genome.fa.s9582.2.7.7.80.10.50.1000.5.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  5  of  24  ( 2799 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)
1092494--1092554	32	1.9	32	93	3	106	21	1	3	73	1.06
1092495--1092552	21	2.8	20	84	7	71	20	1	3	74	1.06
1092494--1092552	10	5.7	10	80	7	73	20	1	3	74	1.05
1094239--1094279	3	13.7	3	100	0	82	68	0	0	31	0.90
1094281--1094323	3	14.3	3	100	0	86	67	0	32	0	0.91
1094346--1094404	24	2.4	25	82	5	66	77	3	5	13	1.05
1094370--1094439	10	6.6	10	74	11	59	80	4	2	12	0.98
1094384--1094439	21	2.8	19	77	17	60	82	3	1	12	0.88
1094368--1094432	22	2.8	22	86	9	76	80	3	3	13	0.96
1094384--1094445	32	1.9	33	83	6	83	79	3	1	16	0.95
1096141--1096418	85	3.3	85	81	5	323	29	17	17	34	1.94
1096586--1097158	156	3.7	156	93	0	903	25	13	24	36	1.92
1097075--1097214	59	2.4	59	88	0	217	24	15	22	37	1.93
1098572--1098773	99	2.0	99	85	0	269	29	15	18	35	1.93
1101784--1101817	14	2.4	14	95	0	59	76	0	2	20	0.92
1101901--1102010	6	18.3	6	82	10	55	70	2	3	23	1.17
1101904--1102073	12	14.4	12	75	6	91	66	2	5	25	1.25
1101844--1101929	38	2.3	38	80	11	90	70	6	3	18	1.24
1101952--1102073	3	40.7	3	79	12	126	64	0	4	30	1.17
1103318--1103401	33	2.5	33	94	0	141	46	4	3	45	1.41
1103527--1103596	3	23.3	3	88	0	104	32	5	0	61	1.20
1106001--1106092	23	4.0	23	90	2	123	31	25	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106009--1106102	23	4.1	23	88	2	111	30	23	24	21	1.99
1107525--1107580	21	2.7	21	91	0	94	28	17	32	21	1.96
1107758--1107817	30	2.0	30	96	0	111	45	20	5	30	1.72
1107927--1107966	21	1.9	21	94	0	71	50	7	10	32	1.64
1109111--1109158	19	2.5	20	82	3	62	31	10	6	52	1.60
1110203--1110251	19	2.7	17	84	9	53	26	18	30	24	1.98
1110266--1110422	64	2.4	64	81	5	190	26	14	25	33	1.94
1110320--1110371	19	2.8	19	80	8	63	25	13	34	26	1.93
1112971--1113050	24	3.5	23	73	14	85	27	22	26	23	2.00
1112948--1113070	44	2.8	42	71	12	104	25	20	27	26	1.99
1118163--1118230	21	3.3	21	91	2	111	20	33	16	29	1.94
1118596--1118665	34	2.1	33	86	2	95	35	12	28	22	1.91
1125043--1125095	23	2.3	23	86	0	70	35	26	18	18	1.95
1125808--1125860	19	2.8	19	91	0	88	22	26	18	32	1.97
1127641--1127805	81	2.0	83	94	3	289	43	7	5	43	1.56
1131398--1131473	37	2.1	36	83	9	93	52	3	1	42	1.28
1139267--1139405	70	2.0	67	91	6	226	28	15	20	35	1.93
1140236--1140286	12	4.3	12	72	5	50	52	1	0	45	1.12
1140250--1140731	22	22.6	22	80	8	455	45	0	8	46	1.34
1143467--1143566	37	2.7	37	84	9	116	49	4	2	45	1.32
1145414--1145455	22	2.0	21	90	4	66	69	2	0	28	1.01
1147351--1147401	2	26.0	2	96	4	95	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154404--1154483	29	2.8	29	96	3	144	31	36	25	7	1.84
1154520--1154577	31	1.9	30	96	3	107	18	12	53	15	1.72
1154558--1154614	19	2.8	20	92	7	89	21	14	43	21	1.87
1154573--1154623	19	2.9	18	85	11	70	23	13	43	19	1.87
1154717--1154839	65	1.9	65	91	0	201	22	31	18	26	1.97
1155238--1155281	21	2.1	21	91	0	70	29	0	15	54	1.42
1155780--1155841	17	3.4	17	73	16	61	41	0	11	46	1.39
1159067--1159172	48	2.4	46	87	10	150	40	0	13	46	1.43
1159088--1159344	48	4.9	48	77	19	257	42	0	10	46	1.43
1159156--1159182	10	2.7	10	100	0	54	40	0	18	40	1.51
1159108--1159795	60	11.2	60	72	17	418	41	1	11	45	1.50
1159310--1159358	14	3.7	14	84	15	68	36	0	14	48	1.44
1159455--1159558	21	4.9	22	71	17	71	41	0	12	46	1.42
1159538--1159564	10	2.7	10	100	0	54	40	0	18	40	1.51
1159432--1159795	118	3.1	119	93	2	590	41	0	11	46	1.39
1159584--1159667	14	5.7	14	67	20	55	40	0	10	48	1.38
1159096--1159795	178	3.8	180	75	16	646	41	1	11	45	1.50
1159659--1159742	10	8.4	10	71	22	52	41	0	13	45	1.43
1159763--1159810	14	3.6	14	81	16	66	35	0	16	47	1.47
1159097--1160178	452	2.4	449	91	5	1760	41	2	11	44	1.52
1159867--1160128	60	4.3	60	92	2	409	44	0	10	44	1.42
1159867--1160128	120	2.2	120	93	4	454	44	0	10	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160098--1160193	14	6.6	14	73	19	54	39	0	12	47	1.41
1160063--1160174	48	2.3	49	93	3	190	42	0	9	47	1.36
1159478--1160272	383	2.1	389	94	3	1405	41	2	11	44	1.55
1162490--1162539	22	2.3	22	96	0	91	38	14	2	46	1.56
1162491--1162569	22	3.2	22	69	24	59	41	12	1	44	1.50
1162513--1162590	30	2.6	30	88	8	106	46	8	2	42	1.49
1162895--1162958	31	1.9	31	84	12	83	43	7	0	48	1.32
1163295--1163330	11	3.2	11	84	7	54	38	19	22	19	1.93
1163402--1163445	18	2.4	18	96	0	79	15	38	29	15	1.89
1163493--1163577	29	2.9	29	83	0	116	21	25	36	16	1.94
1165364--1165405	2	21.0	2	100	0	84	50	0	0	50	1.00
1165693--1165717	4	6.2	4	100	0	50	76	0	0	24	0.80
1165750--1165782	16	2.1	16	94	0	57	81	0	0	18	0.68
1167073--1167129	3	18.3	3	75	7	51	54	0	1	43	1.10
1167083--1167132	25	1.9	27	84	15	70	52	0	0	48	1.00
1167086--1167127	22	2.0	22	86	13	61	52	0	0	47	1.00
1167252--1168198	76	12.5	76	96	0	1732	35	21	19	23	1.96
1168201--1168523	164	2.0	166	94	1	569	37	12	14	35	1.84
1169041--1169117	22	3.5	22	90	0	127	42	12	11	32	1.80
1170547--1170587	2	21.5	2	90	9	68	51	0	0	48	1.00
1170885--1170946	2	31.5	2	96	3	117	48	0	0	51	1.00
1172333--1172371	19	2.0	21	90	10	64	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172329--1172375	19	2.3	20	82	17	62	53	0	0	46	1.00
1178282--1178546	114	2.3	115	91	1	426	32	13	13	41	1.82
1178517--1178569	23	2.3	23	90	3	81	43	11	11	33	1.76
1178533--1179026	114	4.4	114	92	1	814	31	12	13	42	1.81
1179107--1179351	73	3.3	73	87	2	359	34	12	14	38	1.84
1179556--1179615	23	2.6	23	83	0	84	30	18	10	41	1.83
1179420--1179949	158	3.4	158	88	2	787	33	12	10	43	1.77
1179871--1179921	23	2.2	23	82	0	66	33	21	5	39	1.78
1181922--1181996	33	2.3	33	93	2	125	56	8	10	25	1.61
1185354--1185766	206	2.0	205	98	1	799	27	16	11	44	1.82
1186601--1186675	32	2.4	30	79	16	73	41	6	9	42	1.63
1189819--1189871	14	4.0	13	78	7	54	71	1	3	22	1.12
1191631--1191695	27	2.4	28	92	2	105	55	18	13	12	1.69
1193109--1193141	13	2.3	15	90	10	52	54	9	6	30	1.56
1193479--1193510	2	16.0	2	100	0	64	50	0	0	50	1.00
1203131--1203184	22	2.5	21	80	11	56	59	0	3	37	1.15
1217182--1217223	2	21.0	2	90	0	66	50	4	0	45	1.23
1218734--1218767	15	2.3	15	94	0	59	5	17	67	8	1.37
1219596--1219633	17	2.2	17	100	0	76	34	5	5	55	1.45
1219810--1219843	16	2.1	16	89	10	52	41	11	8	38	1.73
1220670--1220729	31	1.9	31	100	0	120	45	10	13	31	1.76
1222126--1222176	25	2.0	25	88	0	75	29	7	5	56	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225036--1225068	3	11.0	3	100	0	66	33	0	0	66	0.92
1227829--1227854	10	2.6	10	100	0	52	42	11	0	46	1.40
1228700--1228734	17	2.1	17	94	0	61	31	11	25	31	1.91
1231109--1231148	17	2.4	17	95	0	71	50	35	7	7	1.59
1233262--1233377	30	3.6	30	72	17	99	29	19	13	37	1.91
1233285--1233414	37	3.7	37	69	17	114	27	18	14	39	1.90
1233156--1233479	67	4.8	68	87	4	433	27	18	14	39	1.89
1233156--1233479	136	2.4	135	86	5	438	27	18	14	39	1.89
1233484--1233850	134	2.7	134	83	2	410	28	31	16	23	1.97
1235644--1235683	2	20.0	2	100	0	80	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24