genome.fa.s4123.2.7.7.80.10.50.1000.7.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: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596068

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1036 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)
1093509--1093576	21	3.2	21	91	0	109	20	20	27	30	1.98
1093702--1093751	6	8.5	6	97	2	93	32	52	16	0	1.44
1093752--1093783	5	6.6	5	92	7	57	37	21	40	0	1.54
1094407--1094543	21	6.6	21	79	9	147	29	24	21	23	1.99
1094552--1094602	21	2.4	21	90	0	84	21	19	25	33	1.97
1094876--1094906	16	1.9	16	93	0	53	6	22	0	70	1.09
1096068--1096098	3	10.3	3	92	0	53	64	0	0	35	0.94
1096874--1096927	17	3.1	17	75	20	58	27	7	7	57	1.53
1099981--1100051	3	23.7	3	77	11	65	63	1	2	32	1.18
1102431--1102568	60	2.3	60	86	5	181	45	7	5	42	1.53
1102431--1102522	30	3.0	30	76	12	98	44	7	5	42	1.56
1105987--1106050	31	2.1	31	84	0	83	40	12	21	25	1.88
1107529--1107589	31	2.0	31	96	0	113	24	22	14	37	1.92
1108736--1108768	16	2.0	17	88	5	50	45	0	3	51	1.16
1109107--1109134	2	14.0	2	100	0	56	50	0	0	50	1.00
1111694--1111773	29	2.8	29	96	0	142	21	32	30	16	1.95
1112383--1112426	21	2.1	21	91	0	70	29	0	15	54	1.42
1112396--1112462	28	2.4	28	85	9	100	32	0	10	56	1.33
1116184--1116491	26	12.5	25	74	16	193	42	1	10	45	1.49
1116210--1116456	98	2.5	98	95	2	446	43	2	10	44	1.49
1116301--1116494	61	3.2	60	76	13	189	41	1	9	46	1.46
1116178--1116350	12	15.2	11	70	21	51	42	2	11	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116189--1116456	25	10.9	25	73	17	138	43	2	10	44	1.50
1116469--1116511	14	3.2	13	83	3	50	41	4	4	48	1.44
1118871--1118961	46	1.9	48	86	8	134	46	12	0	41	1.41
1118871--1118974	46	2.2	48	84	8	133	47	12	0	40	1.41
1118943--1119029	40	2.2	39	79	8	95	47	10	1	41	1.45
1119163--1119221	21	2.9	21	92	2	93	1	37	0	61	1.07
1119224--1119269	23	2.0	23	100	0	92	8	39	4	47	1.54
1119358--1119392	18	1.9	18	100	0	70	28	25	17	28	1.97
1119397--1119471	37	2.0	37	94	5	134	24	13	46	16	1.82
1119521--1119658	29	4.8	29	96	1	242	22	31	31	14	1.94
1119691--1119856	28	5.6	28	78	13	188	10	35	19	33	1.87
1119672--1119862	61	3.1	61	96	0	355	10	34	20	34	1.87
1119805--1119884	22	3.4	22	73	18	79	8	38	18	33	1.82
1119884--1119917	11	3.1	11	95	0	59	20	17	23	38	1.93
1122134--1122169	2	18.0	2	100	0	72	50	0	0	50	1.00
1125379--1125405	12	2.2	12	100	0	54	59	0	0	40	0.98
1130093--1130284	65	3.0	63	76	10	192	31	22	17	28	1.96
1132021--1132200	65	2.8	62	81	9	202	28	23	18	29	1.98
1140041--1140248	65	3.2	63	80	10	215	31	24	16	27	1.97
1141177--1141230	26	2.1	26	100	0	108	18	20	38	22	1.93
1141605--1141976	55	6.7	55	85	2	449	27	23	17	30	1.97
1141977--1142206	37	6.1	37	71	11	173	23	20	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144664--1144852	99	1.9	99	88	0	288	31	17	15	34	1.92
1154765--1154840	35	2.2	34	81	9	82	42	19	1	36	1.60
1157748--1157805	30	1.9	30	96	0	107	32	10	27	29	1.90
1159615--1159643	14	2.1	14	93	6	51	31	20	13	34	1.92
1159795--1159960	58	2.8	59	88	5	248	27	19	19	33	1.96
1161297--1161602	153	2.0	153	100	0	612	47	11	7	33	1.68
1163412--1163506	29	3.3	28	79	2	109	51	3	11	33	1.54
1164890--1164934	23	2.0	23	90	0	72	37	8	11	42	1.72
1170174--1170223	23	2.2	23	85	0	64	38	12	10	40	1.76
1171214--1171287	3	24.7	3	72	15	55	37	1	2	58	1.21
1171213--1171287	8	9.8	8	71	18	61	38	1	2	57	1.21
1171213--1171287	31	2.5	30	83	10	107	38	1	2	57	1.21
1171342--1171433	25	3.6	26	85	4	125	33	39	20	6	1.79
1173287--1173325	19	2.1	19	95	0	69	20	38	15	25	1.92
1173224--1173431	65	3.2	64	83	7	208	29	25	16	27	1.97
1173901--1174033	67	2.0	65	89	4	205	28	11	30	30	1.91
1180510--1180767	127	2.0	130	97	2	495	30	26	15	26	1.96
1180785--1180828	21	2.1	21	86	0	61	9	36	15	38	1.80
1181407--1181471	29	2.2	29	86	2	85	35	3	35	26	1.72
1181424--1181482	29	2.0	30	93	3	102	28	3	35	32	1.74
1181863--1181932	19	3.7	19	90	5	108	22	35	15	25	1.94
1181812--1181994	84	2.2	83	82	9	212	28	27	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181897--1182038	65	2.2	65	87	3	198	29	24	16	28	1.97
1183032--1183156	31	4.0	31	90	2	171	39	23	16	21	1.92
1183720--1183792	36	2.0	37	89	2	112	23	30	30	16	1.96
1186027--1186084	30	1.9	30	100	0	116	32	17	25	24	1.96
1188718--1188780	33	1.9	33	84	9	85	46	4	1	47	1.33
1189135--1189160	2	13.0	2	100	0	52	50	0	0	50	1.00
1189847--1189923	23	3.3	23	83	3	102	32	20	19	27	1.97
1190028--1190173	57	2.6	57	81	6	179	40	20	4	34	1.72
1196312--1196351	20	2.0	21	85	14	57	17	35	0	47	1.48
1196622--1196665	22	2.0	22	100	0	88	4	31	27	36	1.77
1199479--1199535	20	2.9	19	85	10	71	21	21	10	47	1.80
1201704--1201795	20	4.6	20	83	5	105	29	21	20	28	1.98
1204328--1204387	3	20.0	3	83	6	77	38	1	0	60	1.07
1205883--1205932	23	2.0	26	85	11	70	46	2	0	52	1.12
1214533--1214583	25	2.0	25	100	0	102	27	7	41	23	1.82
1216074--1216104	11	2.8	11	90	0	53	87	3	9	0	0.66
1217488--1217763	93	3.0	93	93	1	455	28	16	19	35	1.94
1218563--1219338	113	7.0	115	79	10	753	38	13	18	29	1.89
1218563--1219321	219	3.4	223	84	7	910	39	13	18	28	1.89
1219554--1219616	3	21.0	3	82	6	74	38	3	0	58	1.14
1221155--1221204	23	2.0	26	85	11	70	46	2	0	52	1.12
1223440--1223482	22	2.0	22	100	0	86	4	30	27	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225582--1225783	101	2.0	101	100	0	404	37	10	18	32	1.86
1227612--1227649	19	2.0	19	85	10	51	44	5	5	44	1.49
1227767--1227821	20	2.8	20	84	10	69	20	21	10	47	1.80
1227789--1227828	20	2.0	20	85	0	53	25	22	10	42	1.84
1230241--1230541	148	2.0	150	96	2	563	26	13	15	44	1.84
1237368--1237433	29	2.3	29	79	10	82	53	0	1	45	1.09
1237435--1237502	21	3.2	21	76	15	77	45	4	0	50	1.22
1237642--1237714	20	3.6	20	80	10	85	30	26	19	24	1.98
1237661--1237735	21	3.6	21	78	10	91	37	25	17	20	1.94
1237642--1237738	41	2.4	41	91	0	158	32	23	17	25	1.96
1237879--1237971	22	4.3	22	93	5	163	21	45	13	19	1.85
1237872--1237971	42	2.3	44	91	3	168	21	45	16	18	1.86
1238342--1238439	20	5.2	20	71	14	82	19	17	24	38	1.92
1240343--1240391	20	2.5	20	90	6	73	32	26	24	16	1.96
1240458--1240499	19	2.2	19	91	0	66	11	16	30	40	1.85
1240467--1240503	19	1.9	19	100	0	74	5	16	29	48	1.68
1240475--1240520	19	2.4	19	85	0	56	13	13	23	50	1.76
1240551--1240593	20	2.2	20	91	0	68	16	13	25	44	1.85
1241127--1241196	21	3.3	21	71	13	63	22	35	20	21	1.96
1241103--1241196	42	2.2	42	83	3	109	22	36	19	22	1.95
1242570--1242617	15	3.3	14	77	8	51	37	0	14	47	1.44
1242716--1242773	20	2.9	21	80	10	68	43	24	17	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242812--1242900	20	4.4	20	88	2	126	28	20	22	29	1.98
1242763--1242934	94	1.8	93	83	6	231	26	19	20	32	1.97
1242874--1242968	34	2.8	34	90	3	138	25	15	22	36	1.93
1242946--1243229	140	2.0	140	96	0	523	44	14	12	28	1.82
1243287--1243321	18	1.9	18	94	0	61	17	2	25	54	1.57
1245578--1245631	24	2.2	24	93	0	90	40	20	18	20	1.91
1246419--1246525	20	5.3	20	80	4	126	26	19	26	28	1.99
1246540--1246585	19	2.4	19	85	3	56	21	17	30	30	1.96
1246551--1246587	19	1.9	19	94	0	65	21	16	29	32	1.95
1246888--1246919	17	1.9	16	93	6	55	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9