Multiple sequence alignment - TraesCS3D01G072200
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 | TraesCS3D01G072200 | chr3D | 100.000 | 4529 | 0 | 0 | 1 | 4529 | 32298587 | 32303115 | 0.000000e+00 | 8364 |
1 | TraesCS3D01G072200 | chr3D | 86.543 | 3017 | 348 | 33 | 611 | 3605 | 32278507 | 32281487 | 0.000000e+00 | 3269 |
2 | TraesCS3D01G072200 | chr3D | 80.914 | 372 | 62 | 5 | 234 | 598 | 32277711 | 32278080 | 7.420000e-73 | 285 |
3 | TraesCS3D01G072200 | chr3B | 87.671 | 3958 | 429 | 28 | 605 | 4527 | 54793910 | 54797843 | 0.000000e+00 | 4551 |
4 | TraesCS3D01G072200 | chr3B | 90.049 | 2241 | 192 | 15 | 2313 | 4527 | 54786056 | 54788291 | 0.000000e+00 | 2874 |
5 | TraesCS3D01G072200 | chr3B | 84.771 | 1635 | 223 | 19 | 605 | 2234 | 54784424 | 54786037 | 0.000000e+00 | 1616 |
6 | TraesCS3D01G072200 | chr3B | 87.150 | 607 | 66 | 8 | 1 | 603 | 54783372 | 54783970 | 0.000000e+00 | 678 |
7 | TraesCS3D01G072200 | chr3A | 86.957 | 3956 | 412 | 41 | 611 | 4527 | 44709446 | 44713336 | 0.000000e+00 | 4351 |
8 | TraesCS3D01G072200 | chr3A | 85.738 | 3015 | 380 | 28 | 611 | 3605 | 44639119 | 44642103 | 0.000000e+00 | 3140 |
9 | TraesCS3D01G072200 | chr3A | 79.947 | 379 | 56 | 12 | 232 | 599 | 44708817 | 44709186 | 1.250000e-65 | 261 |
10 | TraesCS3D01G072200 | chr4D | 81.063 | 2973 | 459 | 49 | 610 | 3556 | 1994964 | 1997858 | 0.000000e+00 | 2276 |
11 | TraesCS3D01G072200 | chr5D | 80.951 | 3008 | 447 | 70 | 611 | 3583 | 104257929 | 104255013 | 0.000000e+00 | 2265 |
12 | TraesCS3D01G072200 | chr5D | 84.251 | 1289 | 171 | 15 | 1003 | 2278 | 425838927 | 425840196 | 0.000000e+00 | 1227 |
13 | TraesCS3D01G072200 | chrUn | 80.256 | 2887 | 443 | 72 | 724 | 3565 | 47549307 | 47546503 | 0.000000e+00 | 2056 |
14 | TraesCS3D01G072200 | chr5B | 86.006 | 1272 | 153 | 11 | 1015 | 2278 | 515184116 | 515185370 | 0.000000e+00 | 1339 |
15 | TraesCS3D01G072200 | chr5B | 83.212 | 1239 | 161 | 30 | 2353 | 3583 | 113676825 | 113675626 | 0.000000e+00 | 1092 |
16 | TraesCS3D01G072200 | chr5B | 81.415 | 1329 | 196 | 21 | 2353 | 3674 | 14706079 | 14707363 | 0.000000e+00 | 1038 |
17 | TraesCS3D01G072200 | chr5A | 84.929 | 1274 | 163 | 17 | 1015 | 2278 | 540052000 | 540053254 | 0.000000e+00 | 1262 |
18 | TraesCS3D01G072200 | chr4B | 79.322 | 1533 | 249 | 35 | 610 | 2130 | 2337604 | 2336128 | 0.000000e+00 | 1013 |
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 | TraesCS3D01G072200 | chr3D | 32298587 | 32303115 | 4528 | False | 8364.000000 | 8364 | 100.000000 | 1 | 4529 | 1 | chr3D.!!$F1 | 4528 |
1 | TraesCS3D01G072200 | chr3D | 32277711 | 32281487 | 3776 | False | 1777.000000 | 3269 | 83.728500 | 234 | 3605 | 2 | chr3D.!!$F2 | 3371 |
2 | TraesCS3D01G072200 | chr3B | 54793910 | 54797843 | 3933 | False | 4551.000000 | 4551 | 87.671000 | 605 | 4527 | 1 | chr3B.!!$F1 | 3922 |
3 | TraesCS3D01G072200 | chr3B | 54783372 | 54788291 | 4919 | False | 1722.666667 | 2874 | 87.323333 | 1 | 4527 | 3 | chr3B.!!$F2 | 4526 |
4 | TraesCS3D01G072200 | chr3A | 44639119 | 44642103 | 2984 | False | 3140.000000 | 3140 | 85.738000 | 611 | 3605 | 1 | chr3A.!!$F1 | 2994 |
5 | TraesCS3D01G072200 | chr3A | 44708817 | 44713336 | 4519 | False | 2306.000000 | 4351 | 83.452000 | 232 | 4527 | 2 | chr3A.!!$F2 | 4295 |
6 | TraesCS3D01G072200 | chr4D | 1994964 | 1997858 | 2894 | False | 2276.000000 | 2276 | 81.063000 | 610 | 3556 | 1 | chr4D.!!$F1 | 2946 |
7 | TraesCS3D01G072200 | chr5D | 104255013 | 104257929 | 2916 | True | 2265.000000 | 2265 | 80.951000 | 611 | 3583 | 1 | chr5D.!!$R1 | 2972 |
8 | TraesCS3D01G072200 | chr5D | 425838927 | 425840196 | 1269 | False | 1227.000000 | 1227 | 84.251000 | 1003 | 2278 | 1 | chr5D.!!$F1 | 1275 |
9 | TraesCS3D01G072200 | chrUn | 47546503 | 47549307 | 2804 | True | 2056.000000 | 2056 | 80.256000 | 724 | 3565 | 1 | chrUn.!!$R1 | 2841 |
10 | TraesCS3D01G072200 | chr5B | 515184116 | 515185370 | 1254 | False | 1339.000000 | 1339 | 86.006000 | 1015 | 2278 | 1 | chr5B.!!$F2 | 1263 |
11 | TraesCS3D01G072200 | chr5B | 113675626 | 113676825 | 1199 | True | 1092.000000 | 1092 | 83.212000 | 2353 | 3583 | 1 | chr5B.!!$R1 | 1230 |
12 | TraesCS3D01G072200 | chr5B | 14706079 | 14707363 | 1284 | False | 1038.000000 | 1038 | 81.415000 | 2353 | 3674 | 1 | chr5B.!!$F1 | 1321 |
13 | TraesCS3D01G072200 | chr5A | 540052000 | 540053254 | 1254 | False | 1262.000000 | 1262 | 84.929000 | 1015 | 2278 | 1 | chr5A.!!$F1 | 1263 |
14 | TraesCS3D01G072200 | chr4B | 2336128 | 2337604 | 1476 | True | 1013.000000 | 1013 | 79.322000 | 610 | 2130 | 1 | chr4B.!!$R1 | 1520 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
371 | 372 | 0.251916 | TGTATCCGTCCTTGGGCTTG | 59.748 | 55.0 | 0.0 | 0.0 | 0.00 | 4.01 | F |
374 | 375 | 0.322546 | ATCCGTCCTTGGGCTTGAAC | 60.323 | 55.0 | 0.0 | 0.0 | 0.00 | 3.18 | F |
1750 | 2311 | 0.393808 | GGGCTTTTACCGCTCATGGA | 60.394 | 55.0 | 0.0 | 0.0 | 0.00 | 3.41 | F |
1791 | 2355 | 0.988832 | ACTTATTTGGTGCCTCGGGA | 59.011 | 50.0 | 0.0 | 0.0 | 0.00 | 5.14 | F |
2635 | 3242 | 0.726827 | GGCGATCAAGCGATTCAACA | 59.273 | 50.0 | 0.0 | 0.0 | 38.18 | 3.33 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1643 | 2201 | 0.107703 | AGCGGCGAATGAGAATGGAA | 60.108 | 50.0 | 12.98 | 0.00 | 0.00 | 3.53 | R |
2073 | 2644 | 0.175760 | CGATTCCTCCGCTCCAGAAA | 59.824 | 55.0 | 0.00 | 0.00 | 0.00 | 2.52 | R |
2635 | 3242 | 0.251787 | AAGCCTTGCCGGGATTTCTT | 60.252 | 50.0 | 2.18 | 0.56 | 29.99 | 2.52 | R |
2862 | 3469 | 0.618458 | TGTGGAGGTAATGCAGTCCC | 59.382 | 55.0 | 0.00 | 0.00 | 0.00 | 4.46 | R |
4180 | 4809 | 0.033011 | AGATCGAGTGTAGGTGGGCT | 60.033 | 55.0 | 0.00 | 0.00 | 0.00 | 5.19 | 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 |
---|---|---|---|---|---|---|---|---|---|
46 | 47 | 5.105392 | TGTTTTGCTTTGAACATGAGACCTT | 60.105 | 36.000 | 0.00 | 0.00 | 31.30 | 3.50 |
76 | 77 | 8.184192 | ACATTTATTCTTTGACTATCCTTTGCG | 58.816 | 33.333 | 0.00 | 0.00 | 0.00 | 4.85 |
103 | 104 | 3.720818 | CGCGCTGTTTATTTAGCATTCAG | 59.279 | 43.478 | 5.56 | 0.00 | 39.87 | 3.02 |
104 | 105 | 3.483558 | GCGCTGTTTATTTAGCATTCAGC | 59.516 | 43.478 | 0.00 | 0.00 | 46.19 | 4.26 |
130 | 131 | 1.004560 | CTCGGTGTGGCATGTCACT | 60.005 | 57.895 | 29.20 | 0.00 | 38.40 | 3.41 |
134 | 135 | 2.498078 | TCGGTGTGGCATGTCACTTATA | 59.502 | 45.455 | 29.20 | 8.07 | 38.40 | 0.98 |
141 | 142 | 3.636300 | TGGCATGTCACTTATATTTGCCC | 59.364 | 43.478 | 0.00 | 0.00 | 45.86 | 5.36 |
177 | 178 | 1.326852 | GTGTGCATGCTCAATCTCTCG | 59.673 | 52.381 | 22.97 | 0.00 | 0.00 | 4.04 |
182 | 183 | 2.871022 | GCATGCTCAATCTCTCGTCATT | 59.129 | 45.455 | 11.37 | 0.00 | 0.00 | 2.57 |
192 | 193 | 1.879380 | CTCTCGTCATTTTTGCCCACA | 59.121 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
202 | 203 | 0.747255 | TTTGCCCACAAAAAGCGCTA | 59.253 | 45.000 | 12.05 | 0.00 | 42.73 | 4.26 |
235 | 236 | 1.137675 | CTCATGCCTTCATCTCGTCCA | 59.862 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
305 | 306 | 1.607509 | CCATGCATCATCCTCCTCGTC | 60.608 | 57.143 | 0.00 | 0.00 | 0.00 | 4.20 |
311 | 312 | 3.878778 | CATCATCCTCCTCGTCCTTTTT | 58.121 | 45.455 | 0.00 | 0.00 | 0.00 | 1.94 |
317 | 318 | 2.233922 | CCTCCTCGTCCTTTTTGAGCTA | 59.766 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
325 | 326 | 6.698380 | TCGTCCTTTTTGAGCTACTTTATCT | 58.302 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
326 | 327 | 6.812160 | TCGTCCTTTTTGAGCTACTTTATCTC | 59.188 | 38.462 | 0.00 | 0.00 | 0.00 | 2.75 |
341 | 342 | 9.645059 | CTACTTTATCTCACTTGATTCAGTTGA | 57.355 | 33.333 | 0.84 | 0.84 | 0.00 | 3.18 |
359 | 360 | 5.176406 | CAGTTGAATATGCTCTGTGTATCCG | 59.824 | 44.000 | 0.00 | 0.00 | 0.00 | 4.18 |
361 | 362 | 4.871513 | TGAATATGCTCTGTGTATCCGTC | 58.128 | 43.478 | 0.00 | 0.00 | 0.00 | 4.79 |
371 | 372 | 0.251916 | TGTATCCGTCCTTGGGCTTG | 59.748 | 55.000 | 0.00 | 0.00 | 0.00 | 4.01 |
374 | 375 | 0.322546 | ATCCGTCCTTGGGCTTGAAC | 60.323 | 55.000 | 0.00 | 0.00 | 0.00 | 3.18 |
433 | 434 | 2.042944 | GGCCAATGGGTTCCCCTC | 60.043 | 66.667 | 0.00 | 0.00 | 45.70 | 4.30 |
453 | 454 | 6.183347 | CCCTCAGTTTAGTTCTTTCATCCAT | 58.817 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
455 | 456 | 6.656693 | CCTCAGTTTAGTTCTTTCATCCATGT | 59.343 | 38.462 | 0.00 | 0.00 | 0.00 | 3.21 |
459 | 461 | 7.175641 | CAGTTTAGTTCTTTCATCCATGTTCCT | 59.824 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
460 | 462 | 7.725844 | AGTTTAGTTCTTTCATCCATGTTCCTT | 59.274 | 33.333 | 0.00 | 0.00 | 0.00 | 3.36 |
462 | 464 | 5.012893 | AGTTCTTTCATCCATGTTCCTTCC | 58.987 | 41.667 | 0.00 | 0.00 | 0.00 | 3.46 |
468 | 470 | 5.296151 | TCATCCATGTTCCTTCCACTATC | 57.704 | 43.478 | 0.00 | 0.00 | 0.00 | 2.08 |
483 | 485 | 3.679389 | CACTATCTGTTTTGGAGTGGCT | 58.321 | 45.455 | 0.00 | 0.00 | 35.05 | 4.75 |
485 | 487 | 5.245531 | CACTATCTGTTTTGGAGTGGCTAA | 58.754 | 41.667 | 0.00 | 0.00 | 35.05 | 3.09 |
493 | 495 | 5.596361 | TGTTTTGGAGTGGCTAAAATTGAGA | 59.404 | 36.000 | 0.00 | 0.00 | 38.86 | 3.27 |
494 | 496 | 5.964958 | TTTGGAGTGGCTAAAATTGAGAG | 57.035 | 39.130 | 0.00 | 0.00 | 0.00 | 3.20 |
501 | 506 | 6.779860 | AGTGGCTAAAATTGAGAGTTTCCTA | 58.220 | 36.000 | 0.00 | 0.00 | 0.00 | 2.94 |
502 | 507 | 6.881602 | AGTGGCTAAAATTGAGAGTTTCCTAG | 59.118 | 38.462 | 0.00 | 0.00 | 0.00 | 3.02 |
503 | 508 | 6.879458 | GTGGCTAAAATTGAGAGTTTCCTAGA | 59.121 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
504 | 509 | 7.554476 | GTGGCTAAAATTGAGAGTTTCCTAGAT | 59.446 | 37.037 | 0.00 | 0.00 | 0.00 | 1.98 |
554 | 563 | 1.680249 | CCCCAACCTAGCAAGAAGAGC | 60.680 | 57.143 | 0.00 | 0.00 | 0.00 | 4.09 |
558 | 567 | 2.999355 | CAACCTAGCAAGAAGAGCAGAC | 59.001 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
559 | 568 | 1.552792 | ACCTAGCAAGAAGAGCAGACC | 59.447 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
560 | 569 | 1.470632 | CCTAGCAAGAAGAGCAGACCG | 60.471 | 57.143 | 0.00 | 0.00 | 0.00 | 4.79 |
603 | 614 | 6.760770 | TCAAAAATAAAAGGCAAGTTGTCCAG | 59.239 | 34.615 | 15.71 | 0.00 | 0.00 | 3.86 |
608 | 1127 | 1.529244 | GGCAAGTTGTCCAGGCAGT | 60.529 | 57.895 | 4.48 | 0.00 | 0.00 | 4.40 |
609 | 1128 | 1.109323 | GGCAAGTTGTCCAGGCAGTT | 61.109 | 55.000 | 4.48 | 0.00 | 0.00 | 3.16 |
617 | 1136 | 2.575532 | TGTCCAGGCAGTTTTTCTCTG | 58.424 | 47.619 | 0.00 | 0.00 | 36.18 | 3.35 |
636 | 1155 | 7.297936 | TCTCTGTTTATGTCTTCTGGTACAA | 57.702 | 36.000 | 0.00 | 0.00 | 38.70 | 2.41 |
697 | 1218 | 8.385111 | TGCTAAAGTTCGTGCAATTATTAGTAC | 58.615 | 33.333 | 0.00 | 0.00 | 32.12 | 2.73 |
755 | 1276 | 6.068473 | TGCATCAATCAGCTATTGTTCATC | 57.932 | 37.500 | 12.59 | 4.29 | 44.58 | 2.92 |
769 | 1291 | 4.782019 | TGTTCATCTTGCCATGGTTTAC | 57.218 | 40.909 | 14.67 | 0.00 | 0.00 | 2.01 |
782 | 1304 | 7.151308 | TGCCATGGTTTACTTTACTGAATTTG | 58.849 | 34.615 | 14.67 | 0.00 | 0.00 | 2.32 |
784 | 1306 | 7.378181 | CCATGGTTTACTTTACTGAATTTGCT | 58.622 | 34.615 | 2.57 | 0.00 | 0.00 | 3.91 |
787 | 1309 | 8.232913 | TGGTTTACTTTACTGAATTTGCTTCT | 57.767 | 30.769 | 0.00 | 0.00 | 34.75 | 2.85 |
806 | 1329 | 6.701400 | TGCTTCTTTTGTTTTTCCTGCTATTC | 59.299 | 34.615 | 0.00 | 0.00 | 0.00 | 1.75 |
854 | 1381 | 8.757789 | CGTGTGTTCTTCACTAAACAATAGTAA | 58.242 | 33.333 | 0.00 | 0.00 | 46.27 | 2.24 |
882 | 1409 | 7.922382 | TCCTAAGATCCTCAATTTTTCTGACT | 58.078 | 34.615 | 0.00 | 0.00 | 0.00 | 3.41 |
900 | 1427 | 2.893489 | GACTGTTTCTTGCCCCAAATCT | 59.107 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
943 | 1477 | 2.516930 | CCCTATGCAACTGCCCCG | 60.517 | 66.667 | 0.00 | 0.00 | 41.18 | 5.73 |
976 | 1511 | 2.824936 | TGTGGCAAGTTGATGTAATGGG | 59.175 | 45.455 | 7.16 | 0.00 | 0.00 | 4.00 |
1079 | 1622 | 4.021894 | ACTGTTAGCTCTCTTGTCGATTGT | 60.022 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
1094 | 1637 | 2.479275 | CGATTGTCATGGCAGCTGATAG | 59.521 | 50.000 | 20.43 | 3.57 | 0.00 | 2.08 |
1108 | 1651 | 1.220749 | GATAGCAACTCCACGGCCA | 59.779 | 57.895 | 2.24 | 0.00 | 0.00 | 5.36 |
1122 | 1665 | 4.751431 | GCCACTGGCCTCATTCTT | 57.249 | 55.556 | 9.13 | 0.00 | 44.06 | 2.52 |
1126 | 1669 | 2.744494 | GCCACTGGCCTCATTCTTCTAG | 60.744 | 54.545 | 9.13 | 0.00 | 44.06 | 2.43 |
1180 | 1729 | 1.210967 | GTGGTCGTATTTGGGATGGGA | 59.789 | 52.381 | 0.00 | 0.00 | 0.00 | 4.37 |
1258 | 1813 | 1.081277 | GACCCTTCACTCCCCTCCT | 59.919 | 63.158 | 0.00 | 0.00 | 0.00 | 3.69 |
1272 | 1827 | 3.049778 | TCCCCTCCTTGGTCCCTTATATT | 60.050 | 47.826 | 0.00 | 0.00 | 0.00 | 1.28 |
1276 | 1831 | 6.328592 | CCCTCCTTGGTCCCTTATATTACTA | 58.671 | 44.000 | 0.00 | 0.00 | 0.00 | 1.82 |
1306 | 1861 | 8.125448 | GCATCTTCACTTCAAATTACACCTATC | 58.875 | 37.037 | 0.00 | 0.00 | 0.00 | 2.08 |
1307 | 1862 | 9.166173 | CATCTTCACTTCAAATTACACCTATCA | 57.834 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
1330 | 1885 | 4.767255 | CTGTCAGTCCAGGCCGCC | 62.767 | 72.222 | 0.00 | 0.00 | 0.00 | 6.13 |
1397 | 1952 | 3.329386 | CTGTCTTCGATGCCTTCTTTGA | 58.671 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
1488 | 2043 | 2.224670 | TGCCTACCTTGTCCGTGAATTT | 60.225 | 45.455 | 0.00 | 0.00 | 0.00 | 1.82 |
1491 | 2046 | 4.069304 | CCTACCTTGTCCGTGAATTTTCA | 58.931 | 43.478 | 0.00 | 0.00 | 34.20 | 2.69 |
1511 | 2066 | 4.206375 | TCAGTGAATGTTTCTTCAGGCAA | 58.794 | 39.130 | 0.00 | 0.00 | 35.88 | 4.52 |
1573 | 2131 | 4.031418 | TCTTATGCATTTGTCAATGGCG | 57.969 | 40.909 | 3.54 | 0.00 | 40.36 | 5.69 |
1587 | 2145 | 2.479566 | ATGGCGTTGAGATTGTGTCT | 57.520 | 45.000 | 0.00 | 0.00 | 40.81 | 3.41 |
1612 | 2170 | 5.109210 | CGCCTGACATCTTTACAACATCTA | 58.891 | 41.667 | 0.00 | 0.00 | 0.00 | 1.98 |
1615 | 2173 | 6.595716 | GCCTGACATCTTTACAACATCTAACT | 59.404 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
1643 | 2201 | 1.010419 | GTCGACGGCGGTAACACATT | 61.010 | 55.000 | 12.58 | 0.00 | 38.28 | 2.71 |
1707 | 2265 | 2.505982 | CTCAATGTCGGGGGCGAT | 59.494 | 61.111 | 0.00 | 0.00 | 0.00 | 4.58 |
1723 | 2281 | 1.068333 | GCGATGCCATTTTGCCGATAT | 60.068 | 47.619 | 0.00 | 0.00 | 0.00 | 1.63 |
1750 | 2311 | 0.393808 | GGGCTTTTACCGCTCATGGA | 60.394 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1768 | 2329 | 3.870633 | GGAACAGTGATTCCTCGTACT | 57.129 | 47.619 | 13.93 | 0.00 | 44.24 | 2.73 |
1769 | 2330 | 4.189639 | GGAACAGTGATTCCTCGTACTT | 57.810 | 45.455 | 13.93 | 0.00 | 44.24 | 2.24 |
1784 | 2348 | 5.063060 | CCTCGTACTTGTACTTATTTGGTGC | 59.937 | 44.000 | 8.94 | 0.00 | 0.00 | 5.01 |
1788 | 2352 | 4.000988 | ACTTGTACTTATTTGGTGCCTCG | 58.999 | 43.478 | 0.00 | 0.00 | 0.00 | 4.63 |
1791 | 2355 | 0.988832 | ACTTATTTGGTGCCTCGGGA | 59.011 | 50.000 | 0.00 | 0.00 | 0.00 | 5.14 |
1825 | 2396 | 8.090214 | TCTCCAAAGATTTCAATTTGACCATTC | 58.910 | 33.333 | 0.00 | 0.00 | 38.42 | 2.67 |
1826 | 2397 | 7.733969 | TCCAAAGATTTCAATTTGACCATTCA | 58.266 | 30.769 | 0.00 | 0.00 | 38.42 | 2.57 |
1861 | 2432 | 1.714899 | GCCGAATTACACTGCGCCAT | 61.715 | 55.000 | 4.18 | 0.00 | 0.00 | 4.40 |
1966 | 2537 | 1.295423 | GCAGGGTTCGCTTACCTCA | 59.705 | 57.895 | 4.38 | 0.00 | 38.30 | 3.86 |
2018 | 2589 | 7.639062 | ATCCTATTACCAAGGTGAATCAGAT | 57.361 | 36.000 | 1.07 | 2.58 | 35.48 | 2.90 |
2117 | 2688 | 6.018669 | GGTAGAACAGCATACAAAGACTATGC | 60.019 | 42.308 | 2.75 | 2.75 | 44.69 | 3.14 |
2182 | 2753 | 4.214971 | CACTTCACCCTGATCTTTCAAGTG | 59.785 | 45.833 | 0.00 | 1.93 | 37.47 | 3.16 |
2208 | 2779 | 7.944729 | ACCAGAGTATTTTGATGCAATACTT | 57.055 | 32.000 | 8.92 | 0.00 | 44.17 | 2.24 |
2223 | 2794 | 6.245408 | TGCAATACTTAATGGTCTTGAGGTT | 58.755 | 36.000 | 0.00 | 0.00 | 0.00 | 3.50 |
2278 | 2852 | 1.005215 | CTGGGCTCAATCCTCCACTTT | 59.995 | 52.381 | 0.00 | 0.00 | 0.00 | 2.66 |
2284 | 2858 | 3.012518 | CTCAATCCTCCACTTTCGCAAT | 58.987 | 45.455 | 0.00 | 0.00 | 0.00 | 3.56 |
2286 | 2860 | 3.440173 | TCAATCCTCCACTTTCGCAATTC | 59.560 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
2287 | 2861 | 2.559698 | TCCTCCACTTTCGCAATTCA | 57.440 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2293 | 2867 | 3.436704 | TCCACTTTCGCAATTCACTGATC | 59.563 | 43.478 | 0.00 | 0.00 | 0.00 | 2.92 |
2298 | 2872 | 6.521133 | CACTTTCGCAATTCACTGATCTTAAC | 59.479 | 38.462 | 0.00 | 0.00 | 0.00 | 2.01 |
2317 | 2906 | 6.321181 | TCTTAACAGTGTTGCAAGAAAATCCT | 59.679 | 34.615 | 18.90 | 0.00 | 30.19 | 3.24 |
2319 | 2908 | 6.655078 | AACAGTGTTGCAAGAAAATCCTAT | 57.345 | 33.333 | 7.96 | 0.00 | 0.00 | 2.57 |
2321 | 2910 | 5.769662 | ACAGTGTTGCAAGAAAATCCTATGA | 59.230 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
2348 | 2955 | 3.583054 | CAGCAGTCATGGGTGGAAT | 57.417 | 52.632 | 0.00 | 0.00 | 0.00 | 3.01 |
2360 | 2967 | 1.092348 | GGTGGAATTACTGGCGGTTC | 58.908 | 55.000 | 3.31 | 0.00 | 0.00 | 3.62 |
2405 | 3012 | 2.223144 | TCAGCACGTTTGTTATCTGCAC | 59.777 | 45.455 | 0.00 | 0.00 | 0.00 | 4.57 |
2424 | 3031 | 2.875933 | CACACGGAAGAAGGTAGCAAAA | 59.124 | 45.455 | 0.00 | 0.00 | 0.00 | 2.44 |
2471 | 3078 | 4.226846 | ACATCTGAATCATCCCACTGAACT | 59.773 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
2481 | 3088 | 2.368875 | TCCCACTGAACTCAGAAAGTCC | 59.631 | 50.000 | 13.61 | 0.00 | 46.59 | 3.85 |
2512 | 3119 | 5.462530 | TCTTGTCCGTCACTTCTCATTTA | 57.537 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
2569 | 3176 | 2.646930 | CACTTATCATTGGCAGAGGCA | 58.353 | 47.619 | 0.00 | 0.00 | 43.71 | 4.75 |
2578 | 3185 | 2.747855 | GCAGAGGCAGTTTCGGGG | 60.748 | 66.667 | 0.00 | 0.00 | 40.72 | 5.73 |
2588 | 3195 | 2.614481 | GCAGTTTCGGGGATGTCTACAA | 60.614 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
2592 | 3199 | 2.168458 | TCGGGGATGTCTACAATGGA | 57.832 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2635 | 3242 | 0.726827 | GGCGATCAAGCGATTCAACA | 59.273 | 50.000 | 0.00 | 0.00 | 38.18 | 3.33 |
2645 | 3252 | 2.420022 | AGCGATTCAACAAGAAATCCCG | 59.580 | 45.455 | 0.00 | 0.00 | 40.22 | 5.14 |
2664 | 3271 | 1.270550 | CGGCAAGGCTTTCATGAGTTT | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 2.66 |
2766 | 3373 | 7.846101 | TGAGATGATTCTGGTGTATGACTAT | 57.154 | 36.000 | 0.00 | 0.00 | 30.30 | 2.12 |
3207 | 3814 | 3.549794 | GGCACTATCTTGCTGGAAGAAT | 58.450 | 45.455 | 15.62 | 7.26 | 44.11 | 2.40 |
3394 | 4001 | 2.604914 | CAGGATAGTGCAAGCTACAACG | 59.395 | 50.000 | 0.00 | 0.00 | 0.00 | 4.10 |
3425 | 4032 | 2.417933 | CAGAGGGTGCTTCATTTCTTCG | 59.582 | 50.000 | 0.00 | 0.00 | 0.00 | 3.79 |
3478 | 4088 | 4.218200 | CCACCAACTCAACAATTAGCATCA | 59.782 | 41.667 | 0.00 | 0.00 | 0.00 | 3.07 |
3614 | 4226 | 6.614694 | TTCTGTTAGCTGGTCAACCTATAA | 57.385 | 37.500 | 0.00 | 0.00 | 36.82 | 0.98 |
3625 | 4237 | 8.850156 | GCTGGTCAACCTATAAATTCAACATAT | 58.150 | 33.333 | 0.10 | 0.00 | 36.82 | 1.78 |
3656 | 4271 | 4.835284 | TCTGGTGACCTTGCATAATACA | 57.165 | 40.909 | 2.11 | 0.00 | 0.00 | 2.29 |
3658 | 4273 | 4.469586 | TCTGGTGACCTTGCATAATACAGA | 59.530 | 41.667 | 2.11 | 0.00 | 0.00 | 3.41 |
3699 | 4314 | 6.979238 | CCTCGTATTAGATTTTTCTCTCGGTT | 59.021 | 38.462 | 0.00 | 0.00 | 0.00 | 4.44 |
3775 | 4390 | 2.094182 | TGTTCAGTGCCTCGGTTATCTC | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 2.75 |
3868 | 4484 | 9.113838 | AGACATATTACCTGATTTTAAGCACTG | 57.886 | 33.333 | 0.00 | 0.00 | 0.00 | 3.66 |
3886 | 4502 | 1.203523 | CTGTCCCTTCTCCGAGTCAAG | 59.796 | 57.143 | 0.00 | 0.00 | 0.00 | 3.02 |
3889 | 4505 | 0.533032 | CCCTTCTCCGAGTCAAGGAC | 59.467 | 60.000 | 14.72 | 0.00 | 39.36 | 3.85 |
3908 | 4524 | 3.921021 | GGACGAACTCATCAACAGTGTAG | 59.079 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
3930 | 4555 | 5.671493 | AGTCAATCTAATTGGGGTTACGAG | 58.329 | 41.667 | 0.00 | 0.00 | 40.61 | 4.18 |
3938 | 4563 | 4.462280 | GGGTTACGAGGGTGCCCG | 62.462 | 72.222 | 0.98 | 0.00 | 41.95 | 6.13 |
3968 | 4593 | 5.246981 | TCCAGTGTCATCCTTTCTGATTT | 57.753 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
3969 | 4594 | 5.005740 | TCCAGTGTCATCCTTTCTGATTTG | 58.994 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
3988 | 4613 | 1.339055 | TGCAGCGTCTTATCCAGCTTT | 60.339 | 47.619 | 0.00 | 0.00 | 37.94 | 3.51 |
4019 | 4644 | 1.139520 | GTTTGCGATGACATGGCCC | 59.860 | 57.895 | 18.37 | 4.41 | 32.57 | 5.80 |
4039 | 4664 | 1.373748 | GAAGCCAACGACGCCACTA | 60.374 | 57.895 | 0.00 | 0.00 | 0.00 | 2.74 |
4053 | 4678 | 3.322466 | ACTAAGGCACCCGCAGCT | 61.322 | 61.111 | 0.00 | 0.00 | 41.24 | 4.24 |
4054 | 4679 | 2.821366 | CTAAGGCACCCGCAGCTG | 60.821 | 66.667 | 10.11 | 10.11 | 41.24 | 4.24 |
4124 | 4749 | 9.088512 | GTAATTACAGAGTGAAAGGTAGACATG | 57.911 | 37.037 | 10.81 | 0.00 | 0.00 | 3.21 |
4172 | 4801 | 7.784633 | TTCCACAAAATTCCAAGAATTGTTC | 57.215 | 32.000 | 3.46 | 0.00 | 46.99 | 3.18 |
4197 | 4826 | 1.066143 | CAAAGCCCACCTACACTCGAT | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 3.59 |
4207 | 4837 | 5.347907 | CCACCTACACTCGATCTTTTTACAC | 59.652 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
4232 | 4862 | 5.047021 | TCAGTCAAACATTTTGTTCACCCAA | 60.047 | 36.000 | 0.00 | 0.00 | 40.14 | 4.12 |
4311 | 4941 | 7.962918 | ACTCGCATATTCATGTGTTTTCTTTAC | 59.037 | 33.333 | 0.00 | 0.00 | 42.27 | 2.01 |
4318 | 4948 | 6.201226 | TCATGTGTTTTCTTTACTGTTGCA | 57.799 | 33.333 | 0.00 | 0.00 | 0.00 | 4.08 |
4379 | 5017 | 0.387750 | GCAGTTTGCACTTGCTAGGC | 60.388 | 55.000 | 2.33 | 1.15 | 44.26 | 3.93 |
4448 | 5098 | 7.891561 | ACTTGAGGTAGCTACAGATATTGATC | 58.108 | 38.462 | 24.75 | 3.96 | 0.00 | 2.92 |
4451 | 5101 | 6.072452 | TGAGGTAGCTACAGATATTGATCGTG | 60.072 | 42.308 | 24.75 | 0.00 | 37.15 | 4.35 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
76 | 77 | 0.098025 | TAAATAAACAGCGCGCCAGC | 59.902 | 50.000 | 30.33 | 0.00 | 40.74 | 4.85 |
90 | 91 | 6.646653 | CGAGGAGTAATGCTGAATGCTAAATA | 59.353 | 38.462 | 0.00 | 0.00 | 43.37 | 1.40 |
103 | 104 | 1.090052 | GCCACACCGAGGAGTAATGC | 61.090 | 60.000 | 0.00 | 0.00 | 0.00 | 3.56 |
104 | 105 | 0.249120 | TGCCACACCGAGGAGTAATG | 59.751 | 55.000 | 0.00 | 0.00 | 0.00 | 1.90 |
114 | 115 | 1.737838 | ATAAGTGACATGCCACACCG | 58.262 | 50.000 | 14.92 | 0.00 | 39.42 | 4.94 |
115 | 116 | 5.581605 | CAAATATAAGTGACATGCCACACC | 58.418 | 41.667 | 14.92 | 0.00 | 39.42 | 4.16 |
141 | 142 | 2.357034 | ACACCGTGTGCCTTAGCG | 60.357 | 61.111 | 2.57 | 0.00 | 44.31 | 4.26 |
153 | 154 | 0.179181 | GATTGAGCATGCACACACCG | 60.179 | 55.000 | 21.98 | 0.00 | 0.00 | 4.94 |
161 | 162 | 1.931906 | TGACGAGAGATTGAGCATGC | 58.068 | 50.000 | 10.51 | 10.51 | 0.00 | 4.06 |
235 | 236 | 2.848694 | TGGGAAGAGAGATCAAAGCCAT | 59.151 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
317 | 318 | 8.908786 | TTCAACTGAATCAAGTGAGATAAAGT | 57.091 | 30.769 | 0.00 | 0.00 | 0.00 | 2.66 |
325 | 326 | 7.065443 | CAGAGCATATTCAACTGAATCAAGTGA | 59.935 | 37.037 | 8.19 | 0.00 | 43.17 | 3.41 |
326 | 327 | 7.148289 | ACAGAGCATATTCAACTGAATCAAGTG | 60.148 | 37.037 | 8.19 | 5.72 | 43.17 | 3.16 |
341 | 342 | 3.898123 | AGGACGGATACACAGAGCATATT | 59.102 | 43.478 | 0.00 | 0.00 | 0.00 | 1.28 |
359 | 360 | 1.341209 | CAAAGGTTCAAGCCCAAGGAC | 59.659 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
361 | 362 | 1.703411 | TCAAAGGTTCAAGCCCAAGG | 58.297 | 50.000 | 0.00 | 0.00 | 0.00 | 3.61 |
371 | 372 | 6.944234 | AATATCGGAATCCTTCAAAGGTTC | 57.056 | 37.500 | 8.60 | 10.74 | 46.54 | 3.62 |
384 | 385 | 6.373495 | GGGGCGAAAACTATAAATATCGGAAT | 59.627 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
433 | 434 | 7.175641 | AGGAACATGGATGAAAGAACTAAACTG | 59.824 | 37.037 | 0.00 | 0.00 | 0.00 | 3.16 |
453 | 454 | 5.070001 | CCAAAACAGATAGTGGAAGGAACA | 58.930 | 41.667 | 0.00 | 0.00 | 32.54 | 3.18 |
455 | 456 | 5.073144 | ACTCCAAAACAGATAGTGGAAGGAA | 59.927 | 40.000 | 0.00 | 0.00 | 39.62 | 3.36 |
462 | 464 | 3.679389 | AGCCACTCCAAAACAGATAGTG | 58.321 | 45.455 | 0.00 | 0.00 | 37.81 | 2.74 |
468 | 470 | 5.841810 | TCAATTTTAGCCACTCCAAAACAG | 58.158 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
510 | 515 | 9.841880 | GGGAACATACTTTTAAAAGTCTGAATC | 57.158 | 33.333 | 34.86 | 30.06 | 45.65 | 2.52 |
511 | 516 | 8.803235 | GGGGAACATACTTTTAAAAGTCTGAAT | 58.197 | 33.333 | 34.86 | 26.73 | 45.65 | 2.57 |
512 | 517 | 7.780745 | TGGGGAACATACTTTTAAAAGTCTGAA | 59.219 | 33.333 | 34.86 | 21.93 | 45.65 | 3.02 |
514 | 519 | 7.519032 | TGGGGAACATACTTTTAAAAGTCTG | 57.481 | 36.000 | 31.50 | 30.74 | 45.65 | 3.51 |
515 | 520 | 7.014905 | GGTTGGGGAACATACTTTTAAAAGTCT | 59.985 | 37.037 | 31.50 | 21.69 | 45.65 | 3.24 |
516 | 521 | 7.014905 | AGGTTGGGGAACATACTTTTAAAAGTC | 59.985 | 37.037 | 31.50 | 18.96 | 45.65 | 3.01 |
532 | 541 | 2.305927 | CTCTTCTTGCTAGGTTGGGGAA | 59.694 | 50.000 | 0.00 | 0.00 | 0.00 | 3.97 |
554 | 563 | 3.412237 | TTCCCCTAAAAAGACGGTCTG | 57.588 | 47.619 | 12.12 | 0.00 | 0.00 | 3.51 |
558 | 567 | 2.481568 | GACGTTTCCCCTAAAAAGACGG | 59.518 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
559 | 568 | 3.132925 | TGACGTTTCCCCTAAAAAGACG | 58.867 | 45.455 | 0.00 | 0.00 | 0.00 | 4.18 |
560 | 569 | 5.503662 | TTTGACGTTTCCCCTAAAAAGAC | 57.496 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
603 | 614 | 6.319141 | AGACATAAACAGAGAAAAACTGCC | 57.681 | 37.500 | 0.00 | 0.00 | 38.74 | 4.85 |
608 | 1127 | 9.052759 | GTACCAGAAGACATAAACAGAGAAAAA | 57.947 | 33.333 | 0.00 | 0.00 | 0.00 | 1.94 |
609 | 1128 | 8.208224 | TGTACCAGAAGACATAAACAGAGAAAA | 58.792 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
617 | 1136 | 8.106247 | TGGAAATTGTACCAGAAGACATAAAC | 57.894 | 34.615 | 0.00 | 0.00 | 0.00 | 2.01 |
636 | 1155 | 5.047092 | CCTGGTATCAGCAAAAGTTGGAAAT | 60.047 | 40.000 | 0.00 | 0.00 | 39.61 | 2.17 |
697 | 1218 | 5.047731 | TCCACATGTCTGAGTAAGAGAACAG | 60.048 | 44.000 | 0.00 | 0.00 | 34.84 | 3.16 |
755 | 1276 | 5.957842 | TCAGTAAAGTAAACCATGGCAAG | 57.042 | 39.130 | 13.04 | 0.00 | 0.00 | 4.01 |
782 | 1304 | 6.146184 | GGAATAGCAGGAAAAACAAAAGAAGC | 59.854 | 38.462 | 0.00 | 0.00 | 0.00 | 3.86 |
784 | 1306 | 7.118496 | TGGAATAGCAGGAAAAACAAAAGAA | 57.882 | 32.000 | 0.00 | 0.00 | 0.00 | 2.52 |
787 | 1309 | 5.365314 | ACCTGGAATAGCAGGAAAAACAAAA | 59.635 | 36.000 | 0.00 | 0.00 | 40.95 | 2.44 |
791 | 1313 | 4.767409 | AGAACCTGGAATAGCAGGAAAAAC | 59.233 | 41.667 | 0.00 | 0.00 | 40.95 | 2.43 |
806 | 1329 | 1.480137 | CTAGAGAGCCACAGAACCTGG | 59.520 | 57.143 | 0.00 | 0.00 | 35.51 | 4.45 |
876 | 1403 | 0.843309 | TGGGGCAAGAAACAGTCAGA | 59.157 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
882 | 1409 | 5.083122 | TGATAAGATTTGGGGCAAGAAACA | 58.917 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
943 | 1477 | 0.601558 | TTGCCACAGGACGTCTCTAC | 59.398 | 55.000 | 16.46 | 0.00 | 0.00 | 2.59 |
958 | 1492 | 2.427095 | GACCCCATTACATCAACTTGCC | 59.573 | 50.000 | 0.00 | 0.00 | 0.00 | 4.52 |
991 | 1526 | 2.759560 | GGTTGGCATGCCCGGATT | 60.760 | 61.111 | 33.44 | 0.00 | 35.87 | 3.01 |
1079 | 1622 | 1.211212 | AGTTGCTATCAGCTGCCATGA | 59.789 | 47.619 | 9.47 | 0.00 | 42.97 | 3.07 |
1094 | 1637 | 3.357079 | CAGTGGCCGTGGAGTTGC | 61.357 | 66.667 | 0.00 | 0.00 | 0.00 | 4.17 |
1108 | 1651 | 4.685575 | GCAATCTAGAAGAATGAGGCCAGT | 60.686 | 45.833 | 5.01 | 0.00 | 26.40 | 4.00 |
1119 | 1662 | 2.695147 | TGATGCTCCGCAATCTAGAAGA | 59.305 | 45.455 | 0.00 | 0.00 | 43.62 | 2.87 |
1122 | 1665 | 2.804572 | GCTTGATGCTCCGCAATCTAGA | 60.805 | 50.000 | 0.00 | 0.00 | 43.62 | 2.43 |
1126 | 1669 | 1.358046 | GGCTTGATGCTCCGCAATC | 59.642 | 57.895 | 0.00 | 0.00 | 43.62 | 2.67 |
1145 | 1688 | 5.801350 | ACGACCACTATCATCAACATTTG | 57.199 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
1180 | 1729 | 2.668550 | GAACTTGGAGCCGGCGTT | 60.669 | 61.111 | 23.20 | 18.71 | 0.00 | 4.84 |
1258 | 1813 | 5.363292 | TGCGTGTAGTAATATAAGGGACCAA | 59.637 | 40.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1272 | 1827 | 4.776795 | TGAAGTGAAGATGCGTGTAGTA | 57.223 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
1276 | 1831 | 4.836125 | AATTTGAAGTGAAGATGCGTGT | 57.164 | 36.364 | 0.00 | 0.00 | 0.00 | 4.49 |
1306 | 1861 | 3.923354 | CTGGACTGACAGGGAAGTG | 57.077 | 57.895 | 7.51 | 0.00 | 34.84 | 3.16 |
1330 | 1885 | 4.705337 | AGAAGTAGAGGCGTAAGAACAG | 57.295 | 45.455 | 0.00 | 0.00 | 43.02 | 3.16 |
1382 | 1937 | 3.002791 | GTGACATCAAAGAAGGCATCGA | 58.997 | 45.455 | 0.00 | 0.00 | 0.00 | 3.59 |
1397 | 1952 | 2.086869 | CAAGATTTCCTGCGGTGACAT | 58.913 | 47.619 | 0.00 | 0.00 | 0.00 | 3.06 |
1488 | 2043 | 4.206375 | TGCCTGAAGAAACATTCACTGAA | 58.794 | 39.130 | 0.00 | 0.00 | 35.40 | 3.02 |
1491 | 2046 | 4.210331 | AGTTGCCTGAAGAAACATTCACT | 58.790 | 39.130 | 0.00 | 0.00 | 35.40 | 3.41 |
1511 | 2066 | 0.178990 | GGCAAAGGTGAGGTCCAAGT | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1573 | 2131 | 2.668457 | CAGGCGTAGACACAATCTCAAC | 59.332 | 50.000 | 0.00 | 0.00 | 39.87 | 3.18 |
1587 | 2145 | 4.260139 | TGTTGTAAAGATGTCAGGCGTA | 57.740 | 40.909 | 0.00 | 0.00 | 0.00 | 4.42 |
1612 | 2170 | 1.798813 | GCCGTCGACAAATCTTGAGTT | 59.201 | 47.619 | 17.16 | 0.00 | 0.00 | 3.01 |
1615 | 2173 | 1.011968 | CCGCCGTCGACAAATCTTGA | 61.012 | 55.000 | 17.16 | 0.00 | 38.10 | 3.02 |
1643 | 2201 | 0.107703 | AGCGGCGAATGAGAATGGAA | 60.108 | 50.000 | 12.98 | 0.00 | 0.00 | 3.53 |
1707 | 2265 | 4.397420 | AGTCATATATCGGCAAAATGGCA | 58.603 | 39.130 | 4.75 | 0.00 | 43.94 | 4.92 |
1750 | 2311 | 4.602340 | ACAAGTACGAGGAATCACTGTT | 57.398 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
1762 | 2323 | 4.931002 | GGCACCAAATAAGTACAAGTACGA | 59.069 | 41.667 | 4.85 | 0.00 | 40.80 | 3.43 |
1764 | 2325 | 5.063060 | CGAGGCACCAAATAAGTACAAGTAC | 59.937 | 44.000 | 2.18 | 2.18 | 36.35 | 2.73 |
1765 | 2326 | 5.172934 | CGAGGCACCAAATAAGTACAAGTA | 58.827 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
1766 | 2327 | 4.000988 | CGAGGCACCAAATAAGTACAAGT | 58.999 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
1767 | 2328 | 3.374058 | CCGAGGCACCAAATAAGTACAAG | 59.626 | 47.826 | 0.00 | 0.00 | 0.00 | 3.16 |
1768 | 2329 | 3.340034 | CCGAGGCACCAAATAAGTACAA | 58.660 | 45.455 | 0.00 | 0.00 | 0.00 | 2.41 |
1769 | 2330 | 2.355310 | CCCGAGGCACCAAATAAGTACA | 60.355 | 50.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1791 | 2355 | 3.071023 | TGAAATCTTTGGAGACGGTCACT | 59.929 | 43.478 | 11.27 | 0.00 | 33.99 | 3.41 |
1798 | 2362 | 6.748132 | TGGTCAAATTGAAATCTTTGGAGAC | 58.252 | 36.000 | 0.00 | 0.00 | 33.99 | 3.36 |
1825 | 2396 | 1.739035 | CGGCACTGTGGGTGTATACTG | 60.739 | 57.143 | 10.21 | 0.00 | 46.86 | 2.74 |
1826 | 2397 | 0.535335 | CGGCACTGTGGGTGTATACT | 59.465 | 55.000 | 10.21 | 0.00 | 46.86 | 2.12 |
1861 | 2432 | 4.441495 | CCGAGCTGTACCATAGACATCAAA | 60.441 | 45.833 | 0.00 | 0.00 | 0.00 | 2.69 |
1918 | 2489 | 4.709886 | GGGTAAAATCCATGTAAGGTTGCT | 59.290 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
1919 | 2490 | 4.439563 | CGGGTAAAATCCATGTAAGGTTGC | 60.440 | 45.833 | 0.00 | 0.00 | 0.00 | 4.17 |
1966 | 2537 | 9.401058 | CTTAATCTGACAGAAATGGAACCTTAT | 57.599 | 33.333 | 9.70 | 0.00 | 0.00 | 1.73 |
2018 | 2589 | 5.778862 | TGTTGATGTAGATGAAGAACGACA | 58.221 | 37.500 | 0.00 | 0.00 | 0.00 | 4.35 |
2060 | 2631 | 4.497006 | CGCTCCAGAAAATGACATCCATTC | 60.497 | 45.833 | 0.00 | 0.00 | 44.28 | 2.67 |
2073 | 2644 | 0.175760 | CGATTCCTCCGCTCCAGAAA | 59.824 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2117 | 2688 | 3.244561 | ACCGGAACCAATAGCCATGATAG | 60.245 | 47.826 | 9.46 | 0.00 | 0.00 | 2.08 |
2151 | 2722 | 1.355381 | TCAGGGTGAAGTGCAATCCAT | 59.645 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
2182 | 2753 | 7.989826 | AGTATTGCATCAAAATACTCTGGTTC | 58.010 | 34.615 | 2.74 | 0.00 | 43.95 | 3.62 |
2223 | 2794 | 5.518847 | CGATTCGTAATCCTGTAGCTTGAAA | 59.481 | 40.000 | 0.00 | 0.00 | 34.35 | 2.69 |
2278 | 2852 | 5.237815 | ACTGTTAAGATCAGTGAATTGCGA | 58.762 | 37.500 | 0.00 | 0.00 | 43.32 | 5.10 |
2287 | 2861 | 5.368145 | TCTTGCAACACTGTTAAGATCAGT | 58.632 | 37.500 | 0.00 | 0.00 | 45.43 | 3.41 |
2293 | 2867 | 6.507023 | AGGATTTTCTTGCAACACTGTTAAG | 58.493 | 36.000 | 0.00 | 0.00 | 0.00 | 1.85 |
2298 | 2872 | 6.258230 | TCATAGGATTTTCTTGCAACACTG | 57.742 | 37.500 | 0.00 | 0.00 | 0.00 | 3.66 |
2303 | 2892 | 7.649533 | ATGTCATCATAGGATTTTCTTGCAA | 57.350 | 32.000 | 0.00 | 0.00 | 31.89 | 4.08 |
2317 | 2906 | 5.511888 | CCATGACTGCTGGTATGTCATCATA | 60.512 | 44.000 | 5.06 | 0.00 | 45.95 | 2.15 |
2319 | 2908 | 3.432608 | CCATGACTGCTGGTATGTCATCA | 60.433 | 47.826 | 5.06 | 0.00 | 45.95 | 3.07 |
2340 | 2938 | 0.323087 | AACCGCCAGTAATTCCACCC | 60.323 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2348 | 2955 | 1.202710 | TCAAAGCAGAACCGCCAGTAA | 60.203 | 47.619 | 0.00 | 0.00 | 0.00 | 2.24 |
2360 | 2967 | 2.232941 | AGGGCAATCAACATCAAAGCAG | 59.767 | 45.455 | 0.00 | 0.00 | 0.00 | 4.24 |
2405 | 3012 | 3.564225 | ACTTTTTGCTACCTTCTTCCGTG | 59.436 | 43.478 | 0.00 | 0.00 | 0.00 | 4.94 |
2424 | 3031 | 2.622064 | AGTCGGTCTTGCAAGAACTT | 57.378 | 45.000 | 35.02 | 21.06 | 40.62 | 2.66 |
2471 | 3078 | 4.897509 | AGATCACATGTGGACTTTCTGA | 57.102 | 40.909 | 25.16 | 3.22 | 0.00 | 3.27 |
2481 | 3088 | 2.413112 | GTGACGGACAAGATCACATGTG | 59.587 | 50.000 | 20.18 | 20.18 | 41.94 | 3.21 |
2512 | 3119 | 3.030291 | TGGTGGCAACTTGAATTTCTGT | 58.970 | 40.909 | 3.27 | 0.00 | 37.61 | 3.41 |
2569 | 3176 | 3.370527 | CCATTGTAGACATCCCCGAAACT | 60.371 | 47.826 | 0.00 | 0.00 | 0.00 | 2.66 |
2578 | 3185 | 6.348950 | CCGTCTATCTCTCCATTGTAGACATC | 60.349 | 46.154 | 10.37 | 0.00 | 40.62 | 3.06 |
2588 | 3195 | 2.066592 | TCCCTCCGTCTATCTCTCCAT | 58.933 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
2592 | 3199 | 3.292460 | CTTTGTCCCTCCGTCTATCTCT | 58.708 | 50.000 | 0.00 | 0.00 | 0.00 | 3.10 |
2635 | 3242 | 0.251787 | AAGCCTTGCCGGGATTTCTT | 60.252 | 50.000 | 2.18 | 0.56 | 29.99 | 2.52 |
2645 | 3252 | 2.297033 | TGAAACTCATGAAAGCCTTGCC | 59.703 | 45.455 | 0.00 | 0.00 | 0.00 | 4.52 |
2664 | 3271 | 3.194329 | ACAGCATCTCGATTTCAGTCTGA | 59.806 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
2766 | 3373 | 1.948834 | CGCAATGTTCCATGAGCCATA | 59.051 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
2793 | 3400 | 4.007659 | GTGGGTTTCTGGTGTTGTATAGG | 58.992 | 47.826 | 0.00 | 0.00 | 0.00 | 2.57 |
2832 | 3439 | 0.729116 | CGATGCAAATCTCAAGGCGT | 59.271 | 50.000 | 0.00 | 0.00 | 0.00 | 5.68 |
2862 | 3469 | 0.618458 | TGTGGAGGTAATGCAGTCCC | 59.382 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
3207 | 3814 | 2.803956 | ACAATCTCCTCGAGTACACCA | 58.196 | 47.619 | 12.31 | 0.00 | 0.00 | 4.17 |
3419 | 4026 | 2.202743 | CCGCGCTGATCCGAAGAA | 60.203 | 61.111 | 5.56 | 0.00 | 0.00 | 2.52 |
3425 | 4032 | 3.643978 | GATGCACCGCGCTGATCC | 61.644 | 66.667 | 5.61 | 0.00 | 43.06 | 3.36 |
3442 | 4052 | 2.958355 | AGTTGGTGGATGGTTTGTCTTG | 59.042 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
3443 | 4053 | 3.222603 | GAGTTGGTGGATGGTTTGTCTT | 58.777 | 45.455 | 0.00 | 0.00 | 0.00 | 3.01 |
3478 | 4088 | 2.814805 | AATATGGCTTCCTGTGCTGT | 57.185 | 45.000 | 0.00 | 0.00 | 0.00 | 4.40 |
3625 | 4237 | 5.045942 | TGCAAGGTCACCAGAACATAGATAA | 60.046 | 40.000 | 0.00 | 0.00 | 32.39 | 1.75 |
3699 | 4314 | 5.954752 | TGGGGCATATTTTGAAATGTCAGTA | 59.045 | 36.000 | 0.00 | 0.00 | 34.49 | 2.74 |
3868 | 4484 | 0.533032 | CCTTGACTCGGAGAAGGGAC | 59.467 | 60.000 | 12.86 | 0.00 | 34.09 | 4.46 |
3886 | 4502 | 2.755650 | ACACTGTTGATGAGTTCGTCC | 58.244 | 47.619 | 0.00 | 0.00 | 0.00 | 4.79 |
3889 | 4505 | 4.546570 | TGACTACACTGTTGATGAGTTCG | 58.453 | 43.478 | 0.00 | 0.00 | 0.00 | 3.95 |
3908 | 4524 | 4.814771 | CCTCGTAACCCCAATTAGATTGAC | 59.185 | 45.833 | 2.37 | 0.00 | 42.83 | 3.18 |
3938 | 4563 | 4.696479 | AGGATGACACTGGATATCAACC | 57.304 | 45.455 | 4.83 | 0.00 | 35.97 | 3.77 |
3968 | 4593 | 0.250234 | AAGCTGGATAAGACGCTGCA | 59.750 | 50.000 | 0.00 | 0.00 | 32.22 | 4.41 |
3969 | 4594 | 1.373570 | AAAGCTGGATAAGACGCTGC | 58.626 | 50.000 | 0.00 | 0.00 | 32.22 | 5.25 |
3988 | 4613 | 2.903547 | GCAAACGCGGCCTCTGAAA | 61.904 | 57.895 | 12.47 | 0.00 | 0.00 | 2.69 |
4019 | 4644 | 2.664851 | TGGCGTCGTTGGCTTCTG | 60.665 | 61.111 | 0.00 | 0.00 | 35.06 | 3.02 |
4068 | 4693 | 1.827969 | AGCTCCATATATCTGGCGACC | 59.172 | 52.381 | 2.21 | 0.00 | 36.16 | 4.79 |
4098 | 4723 | 9.088512 | CATGTCTACCTTTCACTCTGTAATTAC | 57.911 | 37.037 | 8.75 | 8.75 | 0.00 | 1.89 |
4172 | 4801 | 3.157087 | AGTGTAGGTGGGCTTTGAATTG | 58.843 | 45.455 | 0.00 | 0.00 | 0.00 | 2.32 |
4180 | 4809 | 0.033011 | AGATCGAGTGTAGGTGGGCT | 60.033 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
4197 | 4826 | 9.352784 | CAAAATGTTTGACTGAGTGTAAAAAGA | 57.647 | 29.630 | 0.00 | 0.00 | 31.24 | 2.52 |
4207 | 4837 | 5.043248 | GGGTGAACAAAATGTTTGACTGAG | 58.957 | 41.667 | 7.68 | 0.00 | 41.28 | 3.35 |
4284 | 4914 | 7.609760 | AAGAAAACACATGAATATGCGAGTA | 57.390 | 32.000 | 0.00 | 0.00 | 37.85 | 2.59 |
4311 | 4941 | 5.163834 | GGCCACATGAATAAAAATGCAACAG | 60.164 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4316 | 4946 | 3.871485 | TGGGCCACATGAATAAAAATGC | 58.129 | 40.909 | 0.00 | 0.00 | 0.00 | 3.56 |
4318 | 4948 | 6.114767 | GTGATTGGGCCACATGAATAAAAAT | 58.885 | 36.000 | 5.23 | 0.00 | 34.81 | 1.82 |
4411 | 5057 | 9.264719 | GTAGCTACCTCAAGTACAGTTTAAAAA | 57.735 | 33.333 | 13.20 | 0.00 | 0.00 | 1.94 |
4416 | 5062 | 5.773680 | TCTGTAGCTACCTCAAGTACAGTTT | 59.226 | 40.000 | 21.01 | 0.00 | 40.87 | 2.66 |
4427 | 5077 | 6.072397 | ACACGATCAATATCTGTAGCTACCTC | 60.072 | 42.308 | 21.01 | 0.00 | 0.00 | 3.85 |
4448 | 5098 | 4.513692 | TGACCAAATAGAAACTCCAACACG | 59.486 | 41.667 | 0.00 | 0.00 | 0.00 | 4.49 |
4451 | 5101 | 6.486993 | ACTCTTGACCAAATAGAAACTCCAAC | 59.513 | 38.462 | 0.00 | 0.00 | 0.00 | 3.77 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.