Table 4. miRNA cluster analysis in G. molesta.
| Genomic distance | ||||
|---|---|---|---|---|
| Cluster IDa | 50k | 10k | 5k | 3k |
| 1 | bmo-miR-iab-4-3p_L-3R+1 (10b) | bmo-miR-iab-4-3p_L-3R+1 (10) | bmo-miR-iab-4-3p_L-3R+1 (10) | bmo-miR-iab-4-3p_L-3R+1 (10) |
| bmo-miR-iab-4-5p (59) | bmo-miR-iab-4-5p (59) | bmo-miR-iab-4-5p (59) | bmo-miR-iab-4-5p (59) | |
| bmo-miR-iab-8_R+2 (20) | bmo-miR-iab-8_R+2 (20) | bmo-miR-iab-8_R+2 (20) | bmo-miR-iab-8_R+2 (20) | |
| 2 | bmo-miR-34-5p_R+1 (1573) | bmo-miR-34-5p_R+1 (1573) | gmo-miR-PC-3p-1153688_2 (2) | gmo-miR-PC-3p-1153688_2 (2) |
| bmo-miR-277-3p (8369) | bmo-miR-277-3p (8369) | mse-mir-278-p5 (36) | mse-mir-278-p5 (36) | |
| bmo-miR-277-5p_L-1R+1 (18.5) | bmo-miR-277-5p_L-1R+1 (18.5) | |||
| bmo-miR-317-5p (22) | ||||
| 3 | gmo-miR-PC-3p-1153688_2 (2) | gmo-miR-PC-3p-1153688_2 (2) | gmo-miR-PC-3p-674_1493 (17424) | gmo-miR-PC-3p-674_1493 (17424) |
| mse-mir-278-p5 (36) | mse-mir-278-p5 (36) | gmo-miR-PC-5p-1018_1028 (9152) | gmo-miR-PC-5p-1018_1028 (9152) | |
| bmo-mir-6497-p3 (2985) | bmo-mir-6497-p3 (2985) | |||
| bmo-mir-6497-p5 (24686) | bmo-mir-6497-p5 (24686) | |||
| 4 | gmo-miR-PC-3p-674_1493 (17424) | gmo-miR-PC-3p-674_1493 (17424) | bmo-miR-10-3p (5036) | bmo-miR-10-3p (5036) |
| gmo-miR-PC-5p-1018_1028 (9152) | gmo-miR-PC-5p-1018_1028 (9152) | bmo-miR-10-5p_L+1 (338584) | bmo-miR-10-5p_L+1 (338584) | |
| bmo-mir-6497-p3 (2985) | bmo-mir-6497-p3 (2985) | dme-miR-10-5p_L+1_1ss23TA (3798) | dme-miR-10-5p_L+1_1ss23TA (3798) | |
| bmo-mir-6497-p5 (24686) | bmo-mir-6497-p5 (24686) | |||
| gmo-miR-PC-5p-1258_867 (14307) | gmo-miR-PC-5p-1258_867 (14307) | |||
| 5 | bmo-miR-10-3p (5036) | bmo-miR-10-3p (5036) | bmo-miR-71-3p_L-1R+1 (13455) | gmo-miR-PC-3p-803068_3 (20) |
| bmo-miR-10-5p_L+1 (338584) | bmo-miR-10-5p_L+1 (338584) | gmo-miR-PC-5p-1276_891 (1050) | bmo-miR-274-3p_L+1_1ss10GA (1215) | |
| dme-miR-10-5p_L+1_1ss23TA (3798) | dme-miR-10-5p_L+1_1ss23TA (3798) | pxy-miR-274 (6383) | ||
| pxy-mir-274-p3_1ss10TC (10) | ||||
| 6 | bmo-miR-71-3p_L-1R+1 (13455) | bmo-miR-71-3p_L-1R+1 (13455) | gmo-miR-PC-3p-803068_3 (20) | mse-miR-6094 (19) |
| gmo-miR-PC-5p-1276_891 (1050) | gmo-miR-PC-5p-1276_891 (1050) | bmo-miR-274-3p_L+1_1ss10GA (1215) | mse-mir-6094-p5_1ss7GA (19) | |
| pxy-miR-274 (6383) | gmo-miR-PC-5p-201559_9 (9) | |||
| pxy-mir-274-p3_1ss10TC (10) | ||||
| 7 | gmo-miR-PC-3p-1433_822 (863) | gmo-miR-PC-3p-803068_3 (20) | mse-miR-6094 (19) | dme-miR-8-3p_R+1 (2914) |
| gmo-miR-PC-3p-803068_3 (20) | bmo-miR-274-3p_L+1_1ss10GA (1215) | mse-mir-6094-p5_1ss7GA (19) | dme-miR-8-5p_R+1 (13) | |
| bmo-miR-274-3p_L+1_1ss10GA (1215) | pxy-miR-274 (6383) | gmo-miR-PC-5p-201559_9 (9) | mse-mir-8-p5 (3279) | |
| pxy-miR-274 (6383) | pxy-mir-274-p3_1ss10TC (10) | |||
| pxy-mir-274-p3_1ss10TC (10) | gmo-miR-PC-5p-113242_14 (19) | |||
| gmo-miR-PC-5p-113242_14 (19) | bmo-miR-252-5p (4031) | |||
| bmo-miR-252-5p (4031) | ||||
| 8 | mse-miR-6094 (19) | mse-miR-6094 (19) | dme-miR-8-3p_R+1 (2914) | dme-miR-276a-5p_L-1R-1_1ss22CT (1) |
| mse-mir-6094-p5_1ss7GA (19) | mse-mir-6094-p5_1ss7GA (19) | dme-miR-8-5p_R+1 (13) | dme-miR-276b-3p_R+1_1ss10AC (47) | |
| gmo-miR-PC-5p-201559_9 (9) | gmo-miR-PC-5p-201559_9 (9) | mse-mir-8-p5 (3279) | bmo-miR-276-5p (92) | |
| 9 | dme-miR-8-3p_R+1 (2914) | dme-miR-8-3p_R+1 (2914) | dme-miR-276a-5p_L-1R-1_1ss22CT (1) | bmo-miR-263a-5p_R+4 (14803) |
| dme-miR-8-5p_R+1 (13) | dme-miR-8-5p_R+1 (13) | dme-miR-276b-3p_R+1_1ss10AC (47) | mse-miR-263a_R-1 (21512) | |
| mse-mir-8-p5 (3279) | mse-mir-8-p5 (3279) | bmo-miR-276-5p (92) | ||
| 10 | dme-miR-276a-5p_L-1R-1_1ss22CT (1) | dme-miR-276a-5p_L-1R-1_1ss22CT (1) | bmo-miR-263a-5p_R+4 (14803) | tur-miR-1-3p_L-2R+1 (10) |
| dme-miR-276b-3p_R+1_1ss10AC (47) | dme-miR-276b-3p_R+1_1ss10AC (47) | mse-miR-263a_R-1 (21512) | bmo-miR-1a-5p_R+1 (38) | |
| bmo-miR-276-5p (92) | bmo-miR-276-5p (92) | |||
| 11 | bmo-miR-263a-5p_R+4 (14803) | bmo-miR-263a-5p_R+4 (14803) | tur-miR-1-3p_L-2R+1 (10) | gmo-miR-PC-5p-237240_7 (16) |
| mse-miR-263a_R-1 (21512) | mse-miR-263a_R-1 (21512) | bmo-miR-1a-5p_R+1 (38) | gmo-miR-PC-5p-323567_7 (20) | |
| 12 | bmo-miR-133 (2828) | tur-miR-1-3p_L-2R+1 (10) | gmo-miR-PC-5p-237240_7 (16) | gmo-miR-PC-5p-1071846_2 (5) |
| bmo-mir-133-p5 (3) | bmo-miR-1a-5p_R+1 (38) | gmo-miR-PC-5p-323567_7 (20) | gmo-miR-PC-5p-1000352_3 (4) | |
| tur-miR-1-3p_L-2R+1 (10) | ||||
| bmo-miR-1a-5p_R+1 (38) | ||||
| 13 | gmo-miR-PC-5p-237240_7 (16) | gmo-miR-PC-5p-237240_7 (16) | gmo-miR-PC-5p-1071846_2 (5) | gmo-miR-PC-3p-812930_3 (14.5) |
| gmo-miR-PC-5p-323567_7 (20) | gmo-miR-PC-5p-323567_7 (20) | gmo-miR-PC-5p-1000352_3 (4) | gmo-miR-PC-5p-36514_40 (121) | |
| gmo-miR-PC-5p-130153_12 (72.5) | ||||
| 14 | gmo-miR-PC-5p-1071846_2 (5) | gmo-miR-PC-5p-1071846_2 (5) | gmo-miR-PC-3p-812930_3 (14.5) | |
| gmo-miR-PC-5p-1000352_3 (4) | gmo-miR-PC-5p-1000352_3 (4) | gmo-miR-PC-5p-36514_40 (121) | ||
| gmo-miR-PC-5p-130153_12 (72.5) | ||||
| 15 | gmo-miR-PC-3p-812930_3 (14.5) | gmo-miR-PC-3p-812930_3 (14.5) | ||
| gmo-miR-PC-5p-36514_40 (121) | gmo-miR-PC-5p-36514_40 (121) | |||
| gmo-miR-PC-5p-130153_12 (72.5) | gmo-miR-PC-5p-130153_12 (72.5) | |||
a miRNAs with same cluster ID number belong to the same one pre-miRNA cluster
b The number in the brackets followed the name of miRNA represents the reads account of the corresponding miRNA in the sRNA library of G. molesta.
PC is short for "putative candidate" and represents novel miRNA.