genome.fa.s8421.2.7.7.80.10.50.1000.6.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: VEPZ01008421.1 Hibiscus syriacus cultivar Beakdansim tig00111201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1159951

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 718 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)
957349--957397	19	2.5	19	80	9	55	59	4	2	34	1.28
957579--957890	90	3.5	90	93	1	520	34	22	18	23	1.96
957925--958023	43	2.3	43	91	0	153	30	30	12	27	1.92
958084--958188	36	3.0	36	85	2	151	37	15	23	23	1.93
958493--958647	34	4.6	34	89	3	231	34	13	20	31	1.92
958524--958665	68	2.1	68	80	2	151	40	11	19	28	1.87
958754--958985	32	7.2	32	88	1	338	33	24	13	28	1.93
958754--958985	65	3.6	64	87	1	338	33	24	13	28	1.93
958753--958985	97	2.4	97	92	0	385	33	24	13	28	1.93
959348--959432	32	2.7	32	94	0	143	15	7	28	49	1.70
960062--960092	13	2.4	13	94	0	53	9	12	3	74	1.19
961321--961359	6	6.2	6	85	8	51	46	17	17	17	1.85
967343--967393	3	17.0	3	76	8	50	56	3	1	37	1.29
967347--967403	12	5.4	11	72	17	50	57	3	1	36	1.26
969700--969733	15	2.3	15	89	0	50	14	47	11	26	1.79
979085--979202	60	2.0	60	85	6	159	35	7	21	35	1.82
979155--979525	52	6.9	52	84	4	377	37	11	23	26	1.90
979155--979525	105	3.5	105	82	7	394	37	11	23	26	1.90
980863--981027	76	2.2	75	86	3	233	30	2	10	56	1.45
981060--981114	21	2.7	21	94	2	94	30	1	18	49	1.58
981688--981743	18	3.2	17	80	7	58	21	3	1	73	1.08
986965--986995	15	2.1	15	93	0	53	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988744--988908	76	2.2	75	87	3	242	30	2	10	56	1.47
988866--988927	19	3.2	19	75	6	54	32	0	12	54	1.38
989470--989511	16	2.5	17	80	7	50	23	2	0	73	0.94
989483--989523	21	1.9	22	90	5	66	19	4	0	75	0.98
989563--989605	13	3.4	13	84	9	54	32	6	0	60	1.23
995334--995702	52	7.0	53	83	7	466	36	12	25	26	1.91
995326--995636	101	3.0	101	87	5	430	37	11	24	26	1.90
995471--995603	26	5.1	26	64	27	75	36	10	26	26	1.89
1000523--1000557	18	1.9	18	88	0	52	22	8	0	68	1.16
1006341--1006747	203	2.0	203	100	0	814	39	17	13	29	1.88
1007362--1007915	46	12.0	46	83	2	669	20	22	13	43	1.87
1007409--1007481	20	3.3	20	72	20	65	21	26	15	36	1.93
1007362--1007915	93	6.0	93	90	0	833	20	22	13	43	1.87
1007362--1007915	139	4.0	139	83	2	673	20	22	13	43	1.87
1007586--1007666	20	3.8	20	73	17	72	18	27	16	38	1.92
1007681--1007758	20	3.6	20	72	24	68	17	26	12	42	1.86
1013158--1013216	15	4.1	14	76	21	52	67	0	5	27	1.11
1014536--1014601	3	21.7	3	78	6	62	57	0	0	42	0.98
1014736--1015064	76	4.3	76	90	0	516	35	20	19	24	1.96
1014732--1015064	151	2.2	152	91	0	533	35	20	19	24	1.95
1015189--1015399	76	2.8	76	94	0	379	36	21	18	24	1.95
1014854--1015524	335	2.0	335	93	1	1141	37	17	16	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016075--1016153	22	3.6	21	74	14	70	41	12	11	34	1.79
1018213--1018431	114	1.9	113	86	0	312	29	21	14	34	1.93
1024939--1024992	28	2.0	27	85	3	72	59	1	5	33	1.31
1025892--1025951	15	4.1	14	78	19	61	68	0	5	26	1.10
1027343--1027419	3	25.0	3	82	10	93	59	0	0	40	0.97
1029790--1030692	46	19.5	45	82	4	738	20	22	14	42	1.88
1029815--1030692	93	9.5	93	88	1	1163	20	22	14	42	1.88
1029815--1030692	139	6.3	139	84	2	1073	20	22	14	42	1.88
1030041--1030157	20	5.2	20	69	22	72	17	25	17	38	1.92
1030180--1030259	20	3.7	20	74	20	72	18	27	15	38	1.91
1029834--1030692	232	3.7	232	86	2	1165	20	22	14	42	1.88
1029815--1030692	278	3.2	278	87	1	1181	20	22	14	42	1.88
1051882--1051937	28	1.9	30	86	13	82	35	8	16	39	1.80
1052006--1052048	19	2.3	19	87	0	59	41	13	13	30	1.84
1054339--1054427	44	2.0	44	85	8	119	25	21	26	25	1.99
1060240--1060330	45	2.0	46	91	2	148	29	19	23	27	1.98
1064977--1065023	22	2.1	22	84	0	58	44	2	2	51	1.25
1067248--1067280	2	16.5	2	100	0	66	51	0	0	48	1.00
1070578--1070618	16	2.6	16	96	0	73	14	12	14	58	1.63
1072936--1072972	14	2.6	15	87	8	51	48	0	0	51	1.00
1072912--1073024	41	2.8	40	81	9	113	45	0	0	53	1.06
1073007--1073058	27	1.9	28	88	7	81	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073095--1073155	25	2.5	24	81	7	77	40	0	0	59	0.98
1073175--1073236	27	2.3	27	78	13	67	41	0	0	58	0.98
1076362--1076393	16	1.9	17	93	6	57	37	9	0	53	1.34
1076739--1076831	24	3.9	23	81	4	87	51	15	11	21	1.74
1076739--1076831	48	1.9	48	82	4	116	51	15	11	21	1.74
1080218--1080298	24	3.4	24	83	6	85	49	16	12	22	1.78
1083985--1084014	14	2.1	14	100	0	60	26	0	0	73	0.84
1090864--1091147	135	2.1	135	80	3	322	22	19	22	35	1.96
1092480--1092535	21	2.8	20	83	8	60	21	23	23	32	1.98
1095138--1095478	124	2.8	124	96	1	632	40	23	9	27	1.84
1096399--1096457	3	20.0	3	77	22	63	64	0	0	35	0.94
1096399--1096457	21	3.0	19	83	13	75	64	0	0	35	0.94
1096803--1097403	136	4.5	136	87	2	851	27	21	17	34	1.95
1096842--1097403	270	2.1	271	89	1	851	27	20	17	33	1.96
1097716--1097834	36	3.2	36	64	9	94	42	12	19	25	1.86
1097684--1097901	76	2.9	73	86	4	319	40	11	20	27	1.87
1097692--1097943	73	3.4	73	81	5	285	40	12	19	26	1.87
1097914--1097971	28	2.0	29	93	3	100	41	15	13	29	1.86
1097925--1097973	15	3.4	15	71	21	50	42	16	16	24	1.87
1097951--1098118	92	1.8	90	87	5	248	38	11	20	29	1.88
1098124--1098174	21	2.4	22	90	3	77	41	11	23	23	1.87
1098066--1098225	86	1.9	87	86	4	234	39	12	21	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099550--1099599	12	4.2	12	79	7	50	2	16	4	78	1.00
1100810--1100851	19	2.3	18	84	12	50	40	16	19	23	1.91
1102905--1102939	18	2.1	16	89	10	52	14	28	11	45	1.79
1105747--1105822	3	26.0	3	80	19	90	64	0	0	35	0.94
1112151--1112209	6	9.8	6	77	14	50	50	0	0	49	1.00
1120530--1120831	20	15.1	19	84	6	352	23	19	21	35	1.96
1120530--1120831	40	7.6	40	85	5	398	23	19	21	35	1.96
1120530--1120831	60	5.0	60	87	0	424	23	19	21	35	1.96
1120890--1121219	89	3.6	87	71	18	244	36	18	18	26	1.94
1120966--1121456	186	2.7	186	88	3	701	36	19	19	24	1.95
1121774--1121825	12	4.3	12	75	15	54	44	0	0	55	0.99
1125026--1125191	34	4.8	34	80	11	162	30	7	18	43	1.78
1125026--1125180	37	4.5	33	78	13	129	29	7	18	44	1.78
1125167--1125382	102	2.1	101	83	7	269	41	12	18	27	1.87
1125203--1125583	172	2.2	172	93	1	656	42	12	18	26	1.86
1125297--1125585	36	8.2	36	76	12	260	41	11	17	29	1.85
1125440--1125498	29	2.0	30	83	9	77	38	11	16	32	1.86
1125367--1125556	102	1.9	102	83	4	249	42	11	17	27	1.84
1125492--1125555	21	3.3	20	66	26	57	48	6	17	28	1.71
1131366--1131449	3	28.0	3	80	4	98	59	1	3	35	1.22
1131566--1131620	15	3.5	16	85	7	51	67	0	9	23	1.19
1131583--1131627	15	2.9	15	90	6	63	68	0	4	26	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132836--1132883	14	3.4	14	77	11	53	43	10	2	43	1.50
1147799--1147865	33	2.0	33	94	5	118	26	19	35	17	1.94
1149495--1149586	39	2.3	40	83	5	107	32	21	16	29	1.95
1149556--1149675	30	4.0	30	75	8	118	30	20	23	26	1.98
1151182--1151338	3	51.7	3	87	5	226	35	0	1	62	1.08
1152029--1152057	13	2.2	13	100	0	58	0	31	62	6	1.22
1152609--1152644	19	1.9	19	94	5	65	22	0	5	72	1.05
1152673--1152712	19	2.0	20	85	4	55	37	2	2	57	1.26

Tables:   1   2   3   4   5   6

The End!