Nucleic Acid Conservation Scores ======================================= The layers for assigning grades are as follows. from -0.646 to -0.502 the grade is 9 from -0.502 to -0.359 the grade is 8 from -0.359 to -0.215 the grade is 7 from -0.215 to -0.072 the grade is 6 from -0.072 to 0.713 the grade is 5 from 0.713 to 2.139 the grade is 4 from 2.139 to 3.564 the grade is 3 from 3.564 to 4.990 the grade is 2 from 4.990 to 6.416 the grade is 1 If the difference between the colors of the CONFIDENCE INTERVAL COLORS is more than 3 or the msa number (under the column titled MSA) is less than 6, there is insufficient data and an * appears in the COLOR column. - POS: The position of the acid in the sequence. - SEQ: The acid one letter. - ATOM: When there's a model, The ATOM derived sequence in three letter code, including the acid's positions as they appear in the PDB file and the chain identifier. - SCORE: The normalized conservation scores. - COLOR: The color scale representing the conservation scores (9 - conserved, 1 - variable). - CONFIDENCE INTERVAL: When using the bayesian method for calculating rates, a confidence interval is assigned to each of the inferred evolutionary conservation scores, next to it are the colors of the lower and upper bounds of the confidence interval - MSA DATA: The number of aligned sequences having an acid (non-gapped) from the overall number of sequences at each position. - RESIDUE VARIETY: The residues variety at each position of the multiple sequence alignment. POS SEQ ATOM SCORE COLOR CONFIDENCE INTERVAL MSA DATA RESIDUE VARIETY 1 G G:1:A -0.587 9 -0.667, -0.570 9,9 150/150 G 2 C C:2:A -0.635 9 -0.668, -0.629 9,9 150/150 C 3 G G:3:A 0.544 5 -0.057, 0.715 5,4 150/150 G 93%, T 2%, C 2%, A <1% 4 G G:4:A 0.501 5 -0.057, 0.715 5,4 150/150 G 95%, A 4% 5 A A:5:A 1.598 4 0.715, 2.163 4,3 150/150 A 53%, G 25%, C 15%, T 4% 6 T U:6:A 0.843 4 0.248, 1.052 5,4 150/150 T 64%, C 21%, G 10%, A 4% 7 T U:7:A 0.468 5 0.080, 0.715 5,4 150/150 T 84%, A 13%, G 1%, C 1% 8 T U:8:A -0.560 9 -0.640, -0.504 9,9 150/150 T 99%, A <1% 9 A A:9:A -0.643 9 -0.668, -0.640 9,9 150/150 A 10 G 2MG:10:A -0.399 8 -0.595, -0.263 9,7 150/150 G 98%, A <1%, N <1% 11 C C:11:A -0.317 7 -0.504, -0.170 9,6 150/150 C 97%, T 1%, G <1% 12 T U:12:A -0.646 9 -0.668, -0.640 9,9 150/150 T 99%, N <1% 13 C C:13:A -0.641 9 -0.668, -0.640 9,9 150/150 C 14 A A:14:A -0.548 9 -0.640, -0.504 9,9 150/150 A 99%, T <1% 15 G G:15:A -0.023 5 -0.341, 0.248 7,5 150/150 G 90%, C 8%, T <1%, A <1% 16 T H2U:16:A 0.354 5 -0.057, 0.454 5,5 150/150 T 91%, A 4%, C 2%, N <1% 17 T H2U:17:A -0.120 6 -0.341, -0.057 7,5 150/150 T 94%, C 3%, A 1%, N <1% 18 G G:18:A -0.613 9 -0.667, -0.614 9,9 150/150 G 19 G G:19:A -0.613 9 -0.667, -0.614 9,9 150/150 G 20 G G:20:A -0.181 6 -0.460, -0.057 8,5 150/150 G 98%, T <1%, A <1% 21 A A:21:A -0.643 9 -0.668, -0.640 9,9 150/150 A 22 G G:22:A -0.613 9 -0.667, -0.614 9,9 150/150 G 23 A A:23:A -0.547 9 -0.640, -0.504 9,9 150/150 A 99%, C <1% 24 G G:24:A -0.613 9 -0.667, -0.614 9,9 150/150 G 99%, N <1% 25 C C:25:A -0.536 9 -0.629, -0.504 9,9 150/150 C 99%, T <1% 26 G M2G:26:A -0.401 8 -0.595, -0.263 9,7 150/150 G 98%, A <1%, N <1% 27 C C:27:A 0.341 5 -0.057, 0.454 5,5 150/150 T 56%, C 42%, A 1% 28 C C:28:A 0.007 5 -0.263, 0.248 7,5 150/150 C 94%, T 4%, A 1%, G <1% 29 A A:29:A -0.451 8 -0.595, -0.406 9,8 150/150 A 98%, T 1% 30 G G:30:A -0.400 8 -0.595, -0.263 9,7 150/150 G 99%, A <1% 31 A A:31:A -0.643 9 -0.668, -0.640 9,9 150/150 A 32 C OMC:32:A -0.641 9 -0.668, -0.640 9,9 150/150 C 99%, N <1% 33 T U:33:A -0.646 9 -0.668, -0.640 9,9 150/150 T 34 G OMG:34:A -0.184 6 -0.460, -0.057 8,5 150/150 G 97%, T <1%, A <1%, N <1% 35 A A:35:A -0.547 9 -0.640, -0.504 9,9 150/150 A 99%, T <1% 36 A A:36:A -0.643 9 -0.668, -0.640 9,9 150/150 A 99%, N <1% 37 G YYG:37:A -0.400 8 -0.595, -0.263 9,7 150/150 G 97%, A <1%, N 1% 38 A A:38:A -0.348 7 -0.504, -0.263 9,7 150/150 A 97%, T 2% 39 T PSU:39:A -0.561 9 -0.640, -0.504 9,9 150/150 T 98%, C <1%, N <1% 40 C 5MC:40:A -0.535 9 -0.629, -0.504 9,9 150/150 C 98%, T <1%, N <1% 41 T U:41:A -0.208 6 -0.406, -0.057 8,5 150/150 T 96%, A 1%, G 1%, C <1% 42 G G:42:A 0.418 5 -0.057, 0.715 5,4 150/150 G 94%, A 3%, T 2% 43 G G:43:A 0.564 5 0.080, 0.715 5,4 150/150 A 54%, G 44%, C <1%, T <1% 44 A A:44:A -0.643 9 -0.668, -0.640 9,9 150/150 A 45 G G:45:A -0.613 9 -0.667, -0.614 9,9 150/150 G 46 G 7MG:46:A -0.613 9 -0.667, -0.614 9,9 150/150 G 99%, N <1% 47 T U:47:A 0.292 5 -0.057, 0.454 5,5 150/150 T 88%, C 11%, G <1% 48 C C:48:A -0.536 9 -0.629, -0.504 9,9 150/150 C 91%, A 8% 49 C 5MC:49:A 1.015 4 0.454, 1.506 5,4 150/150 C 74%, A 12%, G 9%, T 2%, N <1% 50 T U:50:A 1.265 4 0.715, 1.506 4,4 150/150 T 78%, C 18%, G 2%, A <1% 51 G G:51:A -0.220 7* -0.504, -0.057 9,5 150/150 G 94%, T 5% 52 T U:52:A 0.003 5 -0.263, 0.080 7,5 150/150 T 88%, C 4%, A 4%, G 3% 53 G G:53:A -0.184 6 -0.460, -0.057 8,5 150/150 G 98%, A 1% 54 T 5MU:54:A -0.560 9 -0.640, -0.504 9,9 150/150 T 98%, A <1%, N <1% 55 T PSU:55:A -0.560 9 -0.640, -0.504 9,9 150/150 T 98%, C <1%, N <1% 56 C C:56:A -0.429 8 -0.570, -0.341 9,7 150/150 C 98%, T 1% 57 G G:57:A 0.965 4 0.248, 1.506 5,4 150/150 G 89%, A 10% 58 A 1MA:58:A -0.643 9 -0.668, -0.640 9,9 150/150 A 99%, N <1% 59 T U:59:A -0.392 8 -0.541, -0.341 9,7 150/150 T 98%, G <1%, C <1% 60 C C:60:A -0.104 6 -0.341, 0.080 7,5 150/150 C 96%, T 3%, A <1% 61 C C:61:A -0.429 8 -0.570, -0.341 9,7 150/150 C 98%, T <1%, A <1% 62 A A:62:A 0.196 5 -0.170, 0.454 6,5 150/150 A 88%, G 5%, T 4%, C 2% 63 C C:63:A -0.310 7 -0.504, -0.170 9,6 150/150 C 95%, G 4%, T <1% 64 A A:64:A 0.934 4 0.454, 1.052 5,4 150/150 A 82%, G 14%, C 2%, T 1% 65 G G:65:A 2.093 4 1.052, 2.163 4,3 150/150 G 74%, T 13%, C 9%, A 2% 66 A A:66:A 0.576 5 0.080, 0.715 5,4 150/150 A 84%, T 14%, C <1%, G <1% 67 A A:67:A 1.224 4 0.715, 1.506 4,4 150/150 A 66%, G 23%, C 7%, T 2% 68 T U:68:A 2.222 3 1.506, 2.163 4,3 150/150 T 53%, A 24%, G 18%, C 2% 69 T U:69:A 0.546 5 0.080, 0.715 5,4 150/150 T 71%, C 27%, G 1% 70 C C:70:A 0.449 5 0.080, 0.715 5,4 150/150 C 92%, A 3%, G 2%, T 1% 71 G G:71:A -0.160 6 -0.460, 0.080 8,5 150/150 G 98%, A 1% 72 C C:72:A -0.527 9 -0.629, -0.460 9,8 150/150 C 99%, T <1% 73 A A:73:A -0.641 9 -0.668, -0.640 9,9 150/150 A 74 C C:74:A 6.416 1 3.257, 6.516 3,1 150/150 C 47%, T 41%, A 7%, G 2%, N 1% 75 C C:75:A 0.101 5 -0.460, 0.454 8,5 150/150 C 94%, T 5% 76 A A:76:A -0.282 7 -0.666, -0.263 9,7 150/150 A *Below the confidence cut-off - The calculations for this site were performed on less than 6 non-gaped homologue sequences, or the confidence interval for the estimated score is equal to- or larger than- 4 color grades.