genome.fa.s9461.2.7.7.80.10.50.1000.6.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1395 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)
1061261--1061354	47	2.0	48	89	2	145	38	25	24	11	1.89
1061345--1061415	19	3.7	19	86	3	106	47	21	19	11	1.80
1061298--1061373	33	2.3	33	83	0	107	40	27	21	10	1.86
1061236--1061415	20	10.1	19	74	16	111	43	21	22	12	1.85
1061411--1061455	19	2.4	19	84	0	63	6	13	24	55	1.62
1062009--1062102	20	4.7	20	80	7	91	23	19	25	31	1.98
1062029--1062123	41	2.3	41	81	3	111	20	21	23	35	1.96
1062173--1062213	21	2.0	21	85	0	55	34	31	17	17	1.93
1064098--1064217	42	2.9	42	93	0	204	16	19	18	45	1.85
1064389--1064450	23	2.7	23	80	14	65	53	0	0	46	1.00
1064455--1064504	23	2.2	22	86	10	66	52	2	0	46	1.12
1064433--1064520	28	3.3	27	73	14	76	48	1	0	50	1.08
1064416--1064574	30	5.5	30	71	17	106	45	1	0	52	1.13
1064482--1064573	28	3.2	29	79	13	93	45	1	1	52	1.15
1064734--1064803	20	3.5	20	88	0	113	38	14	7	40	1.73
1064786--1064853	15	4.6	15	85	3	93	35	19	7	38	1.79
1064786--1064852	30	2.3	30	97	2	127	34	19	7	38	1.80
1067653--1067744	46	2.0	46	97	0	175	38	15	22	23	1.92
1068075--1068204	38	3.4	38	68	8	120	26	5	7	60	1.45
1068113--1068146	16	2.1	16	88	0	50	29	0	0	70	0.87
1068064--1068213	76	2.0	76	100	0	300	27	5	6	60	1.43
1068191--1068223	10	3.3	10	100	0	66	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068368--1068408	16	2.6	16	92	0	64	17	26	26	29	1.97
1068505--1068595	28	3.3	27	75	3	83	34	19	24	21	1.97
1072881--1072905	2	12.5	2	100	0	50	52	0	0	48	1.00
1073228--1073277	24	2.1	24	88	0	73	38	14	4	44	1.63
1080290--1080340	16	3.3	16	86	5	70	13	9	15	60	1.58
1082277--1082352	28	2.7	27	76	9	73	32	14	19	32	1.92
1082923--1082975	15	3.5	15	80	10	54	20	11	26	41	1.86
1083500--1083762	135	1.9	137	93	1	458	25	22	27	25	2.00
1084856--1084915	15	3.8	15	80	8	66	25	28	5	41	1.76
1086460--1086507	18	2.7	18	100	0	96	16	54	20	8	1.68
1086514--1086692	29	6.2	29	83	6	202	34	3	16	45	1.64
1089873--1089924	23	2.4	23	84	9	65	69	0	15	15	1.20
1091699--1091740	20	2.1	20	90	0	66	33	16	23	26	1.96
1091821--1092535	105	6.8	105	98	0	1376	22	19	25	32	1.97
1093333--1093361	1	29.0	1	100	0	58	0	0	0	100	0.00
1104119--1104169	17	3.1	17	77	2	59	66	1	1	29	1.13
1104645--1104687	3	13.3	3	90	4	50	62	2	0	34	1.08
1104644--1104687	15	2.6	17	79	13	56	61	2	0	36	1.09
1104619--1104729	46	2.2	51	81	12	124	55	7	3	33	1.44
1105761--1105801	16	2.6	16	82	17	50	56	0	0	43	0.99
1109185--1109214	10	3.0	10	95	0	51	16	20	13	50	1.78
1109229--1109281	25	2.2	24	82	3	61	62	16	11	9	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109466--1109521	14	4.0	14	83	0	76	64	10	8	16	1.49
1116658--1116869	40	5.2	40	78	10	186	30	24	10	33	1.90
1116718--1116869	80	1.9	82	87	2	227	28	25	10	36	1.89
1116718--1116854	20	6.8	20	74	7	118	27	24	10	37	1.87
1116885--1116937	27	2.0	26	85	7	72	41	32	3	22	1.72
1118833--1118857	2	12.5	2	100	0	50	52	48	0	0	1.00
1119076--1119269	42	4.7	42	90	4	297	25	40	13	20	1.89
1119083--1119152	21	3.2	24	62	29	64	25	38	14	21	1.91
1119191--1119251	18	3.2	18	69	13	50	24	40	14	19	1.89
1119029--1119269	84	3.0	81	84	8	298	25	39	13	21	1.89
1119368--1119537	21	8.1	21	77	5	173	21	11	32	33	1.90
1119379--1119537	63	2.5	63	87	0	228	21	12	32	33	1.91
1119863--1119994	21	6.3	21	77	7	117	22	36	13	27	1.92
1123377--1123443	34	2.0	34	84	0	89	43	23	13	19	1.86
1123406--1123443	20	1.9	20	94	0	67	47	21	15	15	1.82
1123446--1123577	40	3.3	40	83	0	174	27	12	21	38	1.89
1123447--1123580	60	2.2	61	86	2	182	27	11	21	38	1.89
1123446--1123577	20	6.6	20	84	0	156	27	12	21	38	1.89
1127091--1127129	15	2.5	15	83	4	51	66	0	5	28	1.12
1127269--1127339	20	3.5	21	74	18	62	35	14	19	30	1.91
1127269--1127396	60	2.1	60	81	5	143	35	14	20	28	1.92
1127309--1127436	40	3.2	40	80	4	125	37	13	21	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127309--1127437	20	6.4	20	68	12	68	37	13	21	27	1.90
1127421--1127481	20	3.0	20	90	4	86	32	16	18	32	1.93
1129434--1129458	12	2.1	12	100	0	50	16	0	16	68	1.22
1137956--1138058	52	2.0	52	98	0	197	41	13	23	21	1.88
1142556--1142657	52	2.0	52	98	0	195	42	11	23	22	1.86
1145017--1145077	20	3.1	19	80	13	70	54	11	14	19	1.71
1144819--1145293	182	2.6	183	88	1	686	42	13	17	27	1.85
1145213--1145260	20	2.3	20	78	3	60	54	8	16	20	1.68
1147475--1147515	21	2.0	21	90	0	64	41	12	26	19	1.87
1147552--1147617	33	2.0	33	90	0	105	28	0	48	22	1.51
1149405--1149453	19	2.6	19	93	0	80	34	2	10	53	1.47
1149687--1150450	200	3.8	200	94	0	1298	35	14	18	30	1.91
1150650--1150896	120	2.1	120	93	0	422	32	13	15	38	1.87
1150770--1151258	183	2.7	183	96	0	906	34	15	16	33	1.90
1150539--1151543	486	2.1	486	97	0	1884	34	15	16	34	1.90
1150957--1151543	303	1.9	303	96	0	1075	35	14	16	34	1.88
1151140--1151378	120	2.0	120	93	0	406	33	12	14	38	1.85
1154474--1154518	23	2.0	23	86	0	63	37	15	8	37	1.79
1154461--1154639	87	2.1	87	98	0	349	33	13	9	43	1.77
1154561--1154605	23	2.0	23	86	0	63	37	15	8	37	1.79
1156914--1156988	21	3.5	21	75	13	73	38	12	21	28	1.89
1158609--1158665	23	2.4	23	80	16	55	47	1	3	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162446--1162521	36	2.1	36	85	7	100	47	1	3	47	1.29
1162667--1162704	20	1.9	20	88	0	58	21	26	10	42	1.85
1162956--1162986	15	2.1	15	93	0	53	54	0	0	45	0.99
1164249--1164474	118	1.9	119	80	4	260	44	11	19	23	1.84
1167272--1167328	29	2.0	29	86	6	80	50	0	1	47	1.11
1167293--1167515	116	1.9	113	82	8	272	44	8	8	38	1.65
1167561--1167607	22	2.0	24	84	8	62	51	0	0	48	1.00
1167573--1167607	17	2.0	18	88	5	54	48	0	0	51	1.00
1169086--1169152	3	23.0	3	79	11	77	59	0	0	40	0.97
1169309--1169784	76	6.3	76	96	0	862	34	22	19	23	1.97
1169733--1169836	52	2.0	52	96	0	190	38	20	19	22	1.94
1169581--1169988	204	2.0	204	97	0	762	35	22	19	23	1.96
1169505--1170064	280	2.0	280	97	0	1057	35	21	19	23	1.96
1169785--1172804	76	39.8	76	96	0	5548	34	21	19	24	1.97
1169657--1169912	128	2.0	128	97	0	485	36	21	18	23	1.95
1169429--1170140	356	2.0	356	97	0	1345	34	21	19	23	1.96
1173472--1173548	22	3.5	22	85	0	100	42	10	12	33	1.77
1180992--1181032	8	5.2	8	77	16	50	63	9	9	17	1.51
1183952--1184008	29	2.0	29	86	6	80	50	0	1	47	1.11
1183973--1184194	116	1.9	113	81	6	252	45	8	7	39	1.63
1184251--1184286	18	1.9	18	88	5	54	50	0	0	50	1.00
1185789--1185849	3	21.0	3	77	12	65	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192664--1192875	91	2.3	91	85	0	289	27	23	13	34	1.93
1192842--1192936	31	3.1	31	93	1	156	24	23	20	32	1.98
1192904--1193087	92	2.0	90	89	2	278	28	22	10	37	1.88
1194252--1194328	33	2.3	33	88	0	109	44	2	20	32	1.66
1194298--1194562	128	2.1	129	92	1	442	41	9	12	36	1.75
1195666--1195711	22	2.1	21	88	4	65	45	4	15	34	1.66
1203531--1203560	14	2.1	14	93	0	51	43	0	6	50	1.28
1204624--1204649	7	3.7	7	100	0	52	30	26	26	15	1.96
1206001--1206126	30	4.4	30	68	8	93	54	10	14	20	1.68
1207161--1207201	9	4.6	9	87	9	57	2	2	7	87	0.70

Tables:   1   2   3   4   5   6   7   8   9   10   11   12