Multiple sequence alignment - TraesCS6A01G229800
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 | TraesCS6A01G229800 | chr6A | 100.000 | 4100 | 0 | 0 | 1 | 4100 | 432510298 | 432514397 | 0.000000e+00 | 7572.0 |
1 | TraesCS6A01G229800 | chr6A | 85.714 | 196 | 21 | 7 | 3578 | 3768 | 79276259 | 79276452 | 2.500000e-47 | 200.0 |
2 | TraesCS6A01G229800 | chr6A | 100.000 | 31 | 0 | 0 | 2500 | 2530 | 615747612 | 615747582 | 1.590000e-04 | 58.4 |
3 | TraesCS6A01G229800 | chr6B | 90.590 | 3252 | 175 | 48 | 1 | 3180 | 451924001 | 451927193 | 0.000000e+00 | 4189.0 |
4 | TraesCS6A01G229800 | chr6B | 94.681 | 188 | 7 | 2 | 3312 | 3498 | 451927225 | 451927410 | 5.190000e-74 | 289.0 |
5 | TraesCS6A01G229800 | chr6B | 97.778 | 45 | 1 | 0 | 3548 | 3592 | 451927407 | 451927451 | 1.220000e-10 | 78.7 |
6 | TraesCS6A01G229800 | chr6B | 100.000 | 33 | 0 | 0 | 3202 | 3234 | 451927198 | 451927230 | 1.230000e-05 | 62.1 |
7 | TraesCS6A01G229800 | chr6D | 91.843 | 2219 | 112 | 26 | 357 | 2530 | 291151953 | 291149759 | 0.000000e+00 | 3031.0 |
8 | TraesCS6A01G229800 | chr6D | 97.313 | 707 | 18 | 1 | 2529 | 3234 | 291149729 | 291149023 | 0.000000e+00 | 1199.0 |
9 | TraesCS6A01G229800 | chr6D | 94.752 | 343 | 18 | 0 | 1 | 343 | 291152559 | 291152217 | 6.030000e-148 | 534.0 |
10 | TraesCS6A01G229800 | chr6D | 96.809 | 282 | 8 | 1 | 3312 | 3592 | 291149028 | 291148747 | 1.730000e-128 | 470.0 |
11 | TraesCS6A01G229800 | chr1A | 84.008 | 519 | 57 | 16 | 3592 | 4100 | 582266904 | 582267406 | 3.710000e-130 | 475.0 |
12 | TraesCS6A01G229800 | chr1A | 76.087 | 414 | 82 | 13 | 37 | 447 | 581248737 | 581248338 | 2.500000e-47 | 200.0 |
13 | TraesCS6A01G229800 | chr1A | 94.444 | 36 | 1 | 1 | 2493 | 2528 | 349999471 | 349999505 | 2.000000e-03 | 54.7 |
14 | TraesCS6A01G229800 | chr3D | 90.155 | 193 | 17 | 2 | 3593 | 3784 | 179173556 | 179173747 | 2.450000e-62 | 250.0 |
15 | TraesCS6A01G229800 | chr3D | 91.398 | 93 | 8 | 0 | 3224 | 3316 | 362238378 | 362238286 | 1.200000e-25 | 128.0 |
16 | TraesCS6A01G229800 | chr3B | 90.155 | 193 | 18 | 1 | 3589 | 3780 | 704111298 | 704111490 | 2.450000e-62 | 250.0 |
17 | TraesCS6A01G229800 | chr3B | 84.343 | 198 | 22 | 8 | 3584 | 3778 | 102746371 | 102746562 | 7.000000e-43 | 185.0 |
18 | TraesCS6A01G229800 | chr2B | 76.759 | 469 | 91 | 17 | 1 | 462 | 571200671 | 571200214 | 3.170000e-61 | 246.0 |
19 | TraesCS6A01G229800 | chr2B | 100.000 | 33 | 0 | 0 | 2498 | 2530 | 772208687 | 772208655 | 1.230000e-05 | 62.1 |
20 | TraesCS6A01G229800 | chr2A | 89.691 | 194 | 19 | 1 | 3592 | 3784 | 47825013 | 47824820 | 3.170000e-61 | 246.0 |
21 | TraesCS6A01G229800 | chr2A | 84.541 | 207 | 26 | 5 | 3586 | 3790 | 52558904 | 52558702 | 2.500000e-47 | 200.0 |
22 | TraesCS6A01G229800 | chr1B | 88.384 | 198 | 19 | 3 | 3591 | 3784 | 661038102 | 661038299 | 6.850000e-58 | 235.0 |
23 | TraesCS6A01G229800 | chrUn | 84.979 | 233 | 31 | 4 | 3593 | 3824 | 76794252 | 76794023 | 2.460000e-57 | 233.0 |
24 | TraesCS6A01G229800 | chr2D | 87.879 | 198 | 17 | 6 | 3589 | 3783 | 194460555 | 194460748 | 4.120000e-55 | 226.0 |
25 | TraesCS6A01G229800 | chr2D | 93.478 | 92 | 5 | 1 | 3222 | 3313 | 164536491 | 164536581 | 7.150000e-28 | 135.0 |
26 | TraesCS6A01G229800 | chr1D | 88.144 | 194 | 18 | 4 | 3592 | 3783 | 198905474 | 198905664 | 4.120000e-55 | 226.0 |
27 | TraesCS6A01G229800 | chr1D | 93.684 | 95 | 6 | 0 | 3229 | 3323 | 477184321 | 477184227 | 4.270000e-30 | 143.0 |
28 | TraesCS6A01G229800 | chr1D | 93.258 | 89 | 5 | 1 | 3226 | 3313 | 222023897 | 222023809 | 3.330000e-26 | 130.0 |
29 | TraesCS6A01G229800 | chr1D | 94.118 | 85 | 5 | 0 | 3229 | 3313 | 361036092 | 361036008 | 3.330000e-26 | 130.0 |
30 | TraesCS6A01G229800 | chr1D | 75.934 | 241 | 51 | 7 | 224 | 462 | 228824563 | 228824798 | 2.590000e-22 | 117.0 |
31 | TraesCS6A01G229800 | chr1D | 96.875 | 32 | 0 | 1 | 2500 | 2530 | 434283790 | 434283759 | 7.000000e-03 | 52.8 |
32 | TraesCS6A01G229800 | chr5B | 87.692 | 195 | 19 | 4 | 3592 | 3784 | 93467125 | 93466934 | 5.330000e-54 | 222.0 |
33 | TraesCS6A01G229800 | chr7D | 82.692 | 208 | 24 | 10 | 3583 | 3783 | 472795313 | 472795515 | 1.510000e-39 | 174.0 |
34 | TraesCS6A01G229800 | chr7D | 92.632 | 95 | 5 | 2 | 3226 | 3318 | 579751351 | 579751257 | 7.150000e-28 | 135.0 |
35 | TraesCS6A01G229800 | chr7D | 87.963 | 108 | 10 | 3 | 3229 | 3335 | 26731170 | 26731065 | 1.550000e-24 | 124.0 |
36 | TraesCS6A01G229800 | chr4B | 92.222 | 90 | 7 | 0 | 3224 | 3313 | 607437417 | 607437506 | 1.200000e-25 | 128.0 |
37 | TraesCS6A01G229800 | chr4B | 74.377 | 281 | 53 | 9 | 262 | 532 | 322674756 | 322675027 | 7.250000e-18 | 102.0 |
38 | TraesCS6A01G229800 | chr4B | 74.627 | 201 | 42 | 4 | 262 | 461 | 322746424 | 322746616 | 3.400000e-11 | 80.5 |
39 | TraesCS6A01G229800 | chr4B | 100.000 | 31 | 0 | 0 | 2500 | 2530 | 652254825 | 652254795 | 1.590000e-04 | 58.4 |
40 | TraesCS6A01G229800 | chr4D | 91.398 | 93 | 6 | 2 | 3223 | 3313 | 3261026 | 3260934 | 4.300000e-25 | 126.0 |
41 | TraesCS6A01G229800 | chr4A | 72.034 | 354 | 77 | 10 | 191 | 532 | 342449287 | 342449630 | 7.300000e-13 | 86.1 |
42 | TraesCS6A01G229800 | chr7B | 100.000 | 31 | 0 | 0 | 2500 | 2530 | 743384823 | 743384793 | 1.590000e-04 | 58.4 |
43 | TraesCS6A01G229800 | chr5D | 94.737 | 38 | 0 | 2 | 2495 | 2530 | 498713846 | 498713883 | 1.590000e-04 | 58.4 |
44 | TraesCS6A01G229800 | chr5A | 94.595 | 37 | 1 | 1 | 2495 | 2530 | 46961128 | 46961092 | 5.730000e-04 | 56.5 |
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 | TraesCS6A01G229800 | chr6A | 432510298 | 432514397 | 4099 | False | 7572.0 | 7572 | 100.00000 | 1 | 4100 | 1 | chr6A.!!$F2 | 4099 |
1 | TraesCS6A01G229800 | chr6B | 451924001 | 451927451 | 3450 | False | 1154.7 | 4189 | 95.76225 | 1 | 3592 | 4 | chr6B.!!$F1 | 3591 |
2 | TraesCS6A01G229800 | chr6D | 291148747 | 291152559 | 3812 | True | 1308.5 | 3031 | 95.17925 | 1 | 3592 | 4 | chr6D.!!$R1 | 3591 |
3 | TraesCS6A01G229800 | chr1A | 582266904 | 582267406 | 502 | False | 475.0 | 475 | 84.00800 | 3592 | 4100 | 1 | chr1A.!!$F2 | 508 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
597 | 861 | 0.037734 | TGGAGTCGTGTCTCTGGCTA | 59.962 | 55.000 | 0.00 | 0.0 | 35.11 | 3.93 | F |
641 | 906 | 1.001815 | AGGTTTCGGTGCATTCGTTTG | 60.002 | 47.619 | 11.22 | 0.0 | 0.00 | 2.93 | F |
1682 | 1979 | 0.179004 | TGGTGGCTTCACGGTTTCAT | 60.179 | 50.000 | 0.00 | 0.0 | 42.09 | 2.57 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1640 | 1937 | 0.102481 | CGCAGCTCCGGTACAGTTAT | 59.898 | 55.0 | 0.0 | 0.0 | 0.00 | 1.89 | R |
1891 | 2188 | 0.534877 | ACAAGCATTCAGTGGACGCA | 60.535 | 50.0 | 0.0 | 0.0 | 0.00 | 5.24 | R |
3170 | 3543 | 0.171007 | CTGGTGCCAAGTTATTGCCG | 59.829 | 55.0 | 0.0 | 0.0 | 34.91 | 5.69 | 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 |
---|---|---|---|---|---|---|---|---|---|
101 | 102 | 4.248859 | CTCATGGTGTAACTCAAGTCCAG | 58.751 | 47.826 | 0.00 | 0.00 | 36.74 | 3.86 |
165 | 166 | 6.038271 | GTGGAAAATATTCGCCTATGTGAAGT | 59.962 | 38.462 | 7.74 | 0.00 | 43.73 | 3.01 |
169 | 170 | 9.997482 | GAAAATATTCGCCTATGTGAAGTTTAA | 57.003 | 29.630 | 0.63 | 0.00 | 43.73 | 1.52 |
175 | 176 | 5.983720 | TCGCCTATGTGAAGTTTAATAGAGC | 59.016 | 40.000 | 0.00 | 0.00 | 0.00 | 4.09 |
185 | 186 | 8.129840 | GTGAAGTTTAATAGAGCTATGTCGAGA | 58.870 | 37.037 | 0.00 | 0.00 | 0.00 | 4.04 |
209 | 210 | 4.654091 | TGTGTATAAGGTAGGTTACGGC | 57.346 | 45.455 | 0.00 | 0.00 | 0.00 | 5.68 |
226 | 227 | 0.824759 | GGCTGGACTTGGAGTCGTAT | 59.175 | 55.000 | 2.33 | 0.00 | 45.96 | 3.06 |
228 | 229 | 2.429610 | GGCTGGACTTGGAGTCGTATTA | 59.570 | 50.000 | 2.33 | 0.00 | 45.96 | 0.98 |
282 | 283 | 3.913370 | AGGACACTCATATCCTAGGCT | 57.087 | 47.619 | 2.96 | 0.00 | 43.85 | 4.58 |
329 | 330 | 7.277098 | ACACACGATGTAACCTATGTTAACATC | 59.723 | 37.037 | 24.00 | 9.73 | 40.88 | 3.06 |
346 | 347 | 9.495572 | TGTTAACATCATAACACATACACTCAA | 57.504 | 29.630 | 3.59 | 0.00 | 40.03 | 3.02 |
348 | 349 | 9.936759 | TTAACATCATAACACATACACTCAAGA | 57.063 | 29.630 | 0.00 | 0.00 | 0.00 | 3.02 |
350 | 351 | 8.484641 | ACATCATAACACATACACTCAAGAAG | 57.515 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
363 | 614 | 1.681264 | TCAAGAAGAGCTGACGACACA | 59.319 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
389 | 640 | 3.484806 | TTCGGGTGGCCAGTGTGT | 61.485 | 61.111 | 5.11 | 0.00 | 0.00 | 3.72 |
390 | 641 | 3.765894 | TTCGGGTGGCCAGTGTGTG | 62.766 | 63.158 | 5.11 | 0.00 | 0.00 | 3.82 |
391 | 642 | 4.248842 | CGGGTGGCCAGTGTGTGA | 62.249 | 66.667 | 5.11 | 0.00 | 0.00 | 3.58 |
412 | 663 | 6.151480 | TGTGATATTATAGCGGTATCAACGGA | 59.849 | 38.462 | 10.99 | 0.00 | 36.80 | 4.69 |
483 | 746 | 2.260869 | ATGGTGTCGTGCCTTGTGC | 61.261 | 57.895 | 0.00 | 0.00 | 41.77 | 4.57 |
499 | 762 | 2.971307 | TGTGCGATTGCTTGATACTCA | 58.029 | 42.857 | 6.47 | 0.00 | 43.34 | 3.41 |
503 | 766 | 4.566759 | GTGCGATTGCTTGATACTCAGTAA | 59.433 | 41.667 | 6.47 | 0.00 | 43.34 | 2.24 |
556 | 820 | 2.116827 | TCCTTGTTTCGTTGGTGTGT | 57.883 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
561 | 825 | 3.644884 | TGTTTCGTTGGTGTGTTTTGT | 57.355 | 38.095 | 0.00 | 0.00 | 0.00 | 2.83 |
564 | 828 | 2.923605 | TCGTTGGTGTGTTTTGTTCC | 57.076 | 45.000 | 0.00 | 0.00 | 0.00 | 3.62 |
583 | 847 | 4.664677 | GTGGAGCGCGTGTGGAGT | 62.665 | 66.667 | 8.43 | 0.00 | 0.00 | 3.85 |
594 | 858 | 0.039074 | GTGTGGAGTCGTGTCTCTGG | 60.039 | 60.000 | 0.00 | 0.00 | 35.11 | 3.86 |
596 | 860 | 1.228583 | TGGAGTCGTGTCTCTGGCT | 60.229 | 57.895 | 0.00 | 0.00 | 35.11 | 4.75 |
597 | 861 | 0.037734 | TGGAGTCGTGTCTCTGGCTA | 59.962 | 55.000 | 0.00 | 0.00 | 35.11 | 3.93 |
599 | 863 | 1.455248 | GAGTCGTGTCTCTGGCTAGT | 58.545 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
605 | 869 | 2.171840 | GTGTCTCTGGCTAGTCTTCCA | 58.828 | 52.381 | 0.00 | 0.00 | 0.00 | 3.53 |
606 | 870 | 2.563179 | GTGTCTCTGGCTAGTCTTCCAA | 59.437 | 50.000 | 0.00 | 0.00 | 30.98 | 3.53 |
612 | 876 | 4.096681 | TCTGGCTAGTCTTCCAAGATTCA | 58.903 | 43.478 | 0.00 | 0.00 | 37.39 | 2.57 |
626 | 891 | 8.950007 | TTCCAAGATTCAATAGGTTTAGGTTT | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 3.27 |
641 | 906 | 1.001815 | AGGTTTCGGTGCATTCGTTTG | 60.002 | 47.619 | 11.22 | 0.00 | 0.00 | 2.93 |
649 | 914 | 2.097466 | GGTGCATTCGTTTGGATTCGAT | 59.903 | 45.455 | 0.00 | 0.00 | 36.01 | 3.59 |
660 | 925 | 5.399013 | GTTTGGATTCGATTGGATTTCGTT | 58.601 | 37.500 | 0.00 | 0.00 | 37.82 | 3.85 |
661 | 926 | 5.637006 | TTGGATTCGATTGGATTTCGTTT | 57.363 | 34.783 | 0.00 | 0.00 | 37.82 | 3.60 |
664 | 929 | 5.028375 | GGATTCGATTGGATTTCGTTTGTC | 58.972 | 41.667 | 0.00 | 0.00 | 37.82 | 3.18 |
674 | 939 | 5.236478 | TGGATTTCGTTTGTCTTCAGAGTTC | 59.764 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
684 | 949 | 4.832823 | TGTCTTCAGAGTTCCTACATGTCA | 59.167 | 41.667 | 0.00 | 0.00 | 0.00 | 3.58 |
731 | 996 | 4.795268 | ACGACAATATATGCTGGTCTACG | 58.205 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
760 | 1025 | 8.978874 | AGTGGAACAGATTTTGCATATGTATA | 57.021 | 30.769 | 4.29 | 0.00 | 41.80 | 1.47 |
870 | 1137 | 1.192312 | CACAGTTCACACATTCGTCCG | 59.808 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
883 | 1165 | 4.074526 | GTCCGCCAGCTCAGCTCA | 62.075 | 66.667 | 0.00 | 0.00 | 36.40 | 4.26 |
884 | 1166 | 3.767806 | TCCGCCAGCTCAGCTCAG | 61.768 | 66.667 | 0.00 | 0.00 | 36.40 | 3.35 |
904 | 1186 | 3.423154 | CAGCTGAAACGGGACCGC | 61.423 | 66.667 | 8.42 | 0.00 | 44.19 | 5.68 |
924 | 1206 | 2.539953 | GCACCGACTCTTATCACTCGAG | 60.540 | 54.545 | 11.84 | 11.84 | 0.00 | 4.04 |
944 | 1226 | 4.124351 | CGAGACAGCCGCCGGTAA | 62.124 | 66.667 | 4.45 | 0.00 | 0.00 | 2.85 |
1360 | 1656 | 2.939103 | CCTCTCATGGTGAACCGAATTC | 59.061 | 50.000 | 0.00 | 0.00 | 39.43 | 2.17 |
1432 | 1729 | 5.045869 | TGAGGTTTTAGGTATTCAGAGTGGG | 60.046 | 44.000 | 0.00 | 0.00 | 0.00 | 4.61 |
1584 | 1881 | 3.859961 | AGTCTCATCGTTCTTGCGTATTG | 59.140 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
1590 | 1887 | 5.865013 | TCATCGTTCTTGCGTATTGTAGAAA | 59.135 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
1625 | 1922 | 9.113838 | TGGAGTTCTATTTAAAGATCTTCATGC | 57.886 | 33.333 | 8.78 | 0.00 | 29.53 | 4.06 |
1640 | 1937 | 8.753133 | AGATCTTCATGCGAGGAAATATATACA | 58.247 | 33.333 | 0.00 | 0.00 | 30.02 | 2.29 |
1668 | 1965 | 2.173669 | CGGAGCTGCGTTATGGTGG | 61.174 | 63.158 | 20.53 | 0.00 | 0.00 | 4.61 |
1670 | 1967 | 1.450312 | GAGCTGCGTTATGGTGGCT | 60.450 | 57.895 | 0.00 | 0.00 | 0.00 | 4.75 |
1682 | 1979 | 0.179004 | TGGTGGCTTCACGGTTTCAT | 60.179 | 50.000 | 0.00 | 0.00 | 42.09 | 2.57 |
1717 | 2014 | 1.078848 | GAGCGGACCTGAGTTGCAT | 60.079 | 57.895 | 0.00 | 0.00 | 31.94 | 3.96 |
1747 | 2044 | 4.908601 | ACAATGATGTGAGGTTAGGACA | 57.091 | 40.909 | 0.00 | 0.00 | 38.69 | 4.02 |
1778 | 2075 | 3.253188 | TGTTTTGTAGATGGTGCTCTTGC | 59.747 | 43.478 | 0.00 | 0.00 | 40.20 | 4.01 |
1876 | 2173 | 4.306600 | GAGGTTCAAATGCCAAAATCGTT | 58.693 | 39.130 | 0.00 | 0.00 | 0.00 | 3.85 |
1888 | 2185 | 7.126726 | TGCCAAAATCGTTCCAAAATAAATG | 57.873 | 32.000 | 0.00 | 0.00 | 0.00 | 2.32 |
1891 | 2188 | 7.307692 | GCCAAAATCGTTCCAAAATAAATGTGT | 60.308 | 33.333 | 0.00 | 0.00 | 0.00 | 3.72 |
1921 | 2218 | 4.237724 | CTGAATGCTTGTCTTGAGTCGTA | 58.762 | 43.478 | 0.00 | 0.00 | 0.00 | 3.43 |
1922 | 2219 | 3.987868 | TGAATGCTTGTCTTGAGTCGTAC | 59.012 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
1968 | 2265 | 4.338379 | AGTTATTTAGGGATCAGACGGC | 57.662 | 45.455 | 0.00 | 0.00 | 0.00 | 5.68 |
2033 | 2330 | 3.926527 | GTGTCTCGTTGTCATGATGCTAA | 59.073 | 43.478 | 0.00 | 0.00 | 0.00 | 3.09 |
2326 | 2637 | 2.289002 | GCGACTCCTGCATATTTTGAGG | 59.711 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2421 | 2736 | 7.956943 | GCCATTTATTTATTTGCAGTGTTTCAC | 59.043 | 33.333 | 0.00 | 0.00 | 34.10 | 3.18 |
2486 | 2823 | 6.818644 | TGTAGCAAGATTTCTGTAGGACAATC | 59.181 | 38.462 | 0.00 | 0.00 | 0.00 | 2.67 |
2631 | 3003 | 5.385617 | GTCACTGTCTTATCACACATTTGC | 58.614 | 41.667 | 0.00 | 0.00 | 0.00 | 3.68 |
2732 | 3104 | 3.047857 | TCCATTACCAGCTGATGATCCA | 58.952 | 45.455 | 17.39 | 0.00 | 0.00 | 3.41 |
2733 | 3105 | 3.654321 | TCCATTACCAGCTGATGATCCAT | 59.346 | 43.478 | 17.39 | 0.00 | 0.00 | 3.41 |
2765 | 3137 | 5.421693 | TGATGAGGAAGAAGAAGAGGAAGAG | 59.578 | 44.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2786 | 3158 | 1.264288 | GCACAACCTCAAGAAGAACCG | 59.736 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
2998 | 3371 | 3.821033 | GCAAGGACCTTTGAGCTTTTCTA | 59.179 | 43.478 | 3.21 | 0.00 | 0.00 | 2.10 |
3110 | 3483 | 5.778161 | TGCATGTTCAGTAGTTATGTTCG | 57.222 | 39.130 | 0.00 | 0.00 | 0.00 | 3.95 |
3126 | 3499 | 2.362397 | TGTTCGCTGATCTGATACTCCC | 59.638 | 50.000 | 3.42 | 0.00 | 0.00 | 4.30 |
3234 | 3607 | 6.699575 | ACTTGTGCATTTTGATATACTCCC | 57.300 | 37.500 | 0.00 | 0.00 | 0.00 | 4.30 |
3235 | 3608 | 6.426587 | ACTTGTGCATTTTGATATACTCCCT | 58.573 | 36.000 | 0.00 | 0.00 | 0.00 | 4.20 |
3236 | 3609 | 6.543831 | ACTTGTGCATTTTGATATACTCCCTC | 59.456 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
3237 | 3610 | 5.376625 | TGTGCATTTTGATATACTCCCTCC | 58.623 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
3238 | 3611 | 4.452455 | GTGCATTTTGATATACTCCCTCCG | 59.548 | 45.833 | 0.00 | 0.00 | 0.00 | 4.63 |
3239 | 3612 | 4.102524 | TGCATTTTGATATACTCCCTCCGT | 59.897 | 41.667 | 0.00 | 0.00 | 0.00 | 4.69 |
3240 | 3613 | 5.063880 | GCATTTTGATATACTCCCTCCGTT | 58.936 | 41.667 | 0.00 | 0.00 | 0.00 | 4.44 |
3241 | 3614 | 5.531287 | GCATTTTGATATACTCCCTCCGTTT | 59.469 | 40.000 | 0.00 | 0.00 | 0.00 | 3.60 |
3242 | 3615 | 6.293462 | GCATTTTGATATACTCCCTCCGTTTC | 60.293 | 42.308 | 0.00 | 0.00 | 0.00 | 2.78 |
3243 | 3616 | 5.943349 | TTTGATATACTCCCTCCGTTTCA | 57.057 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
3244 | 3617 | 6.494666 | TTTGATATACTCCCTCCGTTTCAT | 57.505 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
3245 | 3618 | 7.606135 | TTTGATATACTCCCTCCGTTTCATA | 57.394 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
3246 | 3619 | 7.606135 | TTGATATACTCCCTCCGTTTCATAA | 57.394 | 36.000 | 0.00 | 0.00 | 0.00 | 1.90 |
3247 | 3620 | 7.792364 | TGATATACTCCCTCCGTTTCATAAT | 57.208 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
3248 | 3621 | 8.888836 | TGATATACTCCCTCCGTTTCATAATA | 57.111 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
3249 | 3622 | 9.488762 | TGATATACTCCCTCCGTTTCATAATAT | 57.511 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
3253 | 3626 | 7.850935 | ACTCCCTCCGTTTCATAATATAAGA | 57.149 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
3254 | 3627 | 7.668492 | ACTCCCTCCGTTTCATAATATAAGAC | 58.332 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
3255 | 3628 | 6.684686 | TCCCTCCGTTTCATAATATAAGACG | 58.315 | 40.000 | 0.00 | 0.00 | 0.00 | 4.18 |
3256 | 3629 | 6.266103 | TCCCTCCGTTTCATAATATAAGACGT | 59.734 | 38.462 | 0.00 | 0.00 | 0.00 | 4.34 |
3257 | 3630 | 6.927381 | CCCTCCGTTTCATAATATAAGACGTT | 59.073 | 38.462 | 0.00 | 0.00 | 0.00 | 3.99 |
3258 | 3631 | 7.440255 | CCCTCCGTTTCATAATATAAGACGTTT | 59.560 | 37.037 | 0.00 | 0.00 | 0.00 | 3.60 |
3259 | 3632 | 8.823818 | CCTCCGTTTCATAATATAAGACGTTTT | 58.176 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
3310 | 3683 | 6.263412 | TCCTATATTATAGGACGGAGGGAG | 57.737 | 45.833 | 23.13 | 0.72 | 38.71 | 4.30 |
3311 | 3684 | 5.735129 | TCCTATATTATAGGACGGAGGGAGT | 59.265 | 44.000 | 23.13 | 0.00 | 38.71 | 3.85 |
3312 | 3685 | 6.910857 | TCCTATATTATAGGACGGAGGGAGTA | 59.089 | 42.308 | 23.13 | 2.77 | 38.71 | 2.59 |
3313 | 3686 | 6.997476 | CCTATATTATAGGACGGAGGGAGTAC | 59.003 | 46.154 | 20.86 | 0.00 | 36.85 | 2.73 |
3314 | 3687 | 6.655376 | ATATTATAGGACGGAGGGAGTACT | 57.345 | 41.667 | 0.00 | 0.00 | 36.60 | 2.73 |
3315 | 3688 | 7.761981 | ATATTATAGGACGGAGGGAGTACTA | 57.238 | 40.000 | 0.00 | 0.00 | 39.16 | 1.82 |
3316 | 3689 | 3.786368 | ATAGGACGGAGGGAGTACTAC | 57.214 | 52.381 | 0.00 | 0.00 | 37.80 | 2.73 |
3420 | 3793 | 4.095610 | GTGTTCTTAAATCGCGAATTGGG | 58.904 | 43.478 | 19.35 | 11.31 | 0.00 | 4.12 |
3458 | 3831 | 8.886719 | TCATCAAGTATGAACACATCTCATTTC | 58.113 | 33.333 | 0.00 | 0.00 | 41.75 | 2.17 |
3459 | 3832 | 8.671028 | CATCAAGTATGAACACATCTCATTTCA | 58.329 | 33.333 | 0.00 | 0.00 | 39.49 | 2.69 |
3462 | 3835 | 9.850628 | CAAGTATGAACACATCTCATTTCAAAT | 57.149 | 29.630 | 0.00 | 0.00 | 35.21 | 2.32 |
3468 | 3841 | 9.506018 | TGAACACATCTCATTTCAAATTCTCTA | 57.494 | 29.630 | 0.00 | 0.00 | 0.00 | 2.43 |
3538 | 3913 | 8.648097 | CAATGATATTTTTATAGACTCGGTCCG | 58.352 | 37.037 | 4.39 | 4.39 | 32.18 | 4.79 |
3609 | 3984 | 8.556213 | TTGAAACTTGTTAGATGTGTATACCC | 57.444 | 34.615 | 0.00 | 0.00 | 0.00 | 3.69 |
3611 | 3986 | 6.886178 | AACTTGTTAGATGTGTATACCCCT | 57.114 | 37.500 | 0.00 | 0.00 | 0.00 | 4.79 |
3612 | 3987 | 6.886178 | ACTTGTTAGATGTGTATACCCCTT | 57.114 | 37.500 | 0.00 | 0.00 | 0.00 | 3.95 |
3616 | 3991 | 6.342906 | TGTTAGATGTGTATACCCCTTTTCG | 58.657 | 40.000 | 0.00 | 0.00 | 0.00 | 3.46 |
3619 | 3994 | 4.226620 | AGATGTGTATACCCCTTTTCGGTT | 59.773 | 41.667 | 0.00 | 0.00 | 34.66 | 4.44 |
3620 | 3995 | 5.426185 | AGATGTGTATACCCCTTTTCGGTTA | 59.574 | 40.000 | 0.00 | 0.00 | 34.66 | 2.85 |
3623 | 3998 | 6.114767 | TGTGTATACCCCTTTTCGGTTAATC | 58.885 | 40.000 | 0.00 | 0.00 | 34.66 | 1.75 |
3648 | 4023 | 6.494666 | CCATTGTATAAGGGGTCTCTTACA | 57.505 | 41.667 | 0.00 | 0.00 | 34.16 | 2.41 |
3649 | 4024 | 6.289064 | CCATTGTATAAGGGGTCTCTTACAC | 58.711 | 44.000 | 0.00 | 0.00 | 34.16 | 2.90 |
3650 | 4025 | 6.099845 | CCATTGTATAAGGGGTCTCTTACACT | 59.900 | 42.308 | 1.44 | 0.00 | 34.16 | 3.55 |
3653 | 4028 | 8.669055 | TTGTATAAGGGGTCTCTTACACTTTA | 57.331 | 34.615 | 1.44 | 0.00 | 37.45 | 1.85 |
3654 | 4029 | 8.071177 | TGTATAAGGGGTCTCTTACACTTTAC | 57.929 | 38.462 | 1.44 | 0.00 | 36.03 | 2.01 |
3656 | 4031 | 3.865571 | AGGGGTCTCTTACACTTTACCA | 58.134 | 45.455 | 0.00 | 0.00 | 0.00 | 3.25 |
3661 | 4036 | 4.748600 | GGTCTCTTACACTTTACCACACAC | 59.251 | 45.833 | 0.00 | 0.00 | 0.00 | 3.82 |
3673 | 4048 | 9.378551 | CACTTTACCACACACTTGTATATGTAT | 57.621 | 33.333 | 0.00 | 0.00 | 33.30 | 2.29 |
3693 | 4068 | 4.692930 | GCCATTGGCCCTTCTGAT | 57.307 | 55.556 | 17.28 | 0.00 | 44.06 | 2.90 |
3695 | 4070 | 2.071778 | GCCATTGGCCCTTCTGATAA | 57.928 | 50.000 | 17.28 | 0.00 | 44.06 | 1.75 |
3696 | 4071 | 2.601905 | GCCATTGGCCCTTCTGATAAT | 58.398 | 47.619 | 17.28 | 0.00 | 44.06 | 1.28 |
3697 | 4072 | 3.766545 | GCCATTGGCCCTTCTGATAATA | 58.233 | 45.455 | 17.28 | 0.00 | 44.06 | 0.98 |
3698 | 4073 | 3.507622 | GCCATTGGCCCTTCTGATAATAC | 59.492 | 47.826 | 17.28 | 0.00 | 44.06 | 1.89 |
3704 | 4079 | 4.473196 | TGGCCCTTCTGATAATACAGTTGA | 59.527 | 41.667 | 0.00 | 0.00 | 38.79 | 3.18 |
3709 | 4084 | 8.940952 | GCCCTTCTGATAATACAGTTGATATTC | 58.059 | 37.037 | 0.00 | 0.00 | 38.79 | 1.75 |
3724 | 4099 | 8.853126 | CAGTTGATATTCATCCAACATGGTATT | 58.147 | 33.333 | 0.00 | 0.00 | 39.03 | 1.89 |
3788 | 4165 | 2.825264 | CTCCTCCCCGATCTTGCC | 59.175 | 66.667 | 0.00 | 0.00 | 0.00 | 4.52 |
3813 | 4190 | 3.754740 | CTGCCGCTGCTCTCTCTCG | 62.755 | 68.421 | 0.70 | 0.00 | 38.71 | 4.04 |
3814 | 4191 | 3.821055 | GCCGCTGCTCTCTCTCGT | 61.821 | 66.667 | 0.00 | 0.00 | 33.53 | 4.18 |
3821 | 4204 | 1.021920 | TGCTCTCTCTCGTCGTGGAG | 61.022 | 60.000 | 10.22 | 10.22 | 35.32 | 3.86 |
3848 | 4231 | 4.785453 | CTTGGCCCGTCTCCTGCC | 62.785 | 72.222 | 0.00 | 0.00 | 45.56 | 4.85 |
3888 | 4271 | 3.069318 | GGCTTCCCCGTCTCGTCT | 61.069 | 66.667 | 0.00 | 0.00 | 0.00 | 4.18 |
3889 | 4272 | 2.182030 | GCTTCCCCGTCTCGTCTG | 59.818 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
3890 | 4273 | 2.182030 | CTTCCCCGTCTCGTCTGC | 59.818 | 66.667 | 0.00 | 0.00 | 0.00 | 4.26 |
3891 | 4274 | 2.282958 | TTCCCCGTCTCGTCTGCT | 60.283 | 61.111 | 0.00 | 0.00 | 0.00 | 4.24 |
3899 | 4282 | 1.683707 | TCTCGTCTGCTGCCAGGAT | 60.684 | 57.895 | 0.00 | 0.00 | 39.61 | 3.24 |
3923 | 4306 | 2.658422 | GGTCGCCGGTGTTTCCTA | 59.342 | 61.111 | 16.01 | 0.00 | 0.00 | 2.94 |
3952 | 4335 | 4.666253 | GCCCCTGCACCAAGCTGA | 62.666 | 66.667 | 0.00 | 0.00 | 44.15 | 4.26 |
3963 | 4346 | 3.764466 | AAGCTGAGCTCGGTCCCG | 61.764 | 66.667 | 23.36 | 0.00 | 38.25 | 5.14 |
3967 | 4350 | 4.671590 | TGAGCTCGGTCCCGGTCA | 62.672 | 66.667 | 9.64 | 5.29 | 40.25 | 4.02 |
3986 | 4369 | 4.514577 | CGCGGATCCGGCAGTCTT | 62.515 | 66.667 | 33.98 | 0.00 | 40.19 | 3.01 |
4073 | 4456 | 3.864686 | CGCCGCATGGTTCCTTCG | 61.865 | 66.667 | 0.00 | 0.00 | 37.67 | 3.79 |
4078 | 4461 | 1.377202 | GCATGGTTCCTTCGCTCCA | 60.377 | 57.895 | 0.00 | 0.00 | 0.00 | 3.86 |
4081 | 4464 | 2.436824 | GGTTCCTTCGCTCCAGCC | 60.437 | 66.667 | 0.00 | 0.00 | 37.91 | 4.85 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
30 | 31 | 3.067833 | GACTCCACCAGCAACTTCTAAC | 58.932 | 50.000 | 0.00 | 0.00 | 0.00 | 2.34 |
31 | 32 | 2.703536 | TGACTCCACCAGCAACTTCTAA | 59.296 | 45.455 | 0.00 | 0.00 | 0.00 | 2.10 |
101 | 102 | 5.107607 | CCACACGTCAAACTTCTATGTACAC | 60.108 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
165 | 166 | 9.249457 | CACAATTCTCGACATAGCTCTATTAAA | 57.751 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
169 | 170 | 6.398234 | ACACAATTCTCGACATAGCTCTAT | 57.602 | 37.500 | 0.00 | 0.00 | 0.00 | 1.98 |
175 | 176 | 9.613957 | CTACCTTATACACAATTCTCGACATAG | 57.386 | 37.037 | 0.00 | 0.00 | 0.00 | 2.23 |
185 | 186 | 6.051074 | GCCGTAACCTACCTTATACACAATT | 58.949 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
209 | 210 | 5.043903 | CACATAATACGACTCCAAGTCCAG | 58.956 | 45.833 | 1.69 | 0.00 | 42.12 | 3.86 |
226 | 227 | 5.321102 | ACTCCTTGCCATGTTTACACATAA | 58.679 | 37.500 | 0.00 | 0.00 | 42.14 | 1.90 |
228 | 229 | 3.766545 | ACTCCTTGCCATGTTTACACAT | 58.233 | 40.909 | 0.00 | 0.00 | 45.18 | 3.21 |
282 | 283 | 8.372459 | GTGTGTCTACCCCATGTTATATATGAA | 58.628 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
329 | 330 | 6.815641 | AGCTCTTCTTGAGTGTATGTGTTATG | 59.184 | 38.462 | 0.00 | 0.00 | 44.41 | 1.90 |
333 | 334 | 4.281941 | TCAGCTCTTCTTGAGTGTATGTGT | 59.718 | 41.667 | 0.00 | 0.00 | 44.41 | 3.72 |
346 | 347 | 1.671261 | GCATGTGTCGTCAGCTCTTCT | 60.671 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
348 | 349 | 0.671781 | GGCATGTGTCGTCAGCTCTT | 60.672 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
350 | 351 | 1.357258 | CTGGCATGTGTCGTCAGCTC | 61.357 | 60.000 | 0.00 | 0.00 | 0.00 | 4.09 |
389 | 640 | 6.600427 | TCTCCGTTGATACCGCTATAATATCA | 59.400 | 38.462 | 0.00 | 0.00 | 34.32 | 2.15 |
390 | 641 | 7.012138 | TCTCTCCGTTGATACCGCTATAATATC | 59.988 | 40.741 | 0.00 | 0.00 | 0.00 | 1.63 |
391 | 642 | 6.827251 | TCTCTCCGTTGATACCGCTATAATAT | 59.173 | 38.462 | 0.00 | 0.00 | 0.00 | 1.28 |
412 | 663 | 2.028130 | CCTGACTATGGACGCTTCTCT | 58.972 | 52.381 | 0.00 | 0.00 | 0.00 | 3.10 |
503 | 766 | 9.950496 | AGAATTAATCTAAGGTGCATATCGATT | 57.050 | 29.630 | 1.71 | 0.00 | 36.32 | 3.34 |
525 | 788 | 7.067008 | CCAACGAAACAAGGATGGTATTAGAAT | 59.933 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
532 | 795 | 3.142951 | CACCAACGAAACAAGGATGGTA | 58.857 | 45.455 | 0.00 | 0.00 | 39.05 | 3.25 |
556 | 820 | 1.781025 | CGCGCTCCACTGGAACAAAA | 61.781 | 55.000 | 5.56 | 0.00 | 38.70 | 2.44 |
561 | 825 | 3.923864 | ACACGCGCTCCACTGGAA | 61.924 | 61.111 | 5.73 | 0.00 | 0.00 | 3.53 |
564 | 828 | 4.662961 | TCCACACGCGCTCCACTG | 62.663 | 66.667 | 5.73 | 0.00 | 0.00 | 3.66 |
583 | 847 | 2.085320 | GAAGACTAGCCAGAGACACGA | 58.915 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
594 | 858 | 6.587273 | ACCTATTGAATCTTGGAAGACTAGC | 58.413 | 40.000 | 0.00 | 0.00 | 37.98 | 3.42 |
597 | 861 | 8.049721 | CCTAAACCTATTGAATCTTGGAAGACT | 58.950 | 37.037 | 0.00 | 0.00 | 37.98 | 3.24 |
599 | 863 | 7.928873 | ACCTAAACCTATTGAATCTTGGAAGA | 58.071 | 34.615 | 0.00 | 0.00 | 39.78 | 2.87 |
605 | 869 | 7.120726 | CACCGAAACCTAAACCTATTGAATCTT | 59.879 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
606 | 870 | 6.598064 | CACCGAAACCTAAACCTATTGAATCT | 59.402 | 38.462 | 0.00 | 0.00 | 0.00 | 2.40 |
612 | 876 | 4.023726 | TGCACCGAAACCTAAACCTATT | 57.976 | 40.909 | 0.00 | 0.00 | 0.00 | 1.73 |
626 | 891 | 1.466950 | GAATCCAAACGAATGCACCGA | 59.533 | 47.619 | 15.97 | 0.00 | 0.00 | 4.69 |
641 | 906 | 4.981794 | ACAAACGAAATCCAATCGAATCC | 58.018 | 39.130 | 2.65 | 0.00 | 42.76 | 3.01 |
649 | 914 | 5.123227 | ACTCTGAAGACAAACGAAATCCAA | 58.877 | 37.500 | 0.00 | 0.00 | 0.00 | 3.53 |
660 | 925 | 5.304357 | TGACATGTAGGAACTCTGAAGACAA | 59.696 | 40.000 | 0.00 | 0.00 | 41.75 | 3.18 |
661 | 926 | 4.832823 | TGACATGTAGGAACTCTGAAGACA | 59.167 | 41.667 | 0.00 | 0.00 | 41.75 | 3.41 |
664 | 929 | 7.380870 | CGATAATGACATGTAGGAACTCTGAAG | 59.619 | 40.741 | 0.00 | 0.00 | 41.75 | 3.02 |
702 | 967 | 4.021981 | CCAGCATATATTGTCGTCTCCAGA | 60.022 | 45.833 | 0.00 | 0.00 | 0.00 | 3.86 |
703 | 968 | 4.240888 | CCAGCATATATTGTCGTCTCCAG | 58.759 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
704 | 969 | 3.641436 | ACCAGCATATATTGTCGTCTCCA | 59.359 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
718 | 983 | 4.976864 | TCCACTATACGTAGACCAGCATA | 58.023 | 43.478 | 0.08 | 0.00 | 0.00 | 3.14 |
719 | 984 | 3.828921 | TCCACTATACGTAGACCAGCAT | 58.171 | 45.455 | 0.08 | 0.00 | 0.00 | 3.79 |
731 | 996 | 8.840321 | ACATATGCAAAATCTGTTCCACTATAC | 58.160 | 33.333 | 1.58 | 0.00 | 0.00 | 1.47 |
791 | 1056 | 8.717821 | CCCGGTGTTTACTATGTTCAATATATG | 58.282 | 37.037 | 0.00 | 0.00 | 0.00 | 1.78 |
814 | 1081 | 0.101579 | AAACAAAAACAGACCGCCCG | 59.898 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
824 | 1091 | 5.164012 | GCATGGCCAAAAACAAAACAAAAAC | 60.164 | 36.000 | 10.96 | 0.00 | 0.00 | 2.43 |
883 | 1165 | 1.004440 | GTCCCGTTTCAGCTGAGCT | 60.004 | 57.895 | 17.43 | 0.00 | 40.77 | 4.09 |
884 | 1166 | 2.035442 | GGTCCCGTTTCAGCTGAGC | 61.035 | 63.158 | 17.43 | 12.82 | 0.00 | 4.26 |
886 | 1168 | 2.342279 | CGGTCCCGTTTCAGCTGA | 59.658 | 61.111 | 13.74 | 13.74 | 34.35 | 4.26 |
887 | 1169 | 3.423154 | GCGGTCCCGTTTCAGCTG | 61.423 | 66.667 | 7.63 | 7.63 | 42.09 | 4.24 |
888 | 1170 | 3.936203 | TGCGGTCCCGTTTCAGCT | 61.936 | 61.111 | 7.66 | 0.00 | 42.09 | 4.24 |
889 | 1171 | 3.723348 | GTGCGGTCCCGTTTCAGC | 61.723 | 66.667 | 7.66 | 0.00 | 42.09 | 4.26 |
890 | 1172 | 3.047877 | GGTGCGGTCCCGTTTCAG | 61.048 | 66.667 | 7.66 | 0.00 | 42.09 | 3.02 |
891 | 1173 | 4.973055 | CGGTGCGGTCCCGTTTCA | 62.973 | 66.667 | 7.66 | 0.00 | 40.59 | 2.69 |
892 | 1174 | 4.668118 | TCGGTGCGGTCCCGTTTC | 62.668 | 66.667 | 7.66 | 0.00 | 45.63 | 2.78 |
893 | 1175 | 4.974989 | GTCGGTGCGGTCCCGTTT | 62.975 | 66.667 | 7.66 | 0.00 | 45.63 | 3.60 |
904 | 1186 | 2.032302 | CCTCGAGTGATAAGAGTCGGTG | 59.968 | 54.545 | 12.31 | 0.00 | 38.96 | 4.94 |
1321 | 1617 | 6.946340 | TGAGAGGAATAGCAAAATGACTACA | 58.054 | 36.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1432 | 1729 | 7.617041 | AAGCTAACATTCCTACTGATTTCAC | 57.383 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1548 | 1845 | 4.219507 | CGATGAGACTAGGATGCCACTAAT | 59.780 | 45.833 | 0.00 | 0.00 | 0.00 | 1.73 |
1584 | 1881 | 8.950208 | ATAGAACTCCAAGCTAACATTTCTAC | 57.050 | 34.615 | 8.43 | 0.00 | 29.52 | 2.59 |
1590 | 1887 | 9.959721 | TCTTTAAATAGAACTCCAAGCTAACAT | 57.040 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
1625 | 1922 | 9.499585 | CGGTACAGTTATGTATATATTTCCTCG | 57.500 | 37.037 | 0.00 | 0.00 | 43.62 | 4.63 |
1640 | 1937 | 0.102481 | CGCAGCTCCGGTACAGTTAT | 59.898 | 55.000 | 0.00 | 0.00 | 0.00 | 1.89 |
1668 | 1965 | 3.559238 | ACAATGATGAAACCGTGAAGC | 57.441 | 42.857 | 0.00 | 0.00 | 0.00 | 3.86 |
1670 | 1967 | 3.067320 | TGCAACAATGATGAAACCGTGAA | 59.933 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
1682 | 1979 | 3.119531 | CCGCTCCTAAAATGCAACAATGA | 60.120 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
1717 | 2014 | 5.132502 | ACCTCACATCATTGTTTGAACTCA | 58.867 | 37.500 | 0.00 | 0.00 | 38.03 | 3.41 |
1747 | 2044 | 7.394359 | AGCACCATCTACAAAACAATCTACAAT | 59.606 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
1778 | 2075 | 7.119360 | CACGCTATACATATTGTTTCAGTGTG | 58.881 | 38.462 | 11.55 | 11.55 | 36.90 | 3.82 |
1779 | 2076 | 6.816640 | ACACGCTATACATATTGTTTCAGTGT | 59.183 | 34.615 | 0.00 | 0.00 | 30.46 | 3.55 |
1814 | 2111 | 4.661709 | ACCTAGGTGGAAACCTTCAAAGTA | 59.338 | 41.667 | 15.42 | 0.00 | 41.12 | 2.24 |
1839 | 2136 | 0.818040 | ACCTCGGTTTGCACAACTCC | 60.818 | 55.000 | 10.28 | 0.00 | 0.00 | 3.85 |
1876 | 2173 | 3.570125 | TGGACGCACACATTTATTTTGGA | 59.430 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
1888 | 2185 | 1.207593 | GCATTCAGTGGACGCACAC | 59.792 | 57.895 | 2.12 | 2.12 | 41.63 | 3.82 |
1891 | 2188 | 0.534877 | ACAAGCATTCAGTGGACGCA | 60.535 | 50.000 | 0.00 | 0.00 | 0.00 | 5.24 |
2005 | 2302 | 1.324383 | TGACAACGAGACACCAGCTA | 58.676 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
2126 | 2431 | 2.821437 | ACAGCACCCTAGTATCACACT | 58.179 | 47.619 | 0.00 | 0.00 | 41.62 | 3.55 |
2188 | 2493 | 6.263168 | GTGTCCCCTATCAATTTACCATGAAG | 59.737 | 42.308 | 0.00 | 0.00 | 0.00 | 3.02 |
2326 | 2637 | 6.593072 | GCAGAACAATAAAATGAAGGTTTGC | 58.407 | 36.000 | 0.00 | 0.00 | 0.00 | 3.68 |
2421 | 2736 | 9.414295 | ACACATGAAAATTGACAGTTATCAATG | 57.586 | 29.630 | 0.00 | 0.00 | 46.35 | 2.82 |
2631 | 3003 | 3.282885 | GCTTAGGTTTCTCCCATTCCTG | 58.717 | 50.000 | 0.00 | 0.00 | 36.75 | 3.86 |
2732 | 3104 | 6.511017 | TCTTCTTCCTCATCATCATCCAAT | 57.489 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
2733 | 3105 | 5.963214 | TCTTCTTCCTCATCATCATCCAA | 57.037 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
2765 | 3137 | 1.609072 | GGTTCTTCTTGAGGTTGTGCC | 59.391 | 52.381 | 0.00 | 0.00 | 37.58 | 5.01 |
2970 | 3343 | 0.603707 | TCAAAGGTCCTTGCTGAGCG | 60.604 | 55.000 | 4.45 | 0.00 | 37.81 | 5.03 |
3064 | 3437 | 3.741344 | CAGCTTATTGTGTCGTATAGGCC | 59.259 | 47.826 | 0.00 | 0.00 | 31.76 | 5.19 |
3110 | 3483 | 1.683917 | ACACGGGAGTATCAGATCAGC | 59.316 | 52.381 | 0.00 | 0.00 | 44.67 | 4.26 |
3126 | 3499 | 2.967459 | TAATGCACTTTCAGCACACG | 57.033 | 45.000 | 0.00 | 0.00 | 45.95 | 4.49 |
3170 | 3543 | 0.171007 | CTGGTGCCAAGTTATTGCCG | 59.829 | 55.000 | 0.00 | 0.00 | 34.91 | 5.69 |
3186 | 3559 | 5.964958 | AACCAATGTGTCATTCTAACTGG | 57.035 | 39.130 | 0.00 | 0.00 | 0.00 | 4.00 |
3287 | 3660 | 5.735129 | ACTCCCTCCGTCCTATAATATAGGA | 59.265 | 44.000 | 21.75 | 21.75 | 41.14 | 2.94 |
3288 | 3661 | 6.015991 | ACTCCCTCCGTCCTATAATATAGG | 57.984 | 45.833 | 18.08 | 18.08 | 36.06 | 2.57 |
3289 | 3662 | 7.804147 | AGTACTCCCTCCGTCCTATAATATAG | 58.196 | 42.308 | 0.36 | 0.36 | 0.00 | 1.31 |
3290 | 3663 | 7.761981 | AGTACTCCCTCCGTCCTATAATATA | 57.238 | 40.000 | 0.00 | 0.00 | 0.00 | 0.86 |
3291 | 3664 | 6.655376 | AGTACTCCCTCCGTCCTATAATAT | 57.345 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
3292 | 3665 | 6.501805 | TGTAGTACTCCCTCCGTCCTATAATA | 59.498 | 42.308 | 0.00 | 0.00 | 0.00 | 0.98 |
3293 | 3666 | 5.311649 | TGTAGTACTCCCTCCGTCCTATAAT | 59.688 | 44.000 | 0.00 | 0.00 | 0.00 | 1.28 |
3294 | 3667 | 4.660303 | TGTAGTACTCCCTCCGTCCTATAA | 59.340 | 45.833 | 0.00 | 0.00 | 0.00 | 0.98 |
3295 | 3668 | 4.234550 | TGTAGTACTCCCTCCGTCCTATA | 58.765 | 47.826 | 0.00 | 0.00 | 0.00 | 1.31 |
3296 | 3669 | 3.051581 | TGTAGTACTCCCTCCGTCCTAT | 58.948 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3297 | 3670 | 2.481441 | TGTAGTACTCCCTCCGTCCTA | 58.519 | 52.381 | 0.00 | 0.00 | 0.00 | 2.94 |
3298 | 3671 | 1.293062 | TGTAGTACTCCCTCCGTCCT | 58.707 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3299 | 3672 | 2.361643 | ATGTAGTACTCCCTCCGTCC | 57.638 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
3300 | 3673 | 3.698040 | TGAAATGTAGTACTCCCTCCGTC | 59.302 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
3301 | 3674 | 3.705051 | TGAAATGTAGTACTCCCTCCGT | 58.295 | 45.455 | 0.00 | 0.00 | 0.00 | 4.69 |
3302 | 3675 | 4.730949 | TTGAAATGTAGTACTCCCTCCG | 57.269 | 45.455 | 0.00 | 0.00 | 0.00 | 4.63 |
3303 | 3676 | 9.628500 | AATAATTTGAAATGTAGTACTCCCTCC | 57.372 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
3538 | 3913 | 7.826690 | TGTCCTAAATCAAACATTCTTAAGCC | 58.173 | 34.615 | 0.00 | 0.00 | 0.00 | 4.35 |
3607 | 3982 | 1.006162 | TGGGGATTAACCGAAAAGGGG | 59.994 | 52.381 | 0.00 | 0.00 | 46.96 | 4.79 |
3608 | 3983 | 2.517998 | TGGGGATTAACCGAAAAGGG | 57.482 | 50.000 | 0.00 | 0.00 | 46.96 | 3.95 |
3611 | 3986 | 7.285858 | CCTTATACAATGGGGATTAACCGAAAA | 59.714 | 37.037 | 0.00 | 0.00 | 40.11 | 2.29 |
3612 | 3987 | 6.773685 | CCTTATACAATGGGGATTAACCGAAA | 59.226 | 38.462 | 0.00 | 0.00 | 40.11 | 3.46 |
3640 | 4015 | 5.864418 | AGTGTGTGGTAAAGTGTAAGAGA | 57.136 | 39.130 | 0.00 | 0.00 | 0.00 | 3.10 |
3643 | 4018 | 7.724305 | ATACAAGTGTGTGGTAAAGTGTAAG | 57.276 | 36.000 | 0.00 | 0.00 | 38.82 | 2.34 |
3645 | 4020 | 8.369424 | ACATATACAAGTGTGTGGTAAAGTGTA | 58.631 | 33.333 | 0.00 | 0.00 | 38.82 | 2.90 |
3646 | 4021 | 7.221450 | ACATATACAAGTGTGTGGTAAAGTGT | 58.779 | 34.615 | 0.00 | 0.00 | 38.82 | 3.55 |
3647 | 4022 | 7.667043 | ACATATACAAGTGTGTGGTAAAGTG | 57.333 | 36.000 | 0.00 | 0.00 | 38.82 | 3.16 |
3648 | 4023 | 9.953565 | AATACATATACAAGTGTGTGGTAAAGT | 57.046 | 29.630 | 0.00 | 0.00 | 38.82 | 2.66 |
3650 | 4025 | 9.168451 | CCAATACATATACAAGTGTGTGGTAAA | 57.832 | 33.333 | 0.00 | 0.00 | 38.82 | 2.01 |
3653 | 4028 | 5.588648 | GCCAATACATATACAAGTGTGTGGT | 59.411 | 40.000 | 0.00 | 0.00 | 38.82 | 4.16 |
3654 | 4029 | 5.008613 | GGCCAATACATATACAAGTGTGTGG | 59.991 | 44.000 | 0.00 | 0.00 | 38.82 | 4.17 |
3656 | 4031 | 5.750524 | TGGCCAATACATATACAAGTGTGT | 58.249 | 37.500 | 0.61 | 0.00 | 42.09 | 3.72 |
3661 | 4036 | 5.713025 | GCCAATGGCCAATACATATACAAG | 58.287 | 41.667 | 14.47 | 0.00 | 44.06 | 3.16 |
3695 | 4070 | 8.000709 | ACCATGTTGGATGAATATCAACTGTAT | 58.999 | 33.333 | 0.00 | 0.00 | 40.96 | 2.29 |
3696 | 4071 | 7.345691 | ACCATGTTGGATGAATATCAACTGTA | 58.654 | 34.615 | 0.00 | 0.00 | 40.96 | 2.74 |
3697 | 4072 | 6.189859 | ACCATGTTGGATGAATATCAACTGT | 58.810 | 36.000 | 0.00 | 0.00 | 40.96 | 3.55 |
3698 | 4073 | 6.704289 | ACCATGTTGGATGAATATCAACTG | 57.296 | 37.500 | 0.00 | 0.00 | 40.96 | 3.16 |
3724 | 4099 | 5.132144 | GGGAGAGAGGGGAACATAACATTTA | 59.868 | 44.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3726 | 4101 | 3.459969 | GGGAGAGAGGGGAACATAACATT | 59.540 | 47.826 | 0.00 | 0.00 | 0.00 | 2.71 |
3733 | 4108 | 2.683933 | GCGGGAGAGAGGGGAACA | 60.684 | 66.667 | 0.00 | 0.00 | 0.00 | 3.18 |
3764 | 4139 | 1.811645 | GATCGGGGAGGAGCTAGCAC | 61.812 | 65.000 | 18.83 | 11.05 | 0.00 | 4.40 |
3859 | 4242 | 3.087906 | GAAGCCGGGGGAAGCCTA | 61.088 | 66.667 | 2.18 | 0.00 | 0.00 | 3.93 |
3874 | 4257 | 2.282958 | AGCAGACGAGACGGGGAA | 60.283 | 61.111 | 0.00 | 0.00 | 0.00 | 3.97 |
3884 | 4267 | 2.584418 | CGATCCTGGCAGCAGACG | 60.584 | 66.667 | 9.56 | 7.99 | 0.00 | 4.18 |
3885 | 4268 | 2.202987 | CCGATCCTGGCAGCAGAC | 60.203 | 66.667 | 9.56 | 0.00 | 0.00 | 3.51 |
3913 | 4296 | 2.036571 | CGGCCGGTTAGGAAACACC | 61.037 | 63.158 | 20.10 | 0.00 | 45.00 | 4.16 |
3914 | 4297 | 2.036571 | CCGGCCGGTTAGGAAACAC | 61.037 | 63.158 | 36.64 | 0.00 | 45.00 | 3.32 |
3951 | 4334 | 4.131088 | GTGACCGGGACCGAGCTC | 62.131 | 72.222 | 13.13 | 2.73 | 42.83 | 4.09 |
3981 | 4364 | 4.554363 | CGATCCGCGGCGAAGACT | 62.554 | 66.667 | 25.92 | 2.77 | 36.03 | 3.24 |
4015 | 4398 | 3.246880 | GGACAGGACGGGGTTGGT | 61.247 | 66.667 | 0.00 | 0.00 | 0.00 | 3.67 |
4016 | 4399 | 4.388499 | CGGACAGGACGGGGTTGG | 62.388 | 72.222 | 0.00 | 0.00 | 0.00 | 3.77 |
4022 | 4405 | 4.803426 | GAGCAGCGGACAGGACGG | 62.803 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
4023 | 4406 | 4.803426 | GGAGCAGCGGACAGGACG | 62.803 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
4062 | 4445 | 1.078143 | GCTGGAGCGAAGGAACCAT | 60.078 | 57.895 | 0.00 | 0.00 | 0.00 | 3.55 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.