genome.fa.s7804.2.7.7.80.10.50.1000.7.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1034 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)
1130019--1130066	3	16.3	3	83	12	64	70	0	2	27	0.98
1129998--1130062	22	3.0	21	82	13	69	73	0	3	23	0.97
1130215--1130277	27	2.4	26	81	5	81	50	4	0	44	1.23
1130216--1130276	26	2.4	25	86	5	77	50	4	0	44	1.23
1130226--1130276	27	1.9	27	92	4	86	49	5	0	45	1.26
1130061--1130427	37	10.1	36	78	16	334	46	5	2	44	1.40
1130044--1130426	175	2.2	175	84	10	473	47	5	2	44	1.39
1130240--1130452	76	2.8	73	83	8	259	44	7	3	44	1.49
1131158--1131456	48	6.2	48	86	0	348	28	22	30	19	1.98
1144735--1144796	31	2.0	31	87	0	88	46	17	14	20	1.83
1147091--1147239	75	2.0	75	83	0	190	34	18	16	30	1.94
1148517--1148574	22	2.6	22	91	0	98	32	18	13	34	1.91
1149240--1149642	45	9.0	45	90	1	612	23	22	20	34	1.97
1149240--1149642	89	4.5	89	90	1	608	23	22	20	34	1.97
1149240--1149642	134	3.0	135	90	1	630	23	22	20	34	1.97
1149899--1149959	3	20.7	3	96	3	115	32	0	0	67	0.91
1151127--1151174	26	1.9	24	84	16	62	31	2	8	58	1.39
1154518--1154621	36	2.9	36	89	4	156	40	15	12	31	1.84
1155019--1155070	8	6.2	8	77	16	52	9	5	1	82	0.90
1158239--1158288	13	3.8	14	84	12	70	76	4	16	4	1.10
1158237--1158288	26	2.0	26	92	7	88	76	3	15	3	1.07
1158360--1158497	69	2.0	69	85	2	188	36	21	15	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159432--1159521	32	2.8	32	89	0	135	31	12	17	38	1.87
1160117--1160357	106	2.3	106	91	0	383	35	24	17	21	1.95
1160336--1160397	19	3.3	19	100	0	124	37	37	11	14	1.82
1160836--1161024	37	5.4	37	70	18	134	29	17	13	40	1.87
1160706--1160920	87	2.4	88	79	8	263	30	18	13	37	1.89
1160806--1161051	102	2.4	102	88	0	366	31	18	12	37	1.88
1161089--1161181	35	2.6	36	91	6	145	25	21	15	37	1.92
1160836--1161318	260	1.8	258	79	6	553	31	19	12	36	1.89
1161234--1161383	33	4.4	34	92	5	234	40	18	8	32	1.81
1162131--1162236	36	2.9	36	90	4	160	38	15	14	32	1.87
1162549--1162573	2	12.5	2	100	0	50	48	0	0	52	1.00
1162832--1162880	16	3.2	16	80	8	50	16	10	6	67	1.39
1167350--1167706	179	2.0	178	97	2	673	28	18	14	38	1.90
1168636--1168687	25	2.0	26	96	3	97	26	15	26	30	1.96
1171663--1171693	16	1.9	16	100	0	62	45	19	22	12	1.84
1172551--1172589	12	3.2	12	86	10	53	82	10	5	2	0.93
1173222--1173286	26	2.4	27	73	12	71	70	1	10	16	1.23
1173336--1173407	24	2.8	24	78	12	72	77	1	4	16	0.99
1173315--1173410	37	2.6	35	79	11	93	75	1	4	19	1.03
1173387--1173524	37	3.7	35	75	18	125	66	1	2	28	1.14
1173311--1173486	88	2.0	88	80	8	198	71	1	3	23	1.10
1173322--1173501	42	4.3	43	75	18	134	69	1	3	25	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174059--1174166	37	2.9	37	92	0	180	32	13	13	39	1.85
1175305--1175626	110	2.9	110	84	3	434	25	17	21	35	1.95
1177238--1177299	13	4.9	12	79	15	63	3	14	4	77	1.06
1180423--1180453	2	15.5	2	100	0	62	51	0	0	48	1.00
1180476--1180599	38	3.1	38	73	12	115	70	1	3	24	1.10
1180505--1180577	34	2.3	33	84	13	91	67	1	4	27	1.17
1180521--1180621	38	2.7	37	78	14	109	65	0	2	30	1.14
1180476--1180666	80	2.4	79	78	13	189	67	2	3	27	1.19
1181177--1181284	37	2.9	37	91	2	155	29	12	15	41	1.85
1184254--1184280	14	1.9	14	100	0	54	59	0	0	40	0.98
1191364--1191715	178	2.0	178	96	0	650	32	19	20	28	1.97
1194255--1194300	23	2.0	23	100	0	92	39	26	8	26	1.85
1195754--1195790	12	3.0	13	84	11	51	75	13	0	10	1.04
1196668--1196917	109	2.3	107	80	7	281	46	18	16	19	1.84
1198075--1198634	133	4.2	131	81	3	528	31	15	18	34	1.92
1198139--1198636	266	1.9	267	81	3	610	31	15	18	34	1.92
1199340--1199591	43	5.7	45	76	8	180	40	17	16	26	1.90
1201017--1201106	45	2.0	45	91	2	146	27	21	17	33	1.96
1208216--1208240	11	2.3	11	100	0	50	92	8	0	0	0.40
1209058--1209096	10	3.6	10	86	13	51	74	0	2	23	0.94
1211875--1211913	10	3.6	10	86	13	51	74	0	2	23	0.94
1211906--1211948	3	14.3	3	95	0	59	67	6	0	25	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212714--1212924	19	10.8	19	74	12	144	23	21	19	35	1.96
1212725--1212792	35	1.9	35	84	0	91	26	22	14	36	1.93
1212789--1212933	40	3.6	40	93	0	245	22	21	22	34	1.97
1212880--1212986	53	2.0	53	98	0	205	21	22	21	34	1.97
1212757--1213002	21	12.6	20	72	12	174	22	21	21	33	1.97
1213088--1213119	6	5.5	6	96	3	57	31	53	15	0	1.43
1213415--1213505	19	4.4	20	74	17	87	30	26	5	37	1.79
1213960--1215063	368	3.0	368	87	1	1550	36	13	15	34	1.86
1215134--1215191	25	2.3	25	93	0	98	18	32	22	25	1.97
1216035--1216432	161	2.5	154	84	7	518	46	6	18	28	1.74
1218942--1219003	30	2.1	30	96	0	115	53	4	3	38	1.39
1219323--1219349	13	2.1	13	100	0	54	62	14	7	14	1.51
1220349--1220399	12	4.5	12	80	16	56	56	0	5	37	1.23
1220580--1220848	35	7.7	35	81	6	271	23	21	17	36	1.94
1220919--1220995	20	3.8	20	82	0	64	38	18	16	25	1.92
1220948--1221071	20	6.2	20	88	0	176	32	16	17	33	1.93
1220943--1221072	60	2.2	60	88	2	199	33	16	18	32	1.93
1222855--1222907	16	3.3	16	94	0	88	5	20	22	50	1.69
1229772--1229822	22	2.3	23	86	10	70	23	13	31	31	1.93
1229891--1229970	2	42.5	2	87	12	125	53	0	0	46	1.00
1230125--1230181	27	2.2	25	84	15	71	63	5	0	31	1.17
1230714--1230836	60	2.0	60	82	0	147	34	17	3	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231472--1231521	8	6.1	8	77	13	57	66	0	0	34	0.92
1232007--1232080	6	12.5	6	97	1	96	40	0	0	59	0.97
1234017--1234064	20	2.4	20	92	0	78	18	14	27	39	1.90
1234032--1234087	20	2.8	20	91	0	85	10	14	21	53	1.70
1234032--1234094	20	3.2	20	88	0	63	12	14	20	52	1.74
1236008--1236056	20	2.5	20	86	0	71	36	26	22	14	1.92
1236048--1236123	33	2.3	34	90	2	118	44	19	21	14	1.86
1236090--1236127	20	1.9	20	94	0	67	47	18	21	13	1.82
1236123--1236166	19	2.3	19	88	0	61	13	15	22	47	1.81
1236172--1236236	20	3.2	20	80	0	76	16	20	24	38	1.93
1236232--1236269	20	1.9	20	94	0	67	18	10	21	50	1.76
1236756--1236867	42	2.7	42	85	2	136	24	37	16	21	1.94
1236753--1236867	21	5.5	21	72	4	97	24	37	16	21	1.93
1238668--1238697	15	2.0	15	93	0	51	30	26	13	30	1.94
1241846--1241875	15	2.0	15	93	0	51	30	26	13	30	1.94
1245023--1245052	15	2.0	15	93	0	51	30	26	13	30	1.94
1248136--1248165	15	2.0	15	93	0	51	30	26	13	30	1.94
1251318--1251347	15	2.0	15	93	0	51	30	26	13	30	1.94
1254507--1254536	15	2.0	15	93	0	51	30	26	13	30	1.94
1256851--1256936	34	2.5	35	73	19	90	15	24	5	54	1.62
1261676--1261724	2	24.5	2	100	0	98	48	0	0	51	1.00
1261683--1261748	24	3.0	22	86	6	71	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263279--1263309	16	1.9	16	93	0	53	35	6	0	58	1.24
1263522--1263567	17	2.7	17	96	0	83	30	32	19	17	1.95
1267974--1268041	2	34.0	2	75	16	52	51	0	5	42	1.26
1269596--1269709	10	10.6	10	73	15	70	59	3	1	35	1.25
1269596--1269709	13	9.0	13	78	10	85	59	3	1	35	1.25
1269596--1269709	3	36.0	3	76	13	104	59	3	1	35	1.25
1269596--1269709	19	6.0	18	77	13	104	59	3	1	35	1.25
1271061--1271129	35	2.0	35	91	0	111	43	26	0	30	1.55
1271826--1271861	8	4.5	8	100	0	72	88	0	0	11	0.50
1282368--1282507	73	1.9	73	89	0	217	55	13	3	27	1.54

Tables:   1   2   3   4   5   6   7   8   9