genome.fa.s8925.2.7.7.80.10.50.1000.5.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: VEPZ01008925.1 Hibiscus syriacus cultivar Beakdansim tig00112230_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2702387

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

This is table  5  of  11  ( 1296 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)
1012511--1012556	20	2.3	20	88	7	67	43	26	15	15	1.85
1012526--1012564	20	2.0	20	89	0	60	48	25	17	7	1.74
1012640--1012750	20	5.8	20	77	12	117	26	18	20	34	1.96
1012606--1012742	34	3.9	34	78	14	134	23	18	21	36	1.95
1012575--1012688	54	2.1	53	82	4	131	24	19	19	36	1.94
1012600--1012750	74	2.0	74	86	5	207	25	18	19	36	1.95
1015217--1015263	24	2.0	24	86	0	67	36	17	17	29	1.92
1017670--1017694	13	1.9	13	100	0	50	20	0	8	72	1.10
1028399--1028433	16	2.1	18	89	10	56	65	0	8	25	1.21
1028438--1028491	18	3.1	18	72	17	51	64	1	7	25	1.30
1029012--1029113	34	2.9	36	86	7	154	27	13	13	45	1.82
1029657--1030593	105	9.0	105	93	1	1461	22	17	26	33	1.96
1031236--1031393	68	2.4	65	85	4	208	35	9	22	32	1.87
1031237--1031629	65	5.7	67	74	12	241	39	11	20	28	1.88
1031369--1031649	36	8.0	35	78	12	281	40	14	19	25	1.89
1031317--1031630	138	2.3	137	86	1	441	39	13	20	26	1.89
1032580--1032628	22	2.2	22	92	0	80	28	14	24	32	1.94
1032592--1032635	22	2.0	22	86	0	61	31	13	22	31	1.93
1033287--1033357	8	8.8	8	72	9	63	0	12	7	80	0.90
1033264--1033320	23	2.4	23	80	16	64	1	14	7	77	1.06
1036533--1036567	16	2.1	18	89	10	56	65	0	8	25	1.21
1036673--1036709	2	18.5	2	94	0	65	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037154--1037251	34	2.8	35	90	4	153	28	13	13	44	1.81
1037330--1037404	20	3.7	20	68	8	53	20	20	25	34	1.96
1037921--1037957	15	2.4	16	78	13	51	56	18	0	24	1.41
1042663--1042712	21	2.4	21	86	0	64	26	14	22	38	1.91
1043542--1043567	12	2.2	12	100	0	52	69	0	0	30	0.89
1051871--1052055	61	3.0	61	89	0	255	32	23	12	31	1.92
1061060--1061093	14	2.4	14	85	0	50	50	2	26	20	1.63
1064744--1064796	26	2.1	25	89	3	79	33	30	18	16	1.94
1064769--1064950	61	3.0	61	89	0	274	31	21	16	30	1.96
1065405--1065439	2	17.5	2	93	0	61	54	0	0	45	0.99
1065869--1065910	20	2.1	20	86	0	57	50	21	0	28	1.49
1082041--1082080	21	2.0	20	95	5	71	30	32	12	25	1.92
1082153--1082191	20	2.0	20	85	10	53	38	15	17	28	1.91
1087419--1087453	18	1.9	18	88	0	52	20	25	0	54	1.45
1091364--1091656	143	2.0	143	85	3	394	37	17	10	34	1.84
1093457--1093517	25	2.5	24	80	15	63	57	1	1	39	1.18
1093547--1093624	39	2.0	39	82	9	97	46	0	16	37	1.48
1093665--1093705	18	2.3	18	87	4	57	73	0	0	26	0.84
1102445--1102474	14	2.1	14	93	0	51	50	6	0	43	1.28
1103316--1103354	17	2.3	17	86	0	51	74	2	10	12	1.17
1104111--1104196	2	43.0	2	100	0	172	50	0	0	50	1.00
1105004--1105036	2	16.5	2	100	0	66	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)
1107926--1107997	17	4.2	17	92	0	117	23	16	29	30	1.96
1107918--1107970	23	2.3	23	80	6	63	22	13	30	33	1.92
1108040--1108098	31	1.9	31	92	0	100	22	15	22	40	1.90
1108071--1108171	41	2.4	41	95	1	184	18	16	29	34	1.94
1110648--1110690	23	2.0	23	82	17	56	60	2	4	32	1.30
1111995--1112065	29	2.5	27	78	10	70	16	5	5	71	1.24
1112098--1112155	22	2.8	20	74	10	62	18	10	1	68	1.26
1119447--1119485	20	2.0	20	100	0	78	30	0	5	64	1.15
1126433--1126858	28	15.7	28	74	16	201	40	6	3	49	1.46
1126422--1126876	20	23.0	20	69	22	123	40	6	3	49	1.46
1126433--1126859	12	34.8	12	71	19	242	40	6	3	49	1.46
1126461--1126876	16	26.3	15	68	21	169	40	6	3	50	1.44
1126902--1126941	19	2.0	20	85	4	55	40	7	15	37	1.75
1127032--1127061	15	2.0	15	93	0	51	50	6	0	43	1.28
1133033--1133090	24	2.4	24	78	16	66	60	5	1	32	1.29
1133048--1133095	16	3.0	16	76	11	53	56	6	2	35	1.36
1134386--1134414	6	4.8	6	100	0	58	34	48	17	0	1.47
1140291--1140333	5	8.6	5	92	0	59	18	34	41	4	1.71
1145749--1145781	13	2.5	13	95	0	57	39	15	12	33	1.84
1149634--1149661	6	4.7	6	100	0	56	35	46	17	0	1.49
1151268--1151332	5	12.0	5	75	23	53	76	1	3	18	0.99
1151364--1151395	13	2.5	13	94	0	55	65	0	12	21	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152566--1152615	19	2.6	19	87	6	66	66	0	4	30	1.10
1152587--1152670	26	3.3	26	76	15	77	57	1	2	39	1.20
1152646--1152815	85	2.0	83	83	8	213	47	6	2	42	1.44
1152603--1152925	111	2.8	118	78	11	262	47	7	2	42	1.45
1152726--1153028	38	8.1	38	80	10	315	44	7	3	43	1.50
1152726--1152925	111	1.8	111	88	2	312	44	8	3	43	1.51
1152729--1153028	73	4.1	72	83	9	349	45	8	3	43	1.51
1161791--1161828	7	5.1	7	90	9	58	81	0	0	18	0.69
1161787--1161828	15	2.7	15	92	7	66	80	0	0	19	0.70
1161787--1161831	8	5.6	8	84	10	56	80	0	0	20	0.72
1161865--1161936	22	3.2	22	78	7	65	73	1	11	13	1.16
1161951--1161998	13	3.6	14	86	5	55	68	0	12	18	1.20
1163162--1163243	16	4.9	16	73	22	62	69	1	2	26	1.08
1163156--1163230	19	3.9	18	83	11	87	72	0	2	25	0.98
1163158--1163232	34	2.3	31	80	17	82	72	0	2	25	0.98
1163228--1163285	24	2.3	24	80	11	64	53	3	1	41	1.28
1163248--1163653	38	11.0	37	79	11	347	44	7	3	44	1.49
1163247--1163569	111	2.9	112	84	7	399	45	7	2	43	1.46
1163526--1163563	15	2.5	15	79	12	51	50	7	0	42	1.31
1164383--1164461	23	3.4	23	79	10	72	48	2	0	49	1.14
1164409--1164488	32	2.5	32	80	14	92	47	2	0	50	1.14
1164712--1164788	29	2.7	29	82	8	86	54	3	0	41	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164763--1164803	20	2.2	20	86	8	59	58	0	0	41	0.98
1172566--1172603	18	2.1	18	95	0	67	55	5	5	34	1.45
1175003--1175075	21	3.5	21	80	14	96	31	17	21	28	1.97
1177233--1177289	30	1.9	30	100	0	114	28	49	0	22	1.50
1177759--1177819	2	31.0	2	96	3	115	49	0	0	50	1.00
1183829--1184066	76	3.1	74	81	8	284	29	15	15	39	1.89
1183909--1184026	36	3.2	36	70	9	110	29	14	14	41	1.85
1184069--1184617	39	14.3	39	89	4	830	28	19	17	34	1.95
1184216--1184275	30	2.0	30	90	6	95	30	25	13	31	1.93
1184650--1184762	42	2.7	41	72	11	104	27	21	22	29	1.99
1191354--1191382	15	2.0	15	93	6	51	34	0	0	65	0.93
1191518--1191574	28	2.0	29	83	12	75	61	1	1	35	1.17
1191563--1191589	14	1.9	14	100	0	54	70	0	0	29	0.88
1194179--1194218	18	2.2	18	100	0	80	35	5	32	27	1.79
1194669--1194768	42	2.4	42	94	0	173	21	22	31	26	1.98
1198335--1198421	35	2.5	34	77	18	90	52	10	8	28	1.63
1201513--1201559	21	2.2	21	78	17	53	44	4	4	46	1.42
1204433--1204468	17	2.1	17	94	0	63	41	0	5	52	1.24
1205346--1205438	45	2.1	45	95	0	168	26	19	4	49	1.67
1206841--1206903	26	2.4	26	89	0	90	47	17	7	26	1.75
1206944--1206972	13	2.2	13	100	0	58	31	6	24	37	1.82
1211964--1212018	26	2.1	26	86	6	76	61	7	1	29	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217734--1217793	22	2.8	22	78	14	72	30	13	26	30	1.94
1217685--1217860	95	1.8	95	82	8	223	32	17	21	27	1.96
1217834--1217886	20	2.5	20	77	17	54	30	15	24	30	1.95
1218297--1218726	45	9.6	45	92	1	630	40	10	18	29	1.85
1219529--1219593	22	2.9	22	93	2	103	23	20	32	24	1.98
1219683--1219745	30	2.1	29	85	11	83	49	12	6	31	1.66
1219694--1219753	29	2.0	29	90	6	93	43	15	6	35	1.72
1221024--1221071	19	2.5	20	82	3	62	29	12	6	52	1.63
1222344--1222417	20	3.6	21	80	3	89	29	22	27	20	1.98
1222336--1222416	41	2.0	41	88	9	121	28	23	27	20	1.99

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