genome.fa.s8314.2.7.7.80.10.50.1000.6.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: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2414839

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  6  of  10  ( 1196 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)
1073067--1073167	29	3.4	29	72	10	87	39	10	9	39	1.74
1078811--1078849	20	2.0	20	100	0	78	53	10	0	35	1.35
1086097--1086223	63	2.0	63	100	0	254	33	20	15	30	1.94
1087213--1087331	59	2.0	60	95	1	213	45	21	12	21	1.84
1092761--1092810	23	2.2	22	82	10	57	22	8	2	68	1.26
1097557--1098048	163	3.0	163	97	0	905	25	12	14	46	1.80
1100035--1100221	8	23.4	8	98	0	302	40	26	8	25	1.83
1109009--1109041	17	1.9	17	88	11	50	36	18	0	45	1.49
1109814--1109864	18	2.9	17	78	21	61	62	0	0	37	0.95
1109855--1109899	2	22.5	2	100	0	90	51	0	0	48	1.00
1114714--1114777	28	2.3	28	83	0	74	51	7	9	31	1.62
1115504--1115528	4	6.2	4	100	0	50	24	24	0	52	1.48
1124311--1124353	21	2.0	22	82	13	54	37	2	2	58	1.24
1132294--1132334	2	20.5	2	100	0	82	48	0	51	0	1.00
1133392--1133424	12	2.5	13	90	9	50	33	0	6	60	1.21
1138373--1138434	32	1.9	33	83	3	81	40	11	16	32	1.83
1138894--1138941	18	2.7	18	84	12	55	54	4	6	35	1.45
1140750--1140807	23	2.4	25	74	14	66	41	10	15	32	1.81
1140763--1140810	23	2.1	23	88	0	69	39	10	18	31	1.85
1140726--1140888	87	1.9	87	96	0	299	40	12	14	32	1.83
1140883--1141565	200	3.4	196	80	9	686	31	15	13	39	1.86
1144150--1144709	200	2.8	198	85	4	752	32	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144453--1144906	250	1.8	252	86	3	666	33	15	14	36	1.88
1146217--1146268	6	8.7	6	78	0	50	17	30	9	42	1.81
1146217--1146268	12	4.3	12	87	0	68	17	30	9	42	1.81
1147816--1147853	17	2.2	17	95	0	67	23	7	26	42	1.81
1147833--1148273	202	2.2	201	92	0	729	32	15	14	38	1.87
1148885--1148933	19	2.6	19	96	0	89	57	8	0	34	1.29
1149529--1149589	12	4.9	12	85	4	50	32	42	19	4	1.73
1149512--1149567	4	14.0	4	84	0	76	32	48	19	0	1.49
1149564--1149602	8	5.1	8	87	12	64	35	38	12	12	1.82
1149510--1149602	16	6.2	16	77	14	81	34	44	16	5	1.70
1149564--1149629	22	3.0	22	90	0	96	36	30	13	19	1.91
1149564--1149594	14	2.2	14	100	0	62	35	38	12	12	1.82
1149621--1152091	4	621.8	4	91	3	3360	46	24	2	25	1.66
1150119--1150175	6	8.5	6	78	21	60	36	35	14	14	1.86
1150589--1150631	6	7.2	6	81	0	50	48	41	0	9	1.35
1153287--1153352	33	2.0	33	93	0	114	22	46	0	30	1.52
1153386--1153450	21	3.1	21	90	0	103	15	30	10	43	1.81
1153829--1153879	24	2.2	24	86	6	70	49	3	0	47	1.20
1155649--1156124	182	2.6	181	85	2	650	28	16	13	41	1.86
1157156--1157207	20	2.6	20	96	0	95	38	26	13	21	1.90
1157263--1157456	20	9.6	20	76	8	76	35	25	19	19	1.95
1157259--1157456	40	5.0	39	81	4	200	35	26	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157263--1157455	60	3.2	60	83	0	251	35	25	19	19	1.95
1157837--1157907	33	2.2	33	92	0	115	11	22	18	47	1.80
1158028--1158082	14	3.6	14	73	21	56	41	23	25	9	1.83
1158028--1158098	33	2.2	33	94	0	124	43	25	22	8	1.81
1158094--1158224	19	7.7	19	70	23	103	9	24	22	43	1.83
1158116--1158238	14	7.7	14	72	24	93	8	25	22	43	1.82
1158099--1158246	33	4.5	33	96	0	278	9	24	20	45	1.81
1159941--1160876	185	5.0	186	99	0	1833	21	12	18	46	1.83
1159941--1160876	93	10.1	93	99	0	1833	21	12	18	46	1.83
1159941--1160876	278	3.4	278	99	0	1854	21	12	18	46	1.83
1160919--1161047	19	7.3	19	75	17	125	45	28	17	8	1.77
1160955--1161047	33	2.8	32	91	4	150	46	27	18	7	1.76
1160919--1161047	52	2.5	52	74	14	140	45	28	17	8	1.77
1161064--1161120	14	3.7	14	77	20	60	10	21	22	45	1.82
1161048--1161139	33	2.8	33	93	1	159	10	20	21	46	1.81
1161043--1161176	19	7.6	19	76	16	119	11	19	23	45	1.82
1163078--1163113	14	2.6	14	95	0	63	33	0	22	44	1.53
1163219--1163320	19	5.6	19	84	13	151	44	17	23	14	1.86
1163349--1163636	19	16.4	19	78	17	338	13	20	18	46	1.83
1163327--1163636	52	5.9	51	75	15	262	14	20	18	46	1.84
1163368--1163636	33	7.8	33	82	11	267	13	20	18	46	1.83
1163529--1163583	14	3.6	14	73	21	56	10	23	20	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165919--1165943	12	2.1	12	100	0	50	0	28	0	72	0.86
1166118--1166164	24	2.0	24	87	8	69	38	21	14	25	1.92
1166847--1167215	20	18.5	20	85	4	449	20	18	26	34	1.95
1173252--1173293	14	3.2	13	77	16	50	47	0	2	50	1.14
1174238--1174321	23	3.7	23	90	0	114	28	23	27	20	1.99
1175397--1175422	3	8.7	3	100	0	52	69	0	0	30	0.89
1185821--1185881	32	1.9	32	86	6	88	44	6	11	37	1.67
1220862--1220925	33	1.9	35	81	15	82	68	3	1	26	1.13
1220893--1220932	21	1.9	21	85	10	55	65	2	0	32	1.06
1224631--1224696	2	33.5	2	96	3	125	51	0	0	48	1.00
1228105--1228135	16	1.9	16	93	0	53	58	19	12	9	1.62
1228224--1228264	16	2.6	16	88	0	64	58	24	7	9	1.55
1229312--1229343	14	2.3	14	94	0	55	50	25	15	9	1.74
1237927--1237955	12	2.3	13	94	5	51	37	0	13	48	1.43
1242392--1242448	24	2.5	22	80	5	60	45	3	3	47	1.37
1247527--1247552	12	2.2	12	100	0	52	15	7	0	76	0.99
1271479--1271802	5	64.6	5	93	6	559	59	0	0	40	0.97
1275495--1275522	7	4.0	7	100	0	56	57	0	28	14	1.38
1288906--1288968	20	3.4	18	77	16	67	76	1	14	7	1.08
1288910--1288986	41	1.9	40	84	12	104	76	1	14	7	1.06
1288901--1288987	31	3.0	30	80	6	81	75	1	16	6	1.07
1288894--1289012	18	6.4	18	67	12	62	74	0	15	8	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288952--1289035	23	3.4	25	79	10	77	76	0	15	8	1.01
1288994--1289035	7	5.7	7	89	10	66	76	0	11	11	1.03
1288909--1289042	16	8.2	15	69	27	71	74	0	15	8	1.10
1290316--1290425	37	3.0	37	89	1	168	36	19	22	21	1.95
1290444--1290621	55	3.4	49	74	17	144	29	17	23	30	1.97
1290480--1290904	55	7.8	55	83	6	503	29	16	24	30	1.96
1290478--1290899	161	2.6	164	82	7	482	29	15	23	30	1.96
1295863--1295895	17	2.0	17	88	5	50	15	12	18	54	1.71
1298703--1298809	31	3.4	32	80	11	123	35	17	16	29	1.93
1312361--1312463	36	2.9	36	97	0	188	24	17	16	41	1.89
1316444--1316546	36	2.9	36	97	0	188	24	17	16	41	1.89
1326209--1326250	21	2.0	21	100	0	84	38	4	19	38	1.73
1333007--1333049	21	2.0	21	86	0	59	30	27	25	16	1.97
1333076--1333113	20	1.9	20	88	0	58	23	34	31	10	1.89
1340058--1340221	78	2.1	78	100	0	328	23	23	11	42	1.86
1348199--1348248	25	2.0	25	100	0	100	12	16	36	36	1.85
1351415--1351452	18	2.1	18	100	0	76	21	23	0	55	1.44
1351525--1351578	2	27.0	2	100	0	108	50	0	0	50	1.00
1352596--1352673	16	4.9	16	87	0	102	21	21	12	43	1.86
1352592--1352674	32	2.6	32	92	0	130	21	22	13	42	1.88
1352915--1352960	23	2.0	24	95	4	85	45	0	4	50	1.21
1353045--1353098	23	2.3	23	90	0	90	37	18	11	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353120--1353173	2	27.0	2	100	0	108	50	0	0	50	1.00
1353208--1353247	14	2.9	14	82	10	55	22	0	25	52	1.47
1353339--1353400	2	32.0	2	76	12	58	45	1	3	50	1.27
1353339--1353400	21	3.1	19	84	11	88	45	1	3	50	1.27
1354507--1354661	2	81.0	2	64	20	55	46	5	1	45	1.38
1354610--1354662	17	3.5	15	80	14	63	43	5	5	45	1.51
1354899--1354966	27	2.5	27	92	0	118	26	26	1	45	1.62
1355075--1355128	26	2.1	26	86	10	76	38	3	0	57	1.17
1355179--1355238	15	3.9	15	75	16	52	46	1	1	50	1.21
1355108--1355239	13	10.5	13	68	21	68	43	3	2	51	1.29

Tables:   1   2   3   4   5   6   7   8   9   10