Multiple sequence alignment - TraesCS2A01G236600
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 | TraesCS2A01G236600 | chr2A | 100.000 | 5222 | 0 | 0 | 1 | 5222 | 304983589 | 304978368 | 0.000000e+00 | 9644.0 |
1 | TraesCS2A01G236600 | chr2B | 95.821 | 1675 | 50 | 8 | 684 | 2340 | 332331498 | 332333170 | 0.000000e+00 | 2687.0 |
2 | TraesCS2A01G236600 | chr2B | 93.857 | 1221 | 49 | 14 | 3476 | 4686 | 332334628 | 332335832 | 0.000000e+00 | 1816.0 |
3 | TraesCS2A01G236600 | chr2B | 91.342 | 693 | 27 | 18 | 2326 | 3018 | 332333200 | 332333859 | 0.000000e+00 | 917.0 |
4 | TraesCS2A01G236600 | chr2B | 82.238 | 411 | 52 | 7 | 6 | 414 | 332330491 | 332330882 | 8.380000e-88 | 335.0 |
5 | TraesCS2A01G236600 | chr2B | 83.742 | 326 | 20 | 12 | 4928 | 5222 | 332335919 | 332336242 | 1.430000e-70 | 278.0 |
6 | TraesCS2A01G236600 | chr2B | 98.969 | 97 | 1 | 0 | 3331 | 3427 | 332333859 | 332333955 | 1.930000e-39 | 174.0 |
7 | TraesCS2A01G236600 | chr2B | 94.118 | 85 | 4 | 1 | 4713 | 4796 | 332335828 | 332335912 | 1.530000e-25 | 128.0 |
8 | TraesCS2A01G236600 | chr2B | 94.915 | 59 | 3 | 0 | 1 | 59 | 398163614 | 398163556 | 5.570000e-15 | 93.5 |
9 | TraesCS2A01G236600 | chr2B | 90.909 | 44 | 3 | 1 | 593 | 636 | 26402934 | 26402892 | 2.030000e-04 | 58.4 |
10 | TraesCS2A01G236600 | chr2D | 95.565 | 1443 | 39 | 11 | 1589 | 3018 | 216327951 | 216329381 | 0.000000e+00 | 2287.0 |
11 | TraesCS2A01G236600 | chr2D | 91.941 | 1365 | 68 | 25 | 3484 | 4837 | 216329872 | 216331205 | 0.000000e+00 | 1873.0 |
12 | TraesCS2A01G236600 | chr2D | 96.467 | 1019 | 26 | 5 | 661 | 1670 | 216326933 | 216327950 | 0.000000e+00 | 1674.0 |
13 | TraesCS2A01G236600 | chr2D | 88.259 | 494 | 48 | 8 | 177 | 669 | 216325367 | 216325851 | 2.710000e-162 | 582.0 |
14 | TraesCS2A01G236600 | chr2D | 90.719 | 334 | 25 | 4 | 3005 | 3334 | 502561752 | 502561421 | 1.730000e-119 | 440.0 |
15 | TraesCS2A01G236600 | chr2D | 91.318 | 311 | 20 | 5 | 3005 | 3311 | 502562274 | 502561967 | 8.090000e-113 | 418.0 |
16 | TraesCS2A01G236600 | chr2D | 85.000 | 360 | 21 | 15 | 4893 | 5220 | 216331213 | 216331571 | 8.380000e-88 | 335.0 |
17 | TraesCS2A01G236600 | chr2D | 91.803 | 183 | 15 | 0 | 1 | 183 | 216218803 | 216218985 | 6.710000e-64 | 255.0 |
18 | TraesCS2A01G236600 | chr2D | 97.600 | 125 | 3 | 0 | 3331 | 3455 | 216329381 | 216329505 | 1.140000e-51 | 215.0 |
19 | TraesCS2A01G236600 | chr2D | 80.351 | 285 | 47 | 5 | 71 | 348 | 326239203 | 326238921 | 1.910000e-49 | 207.0 |
20 | TraesCS2A01G236600 | chr2D | 90.909 | 44 | 3 | 1 | 593 | 636 | 2999272 | 2999314 | 2.030000e-04 | 58.4 |
21 | TraesCS2A01G236600 | chr7A | 98.423 | 317 | 4 | 1 | 3018 | 3333 | 671456855 | 671456539 | 1.640000e-154 | 556.0 |
22 | TraesCS2A01G236600 | chr7A | 91.562 | 320 | 24 | 2 | 3016 | 3334 | 721994299 | 721993982 | 6.210000e-119 | 438.0 |
23 | TraesCS2A01G236600 | chr7A | 80.137 | 146 | 24 | 4 | 493 | 635 | 61806763 | 61806620 | 2.570000e-18 | 104.0 |
24 | TraesCS2A01G236600 | chr7A | 82.796 | 93 | 12 | 3 | 530 | 622 | 9861128 | 9861040 | 4.330000e-11 | 80.5 |
25 | TraesCS2A01G236600 | chr7A | 100.000 | 28 | 0 | 0 | 4971 | 4998 | 38030688 | 38030715 | 9.000000e-03 | 52.8 |
26 | TraesCS2A01G236600 | chr1A | 97.476 | 317 | 6 | 2 | 3018 | 3333 | 421798651 | 421798966 | 1.650000e-149 | 540.0 |
27 | TraesCS2A01G236600 | chr1A | 90.190 | 316 | 25 | 3 | 3018 | 3332 | 532232524 | 532232214 | 1.750000e-109 | 407.0 |
28 | TraesCS2A01G236600 | chr1A | 81.148 | 122 | 18 | 4 | 503 | 623 | 554221428 | 554221545 | 5.570000e-15 | 93.5 |
29 | TraesCS2A01G236600 | chr6D | 91.483 | 317 | 19 | 5 | 3017 | 3332 | 78705727 | 78706036 | 3.740000e-116 | 429.0 |
30 | TraesCS2A01G236600 | chr6D | 80.132 | 302 | 56 | 4 | 71 | 371 | 452838140 | 452838438 | 6.810000e-54 | 222.0 |
31 | TraesCS2A01G236600 | chr6A | 90.852 | 317 | 23 | 3 | 3017 | 3332 | 32888283 | 32887972 | 2.250000e-113 | 420.0 |
32 | TraesCS2A01G236600 | chr6A | 90.909 | 44 | 3 | 1 | 593 | 636 | 41191045 | 41191087 | 2.030000e-04 | 58.4 |
33 | TraesCS2A01G236600 | chr3A | 89.623 | 318 | 30 | 2 | 3017 | 3333 | 359060176 | 359059861 | 8.150000e-108 | 401.0 |
34 | TraesCS2A01G236600 | chr3A | 79.321 | 324 | 57 | 6 | 71 | 384 | 724070596 | 724070919 | 8.800000e-53 | 219.0 |
35 | TraesCS2A01G236600 | chr3D | 81.322 | 348 | 53 | 6 | 71 | 407 | 123565249 | 123564903 | 6.660000e-69 | 272.0 |
36 | TraesCS2A01G236600 | chr3D | 79.167 | 312 | 53 | 9 | 71 | 372 | 84920695 | 84920386 | 6.850000e-49 | 206.0 |
37 | TraesCS2A01G236600 | chr7D | 79.375 | 320 | 57 | 7 | 71 | 385 | 17116257 | 17115942 | 3.170000e-52 | 217.0 |
38 | TraesCS2A01G236600 | chr4D | 91.743 | 109 | 9 | 0 | 1010 | 1118 | 473809695 | 473809803 | 9.060000e-33 | 152.0 |
39 | TraesCS2A01G236600 | chr4B | 91.743 | 109 | 9 | 0 | 1010 | 1118 | 596372806 | 596372914 | 9.060000e-33 | 152.0 |
40 | TraesCS2A01G236600 | chr4A | 91.743 | 109 | 9 | 0 | 1010 | 1118 | 680370195 | 680370303 | 9.060000e-33 | 152.0 |
41 | TraesCS2A01G236600 | chr6B | 80.000 | 155 | 23 | 8 | 488 | 639 | 298824934 | 298824785 | 1.990000e-19 | 108.0 |
42 | TraesCS2A01G236600 | chr5A | 97.500 | 40 | 1 | 0 | 4963 | 5002 | 581297506 | 581297545 | 9.380000e-08 | 69.4 |
43 | TraesCS2A01G236600 | chr7B | 90.909 | 44 | 3 | 1 | 593 | 636 | 121027152 | 121027110 | 2.030000e-04 | 58.4 |
44 | TraesCS2A01G236600 | chr7B | 100.000 | 30 | 0 | 0 | 4971 | 5000 | 711450348 | 711450377 | 7.310000e-04 | 56.5 |
45 | TraesCS2A01G236600 | chr1D | 100.000 | 28 | 0 | 0 | 4973 | 5000 | 27880482 | 27880509 | 9.000000e-03 | 52.8 |
46 | TraesCS2A01G236600 | chr1B | 96.774 | 31 | 1 | 0 | 4970 | 5000 | 26363069 | 26363099 | 9.000000e-03 | 52.8 |
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 | TraesCS2A01G236600 | chr2A | 304978368 | 304983589 | 5221 | True | 9644 | 9644 | 100.0000 | 1 | 5222 | 1 | chr2A.!!$R1 | 5221 |
1 | TraesCS2A01G236600 | chr2B | 332330491 | 332336242 | 5751 | False | 905 | 2687 | 91.4410 | 6 | 5222 | 7 | chr2B.!!$F1 | 5216 |
2 | TraesCS2A01G236600 | chr2D | 216325367 | 216331571 | 6204 | False | 1161 | 2287 | 92.4720 | 177 | 5220 | 6 | chr2D.!!$F3 | 5043 |
3 | TraesCS2A01G236600 | chr2D | 502561421 | 502562274 | 853 | True | 429 | 440 | 91.0185 | 3005 | 3334 | 2 | chr2D.!!$R2 | 329 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
214 | 215 | 0.108992 | TAAGATCGGTTTGCGTCGCT | 60.109 | 50.0 | 19.50 | 0.0 | 0.00 | 4.93 | F |
801 | 2013 | 0.304705 | CGCTAATAAACGGCAGGCAG | 59.695 | 55.0 | 0.00 | 0.0 | 0.00 | 4.85 | F |
1280 | 2496 | 0.544357 | ATCTGACCCTGTGAACGGGA | 60.544 | 55.0 | 10.02 | 0.0 | 45.36 | 5.14 | F |
1711 | 3024 | 0.614979 | AGAGGTACCATGACGCCTGT | 60.615 | 55.0 | 15.94 | 0.0 | 0.00 | 4.00 | F |
3043 | 4405 | 0.952010 | GATACCCCGCACGTTGTTGT | 60.952 | 55.0 | 0.00 | 0.0 | 0.00 | 3.32 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1715 | 3028 | 0.472471 | AGCAAAAGGTTCCGTCTGGA | 59.528 | 50.000 | 0.00 | 0.0 | 44.61 | 3.86 | R |
2468 | 3828 | 1.270826 | CTCTCAGTGCGAACTTCCTCA | 59.729 | 52.381 | 0.00 | 0.0 | 0.00 | 3.86 | R |
3240 | 4605 | 1.608542 | GCAACATGCATGGCAAAAGGA | 60.609 | 47.619 | 29.41 | 0.0 | 43.62 | 3.36 | R |
3465 | 5353 | 0.247655 | GTGCGTGTGTCTGTGTGTTG | 60.248 | 55.000 | 0.00 | 0.0 | 0.00 | 3.33 | R |
4801 | 7339 | 0.034756 | ACGTGCCAGTGTGATGCTTA | 59.965 | 50.000 | 0.00 | 0.0 | 0.00 | 3.09 | 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 |
---|---|---|---|---|---|---|---|---|---|
47 | 48 | 2.359169 | TGATGCAGGAGTCCCGGTC | 61.359 | 63.158 | 5.25 | 0.00 | 37.58 | 4.79 |
48 | 49 | 3.083997 | ATGCAGGAGTCCCGGTCC | 61.084 | 66.667 | 5.25 | 0.00 | 37.58 | 4.46 |
49 | 50 | 3.924013 | ATGCAGGAGTCCCGGTCCA | 62.924 | 63.158 | 11.86 | 0.00 | 36.43 | 4.02 |
60 | 61 | 4.473520 | CGGTCCAAGCAGGGCGAT | 62.474 | 66.667 | 0.00 | 0.00 | 45.54 | 4.58 |
83 | 84 | 1.804601 | GACCAACTAGGGTTTGTCCG | 58.195 | 55.000 | 0.00 | 0.00 | 42.53 | 4.79 |
84 | 85 | 0.250597 | ACCAACTAGGGTTTGTCCGC | 60.251 | 55.000 | 0.00 | 0.00 | 43.89 | 5.54 |
86 | 87 | 1.004200 | AACTAGGGTTTGTCCGCCG | 60.004 | 57.895 | 0.00 | 0.00 | 37.00 | 6.46 |
90 | 91 | 4.629523 | GGGTTTGTCCGCCGGTCA | 62.630 | 66.667 | 1.63 | 0.00 | 37.00 | 4.02 |
114 | 115 | 0.324830 | GACCACCTGCCCTAGAGAGT | 60.325 | 60.000 | 0.00 | 0.00 | 0.00 | 3.24 |
140 | 141 | 2.203070 | CGATCCTTTGCTCGGGGG | 60.203 | 66.667 | 0.00 | 0.00 | 0.00 | 5.40 |
155 | 156 | 1.893210 | CGGGGGTTTCTCTCTCTCACT | 60.893 | 57.143 | 0.00 | 0.00 | 0.00 | 3.41 |
165 | 166 | 3.571828 | TCTCTCTCTCACTGGTCACTTTG | 59.428 | 47.826 | 0.00 | 0.00 | 0.00 | 2.77 |
168 | 169 | 4.590647 | TCTCTCTCACTGGTCACTTTGATT | 59.409 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
183 | 184 | 8.706035 | GTCACTTTGATTAGCGTTTACTCTTTA | 58.294 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
214 | 215 | 0.108992 | TAAGATCGGTTTGCGTCGCT | 60.109 | 50.000 | 19.50 | 0.00 | 0.00 | 4.93 |
217 | 218 | 3.909258 | ATCGGTTTGCGTCGCTCGT | 62.909 | 57.895 | 19.50 | 5.69 | 42.13 | 4.18 |
286 | 287 | 2.346365 | GCCTTTTCTCCGACCCGT | 59.654 | 61.111 | 0.00 | 0.00 | 0.00 | 5.28 |
336 | 337 | 2.050351 | CGTCGTTCACGCCTCTGT | 60.050 | 61.111 | 0.00 | 0.00 | 42.87 | 3.41 |
390 | 391 | 1.664321 | GCTACGACCGGGACTCATGT | 61.664 | 60.000 | 6.32 | 0.00 | 0.00 | 3.21 |
440 | 443 | 4.331717 | ACAAGGTGGAATAAATCTAACGCG | 59.668 | 41.667 | 3.53 | 3.53 | 30.12 | 6.01 |
456 | 459 | 7.909777 | TCTAACGCGATCTTATGTTTTCTAG | 57.090 | 36.000 | 15.93 | 0.00 | 0.00 | 2.43 |
487 | 490 | 8.521176 | ACATTATACTCGACAACAAGTACTCTT | 58.479 | 33.333 | 0.00 | 0.00 | 31.15 | 2.85 |
490 | 493 | 3.635373 | ACTCGACAACAAGTACTCTTCCA | 59.365 | 43.478 | 0.00 | 0.00 | 0.00 | 3.53 |
493 | 496 | 3.608506 | CGACAACAAGTACTCTTCCATCG | 59.391 | 47.826 | 0.00 | 0.00 | 0.00 | 3.84 |
513 | 516 | 9.559732 | TCCATCGTTCATGAATATAAGATGTTT | 57.440 | 29.630 | 23.26 | 4.42 | 33.80 | 2.83 |
563 | 566 | 5.751243 | AGACATGGTTTAGTGTGTTTGTC | 57.249 | 39.130 | 0.00 | 0.00 | 34.02 | 3.18 |
569 | 572 | 4.156922 | TGGTTTAGTGTGTTTGTCCACTTG | 59.843 | 41.667 | 0.00 | 0.00 | 41.85 | 3.16 |
575 | 578 | 4.279671 | AGTGTGTTTGTCCACTTGTTTCAA | 59.720 | 37.500 | 0.00 | 0.00 | 38.76 | 2.69 |
588 | 591 | 7.390440 | TCCACTTGTTTCAATCCTTATGTAGTG | 59.610 | 37.037 | 0.00 | 0.00 | 0.00 | 2.74 |
647 | 650 | 4.829872 | AACGGAGGGAATACATAACACA | 57.170 | 40.909 | 0.00 | 0.00 | 0.00 | 3.72 |
739 | 1950 | 2.228822 | TGAAAAAGGAAATCAGCGAGGC | 59.771 | 45.455 | 0.00 | 0.00 | 0.00 | 4.70 |
742 | 1953 | 1.743996 | AAGGAAATCAGCGAGGCTTC | 58.256 | 50.000 | 0.00 | 0.00 | 36.40 | 3.86 |
801 | 2013 | 0.304705 | CGCTAATAAACGGCAGGCAG | 59.695 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
1186 | 2402 | 0.951558 | TCTTTCCTCTGTTTTGCCGC | 59.048 | 50.000 | 0.00 | 0.00 | 0.00 | 6.53 |
1280 | 2496 | 0.544357 | ATCTGACCCTGTGAACGGGA | 60.544 | 55.000 | 10.02 | 0.00 | 45.36 | 5.14 |
1343 | 2559 | 2.109834 | TCTTCTTGATTTGGGGCTTGGA | 59.890 | 45.455 | 0.00 | 0.00 | 0.00 | 3.53 |
1374 | 2590 | 6.655003 | CCATGGTTACAGTATTTGAGACTTGT | 59.345 | 38.462 | 2.57 | 0.00 | 0.00 | 3.16 |
1509 | 2740 | 6.990798 | TCTGTGTGATTTGGAATTTAATGCA | 58.009 | 32.000 | 0.00 | 0.00 | 0.00 | 3.96 |
1627 | 2940 | 2.872858 | GGAGAATTCTGGCGGATGTAAC | 59.127 | 50.000 | 14.00 | 0.00 | 0.00 | 2.50 |
1637 | 2950 | 2.484241 | GGCGGATGTAACGTAGGGAATT | 60.484 | 50.000 | 0.00 | 0.00 | 0.00 | 2.17 |
1638 | 2951 | 2.798847 | GCGGATGTAACGTAGGGAATTC | 59.201 | 50.000 | 0.00 | 0.00 | 0.00 | 2.17 |
1676 | 2989 | 3.118665 | AGTTGTTTCAATGCCACTTTGCT | 60.119 | 39.130 | 0.00 | 0.00 | 0.00 | 3.91 |
1711 | 3024 | 0.614979 | AGAGGTACCATGACGCCTGT | 60.615 | 55.000 | 15.94 | 0.00 | 0.00 | 4.00 |
1715 | 3028 | 1.406887 | GGTACCATGACGCCTGTGATT | 60.407 | 52.381 | 7.15 | 0.00 | 0.00 | 2.57 |
1765 | 3078 | 4.541779 | GAGTTCACTATGATACCTGCGAG | 58.458 | 47.826 | 0.00 | 0.00 | 0.00 | 5.03 |
1783 | 3096 | 4.263462 | TGCGAGCCCAATTAGATATGGAAT | 60.263 | 41.667 | 0.00 | 0.00 | 39.12 | 3.01 |
1886 | 3201 | 7.120051 | AGCCTCTTCATATGTATATCGGTACT | 58.880 | 38.462 | 1.90 | 0.00 | 0.00 | 2.73 |
1900 | 3215 | 4.247267 | TCGGTACTTACAACAGACTTGG | 57.753 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
1922 | 3237 | 4.039124 | GGTTTTCCTGGTGAACAATGATGT | 59.961 | 41.667 | 13.83 | 0.00 | 38.05 | 3.06 |
1986 | 3301 | 8.327941 | TCAGTTGTTCTGATTCTATTTTCCTG | 57.672 | 34.615 | 0.00 | 0.00 | 46.77 | 3.86 |
2404 | 3763 | 7.859598 | CAAAGTTGCAAATTTTACTGGCATTA | 58.140 | 30.769 | 21.27 | 0.00 | 33.16 | 1.90 |
2468 | 3828 | 4.624015 | TCTTAAACACGTCGAAGTGGATT | 58.376 | 39.130 | 30.30 | 25.31 | 45.80 | 3.01 |
2646 | 4006 | 8.026026 | GTCACATGTGATATCCTATGTACTCTG | 58.974 | 40.741 | 30.10 | 8.53 | 42.18 | 3.35 |
2819 | 4179 | 2.489722 | CTCAGTCTGATCCACTTGTCGA | 59.510 | 50.000 | 2.22 | 0.00 | 0.00 | 4.20 |
2822 | 4182 | 4.021104 | TCAGTCTGATCCACTTGTCGATTT | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 2.17 |
2823 | 4183 | 5.185056 | TCAGTCTGATCCACTTGTCGATTTA | 59.815 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
2930 | 4292 | 3.967332 | ACCTCAATTTTCATGGCCTTG | 57.033 | 42.857 | 12.41 | 12.41 | 0.00 | 3.61 |
2938 | 4300 | 6.654161 | TCAATTTTCATGGCCTTGTTAATTGG | 59.346 | 34.615 | 31.53 | 23.04 | 33.88 | 3.16 |
2959 | 4321 | 7.572523 | TTGGAGATATACAATTCTTTGCAGG | 57.427 | 36.000 | 0.00 | 0.00 | 36.22 | 4.85 |
3043 | 4405 | 0.952010 | GATACCCCGCACGTTGTTGT | 60.952 | 55.000 | 0.00 | 0.00 | 0.00 | 3.32 |
3057 | 4419 | 4.021544 | ACGTTGTTGTGGGAATATTTGCAT | 60.022 | 37.500 | 0.00 | 0.00 | 0.00 | 3.96 |
3202 | 4565 | 7.451501 | TCTCATTTATGTTTGCATGTTGAGA | 57.548 | 32.000 | 0.00 | 11.36 | 39.93 | 3.27 |
3214 | 4577 | 4.768448 | TGCATGTTGAGATGGACATTTTCT | 59.232 | 37.500 | 0.00 | 0.00 | 34.42 | 2.52 |
3216 | 4579 | 6.433716 | TGCATGTTGAGATGGACATTTTCTTA | 59.566 | 34.615 | 0.00 | 0.00 | 34.42 | 2.10 |
3225 | 4588 | 8.246430 | AGATGGACATTTTCTTATGCATGAAT | 57.754 | 30.769 | 10.16 | 0.00 | 0.00 | 2.57 |
3226 | 4589 | 9.358406 | AGATGGACATTTTCTTATGCATGAATA | 57.642 | 29.630 | 10.16 | 0.89 | 0.00 | 1.75 |
3434 | 5322 | 5.835280 | AGAGAAGTCCAAATTGAACCATGTT | 59.165 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
3455 | 5343 | 5.659079 | TGTTCCATAAAACATGTTATCCCCC | 59.341 | 40.000 | 12.39 | 0.00 | 34.31 | 5.40 |
3604 | 6121 | 3.841255 | AGGGAGACAAGAAGTTAAGGGAG | 59.159 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
3650 | 6167 | 0.603707 | CATGGGGTCGATTCGGATGG | 60.604 | 60.000 | 6.18 | 0.00 | 0.00 | 3.51 |
3723 | 6241 | 5.812127 | GCTAAATCACCAATGGTTTTGGATC | 59.188 | 40.000 | 14.53 | 0.00 | 39.86 | 3.36 |
3740 | 6258 | 5.705609 | TGGATCTCCTTTGTTTGTAAAGC | 57.294 | 39.130 | 0.00 | 0.00 | 36.55 | 3.51 |
4007 | 6525 | 3.067833 | GCAGCGGAATAGGGTTATTCTC | 58.932 | 50.000 | 7.10 | 1.65 | 43.07 | 2.87 |
4008 | 6526 | 3.494398 | GCAGCGGAATAGGGTTATTCTCA | 60.494 | 47.826 | 7.10 | 0.00 | 43.07 | 3.27 |
4489 | 7008 | 2.806818 | CGCTCGGCTGAGTATTAGAGTA | 59.193 | 50.000 | 23.36 | 0.00 | 44.48 | 2.59 |
4639 | 7177 | 8.130671 | TGTAAGCTAATAAGTCCTGTGTTACT | 57.869 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
4658 | 7196 | 6.156256 | TGTTACTCCAGGTATTTGAGCACTAT | 59.844 | 38.462 | 0.00 | 0.00 | 0.00 | 2.12 |
4689 | 7227 | 6.726379 | TGGTTTATGGTTCCAATCACAGATA | 58.274 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
4707 | 7245 | 1.209621 | TAGCCAGGCCTACCGAAAAT | 58.790 | 50.000 | 3.98 | 0.00 | 42.76 | 1.82 |
4711 | 7249 | 2.654863 | CCAGGCCTACCGAAAATGAAT | 58.345 | 47.619 | 3.98 | 0.00 | 42.76 | 2.57 |
4715 | 7253 | 3.694566 | AGGCCTACCGAAAATGAATTCAC | 59.305 | 43.478 | 11.07 | 0.00 | 42.76 | 3.18 |
4716 | 7254 | 3.442273 | GGCCTACCGAAAATGAATTCACA | 59.558 | 43.478 | 11.07 | 0.00 | 0.00 | 3.58 |
4718 | 7256 | 5.036737 | GCCTACCGAAAATGAATTCACATG | 58.963 | 41.667 | 11.07 | 0.00 | 0.00 | 3.21 |
4720 | 7258 | 6.624861 | GCCTACCGAAAATGAATTCACATGAA | 60.625 | 38.462 | 11.07 | 0.00 | 38.56 | 2.57 |
4721 | 7259 | 7.312154 | CCTACCGAAAATGAATTCACATGAAA | 58.688 | 34.615 | 11.07 | 0.00 | 37.61 | 2.69 |
4722 | 7260 | 7.975616 | CCTACCGAAAATGAATTCACATGAAAT | 59.024 | 33.333 | 11.07 | 0.00 | 37.61 | 2.17 |
4723 | 7261 | 9.357652 | CTACCGAAAATGAATTCACATGAAATT | 57.642 | 29.630 | 11.07 | 5.10 | 37.61 | 1.82 |
4724 | 7262 | 8.243289 | ACCGAAAATGAATTCACATGAAATTC | 57.757 | 30.769 | 11.07 | 21.24 | 37.61 | 2.17 |
4725 | 7263 | 7.871973 | ACCGAAAATGAATTCACATGAAATTCA | 59.128 | 29.630 | 27.33 | 27.33 | 37.61 | 2.57 |
4726 | 7264 | 8.875803 | CCGAAAATGAATTCACATGAAATTCAT | 58.124 | 29.630 | 28.46 | 28.46 | 40.14 | 2.57 |
4778 | 7316 | 0.240678 | CAACAATTGCTACGCCTGCA | 59.759 | 50.000 | 5.05 | 0.00 | 38.80 | 4.41 |
4796 | 7334 | 6.581712 | GCCTGCAGATAAATTTTCCCAAATA | 58.418 | 36.000 | 17.39 | 0.00 | 31.89 | 1.40 |
4799 | 7337 | 9.048446 | CCTGCAGATAAATTTTCCCAAATAATG | 57.952 | 33.333 | 17.39 | 0.00 | 31.89 | 1.90 |
4810 | 7348 | 9.768662 | ATTTTCCCAAATAATGATAAGCATCAC | 57.231 | 29.630 | 0.00 | 0.00 | 36.09 | 3.06 |
4811 | 7349 | 7.894753 | TTCCCAAATAATGATAAGCATCACA | 57.105 | 32.000 | 0.00 | 0.00 | 43.89 | 3.58 |
4812 | 7350 | 7.275888 | TCCCAAATAATGATAAGCATCACAC | 57.724 | 36.000 | 0.00 | 0.00 | 43.89 | 3.82 |
4818 | 7356 | 2.358957 | TGATAAGCATCACACTGGCAC | 58.641 | 47.619 | 0.00 | 0.00 | 36.22 | 5.01 |
4826 | 7364 | 3.521560 | CATCACACTGGCACGTAGTAAT | 58.478 | 45.455 | 0.00 | 0.00 | 41.61 | 1.89 |
4830 | 7368 | 2.827322 | ACACTGGCACGTAGTAATACCA | 59.173 | 45.455 | 0.00 | 0.00 | 41.61 | 3.25 |
4832 | 7370 | 2.167075 | ACTGGCACGTAGTAATACCACC | 59.833 | 50.000 | 0.00 | 0.00 | 41.61 | 4.61 |
4837 | 7375 | 3.119029 | GCACGTAGTAATACCACCCTGAA | 60.119 | 47.826 | 0.00 | 0.00 | 41.61 | 3.02 |
4838 | 7376 | 4.679662 | CACGTAGTAATACCACCCTGAAG | 58.320 | 47.826 | 0.00 | 0.00 | 41.61 | 3.02 |
4839 | 7377 | 4.159135 | CACGTAGTAATACCACCCTGAAGT | 59.841 | 45.833 | 0.00 | 0.00 | 41.61 | 3.01 |
4840 | 7378 | 4.774200 | ACGTAGTAATACCACCCTGAAGTT | 59.226 | 41.667 | 0.00 | 0.00 | 41.94 | 2.66 |
4853 | 7437 | 9.423964 | ACCACCCTGAAGTTTTTATAACTAAAA | 57.576 | 29.630 | 0.00 | 0.00 | 35.53 | 1.52 |
4884 | 7468 | 2.519771 | AAATAAAACGACCCTCCCCC | 57.480 | 50.000 | 0.00 | 0.00 | 0.00 | 5.40 |
4922 | 7506 | 9.558396 | AAATTTGAAAATTGCCATCTAAACAGA | 57.442 | 25.926 | 1.91 | 0.00 | 38.53 | 3.41 |
4923 | 7507 | 9.558396 | AATTTGAAAATTGCCATCTAAACAGAA | 57.442 | 25.926 | 0.28 | 0.00 | 37.24 | 3.02 |
4924 | 7508 | 8.954950 | TTTGAAAATTGCCATCTAAACAGAAA | 57.045 | 26.923 | 0.00 | 0.00 | 0.00 | 2.52 |
4925 | 7509 | 8.592105 | TTGAAAATTGCCATCTAAACAGAAAG | 57.408 | 30.769 | 0.00 | 0.00 | 0.00 | 2.62 |
4926 | 7510 | 7.725251 | TGAAAATTGCCATCTAAACAGAAAGT | 58.275 | 30.769 | 0.00 | 0.00 | 0.00 | 2.66 |
4927 | 7511 | 8.203485 | TGAAAATTGCCATCTAAACAGAAAGTT | 58.797 | 29.630 | 0.00 | 0.00 | 43.89 | 2.66 |
4928 | 7512 | 7.951530 | AAATTGCCATCTAAACAGAAAGTTG | 57.048 | 32.000 | 0.00 | 0.00 | 41.19 | 3.16 |
4929 | 7513 | 4.503741 | TGCCATCTAAACAGAAAGTTGC | 57.496 | 40.909 | 0.00 | 0.00 | 41.19 | 4.17 |
4930 | 7514 | 3.255642 | TGCCATCTAAACAGAAAGTTGCC | 59.744 | 43.478 | 0.00 | 0.00 | 41.19 | 4.52 |
4931 | 7515 | 3.255642 | GCCATCTAAACAGAAAGTTGCCA | 59.744 | 43.478 | 0.00 | 0.00 | 41.19 | 4.92 |
4932 | 7516 | 4.082026 | GCCATCTAAACAGAAAGTTGCCAT | 60.082 | 41.667 | 0.00 | 0.00 | 41.19 | 4.40 |
4933 | 7517 | 5.404946 | CCATCTAAACAGAAAGTTGCCATG | 58.595 | 41.667 | 0.00 | 0.00 | 41.19 | 3.66 |
4934 | 7518 | 4.503741 | TCTAAACAGAAAGTTGCCATGC | 57.496 | 40.909 | 0.00 | 0.00 | 41.19 | 4.06 |
4935 | 7519 | 4.144297 | TCTAAACAGAAAGTTGCCATGCT | 58.856 | 39.130 | 0.00 | 0.00 | 41.19 | 3.79 |
4936 | 7520 | 3.825143 | AAACAGAAAGTTGCCATGCTT | 57.175 | 38.095 | 0.00 | 0.00 | 41.19 | 3.91 |
4937 | 7521 | 3.825143 | AACAGAAAGTTGCCATGCTTT | 57.175 | 38.095 | 0.00 | 0.00 | 39.49 | 3.51 |
4938 | 7522 | 4.935352 | AACAGAAAGTTGCCATGCTTTA | 57.065 | 36.364 | 0.00 | 0.00 | 39.49 | 1.85 |
4939 | 7523 | 5.473066 | AACAGAAAGTTGCCATGCTTTAT | 57.527 | 34.783 | 0.00 | 0.00 | 39.49 | 1.40 |
4940 | 7524 | 6.588719 | AACAGAAAGTTGCCATGCTTTATA | 57.411 | 33.333 | 0.00 | 0.00 | 39.49 | 0.98 |
4941 | 7525 | 6.588719 | ACAGAAAGTTGCCATGCTTTATAA | 57.411 | 33.333 | 0.00 | 0.00 | 35.35 | 0.98 |
4942 | 7526 | 6.389906 | ACAGAAAGTTGCCATGCTTTATAAC | 58.610 | 36.000 | 0.00 | 0.00 | 35.35 | 1.89 |
4943 | 7527 | 6.209391 | ACAGAAAGTTGCCATGCTTTATAACT | 59.791 | 34.615 | 0.00 | 0.00 | 35.35 | 2.24 |
4944 | 7528 | 7.393234 | ACAGAAAGTTGCCATGCTTTATAACTA | 59.607 | 33.333 | 0.00 | 0.00 | 35.35 | 2.24 |
4945 | 7529 | 8.408601 | CAGAAAGTTGCCATGCTTTATAACTAT | 58.591 | 33.333 | 0.00 | 0.00 | 35.35 | 2.12 |
4946 | 7530 | 8.971073 | AGAAAGTTGCCATGCTTTATAACTATT | 58.029 | 29.630 | 0.00 | 0.00 | 35.35 | 1.73 |
4947 | 7531 | 8.931385 | AAAGTTGCCATGCTTTATAACTATTG | 57.069 | 30.769 | 0.00 | 0.00 | 33.68 | 1.90 |
4948 | 7532 | 7.645058 | AGTTGCCATGCTTTATAACTATTGT | 57.355 | 32.000 | 0.00 | 0.00 | 0.00 | 2.71 |
4949 | 7533 | 7.707104 | AGTTGCCATGCTTTATAACTATTGTC | 58.293 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
4950 | 7534 | 7.339212 | AGTTGCCATGCTTTATAACTATTGTCA | 59.661 | 33.333 | 0.00 | 0.00 | 0.00 | 3.58 |
4951 | 7535 | 7.822161 | TGCCATGCTTTATAACTATTGTCAT | 57.178 | 32.000 | 0.00 | 0.00 | 0.00 | 3.06 |
4952 | 7536 | 7.874940 | TGCCATGCTTTATAACTATTGTCATC | 58.125 | 34.615 | 0.00 | 0.00 | 0.00 | 2.92 |
4953 | 7537 | 7.501892 | TGCCATGCTTTATAACTATTGTCATCA | 59.498 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
4954 | 7538 | 8.352201 | GCCATGCTTTATAACTATTGTCATCAA | 58.648 | 33.333 | 0.00 | 0.00 | 37.98 | 2.57 |
4976 | 7560 | 4.582701 | AAAATGTGACGGAATTGCTTCA | 57.417 | 36.364 | 1.85 | 1.85 | 32.70 | 3.02 |
4979 | 7563 | 2.503331 | TGTGACGGAATTGCTTCATGT | 58.497 | 42.857 | 9.32 | 0.00 | 32.70 | 3.21 |
5082 | 7676 | 4.693420 | AGAAATTCAGGAGGGAGAGAGAA | 58.307 | 43.478 | 0.00 | 0.00 | 0.00 | 2.87 |
5091 | 7685 | 3.386402 | GGAGGGAGAGAGAATACTGGTTG | 59.614 | 52.174 | 0.00 | 0.00 | 0.00 | 3.77 |
5119 | 7713 | 9.846248 | AGTTGCTCAGTGATCAATATTTAAAAC | 57.154 | 29.630 | 12.24 | 0.00 | 0.00 | 2.43 |
5120 | 7714 | 8.788813 | GTTGCTCAGTGATCAATATTTAAAACG | 58.211 | 33.333 | 12.24 | 0.00 | 0.00 | 3.60 |
5122 | 7716 | 8.726068 | TGCTCAGTGATCAATATTTAAAACGAA | 58.274 | 29.630 | 0.00 | 0.00 | 0.00 | 3.85 |
5123 | 7717 | 9.722056 | GCTCAGTGATCAATATTTAAAACGAAT | 57.278 | 29.630 | 0.00 | 0.00 | 0.00 | 3.34 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
4 | 5 | 1.590792 | GCCTCCGCCGTGTATGTAC | 60.591 | 63.158 | 0.00 | 0.00 | 0.00 | 2.90 |
18 | 19 | 3.746949 | CTGCATCACCTCCCGCCTC | 62.747 | 68.421 | 0.00 | 0.00 | 0.00 | 4.70 |
47 | 48 | 3.197790 | CGTCATCGCCCTGCTTGG | 61.198 | 66.667 | 0.00 | 0.00 | 0.00 | 3.61 |
48 | 49 | 2.125552 | TCGTCATCGCCCTGCTTG | 60.126 | 61.111 | 0.00 | 0.00 | 36.96 | 4.01 |
49 | 50 | 2.125512 | GTCGTCATCGCCCTGCTT | 60.126 | 61.111 | 0.00 | 0.00 | 36.96 | 3.91 |
59 | 60 | 2.370849 | ACAAACCCTAGTTGGTCGTCAT | 59.629 | 45.455 | 0.00 | 0.00 | 34.96 | 3.06 |
60 | 61 | 1.764134 | ACAAACCCTAGTTGGTCGTCA | 59.236 | 47.619 | 0.00 | 0.00 | 34.96 | 4.35 |
69 | 70 | 2.660802 | CGGCGGACAAACCCTAGT | 59.339 | 61.111 | 0.00 | 0.00 | 34.64 | 2.57 |
90 | 91 | 0.620556 | CTAGGGCAGGTGGTCAACAT | 59.379 | 55.000 | 0.00 | 0.00 | 0.00 | 2.71 |
99 | 100 | 2.632763 | AAAGACTCTCTAGGGCAGGT | 57.367 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
133 | 134 | 1.107945 | GAGAGAGAGAAACCCCCGAG | 58.892 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 |
136 | 137 | 1.552792 | CAGTGAGAGAGAGAAACCCCC | 59.447 | 57.143 | 0.00 | 0.00 | 0.00 | 5.40 |
140 | 141 | 3.572255 | AGTGACCAGTGAGAGAGAGAAAC | 59.428 | 47.826 | 0.00 | 0.00 | 0.00 | 2.78 |
155 | 156 | 5.302360 | AGTAAACGCTAATCAAAGTGACCA | 58.698 | 37.500 | 0.00 | 0.00 | 0.00 | 4.02 |
183 | 184 | 7.084486 | GCAAACCGATCTTAGATTGAAAAACT | 58.916 | 34.615 | 10.87 | 0.00 | 32.08 | 2.66 |
191 | 192 | 2.858344 | CGACGCAAACCGATCTTAGATT | 59.142 | 45.455 | 0.00 | 0.00 | 41.02 | 2.40 |
269 | 270 | 1.740664 | GACGGGTCGGAGAAAAGGC | 60.741 | 63.158 | 0.00 | 0.00 | 39.69 | 4.35 |
472 | 475 | 4.557205 | ACGATGGAAGAGTACTTGTTGTC | 58.443 | 43.478 | 0.00 | 0.00 | 36.39 | 3.18 |
474 | 477 | 4.988540 | TGAACGATGGAAGAGTACTTGTTG | 59.011 | 41.667 | 0.00 | 0.00 | 36.39 | 3.33 |
487 | 490 | 9.559732 | AAACATCTTATATTCATGAACGATGGA | 57.440 | 29.630 | 23.00 | 15.62 | 33.27 | 3.41 |
513 | 516 | 6.627395 | ACATCCGATTCACACAAAAACTAA | 57.373 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
516 | 519 | 9.864034 | CTATATACATCCGATTCACACAAAAAC | 57.136 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
517 | 520 | 9.825109 | TCTATATACATCCGATTCACACAAAAA | 57.175 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
524 | 527 | 7.548097 | ACCATGTCTATATACATCCGATTCAC | 58.452 | 38.462 | 0.94 | 0.00 | 38.01 | 3.18 |
553 | 556 | 4.167554 | TGAAACAAGTGGACAAACACAC | 57.832 | 40.909 | 0.00 | 0.00 | 43.72 | 3.82 |
563 | 566 | 7.174946 | ACACTACATAAGGATTGAAACAAGTGG | 59.825 | 37.037 | 0.00 | 0.00 | 35.06 | 4.00 |
624 | 627 | 4.938832 | TGTGTTATGTATTCCCTCCGTTTG | 59.061 | 41.667 | 0.00 | 0.00 | 0.00 | 2.93 |
625 | 628 | 5.168647 | TGTGTTATGTATTCCCTCCGTTT | 57.831 | 39.130 | 0.00 | 0.00 | 0.00 | 3.60 |
739 | 1950 | 2.923020 | CCGGAAATGAAAAATGGCGAAG | 59.077 | 45.455 | 0.00 | 0.00 | 0.00 | 3.79 |
742 | 1953 | 2.258755 | GACCGGAAATGAAAAATGGCG | 58.741 | 47.619 | 9.46 | 0.00 | 0.00 | 5.69 |
801 | 2013 | 2.657620 | GCGCGTCCCCGAGATTAC | 60.658 | 66.667 | 8.43 | 0.00 | 35.78 | 1.89 |
924 | 2136 | 2.204090 | GGTGGGTGGAGAAGGGGA | 60.204 | 66.667 | 0.00 | 0.00 | 0.00 | 4.81 |
1156 | 2372 | 6.874288 | AACAGAGGAAAGAAACTGAATCAG | 57.126 | 37.500 | 8.98 | 8.98 | 37.52 | 2.90 |
1159 | 2375 | 6.276091 | GCAAAACAGAGGAAAGAAACTGAAT | 58.724 | 36.000 | 0.00 | 0.00 | 34.88 | 2.57 |
1186 | 2402 | 2.485795 | CCGGCTCGAGGAGAGGAAG | 61.486 | 68.421 | 15.58 | 0.00 | 46.91 | 3.46 |
1280 | 2496 | 4.502259 | GCACCCGATCAACAGATCTAATCT | 60.502 | 45.833 | 0.00 | 0.00 | 41.15 | 2.40 |
1343 | 2559 | 4.689612 | AATACTGTAACCATGGATCGCT | 57.310 | 40.909 | 21.47 | 0.00 | 0.00 | 4.93 |
1374 | 2590 | 6.588719 | AAAGGTTGTAAAATAGCAGATGCA | 57.411 | 33.333 | 7.68 | 0.00 | 45.16 | 3.96 |
1509 | 2740 | 2.290260 | TGACGGCAGGACAATTTCTCAT | 60.290 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
1627 | 2940 | 6.251655 | ACGTATTAGCTAGAATTCCCTACG | 57.748 | 41.667 | 0.65 | 7.84 | 0.00 | 3.51 |
1637 | 2950 | 6.668541 | AACAACTCGTACGTATTAGCTAGA | 57.331 | 37.500 | 16.05 | 0.00 | 0.00 | 2.43 |
1638 | 2951 | 6.963242 | TGAAACAACTCGTACGTATTAGCTAG | 59.037 | 38.462 | 16.05 | 4.97 | 0.00 | 3.42 |
1676 | 2989 | 4.938575 | ACCTCTCTCTCTTTCTCAGGTA | 57.061 | 45.455 | 0.00 | 0.00 | 30.76 | 3.08 |
1715 | 3028 | 0.472471 | AGCAAAAGGTTCCGTCTGGA | 59.528 | 50.000 | 0.00 | 0.00 | 44.61 | 3.86 |
1765 | 3078 | 5.928264 | GCAAACATTCCATATCTAATTGGGC | 59.072 | 40.000 | 0.00 | 0.00 | 33.62 | 5.36 |
1783 | 3096 | 8.296713 | GTCTTTAAGTCATAGAAATGGCAAACA | 58.703 | 33.333 | 0.00 | 0.00 | 40.36 | 2.83 |
1886 | 3201 | 4.642885 | CCAGGAAAACCAAGTCTGTTGTAA | 59.357 | 41.667 | 0.00 | 0.00 | 0.00 | 2.41 |
1900 | 3215 | 5.010012 | AGACATCATTGTTCACCAGGAAAAC | 59.990 | 40.000 | 0.00 | 0.00 | 37.23 | 2.43 |
1922 | 3237 | 9.838975 | CAATAATACAGCACAATGTTAACAAGA | 57.161 | 29.630 | 13.23 | 0.00 | 34.56 | 3.02 |
2223 | 3538 | 3.266772 | TGACCAGCTGTATCCCTGAAAAT | 59.733 | 43.478 | 13.81 | 0.00 | 0.00 | 1.82 |
2404 | 3763 | 9.791801 | AAGCATGAAACAAAAATAAATAAGGGT | 57.208 | 25.926 | 0.00 | 0.00 | 0.00 | 4.34 |
2468 | 3828 | 1.270826 | CTCTCAGTGCGAACTTCCTCA | 59.729 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
2646 | 4006 | 4.559153 | ACTGCAAATTTTGGTACATCTGC | 58.441 | 39.130 | 10.96 | 0.00 | 39.30 | 4.26 |
2699 | 4059 | 5.892160 | AACTACGCTAGTATCACTCACAA | 57.108 | 39.130 | 0.00 | 0.00 | 38.26 | 3.33 |
2799 | 4159 | 2.514803 | TCGACAAGTGGATCAGACTGA | 58.485 | 47.619 | 7.80 | 7.80 | 0.00 | 3.41 |
2800 | 4160 | 3.516981 | ATCGACAAGTGGATCAGACTG | 57.483 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
2819 | 4179 | 9.119418 | ACAAAAAGGCAGTTTGCTTAAATAAAT | 57.881 | 25.926 | 11.47 | 0.00 | 44.28 | 1.40 |
2822 | 4182 | 8.499403 | AAACAAAAAGGCAGTTTGCTTAAATA | 57.501 | 26.923 | 11.47 | 0.00 | 44.28 | 1.40 |
2823 | 4183 | 7.389803 | AAACAAAAAGGCAGTTTGCTTAAAT | 57.610 | 28.000 | 11.47 | 0.00 | 44.28 | 1.40 |
2938 | 4300 | 5.532406 | TGGCCTGCAAAGAATTGTATATCTC | 59.468 | 40.000 | 3.32 | 0.00 | 38.85 | 2.75 |
2954 | 4316 | 2.427812 | CACAAATATCATGTGGCCTGCA | 59.572 | 45.455 | 3.32 | 3.24 | 43.45 | 4.41 |
3120 | 4482 | 9.979578 | AACACAATAAAGCATCTGAATTTACAA | 57.020 | 25.926 | 0.00 | 0.00 | 0.00 | 2.41 |
3121 | 4483 | 9.979578 | AAACACAATAAAGCATCTGAATTTACA | 57.020 | 25.926 | 0.00 | 0.00 | 0.00 | 2.41 |
3196 | 4559 | 6.855836 | TGCATAAGAAAATGTCCATCTCAAC | 58.144 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3202 | 4565 | 8.916062 | TGTATTCATGCATAAGAAAATGTCCAT | 58.084 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
3225 | 4588 | 3.586470 | AAAGGACCACCACAACATGTA | 57.414 | 42.857 | 0.00 | 0.00 | 38.94 | 2.29 |
3226 | 4589 | 2.430332 | CAAAAGGACCACCACAACATGT | 59.570 | 45.455 | 0.00 | 0.00 | 38.94 | 3.21 |
3240 | 4605 | 1.608542 | GCAACATGCATGGCAAAAGGA | 60.609 | 47.619 | 29.41 | 0.00 | 43.62 | 3.36 |
3461 | 5349 | 1.101049 | GTGTGTCTGTGTGTTGGGGG | 61.101 | 60.000 | 0.00 | 0.00 | 0.00 | 5.40 |
3462 | 5350 | 1.436195 | CGTGTGTCTGTGTGTTGGGG | 61.436 | 60.000 | 0.00 | 0.00 | 0.00 | 4.96 |
3463 | 5351 | 2.013807 | CGTGTGTCTGTGTGTTGGG | 58.986 | 57.895 | 0.00 | 0.00 | 0.00 | 4.12 |
3464 | 5352 | 1.351707 | GCGTGTGTCTGTGTGTTGG | 59.648 | 57.895 | 0.00 | 0.00 | 0.00 | 3.77 |
3465 | 5353 | 0.247655 | GTGCGTGTGTCTGTGTGTTG | 60.248 | 55.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3466 | 5354 | 0.672091 | TGTGCGTGTGTCTGTGTGTT | 60.672 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
3467 | 5355 | 0.672091 | TTGTGCGTGTGTCTGTGTGT | 60.672 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3468 | 5356 | 0.445829 | TTTGTGCGTGTGTCTGTGTG | 59.554 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
3469 | 5357 | 1.378531 | ATTTGTGCGTGTGTCTGTGT | 58.621 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3470 | 5358 | 3.600717 | TTATTTGTGCGTGTGTCTGTG | 57.399 | 42.857 | 0.00 | 0.00 | 0.00 | 3.66 |
3471 | 5359 | 3.563808 | ACATTATTTGTGCGTGTGTCTGT | 59.436 | 39.130 | 0.00 | 0.00 | 37.11 | 3.41 |
3472 | 5360 | 4.145876 | ACATTATTTGTGCGTGTGTCTG | 57.854 | 40.909 | 0.00 | 0.00 | 37.11 | 3.51 |
3473 | 5361 | 4.274705 | TCAACATTATTTGTGCGTGTGTCT | 59.725 | 37.500 | 0.00 | 0.00 | 38.99 | 3.41 |
3474 | 5362 | 4.532276 | TCAACATTATTTGTGCGTGTGTC | 58.468 | 39.130 | 0.00 | 0.00 | 38.99 | 3.67 |
3475 | 5363 | 4.560136 | TCAACATTATTTGTGCGTGTGT | 57.440 | 36.364 | 0.00 | 0.00 | 38.99 | 3.72 |
3476 | 5364 | 5.879948 | TTTCAACATTATTTGTGCGTGTG | 57.120 | 34.783 | 0.00 | 0.00 | 38.99 | 3.82 |
3477 | 5365 | 6.699204 | TGATTTTCAACATTATTTGTGCGTGT | 59.301 | 30.769 | 0.00 | 0.00 | 38.99 | 4.49 |
3604 | 6121 | 8.391106 | CCAGTAATATTACAGTTGCACTCTTTC | 58.609 | 37.037 | 24.05 | 0.00 | 36.12 | 2.62 |
3650 | 6167 | 7.746475 | GCTCATTTACACTCTGTTTACATGTTC | 59.254 | 37.037 | 2.30 | 0.00 | 0.00 | 3.18 |
3655 | 6172 | 9.502091 | AAATAGCTCATTTACACTCTGTTTACA | 57.498 | 29.630 | 0.00 | 0.00 | 34.99 | 2.41 |
3714 | 6232 | 7.042725 | GCTTTACAAACAAAGGAGATCCAAAAC | 60.043 | 37.037 | 0.92 | 0.00 | 36.27 | 2.43 |
3723 | 6241 | 9.559958 | CATATTAGTGCTTTACAAACAAAGGAG | 57.440 | 33.333 | 0.00 | 0.00 | 36.66 | 3.69 |
3975 | 6493 | 1.674359 | TTCCGCTGCTTTTGAGTTCA | 58.326 | 45.000 | 0.00 | 0.00 | 0.00 | 3.18 |
4007 | 6525 | 5.645067 | AGTAATGTCATGTGACCAGTTCATG | 59.355 | 40.000 | 10.40 | 9.24 | 44.15 | 3.07 |
4008 | 6526 | 5.809001 | AGTAATGTCATGTGACCAGTTCAT | 58.191 | 37.500 | 10.40 | 0.00 | 44.15 | 2.57 |
4051 | 6569 | 3.446873 | TGGTCAAGAAATTGTGCTTGTGT | 59.553 | 39.130 | 12.76 | 0.00 | 41.60 | 3.72 |
4052 | 6570 | 4.044336 | TGGTCAAGAAATTGTGCTTGTG | 57.956 | 40.909 | 12.76 | 0.00 | 41.60 | 3.33 |
4489 | 7008 | 7.360113 | AGGTTGAAACATAAACCAATCACTT | 57.640 | 32.000 | 7.28 | 0.00 | 46.91 | 3.16 |
4522 | 7042 | 1.909700 | AACACAACAAGATGGGCGAT | 58.090 | 45.000 | 0.00 | 0.00 | 0.00 | 4.58 |
4630 | 7168 | 4.631813 | GCTCAAATACCTGGAGTAACACAG | 59.368 | 45.833 | 0.00 | 0.00 | 33.70 | 3.66 |
4639 | 7177 | 6.161855 | CACTATAGTGCTCAAATACCTGGA | 57.838 | 41.667 | 19.55 | 0.00 | 39.39 | 3.86 |
4658 | 7196 | 4.374689 | TGGAACCATAAACCAAGCACTA | 57.625 | 40.909 | 0.00 | 0.00 | 0.00 | 2.74 |
4689 | 7227 | 0.394352 | CATTTTCGGTAGGCCTGGCT | 60.394 | 55.000 | 17.99 | 5.31 | 0.00 | 4.75 |
4707 | 7245 | 7.549839 | GGAAGGATGAATTTCATGTGAATTCA | 58.450 | 34.615 | 26.61 | 26.61 | 37.20 | 2.57 |
4711 | 7249 | 5.009631 | ACGGAAGGATGAATTTCATGTGAA | 58.990 | 37.500 | 16.41 | 0.00 | 37.20 | 3.18 |
4715 | 7253 | 7.645340 | GTCAATAACGGAAGGATGAATTTCATG | 59.355 | 37.037 | 16.41 | 3.94 | 37.20 | 3.07 |
4716 | 7254 | 7.339212 | TGTCAATAACGGAAGGATGAATTTCAT | 59.661 | 33.333 | 11.64 | 11.64 | 40.34 | 2.57 |
4718 | 7256 | 7.083875 | TGTCAATAACGGAAGGATGAATTTC | 57.916 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
4720 | 7258 | 7.645058 | ATTGTCAATAACGGAAGGATGAATT | 57.355 | 32.000 | 0.00 | 0.00 | 0.00 | 2.17 |
4721 | 7259 | 7.122650 | ACAATTGTCAATAACGGAAGGATGAAT | 59.877 | 33.333 | 4.92 | 0.00 | 0.00 | 2.57 |
4722 | 7260 | 6.432783 | ACAATTGTCAATAACGGAAGGATGAA | 59.567 | 34.615 | 4.92 | 0.00 | 0.00 | 2.57 |
4723 | 7261 | 5.943416 | ACAATTGTCAATAACGGAAGGATGA | 59.057 | 36.000 | 4.92 | 0.00 | 0.00 | 2.92 |
4724 | 7262 | 6.194796 | ACAATTGTCAATAACGGAAGGATG | 57.805 | 37.500 | 4.92 | 0.00 | 0.00 | 3.51 |
4725 | 7263 | 5.064707 | CGACAATTGTCAATAACGGAAGGAT | 59.935 | 40.000 | 32.06 | 0.00 | 44.99 | 3.24 |
4726 | 7264 | 4.390603 | CGACAATTGTCAATAACGGAAGGA | 59.609 | 41.667 | 32.06 | 0.00 | 44.99 | 3.36 |
4772 | 7310 | 4.470334 | TTGGGAAAATTTATCTGCAGGC | 57.530 | 40.909 | 15.13 | 0.00 | 0.00 | 4.85 |
4796 | 7334 | 3.379372 | GTGCCAGTGTGATGCTTATCATT | 59.621 | 43.478 | 0.00 | 0.00 | 35.05 | 2.57 |
4799 | 7337 | 1.328680 | CGTGCCAGTGTGATGCTTATC | 59.671 | 52.381 | 0.00 | 0.00 | 0.00 | 1.75 |
4801 | 7339 | 0.034756 | ACGTGCCAGTGTGATGCTTA | 59.965 | 50.000 | 0.00 | 0.00 | 0.00 | 3.09 |
4802 | 7340 | 0.034756 | TACGTGCCAGTGTGATGCTT | 59.965 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
4803 | 7341 | 0.390340 | CTACGTGCCAGTGTGATGCT | 60.390 | 55.000 | 0.00 | 0.00 | 0.00 | 3.79 |
4804 | 7342 | 0.670546 | ACTACGTGCCAGTGTGATGC | 60.671 | 55.000 | 0.00 | 0.00 | 0.00 | 3.91 |
4807 | 7345 | 3.119388 | GGTATTACTACGTGCCAGTGTGA | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 3.58 |
4808 | 7346 | 3.184541 | GGTATTACTACGTGCCAGTGTG | 58.815 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
4809 | 7347 | 2.827322 | TGGTATTACTACGTGCCAGTGT | 59.173 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
4810 | 7348 | 3.184541 | GTGGTATTACTACGTGCCAGTG | 58.815 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
4811 | 7349 | 2.167075 | GGTGGTATTACTACGTGCCAGT | 59.833 | 50.000 | 0.00 | 0.00 | 29.51 | 4.00 |
4812 | 7350 | 2.482490 | GGGTGGTATTACTACGTGCCAG | 60.482 | 54.545 | 0.00 | 0.00 | 29.51 | 4.85 |
4818 | 7356 | 4.996788 | ACTTCAGGGTGGTATTACTACG | 57.003 | 45.455 | 4.49 | 0.00 | 29.51 | 3.51 |
4896 | 7480 | 9.558396 | TCTGTTTAGATGGCAATTTTCAAATTT | 57.442 | 25.926 | 0.00 | 0.00 | 36.52 | 1.82 |
4897 | 7481 | 9.558396 | TTCTGTTTAGATGGCAATTTTCAAATT | 57.442 | 25.926 | 0.00 | 0.00 | 34.41 | 1.82 |
4898 | 7482 | 9.558396 | TTTCTGTTTAGATGGCAATTTTCAAAT | 57.442 | 25.926 | 0.00 | 0.00 | 31.81 | 2.32 |
4899 | 7483 | 8.954950 | TTTCTGTTTAGATGGCAATTTTCAAA | 57.045 | 26.923 | 0.00 | 0.00 | 31.81 | 2.69 |
4900 | 7484 | 8.203485 | ACTTTCTGTTTAGATGGCAATTTTCAA | 58.797 | 29.630 | 0.00 | 0.00 | 31.81 | 2.69 |
4901 | 7485 | 7.725251 | ACTTTCTGTTTAGATGGCAATTTTCA | 58.275 | 30.769 | 0.00 | 0.00 | 31.81 | 2.69 |
4902 | 7486 | 8.490355 | CAACTTTCTGTTTAGATGGCAATTTTC | 58.510 | 33.333 | 0.00 | 0.00 | 36.63 | 2.29 |
4903 | 7487 | 7.041848 | GCAACTTTCTGTTTAGATGGCAATTTT | 60.042 | 33.333 | 0.00 | 0.00 | 36.63 | 1.82 |
4904 | 7488 | 6.424812 | GCAACTTTCTGTTTAGATGGCAATTT | 59.575 | 34.615 | 0.00 | 0.00 | 36.63 | 1.82 |
4905 | 7489 | 5.928264 | GCAACTTTCTGTTTAGATGGCAATT | 59.072 | 36.000 | 0.00 | 0.00 | 36.63 | 2.32 |
4906 | 7490 | 5.473039 | GCAACTTTCTGTTTAGATGGCAAT | 58.527 | 37.500 | 0.00 | 0.00 | 36.63 | 3.56 |
4907 | 7491 | 4.261994 | GGCAACTTTCTGTTTAGATGGCAA | 60.262 | 41.667 | 0.00 | 0.00 | 35.81 | 4.52 |
4908 | 7492 | 3.255642 | GGCAACTTTCTGTTTAGATGGCA | 59.744 | 43.478 | 0.00 | 0.00 | 35.81 | 4.92 |
4909 | 7493 | 3.255642 | TGGCAACTTTCTGTTTAGATGGC | 59.744 | 43.478 | 0.00 | 0.00 | 36.63 | 4.40 |
4910 | 7494 | 5.404946 | CATGGCAACTTTCTGTTTAGATGG | 58.595 | 41.667 | 0.00 | 0.00 | 36.63 | 3.51 |
4911 | 7495 | 4.860907 | GCATGGCAACTTTCTGTTTAGATG | 59.139 | 41.667 | 0.00 | 0.00 | 36.63 | 2.90 |
4912 | 7496 | 4.768968 | AGCATGGCAACTTTCTGTTTAGAT | 59.231 | 37.500 | 0.00 | 0.00 | 36.63 | 1.98 |
4913 | 7497 | 4.144297 | AGCATGGCAACTTTCTGTTTAGA | 58.856 | 39.130 | 0.00 | 0.00 | 36.63 | 2.10 |
4914 | 7498 | 4.510038 | AGCATGGCAACTTTCTGTTTAG | 57.490 | 40.909 | 0.00 | 0.00 | 36.63 | 1.85 |
4915 | 7499 | 4.935352 | AAGCATGGCAACTTTCTGTTTA | 57.065 | 36.364 | 0.00 | 0.00 | 36.63 | 2.01 |
4916 | 7500 | 3.825143 | AAGCATGGCAACTTTCTGTTT | 57.175 | 38.095 | 0.00 | 0.00 | 36.63 | 2.83 |
4917 | 7501 | 3.825143 | AAAGCATGGCAACTTTCTGTT | 57.175 | 38.095 | 11.75 | 0.00 | 39.92 | 3.16 |
4918 | 7502 | 6.209391 | AGTTATAAAGCATGGCAACTTTCTGT | 59.791 | 34.615 | 18.60 | 10.98 | 37.33 | 3.41 |
4919 | 7503 | 6.624423 | AGTTATAAAGCATGGCAACTTTCTG | 58.376 | 36.000 | 18.60 | 0.95 | 37.33 | 3.02 |
4920 | 7504 | 6.840780 | AGTTATAAAGCATGGCAACTTTCT | 57.159 | 33.333 | 18.60 | 13.26 | 37.33 | 2.52 |
4921 | 7505 | 9.023967 | CAATAGTTATAAAGCATGGCAACTTTC | 57.976 | 33.333 | 18.60 | 7.93 | 37.33 | 2.62 |
4922 | 7506 | 8.531146 | ACAATAGTTATAAAGCATGGCAACTTT | 58.469 | 29.630 | 18.92 | 18.92 | 39.38 | 2.66 |
4923 | 7507 | 8.066612 | ACAATAGTTATAAAGCATGGCAACTT | 57.933 | 30.769 | 0.00 | 0.00 | 37.61 | 2.66 |
4924 | 7508 | 7.339212 | TGACAATAGTTATAAAGCATGGCAACT | 59.661 | 33.333 | 0.00 | 0.00 | 37.61 | 3.16 |
4925 | 7509 | 7.479980 | TGACAATAGTTATAAAGCATGGCAAC | 58.520 | 34.615 | 0.00 | 0.00 | 0.00 | 4.17 |
4926 | 7510 | 7.637631 | TGACAATAGTTATAAAGCATGGCAA | 57.362 | 32.000 | 0.00 | 0.00 | 0.00 | 4.52 |
4927 | 7511 | 7.501892 | TGATGACAATAGTTATAAAGCATGGCA | 59.498 | 33.333 | 0.00 | 0.00 | 0.00 | 4.92 |
4928 | 7512 | 7.874940 | TGATGACAATAGTTATAAAGCATGGC | 58.125 | 34.615 | 0.00 | 0.00 | 0.00 | 4.40 |
4954 | 7538 | 4.942852 | TGAAGCAATTCCGTCACATTTTT | 58.057 | 34.783 | 0.00 | 0.00 | 0.00 | 1.94 |
4955 | 7539 | 4.582701 | TGAAGCAATTCCGTCACATTTT | 57.417 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
4956 | 7540 | 4.022068 | ACATGAAGCAATTCCGTCACATTT | 60.022 | 37.500 | 0.00 | 0.00 | 0.00 | 2.32 |
4957 | 7541 | 3.507233 | ACATGAAGCAATTCCGTCACATT | 59.493 | 39.130 | 0.00 | 0.00 | 0.00 | 2.71 |
4958 | 7542 | 3.084039 | ACATGAAGCAATTCCGTCACAT | 58.916 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
4959 | 7543 | 2.483877 | GACATGAAGCAATTCCGTCACA | 59.516 | 45.455 | 0.00 | 0.00 | 0.00 | 3.58 |
4960 | 7544 | 2.483877 | TGACATGAAGCAATTCCGTCAC | 59.516 | 45.455 | 0.00 | 0.00 | 31.59 | 3.67 |
4961 | 7545 | 2.483877 | GTGACATGAAGCAATTCCGTCA | 59.516 | 45.455 | 0.00 | 6.35 | 33.07 | 4.35 |
4965 | 7549 | 2.226437 | ACGTGTGACATGAAGCAATTCC | 59.774 | 45.455 | 12.40 | 0.00 | 0.00 | 3.01 |
5016 | 7601 | 6.231211 | CCACACCAGATTGTAAGTTAGTTCT | 58.769 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
5031 | 7616 | 1.497286 | ACTAAAAAGGGCCACACCAGA | 59.503 | 47.619 | 6.18 | 0.00 | 42.05 | 3.86 |
5082 | 7676 | 4.283467 | TCACTGAGCAACTACAACCAGTAT | 59.717 | 41.667 | 0.00 | 0.00 | 34.01 | 2.12 |
5118 | 7712 | 5.212194 | CGGACATTTTGAGTTTTGATTCGT | 58.788 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
5119 | 7713 | 5.212194 | ACGGACATTTTGAGTTTTGATTCG | 58.788 | 37.500 | 0.00 | 0.00 | 0.00 | 3.34 |
5120 | 7714 | 6.918022 | AGAACGGACATTTTGAGTTTTGATTC | 59.082 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
5122 | 7716 | 6.183360 | ACAGAACGGACATTTTGAGTTTTGAT | 60.183 | 34.615 | 4.58 | 0.00 | 33.15 | 2.57 |
5123 | 7717 | 5.124776 | ACAGAACGGACATTTTGAGTTTTGA | 59.875 | 36.000 | 4.58 | 0.00 | 33.15 | 2.69 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.