Available multiple sequence alignment views: Expanded: This view shows residue conservation: red for conserved residues, blue for columns with no gaps. Gray is for columns containing gaps. Where less than 50% of the sequences contain gaps, they are shown in gray uppercase, greater than 50% will be gray lowercase. Compact: This view is similar to Expanded, but the unaligned columns are compressed into the bracket form: [x], where x denotes the number of residues for a sequence in the unaligned range. Plain Text: Simple text with gaps (traditional COBALT view).
Multiple sequence alignment columns with no gaps are colored in blue or red. The red color indicates highly conserved columns and blue indicates less conserved ones. The Conservation Setting can be used to select a threshold for determining which columns are colored in red. Numerical setting: The number is the relative entropy threshold, in bits, that must be met for an alignment column to be displayed in red. A larger number indicates higher degree of conservation. The relative entropy is computed as: ∑i fi log2 ( fi / pi), where i is residue type, fi is residue frequency observed in the multiple alignment column, and pi is the background residue frequency. Identity setting: Only columns with one residue type will be colored in red.
NP_594304.1 1 MVNIPKTRKTYCPGKNCRKHTVHRVTQYKKGPDSKLAQGKRRYDRKQSGFGGQTKPVFHKKAKVTKKVVLRLECV--SCK 78 NP_496375.1 1 MVNVPKARRTFCDG-KCRKHTNHKVTQYKKGKESKFAQGRRRYDRKQSGFGGQTKPIFRKKAKTTKKIVLRMECT--ECK 77 NP_001236119.2 1 MVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSIAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQC--QGCK 78 NP_012010.1 1 MVNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKKAKTTKKVVLRLECV--KCK 78 NP_188981.1 1 MVNIPKTKNTYCKNKECKKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQC--QSCK 78 NP_001189439.1 1 MVNVPKTRRTYCK--KCKKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRLECVePNCR 78 NP_594304.1 79 YKNQLVLKRCKHFELGGEKKTKG-AAIqF 106 NP_496375.1 78 HKKQLPIKRCKHFELGGQKKSRGqVIQ-F 105 NP_001236119.2 79 HVSQHAIKRCKHFEIGGDKKGKG-TSL-F 105 NP_012010.1 79 TRAQLTLKRCKHFELGGEKKQKG-QALqF 106 NP_188981.1 79 HFSQRPIKRCKHFEIGGDKKGKG-TSL-F 105 NP_001189439.1 79 SKRMLAIKRCKHFELGGDKKRKGqVIQ-F 106