genome.fa.s1448.2.7.7.80.10.50.1000.5.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 993 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)
1061949--1062361	187	2.3	183	86	5	505	37	21	17	24	1.94
1062315--1062886	231	2.5	231	85	3	769	38	21	14	25	1.91
1063356--1063424	22	3.0	22	82	6	84	40	47	0	11	1.40
1063356--1063425	25	3.0	23	81	8	88	41	47	0	11	1.40
1066330--1066383	22	2.5	22	87	0	72	27	16	12	42	1.85
1066346--1066387	22	1.9	22	100	0	84	23	14	14	47	1.80
1072458--1072509	27	1.9	28	88	7	81	63	3	17	15	1.45
1073091--1073123	16	2.0	17	88	5	50	6	42	15	36	1.71
1073686--1073746	17	3.7	16	87	10	63	73	0	4	21	1.01
1073703--1073746	17	2.5	17	92	7	70	72	0	4	22	1.02
1073790--1073820	2	15.5	2	100	0	62	51	0	0	48	1.00
1073841--1074173	61	5.5	60	80	9	358	46	8	1	43	1.43
1073895--1073954	22	2.7	22	87	7	86	53	6	0	40	1.27
1073917--1074201	36	8.9	34	69	22	208	46	8	1	43	1.42
1073842--1074173	117	2.8	121	87	6	455	46	8	1	43	1.44
1073978--1074036	28	2.2	28	87	6	86	45	10	1	42	1.48
1074016--1074076	25	2.5	25	94	2	106	47	8	0	44	1.33
1073958--1074137	85	2.1	83	86	9	247	46	8	0	44	1.37
1074081--1074127	23	2.1	22	96	4	85	44	6	0	48	1.28
1074082--1074141	25	2.5	23	86	5	75	45	5	0	50	1.23
1081927--1081985	3	19.3	3	92	3	100	37	0	0	62	0.95
1081933--1081980	25	1.9	25	100	0	96	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089007--1089055	11	4.3	11	79	7	53	81	0	16	2	0.78
1089005--1089055	12	3.8	13	84	10	59	80	0	17	1	0.81
1090380--1090609	116	2.0	116	90	3	363	30	17	23	28	1.97
1091436--1091512	22	3.5	22	87	3	102	35	11	12	40	1.80
1092141--1092670	42	12.0	42	69	17	261	27	24	20	27	1.99
1092141--1092383	128	1.9	128	89	6	386	27	24	20	27	1.99
1092228--1092730	92	5.5	91	86	5	632	28	24	19	27	1.99
1092226--1092730	185	2.8	182	87	4	679	28	24	19	27	1.99
1092894--1092956	3	21.3	3	86	3	92	39	0	0	60	0.97
1095555--1095593	21	2.0	20	90	10	62	12	23	41	23	1.88
1095729--1096165	216	2.0	219	97	1	835	36	14	6	42	1.72
1098384--1098457	23	3.5	22	82	8	82	21	27	27	24	1.99
1098389--1098446	23	2.7	22	87	10	84	20	25	31	22	1.98
1102270--1102309	21	1.9	21	85	10	55	35	10	2	52	1.48
1105839--1105901	26	2.4	25	77	15	65	11	33	0	55	1.35
1106275--1106299	7	3.6	7	100	0	50	64	24	0	12	1.27
1107951--1108038	27	3.3	27	95	0	149	29	27	21	21	1.99
1108621--1109028	197	2.0	197	89	4	611	48	6	20	25	1.72
1113433--1113487	21	2.7	20	72	8	56	34	10	9	45	1.71
1123964--1124004	16	2.5	17	84	7	50	43	0	2	53	1.13
1125489--1125560	3	23.0	3	84	8	58	70	1	0	27	0.95
1125508--1125571	4	17.5	4	80	15	52	78	1	0	20	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125496--1125570	35	2.1	35	83	13	93	74	1	0	24	0.89
1125490--1125572	29	2.8	28	79	15	87	74	1	0	24	0.89
1125504--1125572	22	3.0	22	77	10	75	76	1	0	21	0.86
1125504--1125582	16	4.9	16	80	13	92	77	1	1	20	0.91
1125779--1125837	29	2.0	29	90	0	91	55	10	8	25	1.61
1126389--1126472	36	2.4	36	87	2	116	27	8	14	50	1.71
1127350--1127671	161	2.0	161	100	0	644	37	19	12	30	1.88
1128417--1128478	3	20.7	3	100	0	124	66	0	0	33	0.92
1130111--1131006	448	2.0	444	94	3	1597	30	19	16	33	1.94
1133636--1133684	24	2.0	25	92	8	82	77	6	4	12	1.09
1144013--1144057	22	2.0	23	91	4	74	13	22	4	60	1.51
1144019--1144066	22	2.2	22	85	7	62	12	18	6	62	1.50
1157832--1158040	102	2.0	103	99	0	411	41	12	16	29	1.85
1160227--1160304	20	3.8	20	78	6	84	20	16	16	46	1.85
1160250--1160317	20	3.3	20	75	19	68	20	16	17	45	1.85
1162739--1163160	43	9.9	42	80	6	368	28	12	24	34	1.92
1162739--1163119	170	2.2	169	86	3	523	29	12	23	34	1.91
1162739--1163117	86	4.4	86	81	3	426	29	12	23	34	1.92
1162723--1163171	129	3.5	127	84	3	429	28	13	23	34	1.93
1163265--1163340	37	2.1	37	100	0	152	46	13	7	32	1.72
1163647--1163689	21	2.0	21	81	0	50	0	32	18	48	1.48
1172157--1172269	43	2.7	41	86	5	163	33	19	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172152--1172520	83	4.5	81	75	8	289	33	17	18	29	1.95
1172152--1172543	41	9.5	41	77	7	285	32	18	18	29	1.95
1173067--1173147	40	2.0	40	88	7	119	33	17	16	33	1.92
1173124--1173175	26	2.0	26	96	3	97	44	23	7	25	1.79
1173084--1173210	67	1.9	66	91	1	209	35	19	12	32	1.90
1173253--1173393	42	3.4	40	79	15	171	22	20	19	36	1.95
1173152--1173364	41	5.2	41	74	16	181	28	19	17	34	1.95
1173151--1173393	82	3.0	83	81	8	266	27	19	17	35	1.94
1173358--1173451	40	2.3	42	83	5	120	31	29	11	26	1.92
1173255--1173428	82	2.1	81	80	6	190	24	23	18	32	1.97
1177723--1177747	12	2.1	12	100	0	50	52	0	0	48	1.00
1184905--1184973	19	3.7	18	79	11	61	69	0	5	24	1.10
1184915--1184964	19	2.5	20	87	6	75	72	0	6	22	1.07
1184923--1184988	27	2.4	27	76	14	64	68	0	9	22	1.18
1185731--1185766	15	2.3	16	95	4	65	75	5	0	19	1.00
1185752--1185903	75	2.1	72	88	3	223	56	9	0	33	1.36
1188725--1188761	18	2.1	18	100	0	74	32	21	16	29	1.95
1190886--1190935	19	2.5	20	93	6	93	70	0	12	18	1.17
1199841--1199905	33	2.0	33	93	0	112	9	35	26	29	1.87
1199875--1199996	10	11.1	10	67	14	55	9	31	33	24	1.88
1199904--1199936	14	2.4	14	94	0	57	6	30	39	24	1.79
1199926--1199976	20	2.5	20	93	0	84	11	27	35	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199963--1199990	14	2.0	14	100	0	56	7	28	42	21	1.79
1200033--1200090	29	2.0	29	89	0	89	24	25	36	13	1.92
1204330--1204419	42	2.1	42	97	0	171	31	34	15	18	1.93
1204605--1204669	3	21.7	3	90	9	82	70	0	0	29	0.87
1204917--1205081	84	2.0	84	86	0	231	23	20	26	29	1.98
1205136--1205232	36	2.6	37	91	3	160	40	16	18	24	1.91
1205405--1205873	254	1.9	251	85	4	595	24	18	24	31	1.97
1206023--1206308	109	2.6	109	87	4	423	25	17	22	33	1.96
1208923--1208974	27	1.9	27	96	0	95	15	23	13	48	1.80
1211778--1211831	3	19.0	3	75	17	53	70	0	0	29	0.88
1211778--1211831	20	2.7	21	81	16	69	70	0	0	29	0.88
1213505--1213836	163	2.0	167	96	3	620	22	17	19	41	1.90
1236800--1236838	19	2.1	19	85	0	51	43	17	7	30	1.77
1237659--1237727	21	3.3	21	79	0	84	31	15	17	34	1.92
1238168--1238211	22	2.0	22	100	0	88	22	40	4	31	1.74
1239568--1239670	51	2.0	51	84	0	134	45	15	12	26	1.82
1241180--1241255	21	3.6	21	78	3	73	32	14	11	40	1.82
1246302--1246352	26	2.0	26	84	7	68	49	9	1	39	1.47
1249122--1249222	42	2.4	41	81	3	130	29	22	24	22	1.99
1248949--1249979	214	4.8	214	93	1	1735	32	19	14	32	1.93
1249331--1249436	42	2.6	41	77	5	115	30	20	22	26	1.98
1249449--1249489	21	2.0	21	85	9	57	29	17	4	48	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248949--1249979	427	2.4	428	94	1	1782	32	19	14	32	1.93
1249988--1250201	36	5.9	36	84	4	263	21	19	22	36	1.95
1249985--1250210	73	3.1	72	84	5	294	21	19	22	37	1.95
1249988--1250200	109	2.0	107	87	1	309	21	19	23	36	1.95
1251018--1251399	125	3.1	125	84	1	489	23	28	17	31	1.97
1252317--1252392	40	1.9	40	83	2	100	25	17	17	40	1.90
1252358--1252757	195	2.1	195	95	0	728	28	20	18	32	1.96
1259003--1259053	26	2.0	26	84	7	68	49	9	1	39	1.47
1263567--1263628	21	3.0	21	92	0	106	29	20	22	27	1.99
1263628--1263682	12	4.8	12	75	8	60	21	18	16	43	1.88

Tables:   1   2   3   4   5   6   7   8   9