From: methBLAST and methPrimerDB: web-tools for PCR based methylation analysis
Best hit when both primers align on correct target | First misalignment | ||||||||
---|---|---|---|---|---|---|---|---|---|
# | ID | Assay type | Gene symbol | Sequence identifier | Score (bits) | E value | Sequence identifier | Score (bits) | E value |
1 | 14 | BiPS | VHL | gb|L15409.1| [BISUL_METH_RC] | 40.1 (20) | 0.32 | dbj|D64176.1| [BISUL_METH_RC] | 32.2 (16) | 79 |
2 | 236 | BiPS | NKX3-1 | gb|U91540.1| [BISUL_UNMETH_FW] | 46.1 (23) | 0.007 | dbj|AP005361.2| [BISUL_UNMETH_RC] | 44.1 (22) | 0.026 |
3 | 26 | Ms-SNuPE | RARB | emb|X56849.1| [BISUL_UNMETH_FW] | 44.8 (22) | 0.015 | dbj|AP001217.3| [BISUL_UNMETH_RC] | 40.8 (20) | 0.25 |
4 | 28 | Ms-SNuPE | CDKN2A | dbj|AB060808.1| [BISUL_UNMETH_RC] | 46.1 (23) | 0.007 | emb|AL590456.5| [BISUL_UNMETH_RC] | 40.1 (20) | 0.41 |
5 | 13 | COBRA | ESR1 | gb|M69297.1| [BISUL_UNMETH_RC] | 46.1 (23) | 0.006 | gb|AE014307.1| [BISUL_UNMETH_RC] | 40.1 (20) | 0.40 |
6 | 16 | COBRA | FLT1 | emb|AL139005.12| [BISUL_UNMETH_RC] | 40.8 (20) | 0.22 | emb|AL731546.4| [BISUL_UNMETH_FW] | 38.8 (19) | 0.91 |
7 | 24 | BiSeq | CDKN2C | gb|AY094608.1| [BISUL_UNMETH_FW] | 50.1 (25) | 4e-04 | gb|AC027334.5| [BISUL_UNMETH_FW] | 40.1 (20) | 0.43 |
8 | 83 | BiSeq | SERPINB5 | gb|AC036176.8| [BISUL_UNMETH_RC] | 60.0 (30) | 7e-07 | emb|AL133413.5| [BISUL_UNMETH_FW] | 52.0 (26) | 2e-04 |
9 | 1 | MSP-unmeth | VHL | gb|AC018808.5| [BISUL_UNMETH_RC] | 48.1 (24) | 0.002 | emb|AL513423.3| [BISUL_UNMETH_RC] | 44.1 (22) | 0.025 |
10 | 1 | MSP-meth | VHL | gb|L15409.1| [BISUL_METH_FW] | 44.1 (22) | 0.021 | gb|AC079148.9| [BISUL_METH_FW] | 36.2 (18) | 5.1 |
11 | 17 | MSP-unmeth | CDKN2A | dbj|AB060808.1| [BISUL_UNMETH_RC] | 48.1 (24) | 0.002 | emb|AL137127.7| [BISUL_UNMETH_RC] | 42.1 (21) | 0.11 |
12 | 17 | MSP-meth | CDKN2A | gb|AF044170.1| [BISUL_METH_FW] | 48.1 (24) | 0.002 | emb|AL137077.31| [BISUL_METH_RC] | 36.2 (18) | 6.4 |
13 | Ref [15] | MSP-unmeth | CDKN2A | dbj|AP001626.1| [BISUL_UNMETH_RC] | 38.2 (19) | 1.7 | emb|AL161774.49| [BISUL_UNMETH_FW] | 44.1 (22) | 0.028 |
14 | Ref [15] | MSP-meth | CDKN2A | Na | Na | Na | gb|AC092171.4| [BISUL_METH_FW] | 38.2 (19) | 1.7 |