 | 42.857 | 25.28 | 0.00 | 45.16 | 2.40 |
16 | 17 | 3.726557 | TTCTCCTTGTTGGATGCATCT | 57.273 | 42.857 | 25.28 | 0.00 | 45.16 | 2.90 |
17 | 18 | 4.460382 | TCTTTTCTCCTTGTTGGATGCATC | 59.540 | 41.667 | 18.81 | 18.81 | 45.16 | 3.91 |
18 | 19 | 4.410099 | TCTTTTCTCCTTGTTGGATGCAT | 58.590 | 39.130 | 0.00 | 0.00 | 45.16 | 3.96 |
19 | 20 | 3.831323 | TCTTTTCTCCTTGTTGGATGCA | 58.169 | 40.909 | 0.00 | 0.00 | 45.16 | 3.96 |
20 | 21 | 4.853924 | TTCTTTTCTCCTTGTTGGATGC | 57.146 | 40.909 | 0.00 | 0.00 | 45.16 | 3.91 |
21 | 22 | 6.639632 | TCTTTCTTTTCTCCTTGTTGGATG | 57.360 | 37.500 | 0.00 | 0.00 | 45.16 | 3.51 |
22 | 23 | 7.660030 | TTTCTTTCTTTTCTCCTTGTTGGAT | 57.340 | 32.000 | 0.00 | 0.00 | 45.16 | 3.41 |
23 | 24 | 7.475137 | TTTTCTTTCTTTTCTCCTTGTTGGA | 57.525 | 32.000 | 0.00 | 0.00 | 43.86 | 3.53 |
24 | 25 | 8.606602 | CATTTTTCTTTCTTTTCTCCTTGTTGG | 58.393 | 33.333 | 0.00 | 0.00 | 37.10 | 3.77 |
25 | 26 | 9.154847 | ACATTTTTCTTTCTTTTCTCCTTGTTG | 57.845 | 29.630 | 0.00 | 0.00 | 0.00 | 3.33 |
26 | 27 | 9.371136 | GACATTTTTCTTTCTTTTCTCCTTGTT | 57.629 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
27 | 28 | 8.531146 | TGACATTTTTCTTTCTTTTCTCCTTGT | 58.469 | 29.630 | 0.00 | 0.00 | 0.00 | 3.16 |
28 | 29 | 8.931385 | TGACATTTTTCTTTCTTTTCTCCTTG | 57.069 | 30.769 | 0.00 | 0.00 | 0.00 | 3.61 |
29 | 30 | 8.971073 | TCTGACATTTTTCTTTCTTTTCTCCTT | 58.029 | 29.630 | 0.00 | 0.00 | 0.00 | 3.36 |
30 | 31 | 8.409371 | GTCTGACATTTTTCTTTCTTTTCTCCT | 58.591 | 33.333 | 2.24 | 0.00 | 0.00 | 3.69 |
31 | 32 | 7.377131 | CGTCTGACATTTTTCTTTCTTTTCTCC | 59.623 | 37.037 | 8.73 | 0.00 | 0.00 | 3.71 |
32 | 33 | 8.122952 | TCGTCTGACATTTTTCTTTCTTTTCTC | 58.877 | 33.333 | 8.73 | 0.00 | 0.00 | 2.87 |
33 | 34 | 7.985476 | TCGTCTGACATTTTTCTTTCTTTTCT | 58.015 | 30.769 | 8.73 | 0.00 | 0.00 | 2.52 |
34 | 35 | 8.788409 | ATCGTCTGACATTTTTCTTTCTTTTC | 57.212 | 30.769 | 8.73 | 0.00 | 0.00 | 2.29 |
35 | 36 | 9.023967 | CAATCGTCTGACATTTTTCTTTCTTTT | 57.976 | 29.630 | 8.73 | 0.00 | 0.00 | 2.27 |
36 | 37 | 8.190784 | ACAATCGTCTGACATTTTTCTTTCTTT | 58.809 | 29.630 | 8.73 | 0.00 | 0.00 | 2.52 |
37 | 38 | 7.707104 | ACAATCGTCTGACATTTTTCTTTCTT | 58.293 | 30.769 | 8.73 | 0.00 | 0.00 | 2.52 |
38 | 39 | 7.264373 | ACAATCGTCTGACATTTTTCTTTCT | 57.736 | 32.000 | 8.73 | 0.00 | 0.00 | 2.52 |
39 | 40 | 7.432252 | ACAACAATCGTCTGACATTTTTCTTTC | 59.568 | 33.333 | 8.73 | 0.00 | 0.00 | 2.62 |
40 | 41 | 7.257722 | ACAACAATCGTCTGACATTTTTCTTT | 58.742 | 30.769 | 8.73 | 0.00 | 0.00 | 2.52 |
41 | 42 | 6.795399 | ACAACAATCGTCTGACATTTTTCTT | 58.205 | 32.000 | 8.73 | 0.00 | 0.00 | 2.52 |
42 | 43 | 6.377327 | ACAACAATCGTCTGACATTTTTCT | 57.623 | 33.333 | 8.73 | 0.00 | 0.00 | 2.52 |
43 | 44 | 7.352739 | ACTACAACAATCGTCTGACATTTTTC | 58.647 | 34.615 | 8.73 | 0.00 | 0.00 | 2.29 |
44 | 45 | 7.259290 | ACTACAACAATCGTCTGACATTTTT | 57.741 | 32.000 | 8.73 | 4.14 | 0.00 | 1.94 |
45 | 46 | 6.346598 | CGACTACAACAATCGTCTGACATTTT | 60.347 | 38.462 | 8.73 | 0.00 | 0.00 | 1.82 |
46 | 47 | 5.118664 | CGACTACAACAATCGTCTGACATTT | 59.881 | 40.000 | 8.73 | 0.00 | 0.00 | 2.32 |
47 | 48 | 4.621460 | CGACTACAACAATCGTCTGACATT | 59.379 | 41.667 | 8.73 | 4.42 | 0.00 | 2.71 |
48 | 49 | 4.166523 | CGACTACAACAATCGTCTGACAT | 58.833 | 43.478 | 8.73 | 0.00 | 0.00 | 3.06 |
49 | 50 | 3.561503 | CGACTACAACAATCGTCTGACA | 58.438 | 45.455 | 8.73 | 0.00 | 0.00 | 3.58 |
50 | 51 | 2.915463 | CCGACTACAACAATCGTCTGAC | 59.085 | 50.000 | 0.00 | 0.00 | 34.02 | 3.51 |
51 | 52 | 2.670229 | GCCGACTACAACAATCGTCTGA | 60.670 | 50.000 | 0.00 | 0.00 | 34.02 | 3.27 |
52 | 53 | 1.654105 | GCCGACTACAACAATCGTCTG | 59.346 | 52.381 | 0.00 | 0.00 | 34.02 | 3.51 |
53 | 54 | 1.731424 | CGCCGACTACAACAATCGTCT | 60.731 | 52.381 | 0.00 | 0.00 | 34.02 | 4.18 |
54 | 55 | 0.638746 | CGCCGACTACAACAATCGTC | 59.361 | 55.000 | 0.00 | 0.00 | 34.02 | 4.20 |
55 | 56 | 1.349259 | GCGCCGACTACAACAATCGT | 61.349 | 55.000 | 0.00 | 0.00 | 34.02 | 3.73 |
56 | 57 | 1.343821 | GCGCCGACTACAACAATCG | 59.656 | 57.895 | 0.00 | 0.00 | 35.62 | 3.34 |
57 | 58 | 1.343821 | CGCGCCGACTACAACAATC | 59.656 | 57.895 | 0.00 | 0.00 | 0.00 | 2.67 |
58 | 59 | 2.736682 | GCGCGCCGACTACAACAAT | 61.737 | 57.895 | 23.24 | 0.00 | 0.00 | 2.71 |
59 | 60 | 2.475098 | TAGCGCGCCGACTACAACAA | 62.475 | 55.000 | 30.33 | 0.00 | 0.00 | 2.83 |
60 | 61 | 2.980378 | TAGCGCGCCGACTACAACA | 61.980 | 57.895 | 30.33 | 0.00 | 0.00 | 3.33 |
61 | 62 | 2.202518 | TAGCGCGCCGACTACAAC | 60.203 | 61.111 | 30.33 | 0.00 | 0.00 | 3.32 |
62 | 63 | 2.202518 | GTAGCGCGCCGACTACAA | 60.203 | 61.111 | 30.33 | 0.00 | 36.90 | 2.41 |
63 | 64 | 2.475098 | TTTGTAGCGCGCCGACTACA | 62.475 | 55.000 | 30.33 | 25.56 | 41.03 | 2.74 |
64 | 65 | 1.740043 | CTTTGTAGCGCGCCGACTAC | 61.740 | 60.000 | 30.33 | 23.18 | 37.17 | 2.73 |
65 | 66 | 1.515519 | CTTTGTAGCGCGCCGACTA | 60.516 | 57.895 | 30.33 | 20.01 | 0.00 | 2.59 |
66 | 67 | 2.809601 | CTTTGTAGCGCGCCGACT | 60.810 | 61.111 | 30.33 | 12.34 | 0.00 | 4.18 |
67 | 68 | 2.664436 | AACTTTGTAGCGCGCCGAC | 61.664 | 57.895 | 30.33 | 26.01 | 0.00 | 4.79 |
68 | 69 | 2.356553 | AACTTTGTAGCGCGCCGA | 60.357 | 55.556 | 30.33 | 14.32 | 0.00 | 5.54 |
69 | 70 | 2.202171 | CAACTTTGTAGCGCGCCG | 60.202 | 61.111 | 30.33 | 11.84 | 0.00 | 6.46 |
70 | 71 | 0.996727 | CAACAACTTTGTAGCGCGCC | 60.997 | 55.000 | 30.33 | 14.69 | 41.31 | 6.53 |
71 | 72 | 0.316689 | ACAACAACTTTGTAGCGCGC | 60.317 | 50.000 | 26.66 | 26.66 | 41.31 | 6.86 |
72 | 73 | 2.034076 | GAACAACAACTTTGTAGCGCG | 58.966 | 47.619 | 0.00 | 0.00 | 41.31 | 6.86 |
73 | 74 | 3.059634 | TGAACAACAACTTTGTAGCGC | 57.940 | 42.857 | 0.00 | 0.00 | 41.31 | 5.92 |
74 | 75 | 3.974401 | CCATGAACAACAACTTTGTAGCG | 59.026 | 43.478 | 0.00 | 0.00 | 41.31 | 4.26 |
75 | 76 | 5.181690 | TCCATGAACAACAACTTTGTAGC | 57.818 | 39.130 | 0.00 | 0.00 | 41.31 | 3.58 |
76 | 77 | 7.920151 | TGATTTCCATGAACAACAACTTTGTAG | 59.080 | 33.333 | 0.00 | 0.00 | 41.31 | 2.74 |
77 | 78 | 7.776107 | TGATTTCCATGAACAACAACTTTGTA | 58.224 | 30.769 | 0.00 | 0.00 | 41.31 | 2.41 |
78 | 79 | 6.638610 | TGATTTCCATGAACAACAACTTTGT | 58.361 | 32.000 | 0.00 | 0.00 | 44.72 | 2.83 |
79 | 80 | 6.979817 | TCTGATTTCCATGAACAACAACTTTG | 59.020 | 34.615 | 0.00 | 0.00 | 0.00 | 2.77 |
80 | 81 | 7.111247 | TCTGATTTCCATGAACAACAACTTT | 57.889 | 32.000 | 0.00 | 0.00 | 0.00 | 2.66 |
81 | 82 | 6.713762 | TCTGATTTCCATGAACAACAACTT | 57.286 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
82 | 83 | 6.322201 | AGTTCTGATTTCCATGAACAACAACT | 59.678 | 34.615 | 0.00 | 0.00 | 40.62 | 3.16 |
83 | 84 | 6.418819 | CAGTTCTGATTTCCATGAACAACAAC | 59.581 | 38.462 | 0.00 | 0.00 | 40.62 | 3.32 |
84 | 85 | 6.506147 | CAGTTCTGATTTCCATGAACAACAA | 58.494 | 36.000 | 0.00 | 0.00 | 40.62 | 2.83 |
85 | 86 | 5.507817 | GCAGTTCTGATTTCCATGAACAACA | 60.508 | 40.000 | 3.84 | 0.00 | 40.62 | 3.33 |
86 | 87 | 4.919754 | GCAGTTCTGATTTCCATGAACAAC | 59.080 | 41.667 | 3.84 | 0.00 | 40.62 | 3.32 |
87 | 88 | 4.828939 | AGCAGTTCTGATTTCCATGAACAA | 59.171 | 37.500 | 3.84 | 0.00 | 40.62 | 2.83 |
88 | 89 | 4.401022 | AGCAGTTCTGATTTCCATGAACA | 58.599 | 39.130 | 3.84 | 0.00 | 40.62 | 3.18 |
89 | 90 | 5.382618 | AAGCAGTTCTGATTTCCATGAAC | 57.617 | 39.130 | 3.84 | 0.00 | 39.06 | 3.18 |
90 | 91 | 5.775686 | CAAAGCAGTTCTGATTTCCATGAA | 58.224 | 37.500 | 12.16 | 0.00 | 0.00 | 2.57 |
91 | 92 | 4.321452 | GCAAAGCAGTTCTGATTTCCATGA | 60.321 | 41.667 | 12.16 | 0.00 | 0.00 | 3.07 |
92 | 93 | 3.924686 | GCAAAGCAGTTCTGATTTCCATG | 59.075 | 43.478 | 12.16 | 4.88 | 0.00 | 3.66 |
93 | 94 | 3.575256 | TGCAAAGCAGTTCTGATTTCCAT | 59.425 | 39.130 | 12.16 | 0.00 | 33.32 | 3.41 |
94 | 95 | 2.957680 | TGCAAAGCAGTTCTGATTTCCA | 59.042 | 40.909 | 12.16 | 7.88 | 33.32 | 3.53 |
95 | 96 | 3.648339 | TGCAAAGCAGTTCTGATTTCC | 57.352 | 42.857 | 12.16 | 5.46 | 33.32 | 3.13 |
96 | 97 | 3.367025 | GCATGCAAAGCAGTTCTGATTTC | 59.633 | 43.478 | 14.21 | 8.72 | 43.65 | 2.17 |
97 | 98 | 3.243941 | TGCATGCAAAGCAGTTCTGATTT | 60.244 | 39.130 | 20.30 | 9.75 | 43.65 | 2.17 |
98 | 99 | 2.297880 | TGCATGCAAAGCAGTTCTGATT | 59.702 | 40.909 | 20.30 | 0.44 | 43.65 | 2.57 |
99 | 100 | 1.890489 | TGCATGCAAAGCAGTTCTGAT | 59.110 | 42.857 | 20.30 | 0.00 | 43.65 | 2.90 |
100 | 101 | 1.320507 | TGCATGCAAAGCAGTTCTGA | 58.679 | 45.000 | 20.30 | 0.00 | 43.65 | 3.27 |
101 | 102 | 2.363788 | ATGCATGCAAAGCAGTTCTG | 57.636 | 45.000 | 26.68 | 0.00 | 46.36 | 3.02 |
102 | 103 | 3.349927 | TCTATGCATGCAAAGCAGTTCT | 58.650 | 40.909 | 26.68 | 7.21 | 46.36 | 3.01 |
103 | 104 | 3.770263 | TCTATGCATGCAAAGCAGTTC | 57.230 | 42.857 | 26.68 | 0.00 | 46.36 | 3.01 |
104 | 105 | 3.067742 | GGATCTATGCATGCAAAGCAGTT | 59.932 | 43.478 | 26.68 | 13.70 | 46.36 | 3.16 |
105 | 106 | 2.621998 | GGATCTATGCATGCAAAGCAGT | 59.378 | 45.455 | 26.68 | 9.68 | 46.36 | 4.40 |
106 | 107 | 2.030185 | GGGATCTATGCATGCAAAGCAG | 60.030 | 50.000 | 26.68 | 18.31 | 46.36 | 4.24 |
108 | 109 | 1.068748 | CGGGATCTATGCATGCAAAGC | 60.069 | 52.381 | 26.68 | 15.52 | 0.00 | 3.51 |
109 | 110 | 2.225019 | GTCGGGATCTATGCATGCAAAG | 59.775 | 50.000 | 26.68 | 9.73 | 0.00 | 2.77 |
110 | 111 | 2.158769 | AGTCGGGATCTATGCATGCAAA | 60.159 | 45.455 | 26.68 | 13.80 | 0.00 | 3.68 |
111 | 112 | 1.417517 | AGTCGGGATCTATGCATGCAA | 59.582 | 47.619 | 26.68 | 9.06 | 0.00 | 4.08 |
112 | 113 | 1.051008 | AGTCGGGATCTATGCATGCA | 58.949 | 50.000 | 25.04 | 25.04 | 0.00 | 3.96 |
113 | 114 | 2.175878 | AAGTCGGGATCTATGCATGC | 57.824 | 50.000 | 11.82 | 11.82 | 0.00 | 4.06 |
114 | 115 | 4.790765 | TCTAAGTCGGGATCTATGCATG | 57.209 | 45.455 | 10.16 | 0.00 | 0.00 | 4.06 |
115 | 116 | 4.221703 | CCTTCTAAGTCGGGATCTATGCAT | 59.778 | 45.833 | 3.79 | 3.79 | 0.00 | 3.96 |
116 | 117 | 3.574396 | CCTTCTAAGTCGGGATCTATGCA | 59.426 | 47.826 | 0.00 | 0.00 | 0.00 | 3.96 |
117 | 118 | 3.056465 | CCCTTCTAAGTCGGGATCTATGC | 60.056 | 52.174 | 0.00 | 0.00 | 40.55 | 3.14 |
118 | 119 | 4.408276 | TCCCTTCTAAGTCGGGATCTATG | 58.592 | 47.826 | 0.00 | 0.00 | 41.95 | 2.23 |
119 | 120 | 4.743705 | TCCCTTCTAAGTCGGGATCTAT | 57.256 | 45.455 | 0.00 | 0.00 | 41.95 | 1.98 |
125 | 126 | 1.269998 | CGCTATCCCTTCTAAGTCGGG | 59.730 | 57.143 | 0.00 | 0.00 | 39.41 | 5.14 |
126 | 127 | 2.228059 | TCGCTATCCCTTCTAAGTCGG | 58.772 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
127 | 128 | 4.506886 | AATCGCTATCCCTTCTAAGTCG | 57.493 | 45.455 | 0.00 | 0.00 | 0.00 | 4.18 |
128 | 129 | 5.404096 | GCTAATCGCTATCCCTTCTAAGTC | 58.596 | 45.833 | 0.00 | 0.00 | 35.14 | 3.01 |
129 | 130 | 4.082679 | CGCTAATCGCTATCCCTTCTAAGT | 60.083 | 45.833 | 0.00 | 0.00 | 36.13 | 2.24 |
170 | 171 | 1.302383 | CCACGTAATTTCCGGCAGCA | 61.302 | 55.000 | 0.00 | 0.00 | 0.00 | 4.41 |
175 | 176 | 2.466140 | CCGCCCACGTAATTTCCGG | 61.466 | 63.158 | 0.00 | 0.00 | 37.70 | 5.14 |
204 | 205 | 5.049060 | CGATATTTGGTGGTTGTTTGTCTCA | 60.049 | 40.000 | 0.00 | 0.00 | 0.00 | 3.27 |
243 | 244 | 2.895404 | ACTAACGCTGACCTTACCAGAA | 59.105 | 45.455 | 0.00 | 0.00 | 33.65 | 3.02 |
262 | 263 | 1.209747 | GGGGGAGTTTAGATTGCGACT | 59.790 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
294 | 295 | 1.227973 | GTTCATGGAGGATCGGGGC | 60.228 | 63.158 | 0.00 | 0.00 | 34.37 | 5.80 |
378 | 389 | 2.521958 | CTTCGACAGGGGCCGACATT | 62.522 | 60.000 | 0.00 | 0.00 | 34.26 | 2.71 |
380 | 391 | 3.691342 | CTTCGACAGGGGCCGACA | 61.691 | 66.667 | 0.00 | 0.00 | 34.26 | 4.35 |
381 | 392 | 2.837371 | CTTCTTCGACAGGGGCCGAC | 62.837 | 65.000 | 0.00 | 0.00 | 34.26 | 4.79 |
395 | 406 | 3.330720 | CTCCCCCGTGCCCTTCTT | 61.331 | 66.667 | 0.00 | 0.00 | 0.00 | 2.52 |
469 | 489 | 2.192861 | CCACAAAGCTCGCCCAACA | 61.193 | 57.895 | 0.00 | 0.00 | 0.00 | 3.33 |
556 | 588 | 0.679640 | TATGGCCCGTGGAGCTTTTG | 60.680 | 55.000 | 0.00 | 0.00 | 0.00 | 2.44 |
716 | 757 | 0.911769 | AATGATGTGGCGGAAGGAGA | 59.088 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
728 | 769 | 4.948004 | AGAAGTCATGATGCACAATGATGT | 59.052 | 37.500 | 14.41 | 7.26 | 41.61 | 3.06 |
735 | 776 | 1.465777 | CGCAAGAAGTCATGATGCACA | 59.534 | 47.619 | 16.26 | 0.00 | 43.02 | 4.57 |
737 | 778 | 0.448990 | GCGCAAGAAGTCATGATGCA | 59.551 | 50.000 | 16.26 | 0.00 | 43.02 | 3.96 |
738 | 779 | 0.248377 | GGCGCAAGAAGTCATGATGC | 60.248 | 55.000 | 10.83 | 7.96 | 43.02 | 3.91 |
741 | 782 | 2.390599 | GCGGCGCAAGAAGTCATGA | 61.391 | 57.895 | 29.21 | 0.00 | 43.02 | 3.07 |
746 | 787 | 2.434359 | GGTAGCGGCGCAAGAAGT | 60.434 | 61.111 | 35.02 | 14.87 | 43.02 | 3.01 |
962 | 1006 | 5.221501 | CCAACAAAATTTCTGACCAGGATGT | 60.222 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1023 | 1124 | 0.741915 | TGATATAGCGACGGTGCACA | 59.258 | 50.000 | 20.43 | 0.00 | 37.31 | 4.57 |
1281 | 1411 | 1.280133 | CTTGACAGCCCAGGATCAGAA | 59.720 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
1745 | 1887 | 1.129811 | GGTTTGGGAAATCAGCGTACG | 59.870 | 52.381 | 11.84 | 11.84 | 0.00 | 3.67 |
2157 | 3599 | 8.706322 | TGACTAAGGCAATCTACAGTCATATA | 57.294 | 34.615 | 0.00 | 0.00 | 40.13 | 0.86 |
2465 | 3925 | 3.118408 | ACCTAATTATCCTGACGCTGCAA | 60.118 | 43.478 | 0.00 | 0.00 | 0.00 | 4.08 |
2605 | 4065 | 3.332783 | TCCTTTACTTTCTCCCCCTTTCC | 59.667 | 47.826 | 0.00 | 0.00 | 0.00 | 3.13 |
2660 | 4122 | 3.453070 | GACCCGGAGCAGATGAGCC | 62.453 | 68.421 | 0.73 | 0.00 | 34.23 | 4.70 |
2732 | 4195 | 7.503230 | TCATGCATCAAATTATCTACCACACAT | 59.497 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
2755 | 4218 | 3.761897 | TGAAATTTGGAACGGACCTCAT | 58.238 | 40.909 | 0.00 | 0.00 | 0.00 | 2.90 |
2786 | 4249 | 1.934399 | GCCGAGAGCTGCTCACATATC | 60.934 | 57.143 | 29.49 | 17.18 | 44.15 | 1.63 |

Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.