genome.fa.s3208.2.7.7.80.10.50.1000.6.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: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1278004

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 729 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)
1155479--1155519	20	2.0	20	100	0	82	56	14	14	14	1.69
1155511--1155573	20	3.2	20	84	4	83	38	23	20	17	1.93
1155522--1155572	19	2.6	19	87	3	66	35	25	21	17	1.95
1155479--1155584	20	5.4	19	83	5	79	44	21	16	16	1.87
1156201--1156386	20	9.2	20	74	10	155	27	17	23	31	1.97
1156233--1156307	21	3.6	21	75	10	91	20	16	25	38	1.92
1156217--1156327	41	2.7	41	87	2	170	24	16	25	34	1.95
1156171--1156347	61	2.9	61	81	5	189	26	17	23	32	1.97
1156201--1156386	61	3.1	60	81	6	182	27	17	23	31	1.97
1156401--1156446	19	2.4	19	85	3	56	21	17	30	30	1.96
1156412--1156448	19	1.9	19	94	0	65	21	16	29	32	1.95
1160125--1160180	27	2.1	27	93	0	94	28	23	14	33	1.94
1160072--1160167	48	2.0	46	87	8	129	33	22	9	34	1.87
1162091--1162117	2	13.5	2	100	0	54	48	0	0	51	1.00
1163422--1163575	80	1.9	80	85	1	211	25	14	22	37	1.93
1165730--1165776	24	2.0	24	91	0	76	31	19	25	23	1.98
1165731--1165782	24	2.2	24	85	0	68	34	19	23	23	1.96
1165777--1165875	23	4.3	23	78	0	81	30	21	23	25	1.99
1165981--1166153	57	3.0	57	79	9	201	36	16	4	42	1.67
1166204--1166243	2	20.0	2	100	0	80	50	0	0	50	1.00
1168916--1169006	24	3.9	23	80	9	105	25	17	26	30	1.97
1175732--1175797	23	2.8	24	83	4	98	28	18	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180623--1180688	24	2.8	24	90	2	107	33	25	21	19	1.97
1180623--1180769	23	6.3	23	82	7	122	33	23	22	21	1.97
1180841--1181028	57	3.3	57	78	7	184	37	17	4	40	1.70
1180957--1181068	57	2.0	57	82	7	138	35	16	7	41	1.75
1181244--1181272	4	7.2	4	100	0	58	75	0	0	24	0.80
1193348--1193547	9	19.5	10	72	21	107	53	5	0	40	1.28
1193343--1193486	19	7.3	21	75	16	89	54	4	0	41	1.20
1193377--1193544	2	87.0	2	70	25	105	51	5	0	41	1.30
1193348--1193545	24	7.8	24	72	20	113	53	5	0	40	1.28
1193353--1193542	38	5.4	36	72	24	133	53	5	0	40	1.29
1193377--1193547	14	12.5	13	76	17	152	52	5	0	41	1.30
1193353--1193542	7	27.1	7	71	21	125	53	5	0	40	1.29
1193508--1193562	28	2.0	28	82	7	67	61	1	3	32	1.24
1197310--1197355	14	3.6	14	72	27	57	43	13	4	39	1.63
1197309--1197363	23	2.4	23	100	0	110	45	12	3	38	1.60
1207092--1207215	61	2.0	61	96	0	230	53	9	13	23	1.69
1207342--1207507	82	2.0	82	94	0	287	47	12	6	33	1.67
1211305--1211340	13	2.8	13	86	0	54	19	36	19	25	1.95
1212211--1212506	38	8.1	38	81	8	323	42	3	9	44	1.54
1212261--1212322	12	5.0	12	73	13	54	45	1	8	45	1.42
1212206--1212586	37	10.8	36	76	14	298	42	3	8	44	1.53
1212518--1212654	73	1.9	72	82	7	170	46	4	8	40	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212235--1212629	142	2.8	140	82	8	364	42	3	9	44	1.54
1212644--1212707	21	3.1	21	80	6	60	26	3	3	67	1.21
1212657--1212715	20	2.7	21	84	12	75	23	1	1	72	1.02
1212675--1212712	7	5.6	7	82	17	53	23	2	0	73	0.95
1212658--1212713	16	3.5	15	80	9	51	25	1	1	71	1.05
1212677--1212714	20	1.9	20	100	0	76	21	2	0	76	0.91
1212657--1212723	20	3.2	19	79	16	62	22	2	1	73	1.06
1213810--1213860	10	4.9	10	80	7	57	27	1	0	70	0.98
1213820--1213860	11	3.8	11	87	6	57	29	0	0	70	0.87
1213825--1213854	15	1.9	15	93	6	51	36	0	0	63	0.95
1213811--1213868	21	2.8	21	81	0	71	25	1	1	70	1.06
1214885--1214918	18	1.9	18	88	5	52	5	11	5	76	1.14
1223289--1223313	12	2.1	12	100	0	50	44	16	32	8	1.76
1225356--1225408	21	2.5	21	84	0	70	20	26	18	33	1.96
1225398--1225514	41	2.9	40	90	2	162	36	20	21	21	1.95
1225398--1225514	20	5.8	20	84	3	162	36	20	21	21	1.95
1226386--1226439	24	2.2	24	86	0	81	22	18	20	38	1.93
1228949--1229003	19	2.8	20	83	2	67	38	21	21	18	1.94
1228976--1229097	33	3.7	33	95	0	217	45	17	24	13	1.84
1228994--1229081	14	5.6	14	67	23	50	44	18	25	12	1.84
1228956--1229067	19	6.4	19	70	20	91	43	18	23	14	1.86
1229104--1229164	19	3.5	19	74	21	78	14	22	18	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229271--1229307	14	2.6	14	91	0	65	45	21	0	32	1.52
1230658--1230724	21	3.2	21	68	4	55	19	20	35	23	1.95
1231177--1231228	19	2.6	20	81	6	70	46	19	19	15	1.85
1231177--1231264	19	4.8	19	72	16	69	45	19	21	13	1.84
1231261--1231304	19	2.3	19	88	0	61	11	18	27	43	1.84
1231270--1231307	19	2.0	19	94	0	67	5	18	28	47	1.70
1231320--1231376	19	2.9	19	86	5	69	19	21	19	40	1.92
1231446--1231825	94	4.1	94	91	2	595	48	17	11	22	1.80
1232387--1232451	33	2.0	33	90	0	103	12	21	18	47	1.81
1232428--1232506	20	3.9	21	85	5	85	12	18	16	51	1.75
1233058--1233175	20	5.8	20	84	2	155	20	18	19	41	1.91
1233058--1233175	41	2.9	41	87	1	166	20	18	19	41	1.91
1233161--1233213	21	2.5	22	72	6	56	35	15	22	26	1.93
1233423--1233840	38	11.5	37	82	10	415	45	3	9	41	1.55
1233423--1233844	37	11.6	33	74	17	195	44	3	9	41	1.56
1233428--1233840	74	5.7	73	80	12	347	44	3	9	41	1.55
1235044--1235077	10	3.5	10	88	4	52	29	0	0	70	0.87
1235034--1235081	15	3.3	15	83	13	55	27	2	0	70	0.98
1235194--1235220	12	2.2	12	100	0	54	29	7	0	62	1.22
1236147--1236227	31	2.6	31	90	3	128	37	14	13	34	1.86
1238098--1238127	15	1.9	16	93	6	53	60	6	20	13	1.55
1249723--1249770	24	2.0	24	87	0	69	22	10	25	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249989--1250037	22	2.3	22	89	3	73	48	14	4	32	1.62
1250482--1250524	13	3.2	13	83	6	50	0	25	6	67	1.15
1250484--1250526	15	3.1	14	83	6	52	0	27	6	65	1.18
1250805--1250856	21	2.5	21	81	3	61	38	19	25	17	1.93
1250845--1250957	20	5.7	19	75	15	95	35	21	17	25	1.95
1250865--1250953	40	2.2	40	84	4	117	37	20	16	25	1.93
1250842--1250957	60	1.9	60	87	6	173	37	20	17	25	1.94
1251400--1251447	19	2.5	20	89	3	71	18	18	27	35	1.95
1252769--1252812	18	2.5	18	85	3	63	27	43	15	13	1.85
1253286--1253352	20	3.4	20	81	2	73	38	23	22	14	1.92
1253305--1253406	32	2.8	34	76	22	93	43	22	21	12	1.86
1253341--1253384	18	2.8	15	81	18	54	50	25	15	9	1.74
1253286--1253406	19	6.6	19	78	12	83	42	23	20	13	1.87
1253396--1253471	32	2.4	32	93	4	127	14	19	21	44	1.86
1253402--1253455	13	3.7	13	76	23	54	11	16	22	50	1.77
1253415--1253471	15	3.4	18	73	26	70	14	19	19	47	1.82
1253456--1253499	20	2.2	20	84	4	54	20	25	18	36	1.95
1255360--1255395	14	2.6	14	90	0	54	30	0	22	47	1.52
1255519--1255564	14	2.8	17	75	25	53	45	19	21	13	1.84
1256815--1256839	12	2.1	12	100	0	50	72	0	28	0	0.86
1259122--1259248	33	3.8	33	86	4	193	43	19	22	14	1.88
1259123--1259255	66	2.0	66	95	0	239	42	19	21	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259252--1259322	19	4.1	18	75	17	78	14	21	19	45	1.85
1259428--1259464	14	2.6	14	91	0	65	45	24	0	29	1.53
1260817--1260883	21	3.2	21	68	4	55	19	20	35	23	1.95
1260847--1261023	83	2.1	84	95	2	320	23	16	38	21	1.92
1261243--1261427	89	2.0	90	89	6	284	47	18	11	22	1.81
1263096--1263278	19	10.1	19	76	12	179	46	19	21	12	1.82
1263096--1263278	71	2.6	69	83	6	206	46	19	21	12	1.82
1263098--1263273	33	4.9	36	79	10	143	47	19	21	11	1.81
1263274--1263321	20	2.5	19	77	12	53	10	16	27	45	1.80
1263836--1263969	20	6.7	20	85	5	153	24	19	25	30	1.98

Tables:   1   2   3   4   5   6   7