From: A method for aligning RNA secondary structures and its application to RNA motif detection
True Positive | RefSeq ID | Location by PatSearch | RSmatch | Rsearch | stemloc | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|
 |  |  | Location | Score | Rank | Location | Score | Rank | Location | Score | Rank |
x | NM_000032a | 13–35 | - | - | - | - | - | - | - | - | - |
x | NM_014585 | 203–229 | 202–231 | 21 | 1 | 202–231 | 34.11 | 1 | 202–226 | 13.021 | 5 |
x | NM_003234 | 3479–3511 | 3484–3506 | 19 | 2 | 3480–3510 | 31.42 | 2 | 3486–3503 | 15.936 | 2 |
x | NM_003234 | 3883–3913 | 3887–3909 | 17 | 3 | 3876–3925 | 27.80 | 6 | 3889–3906 | 10.914 | 7 |
x | NM_003234 | 3950–3976 | 3952–3974 | 17 | 3 | 3952–3974 | 25.50 | 10 | 3954–3971 | 10.476 | 9 |
x | NM_003234 | 3996–4024 | 3999–4021 | 17 | 3 | 3999–4022 | 28.53 | 4 | 4042–4048 | 1.149 | 25 |
x | NM_000146 | 19–41 | 20–40 | 16 | 6 | 7–51 | 27.84 | 5 | 17–41 | 8.574 | 12 |
 | NM_032484 | 2353–2376 | 2358–2373 | 13 | 7 | 2355–2377 | 22.26 | 11 | 2354–2375 | 16.411 | 1 |
x | NM_003234 | 3429–3461 | 3434–3456 | 13 | 7 | 3433–3458 | 26.40 | 8 | 3436–3453 | 6.218 | 15 |
 | NM_018992 | 2182–2205 | 2186–2202 | 12 | 9 | 2186–2202 | 18.43 | 19 | 2186–2202 | 11.459 | 6 |
 | NM_003449 | 2160–2180 | 2163–2178 | 11 | 10 | 2160–2180 | 26.27 | 9 | 2161–2181 | 13.198 | 4 |
 | NM_002081 | 3449–3469 | 3452–3467 | 11 | 10 | 3446–3472 | 20.47 | 17 | 3450–3470 | 8.290 | 14 |
 | NM_173649 | 1371–1398 | 1431–1446 | 7 | 12 | 1372–1398 | 18.83 | 18 | 1376–1396 | 8.493 | 13 |
 | NM_033337 | 1202–1226 | 1253–1257 | 5 | 13 | 1202–1227 | 21.52 | 14 | 1202–1227 | 4.540 | 18 |
 | NM_001234 | 1106–1130 | 1157–1161 | 5 | 13 | 1106–1131 | 21.52 | 15 | 1106–11331 | 4.540 | 19 |
 | NM_153706 | 174–194 | 108–119 | 5 | 13 | 171–198 | 17.49 | 20 | 219–234 | 4.400 | 20 |
 | NM_003607 | 6892–6914 | 6851–6854 | 4 | 16 | 6892–6914 | 21.98 | 12 | 6930–6950 | 10.827 | 8 |
 | NM_002086 | 82–102 | 126–129 | 4 | 16 | 94–117 | 16.48 | 22 | 101–125 | 2.833 | 22 |
 | NM_012256 | 2594–2617 | 2571–2574 | 4 | 16 | 2536–2570 | 20.76 | 16 | 2590–2606 | 1.770 | 24 |
x | NM_001098 | 1–23 | 17–19 | 3 | 19 | 1–23 | 30.67 | 3 | 3–20 | 14.185 | 3 |
 | NM_006731 | 4439–4465 | 4487–4489 | 3 | 19 | 4442–4462 | 21.65 | 13 | 4443–4460 | 9.920 | 10 |
 | NM_003672 | 2556–2576 | 2592–2594 | 3 | 19 | 2547–2587 | 26.44 | 7 | 2558–2574 | 9.049 | 11 |
 | NM_018234 | 2038–2058 | 2176–2178 | 3 | 19 | 2035–2061 | 14.11 | 24 | 2046–2058 | 4.986 | 16 |
 | NM_024076 | 1799–1822 | 1816–1818 | 3 | 19 | 1800–1821 | 15.00 | 23 | 1832–1850 | 4.876 | 17 |
 | NM_000877 | 3274–3294 | 3336–3338 | 3 | 19 | 3275–3293 | 13.81 | 25 | 3302–3321 | 3.182 | 21 |
 | NM_003675 | 2–27 | 27–31 | 3 | 19 | 1–29 | 16.74 | 21 | 21–31 | 1.980 | 23 |
 | NM_032323 | 1924–1944 | 1990–1992 | 3 | 19 | 1925–1943 | 12.43 | 26 | 1928–1948 | 0.678 | 26 |