genome.fa.s8650.2.7.7.80.10.50.1000.4.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: VEPZ01008650.1 Hibiscus syriacus cultivar Beakdansim tig00111640_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1713193

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 662 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)
987506--987559	21	2.6	21	90	0	81	29	25	22	22	1.99
987322--987579	121	2.1	121	92	0	435	30	22	21	25	1.99
987699--987736	6	6.5	6	96	3	69	31	52	15	0	1.43
988376--988438	34	1.9	33	93	6	110	31	25	20	22	1.98
988408--988474	21	3.2	20	72	12	55	35	23	19	20	1.95
991924--991948	4	6.2	4	100	0	50	48	0	0	52	1.00
995001--995207	103	2.0	103	100	0	414	19	23	13	43	1.86
995299--995342	21	2.1	21	100	0	88	31	20	29	18	1.96
997983--998296	165	1.9	164	87	1	459	30	13	24	31	1.93
1015300--1015354	3	18.3	3	100	0	110	32	0	0	67	0.91
1016231--1016256	5	5.2	5	100	0	52	23	57	19	0	1.40
1016229--1016327	44	2.3	42	87	6	137	34	37	13	15	1.86
1019108--1019148	2	22.0	2	85	14	61	53	0	0	46	1.00
1021799--1022234	214	2.0	214	97	0	818	38	10	14	36	1.80
1027558--1027594	17	2.2	17	100	0	74	16	10	18	54	1.71
1029868--1030526	326	2.0	327	95	0	1194	33	11	16	39	1.84
1033186--1033234	24	2.0	25	85	14	68	48	2	2	46	1.25
1049040--1049115	36	2.1	36	85	7	100	47	1	3	47	1.29
1050769--1050798	2	15.0	2	100	0	60	50	0	0	50	1.00
1051517--1051546	14	2.1	15	93	6	53	30	0	0	70	0.88
1052036--1052075	15	2.6	16	88	4	55	57	2	0	40	1.12
1052379--1052419	19	2.2	18	86	4	55	58	0	2	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055900--1055925	3	8.7	3	100	0	52	0	30	0	69	0.89
1057040--1057067	2	14.0	2	100	0	56	50	0	0	50	1.00
1058402--1058468	31	2.2	30	82	12	75	46	8	14	29	1.76
1060995--1061024	15	2.0	15	93	0	51	63	0	20	16	1.31
1061988--1062425	219	2.0	218	99	0	858	38	9	13	38	1.77
1065412--1065464	23	2.3	23	83	0	61	64	11	5	18	1.46
1072485--1072548	31	2.1	31	90	0	101	59	10	6	23	1.54
1072566--1072602	2	18.5	2	100	0	74	51	0	0	48	1.00
1076964--1077058	41	2.3	42	87	5	138	33	17	37	10	1.85
1077134--1077189	2	29.0	2	82	7	71	48	0	0	51	1.00
1081535--1081568	11	3.1	11	88	12	52	52	0	2	44	1.16
1082666--1082763	20	4.9	20	91	0	151	26	15	10	47	1.77
1084481--1084549	15	4.3	16	78	10	70	17	27	33	21	1.96
1084493--1084549	15	3.7	15	81	9	78	15	28	35	21	1.94
1084481--1084549	32	2.2	32	94	0	120	17	27	33	21	1.96
1087136--1087197	3	20.7	3	83	0	70	3	56	1	38	1.25
1087130--1087173	9	4.9	9	91	0	61	0	56	0	43	0.99
1087425--1087493	34	2.0	34	97	0	129	43	17	21	17	1.88
1091548--1091573	13	2.0	13	100	0	52	38	0	7	53	1.30
1093318--1093554	122	1.9	122	95	0	429	53	9	5	31	1.57
1094909--1094978	24	2.8	25	77	16	74	47	0	4	48	1.21
1097892--1097941	25	2.0	25	84	7	66	42	0	4	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099711--1099740	11	2.6	11	94	5	51	40	0	0	60	0.97
1099671--1099809	67	2.1	67	87	4	201	38	5	8	48	1.56
1100798--1100839	10	4.2	10	76	11	50	23	38	26	11	1.90
1100829--1100879	23	2.2	23	85	0	66	27	27	35	9	1.88
1100843--1100888	23	2.0	23	91	8	76	26	23	39	10	1.88
1100949--1101008	23	2.6	23	83	0	75	10	35	26	28	1.89
1100996--1101023	14	2.0	14	100	0	56	7	28	42	21	1.79
1102039--1102093	12	4.6	12	88	0	83	10	16	49	23	1.77
1102149--1102185	12	3.0	12	92	4	56	10	16	54	18	1.71
1103945--1104076	60	2.2	60	82	2	167	34	12	18	34	1.89
1119123--1119162	21	1.9	21	89	0	62	42	2	12	42	1.56
1119731--1119794	30	2.1	30	100	0	128	35	12	18	32	1.89
1121130--1121207	25	3.2	25	76	16	67	41	3	0	55	1.18
1121284--1121351	19	3.5	19	85	4	82	44	0	0	55	0.99
1121301--1121356	21	2.8	20	89	10	87	44	0	0	55	0.99
1121338--1121384	17	2.8	17	75	15	53	40	0	2	57	1.11
1127259--1127722	231	2.0	231	96	0	865	32	19	19	27	1.96
1127921--1127995	37	2.1	37	94	2	134	41	14	10	33	1.81
1132468--1132497	15	2.0	15	100	0	60	13	46	26	13	1.80
1132920--1132994	37	2.1	37	94	2	134	41	14	10	33	1.81
1134063--1134130	34	2.0	34	100	0	136	38	26	8	26	1.85
1135040--1135073	16	2.2	15	89	5	50	70	0	2	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136089--1136457	20	18.5	20	84	5	451	34	26	18	20	1.96
1137130--1137176	24	2.0	24	87	8	69	25	14	21	38	1.92
1137351--1137375	12	2.1	12	100	0	50	72	0	28	0	0.86
1139674--1139981	19	17.4	19	78	17	351	47	18	20	14	1.83
1139674--1140003	33	9.5	34	79	16	276	46	18	20	14	1.83
1139702--1139981	52	5.2	53	90	5	351	47	17	21	14	1.83
1139741--1139981	71	3.4	71	83	11	348	47	17	20	14	1.83
1140010--1140111	19	5.6	19	85	12	151	14	23	17	44	1.86
1140218--1140254	14	2.6	14	91	0	65	45	21	0	32	1.52
1140249--1140321	12	6.0	12	67	20	53	57	16	1	24	1.47
1140235--1140307	38	1.9	38	97	0	137	53	16	1	28	1.51
1142176--1142232	14	3.7	14	77	20	60	45	22	21	10	1.82
1142157--1142249	33	2.8	33	95	0	168	47	21	20	10	1.80
1142120--1142254	19	7.6	19	76	16	128	45	23	19	11	1.82
1142250--1142363	19	6.3	19	79	12	132	8	16	28	45	1.77
1142250--1142346	37	2.8	35	90	9	146	7	17	28	46	1.75
1142407--1142783	93	4.1	93	98	1	733	46	19	12	22	1.83
1142407--1142783	184	2.0	185	98	1	731	46	19	12	22	1.83
1144483--1144572	14	5.7	14	74	23	81	42	23	25	8	1.83
1144475--1144589	33	3.5	33	95	0	212	45	20	24	9	1.81
1144482--1144594	19	6.8	18	72	23	88	43	22	24	9	1.83
1144606--1144660	14	3.6	14	73	21	56	9	27	23	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144781--1144851	33	2.2	33	92	0	115	47	18	22	11	1.80
1145032--1145085	22	2.5	21	78	3	63	20	16	38	24	1.92
1145230--1145422	20	9.6	20	82	5	219	19	19	25	35	1.95
1145230--1145422	60	3.2	60	83	0	251	19	19	25	35	1.95
1145478--1145529	20	2.6	20	96	0	95	21	13	26	38	1.90
1147137--1147194	15	3.9	14	75	8	53	27	3	6	62	1.37
1156789--1156918	20	6.6	20	76	14	135	43	23	11	21	1.85
1156789--1156918	40	3.3	41	82	7	153	43	23	11	21	1.85
1156816--1156964	80	1.9	80	83	8	196	42	22	14	21	1.88
1156932--1157000	20	3.4	20	96	4	129	43	17	20	18	1.88
1157356--1157474	20	5.9	20	85	2	148	23	18	11	46	1.82
1165607--1165637	16	2.0	16	93	6	55	38	3	6	51	1.44
1166543--1166583	22	1.9	22	90	5	66	39	2	7	51	1.43
1174001--1174038	19	2.1	18	90	9	60	47	2	7	42	1.46
1176070--1176125	29	1.9	29	92	0	94	21	39	21	17	1.93
1193823--1193848	2	13.0	2	100	0	52	0	50	0	50	1.00
1195260--1195312	17	2.8	20	75	16	58	47	5	0	47	1.26
1202120--1202180	31	2.0	31	90	6	97	26	11	9	52	1.68
1202356--1202414	21	2.6	22	82	15	75	49	0	6	44	1.29
1202340--1202425	25	3.4	24	81	15	95	51	0	4	44	1.22
1213588--1213786	99	2.0	99	100	0	398	28	22	26	23	1.99
1215290--1215355	32	2.1	32	88	0	96	50	10	1	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215922--1215961	2	21.5	2	85	14	59	50	0	0	50	1.00
1215922--1215959	13	3.0	13	92	3	60	50	0	0	50	1.00
1215922--1215961	15	2.7	15	92	3	64	50	0	0	50	1.00
1215926--1215960	13	2.7	13	95	0	61	51	0	0	48	1.00
1218247--1218278	16	1.9	17	93	6	57	37	3	21	37	1.70
1226270--1226322	27	2.0	26	82	17	65	33	13	5	47	1.66
1226348--1226460	60	1.9	60	83	0	145	24	22	26	26	2.00
1227179--1227278	47	2.1	48	87	9	143	58	3	5	34	1.35
1227239--1227285	10	4.6	10	77	15	51	63	0	0	36	0.94
1227246--1227275	5	5.8	5	92	7	51	63	0	0	36	0.95

Tables:   1   2   3   4   5   6