genome.fa.s8935.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775090

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1015 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052042--1052410	30	11.2	33	83	10	400	41	9	3	45	1.54
1061367--1061916	55	10.0	55	79	6	472	31	19	21	26	1.98
1061372--1061902	109	4.8	110	80	4	527	31	19	22	26	1.98
1061367--1061902	164	3.3	164	81	3	580	31	19	21	27	1.98
1063050--1063166	29	4.0	29	97	0	216	34	28	16	21	1.95
1064858--1064928	3	23.7	3	100	0	142	33	0	0	66	0.92
1081361--1081410	25	2.0	25	100	0	100	28	20	24	28	1.99
1085332--1085396	21	3.5	20	66	30	54	30	6	20	43	1.76
1085323--1085432	35	3.0	36	90	6	168	30	6	20	43	1.76
1087188--1087288	35	2.8	36	95	3	177	28	4	20	45	1.72
1088521--1088569	26	1.9	26	91	4	82	30	10	4	55	1.52
1092805--1092860	23	2.4	23	90	0	94	26	41	21	10	1.86
1093029--1093117	3	30.0	3	81	2	99	29	1	0	69	0.95
1094938--1095206	149	1.8	146	90	5	434	38	6	7	47	1.59
1095710--1095768	26	2.3	26	82	11	68	25	1	0	72	0.93
1102744--1102963	114	1.9	114	90	0	350	33	14	21	30	1.93
1105022--1105133	54	2.1	54	91	0	179	37	16	25	20	1.93
1105500--1105554	22	2.5	22	84	0	74	36	14	12	36	1.84
1105988--1106286	113	2.6	113	96	1	546	37	14	19	27	1.91
1106625--1106710	3	30.0	3	84	11	110	30	1	0	68	0.97
1108532--1108800	148	1.8	146	88	6	409	39	5	7	47	1.54
1118017--1118082	18	3.8	17	80	6	78	39	6	27	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118756--1119172	208	2.0	206	95	3	759	33	15	21	29	1.94
1120098--1120331	42	5.7	42	79	5	262	34	19	31	14	1.92
1120266--1120448	42	4.4	42	80	5	192	34	19	25	19	1.96
1120085--1120448	84	4.4	84	77	9	300	32	20	29	17	1.96
1121179--1121215	2	19.0	2	94	5	67	48	0	0	51	1.00
1121823--1121890	29	2.4	29	97	2	129	51	22	8	17	1.72
1124841--1124900	16	3.7	15	75	14	57	66	1	1	30	1.11
1124842--1124902	19	3.5	19	65	28	53	67	3	1	27	1.16
1124844--1124901	17	3.4	17	70	15	57	68	1	1	27	1.08
1124859--1124898	18	2.1	18	86	9	53	67	0	2	30	1.04
1126015--1126104	33	2.7	34	92	3	155	36	23	16	23	1.94
1127895--1127954	21	2.9	21	87	0	75	18	23	23	35	1.96
1132158--1132226	29	2.4	29	100	0	138	50	21	8	18	1.74
1135210--1135263	15	3.4	15	71	14	54	62	3	1	31	1.23
1136391--1136480	33	2.7	34	92	3	155	36	23	16	23	1.94
1138391--1138450	21	2.9	21	92	0	84	20	23	25	31	1.98
1143146--1143237	23	4.0	23	79	0	94	20	20	22	35	1.96
1143594--1143633	3	13.0	3	94	5	71	67	0	0	32	0.91
1151709--1151947	42	5.7	42	83	0	298	33	20	31	14	1.93
1151798--1152064	42	6.4	41	82	5	207	34	19	27	18	1.95
1151696--1152064	84	4.4	84	80	6	345	32	20	29	17	1.96
1151696--1151976	126	2.2	126	78	2	330	32	21	30	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152801--1152838	2	19.0	2	100	0	76	50	0	0	50	1.00
1153444--1153512	29	2.4	29	100	0	138	50	21	8	18	1.74
1156475--1156528	15	3.4	15	71	14	54	62	3	1	31	1.23
1156635--1156660	2	13.0	2	100	0	52	50	0	0	50	1.00
1157666--1157739	33	2.2	34	95	2	132	35	21	17	25	1.95
1159662--1159721	21	2.9	21	92	0	84	20	23	25	31	1.98
1162511--1162565	23	2.4	23	71	0	56	20	20	23	36	1.95
1162560--1162603	23	1.9	23	90	0	70	22	20	20	36	1.95
1162963--1163006	3	14.7	3	100	0	88	65	0	0	34	0.93
1179643--1179672	14	2.1	15	93	6	53	10	13	0	76	1.01
1183513--1183546	17	2.1	16	88	5	50	14	8	0	76	1.01
1198262--1198619	139	2.6	139	92	0	574	23	21	17	37	1.94
1199056--1199105	20	2.4	21	76	10	57	42	4	20	34	1.70
1199497--1199569	20	3.5	20	73	14	67	32	23	20	23	1.98
1199428--1199571	42	3.5	42	78	6	159	33	21	19	25	1.97
1199488--1199551	22	3.0	22	71	17	71	32	25	15	26	1.95
1199624--1199790	4	41.8	4	100	0	334	0	25	49	25	1.50
1201564--1201671	18	5.9	18	75	14	87	0	15	2	80	0.88
1201566--1201653	31	2.9	31	83	11	103	1	15	2	80	0.87
1201554--1201660	38	2.8	38	83	13	123	2	16	1	78	0.96
1201563--1201665	48	2.2	46	84	10	129	0	16	1	80	0.86
1201827--1201858	2	16.0	2	93	0	55	50	3	0	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211691--1211731	8	5.2	8	82	5	57	34	0	29	36	1.58
1213371--1213459	34	2.7	31	79	6	88	58	2	0	39	1.11
1213371--1213450	34	2.4	33	81	8	92	60	1	0	38	1.05
1214713--1214758	24	1.9	24	95	0	83	15	8	10	65	1.47
1214713--1214774	14	4.7	14	82	15	87	14	11	12	61	1.57
1215031--1215158	27	4.9	26	69	21	97	14	8	14	63	1.52
1215054--1215168	10	12.3	10	74	17	88	13	10	13	61	1.56
1215054--1215168	47	2.5	47	92	2	189	13	10	13	61	1.56
1215169--1215250	31	2.7	32	88	7	125	45	17	14	23	1.85
1218305--1218330	11	2.4	11	100	0	52	76	0	0	23	0.78
1225624--1225668	15	3.0	15	93	0	72	8	64	17	8	1.47
1233002--1233047	24	1.9	24	81	0	56	15	15	23	45	1.84
1233012--1233059	24	2.0	24	92	8	80	12	12	20	54	1.70
1234149--1234199	16	3.3	16	91	5	79	15	9	13	60	1.58
1239485--1239624	42	3.4	41	73	9	131	27	16	22	33	1.95
1243740--1243903	85	1.9	85	85	3	222	28	22	15	33	1.95
1243740--1243930	43	4.5	43	76	3	179	27	23	16	32	1.96
1245090--1245120	5	6.0	5	96	3	53	77	0	3	19	0.90
1245988--1246034	19	2.5	19	92	0	76	21	23	27	27	1.99
1246245--1246524	137	2.0	139	93	1	483	39	13	6	40	1.71
1248834--1248916	23	3.7	23	73	15	84	26	20	26	26	1.99
1248814--1248935	44	2.8	44	84	9	146	25	18	26	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255873--1255929	20	2.8	20	100	0	114	26	26	19	28	1.99
1262023--1262083	20	2.9	20	85	7	59	24	32	26	16	1.96
1262066--1262105	21	1.9	21	89	0	62	25	40	25	10	1.86
1267670--1267704	3	12.0	3	93	6	63	65	0	0	34	0.93
1267670--1267702	17	1.9	17	100	0	66	66	0	0	33	0.92
1270323--1270355	14	2.4	14	94	0	57	75	0	0	24	0.80
1270369--1270461	42	2.3	40	81	3	105	49	0	11	38	1.40
1271449--1271783	22	15.3	22	85	3	442	40	0	11	48	1.43
1272819--1272979	22	7.3	22	80	8	202	40	0	11	47	1.44
1272819--1272980	66	2.4	67	90	5	267	40	0	11	47	1.44
1274693--1274726	18	1.9	18	88	5	52	26	32	26	14	1.95
1275425--1275467	23	1.9	22	90	4	68	23	0	4	72	1.04
1275537--1275594	17	3.4	17	97	0	107	10	34	29	25	1.89
1281825--1281873	25	2.0	24	88	4	71	48	14	2	34	1.55
1285097--1285138	20	2.2	20	86	4	59	21	21	16	40	1.91
1285127--1285175	20	2.5	20	86	6	64	28	10	22	38	1.87
1303527--1303570	22	2.0	22	100	0	88	36	27	22	13	1.92
1304407--1304438	16	2.0	16	93	0	55	28	12	21	37	1.90
1307787--1307833	16	2.9	16	77	0	58	48	25	12	12	1.77
1307784--1307873	32	2.8	32	81	0	108	46	25	12	15	1.80
1307784--1307909	65	2.0	64	82	1	153	44	24	11	19	1.84
1307988--1308043	18	3.1	19	75	12	55	55	0	5	39	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308532--1308598	2	34.0	2	91	8	111	49	1	0	49	1.10
1309235--1309296	21	3.0	21	82	0	70	53	8	32	6	1.56
1309469--1309540	28	2.6	29	84	4	94	37	12	6	43	1.70
1309798--1309894	42	2.3	43	80	1	106	30	18	20	29	1.97
1309751--1309947	43	4.7	42	74	5	150	32	17	17	31	1.93
1310476--1310513	13	2.8	14	84	15	53	31	0	2	65	1.06
1311431--1311492	32	1.9	33	87	6	92	50	4	3	41	1.40
1312721--1312777	29	1.9	29	82	3	69	42	3	0	54	1.17
1314231--1314259	2	14.5	2	100	0	58	0	51	0	48	1.00
1323286--1323344	3	20.0	3	96	3	111	66	0	0	33	0.92

Tables:   1   2   3   4   5   6   7   8   9