genome.fa.s7770.2.7.7.80.10.50.1000.6.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: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1450453

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 841 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)
1052035--1052095	30	2.0	30	93	0	104	31	22	19	26	1.98
1073024--1073315	146	2.0	147	92	4	493	42	15	3	39	1.63
1075266--1075318	21	2.5	21	90	0	79	22	22	16	37	1.94
1075287--1075419	41	3.3	40	80	3	149	35	20	20	24	1.96
1075310--1075421	20	5.6	20	86	2	161	39	19	21	19	1.93
1075408--1075454	20	2.3	20	92	0	76	31	27	19	21	1.97
1075310--1075434	40	3.1	39	84	7	162	38	20	20	20	1.94
1076296--1076349	24	2.2	24	93	0	90	20	18	20	40	1.91
1078713--1078785	20	3.7	20	94	3	121	36	26	19	17	1.94
1078758--1078853	33	2.8	33	87	3	129	41	19	25	13	1.88
1078791--1078859	19	3.8	19	73	21	76	44	17	23	14	1.85
1078869--1078951	33	2.5	33	88	2	112	15	21	16	45	1.85
1079068--1079104	14	2.6	14	86	0	56	48	21	0	29	1.50
1081074--1081120	20	2.3	20	88	0	67	38	25	17	19	1.92
1081089--1081141	20	2.7	20	93	0	88	32	22	16	28	1.96
1081165--1081320	34	4.4	34	74	13	154	16	19	21	42	1.89
1081187--1081323	20	7.5	20	74	21	113	17	18	21	41	1.90
1081149--1081320	53	3.2	53	69	14	154	16	19	20	42	1.89
1083199--1083288	20	4.6	20	85	1	101	45	23	16	14	1.84
1083625--1083690	22	3.0	22	90	0	105	21	15	39	24	1.91
1083868--1083979	20	5.6	20	74	6	102	20	18	21	39	1.93
1083976--1084021	21	2.2	21	88	0	65	41	17	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091715--1091752	17	2.2	18	85	4	51	76	2	5	15	1.08
1096615--1096655	18	2.3	18	87	8	57	36	0	0	63	0.95
1098957--1098982	12	2.2	12	100	0	52	0	30	0	69	0.89
1100668--1100697	15	2.0	15	100	0	60	60	26	0	13	1.34
1106560--1106676	58	2.0	58	100	0	234	23	18	15	41	1.89
1108347--1108371	11	2.3	11	100	0	50	88	0	12	0	0.53
1108678--1108711	12	2.8	12	100	0	68	67	0	0	32	0.91
1109512--1109775	74	3.5	74	77	9	189	20	19	20	39	1.92
1109563--1109777	76	2.9	74	80	3	245	20	19	20	39	1.93
1111438--1111510	36	2.0	36	100	0	146	19	21	19	39	1.92
1115143--1115181	20	2.0	20	100	0	78	17	10	20	51	1.74
1122427--1122481	27	2.1	26	83	10	67	47	0	1	50	1.11
1122455--1122497	21	2.0	21	81	9	50	41	2	6	48	1.43
1124835--1124891	25	2.3	25	85	11	73	26	10	14	49	1.75
1125735--1125785	15	3.5	15	83	5	68	7	64	17	9	1.46
1125744--1125786	14	3.0	14	81	15	52	11	60	16	11	1.59
1126316--1126755	219	2.0	221	95	3	809	21	10	27	40	1.86
1130916--1131000	43	2.0	43	97	0	161	60	7	12	20	1.56
1131072--1131229	21	7.8	20	71	10	88	37	25	17	19	1.93
1131133--1131229	42	2.3	42	76	13	103	37	22	18	21	1.95
1131194--1131248	20	2.8	19	86	5	74	43	27	18	10	1.83
1131217--1131347	59	2.2	58	81	10	158	34	28	17	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131237--1131346	20	5.6	19	82	8	123	31	28	18	21	1.97
1131492--1131544	21	2.5	21	81	0	70	24	37	16	20	1.93
1131722--1131792	33	2.2	33	92	0	115	11	22	18	47	1.80
1131872--1131979	21	5.7	20	74	15	95	45	19	24	11	1.82
1131872--1131948	21	3.8	20	82	5	100	45	16	24	12	1.83
1131871--1131948	41	1.9	41	97	0	147	44	16	25	12	1.83
1131884--1131990	19	5.7	19	71	16	80	46	20	22	10	1.80
1132007--1132096	14	5.7	14	67	23	54	11	22	22	44	1.84
1131991--1132104	33	3.5	33	93	1	203	11	21	20	46	1.82
1131986--1132082	14	5.7	18	69	22	84	12	21	21	44	1.85
1139299--1139371	30	2.3	32	83	4	87	21	13	19	45	1.85
1141680--1141715	2	18.0	2	100	0	72	50	0	0	50	1.00
1142044--1142110	33	2.0	33	91	0	107	41	8	10	38	1.71
1142556--1142595	21	1.9	21	85	10	55	27	30	17	25	1.97
1142985--1143023	17	2.3	17	100	0	78	30	5	35	28	1.79
1151303--1151447	72	2.0	72	90	6	197	41	13	18	26	1.87
1153173--1153217	2	23.0	2	95	4	83	51	0	0	48	1.00
1158637--1159094	225	2.0	224	86	5	629	35	15	17	31	1.91
1160837--1160886	2	25.0	2	100	0	100	50	0	0	50	1.00
1162967--1162992	2	13.0	2	100	0	52	50	0	0	50	1.00
1166699--1166740	13	3.2	13	80	13	50	69	0	2	28	1.01
1167010--1167069	28	2.1	28	87	0	84	30	8	20	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172070--1172129	21	2.9	22	85	11	74	33	13	28	25	1.93
1177902--1177939	20	1.9	20	88	0	58	36	15	18	28	1.92
1178235--1178274	20	2.0	20	85	5	53	37	12	17	32	1.87
1181472--1181521	20	2.5	20	93	3	82	30	20	12	38	1.88
1186184--1186229	21	2.2	21	88	3	67	45	30	13	10	1.77
1186801--1186863	20	3.2	20	86	4	83	30	14	30	25	1.95
1187181--1187227	22	2.1	22	100	0	94	42	8	21	27	1.81
1187613--1187719	43	2.4	44	84	6	144	47	0	0	52	1.00
1187623--1187704	24	3.6	24	73	15	84	47	0	0	52	1.00
1187616--1187731	43	2.7	43	82	7	139	46	0	1	51	1.11
1191594--1191630	19	1.9	19	88	0	56	40	8	16	35	1.78
1192526--1192564	16	2.4	16	95	0	69	43	7	2	46	1.46
1193522--1193561	21	1.9	22	90	10	66	12	10	40	37	1.77
1193577--1193618	21	2.0	22	90	4	68	23	23	26	26	2.00
1193674--1193726	20	2.7	20	93	0	88	28	24	28	18	1.98
1195211--1195255	19	2.3	20	84	3	65	24	11	6	57	1.57
1196539--1196593	20	2.8	20	91	0	92	32	23	25	18	1.97
1196611--1196709	21	4.7	21	81	3	110	24	20	33	22	1.97
1202158--1202216	27	2.1	30	81	9	70	44	5	5	45	1.47
1203505--1203547	21	2.0	21	90	0	68	34	11	4	48	1.60
1207154--1207259	45	2.4	45	96	0	194	41	13	15	30	1.85
1208897--1208983	35	2.5	35	83	3	95	42	17	6	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209659--1209689	15	2.1	15	93	0	53	29	19	6	45	1.75
1209699--1209743	11	3.3	14	80	19	51	46	15	0	37	1.46
1209825--1209861	2	19.0	2	94	5	67	48	0	0	51	1.00
1210321--1210418	34	2.9	34	98	0	187	26	10	11	52	1.69
1215154--1215178	13	1.9	13	100	0	50	32	0	0	68	0.90
1215825--1215930	55	1.9	55	94	0	185	19	27	5	47	1.72
1216510--1216547	14	2.5	15	83	12	51	60	5	0	34	1.19
1218703--1218739	5	7.0	5	93	6	56	18	5	18	56	1.60
1224477--1224506	2	15.0	2	100	0	60	50	0	0	50	1.00
1227778--1227817	20	2.0	20	90	0	62	20	30	15	35	1.93
1228077--1228173	40	2.4	40	81	5	106	30	23	11	34	1.90
1228126--1228192	20	3.5	20	73	6	66	26	25	13	34	1.93
1229107--1229160	24	2.2	24	90	0	81	18	18	22	40	1.91
1231708--1231783	20	3.8	20	76	0	71	44	15	17	22	1.86
1231915--1231949	16	2.3	15	90	5	52	65	14	0	20	1.26
1233346--1233439	21	4.6	21	80	7	122	21	17	38	23	1.93
1233344--1233402	18	3.1	18	83	9	64	20	16	42	20	1.89
1233344--1233439	39	2.4	40	87	5	131	20	16	39	22	1.92
1233583--1233620	4	9.5	4	88	0	58	71	2	0	26	1.00
1233730--1233788	21	2.8	21	92	0	100	37	27	13	22	1.91
1233869--1233909	21	2.0	21	90	0	64	34	36	14	14	1.87
1234027--1234125	42	2.4	42	89	0	144	17	16	36	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235064--1235106	20	2.2	19	87	4	59	44	23	20	11	1.84
1235467--1235517	22	2.3	22	89	0	75	17	19	45	17	1.86
1235684--1235749	20	3.2	20	69	12	53	21	19	21	37	1.94
1236326--1236392	20	3.3	20	79	4	89	41	17	22	17	1.90
1236343--1236418	21	3.7	21	76	3	91	42	18	23	15	1.89
1236407--1236501	20	4.7	20	80	7	93	33	25	17	23	1.96
1236326--1236418	41	2.3	41	98	0	177	40	18	23	17	1.90
1236404--1236481	41	1.9	41	86	0	111	38	23	16	21	1.93
1236689--1236732	22	2.0	22	95	0	79	20	45	15	18	1.85
1236996--1237033	20	1.9	20	88	0	58	13	15	21	50	1.78

Tables:   1   2   3   4   5   6   7   8