genome.fa.s8591.2.7.7.80.10.50.1000.6.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: VEPZ01008591.1 Hibiscus syriacus cultivar Beakdansim tig00111540_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1730314

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 896 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)
1081872--1081935	19	3.4	19	91	0	83	35	14	10	39	1.81
1082000--1082059	29	2.0	31	90	6	97	41	16	6	35	1.75
1082240--1082320	30	2.6	30	83	9	92	45	1	6	46	1.35
1084022--1084325	149	2.0	149	98	0	581	35	20	16	27	1.94
1084862--1084889	2	14.0	2	100	0	56	50	0	0	50	1.00
1085217--1085251	18	1.9	18	88	11	54	22	17	5	54	1.64
1085835--1085879	21	2.1	21	87	0	63	15	24	28	31	1.96
1107298--1107520	36	6.2	36	82	5	220	14	5	38	41	1.70
1107298--1107520	9	24.8	9	76	8	195	14	5	38	41	1.70
1108760--1108807	23	2.1	23	88	0	69	35	12	18	33	1.89
1109534--1109570	18	2.1	18	89	0	56	51	10	5	32	1.60
1109774--1109838	23	2.8	23	90	0	94	38	18	7	35	1.80
1110197--1110248	23	2.3	22	90	6	77	44	19	1	34	1.62
1110207--1110269	23	2.7	23	90	0	90	38	19	6	36	1.77
1110627--1110678	23	2.3	22	90	6	77	44	19	1	34	1.62
1110637--1110699	23	2.7	23	90	0	90	38	19	6	36	1.77
1111058--1111109	23	2.3	22	90	6	77	44	19	1	34	1.62
1111068--1111130	23	2.7	23	90	0	90	38	19	6	36	1.77
1109776--1111229	431	3.4	431	99	0	2892	38	13	8	40	1.74
1112213--1112840	200	3.1	200	96	0	1177	32	14	14	37	1.88
1112921--1112965	19	2.4	19	92	0	72	57	8	2	31	1.41
1114754--1114819	33	2.0	33	87	0	96	24	45	1	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116926--1116978	24	2.2	24	83	6	63	26	7	13	52	1.66
1117123--1117169	20	2.4	19	79	10	58	17	17	10	55	1.69
1118317--1118358	22	2.0	20	86	9	57	73	0	2	23	0.94
1121417--1121470	27	1.9	27	85	7	72	37	1	0	61	1.07
1121410--1121478	27	2.7	24	78	14	66	36	1	2	59	1.21
1121717--1121778	18	3.2	20	78	19	62	61	0	1	37	1.06
1121773--1121932	63	2.5	64	88	7	234	58	1	0	40	1.06
1121770--1121939	24	6.9	24	74	16	93	58	1	0	40	1.05
1121889--1121939	12	4.3	12	76	18	54	66	1	0	31	1.03
1122321--1122382	18	3.2	20	78	19	62	61	0	1	37	1.06
1121483--1122684	604	2.0	593	97	1	2269	46	7	7	38	1.61
1122377--1122521	63	2.3	63	91	4	229	57	1	0	41	1.07
1122427--1122528	39	2.7	37	80	6	116	58	0	0	40	1.04
1122374--1122479	26	4.2	24	79	15	90	57	0	0	41	1.05
1137818--1137858	20	2.0	20	85	9	55	29	4	0	65	1.13
1139125--1139216	27	3.4	27	92	0	130	19	18	40	21	1.92
1166718--1166766	23	2.1	24	81	11	57	30	0	4	65	1.11
1168087--1168136	20	2.5	20	87	6	66	26	22	18	34	1.96
1169017--1169059	12	3.7	12	81	6	52	76	0	20	2	0.89
1172582--1172640	26	2.3	26	84	0	82	35	11	8	44	1.72
1172834--1172870	13	2.8	14	84	12	51	43	29	5	21	1.75
1183190--1183246	20	2.7	21	89	8	80	22	33	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183194--1183246	23	2.5	20	87	9	70	20	35	18	24	1.95
1190042--1190081	21	1.9	21	89	0	62	10	25	40	25	1.86
1190063--1190125	21	2.9	21	88	4	90	19	25	34	20	1.96
1198073--1198146	19	3.7	19	77	10	85	32	20	14	32	1.93
1200041--1200098	23	2.5	23	82	2	62	31	6	10	51	1.62
1201775--1201815	2	20.5	2	100	0	82	48	0	0	51	1.00
1202229--1202647	209	2.0	209	100	0	838	21	27	19	31	1.97
1203459--1203496	20	1.9	20	100	0	76	36	10	28	23	1.88
1203653--1203727	38	2.0	37	82	10	91	49	4	1	45	1.29
1206309--1206348	2	20.0	2	100	0	80	50	0	0	50	1.00
1213714--1213756	2	21.5	2	100	0	86	48	0	0	51	1.00
1215491--1215535	6	7.5	6	97	0	81	31	53	15	0	1.43
1216265--1216383	21	5.7	21	73	13	93	41	21	15	21	1.90
1216286--1216384	42	2.4	42	82	0	135	39	23	16	21	1.92
1228231--1228269	20	2.0	20	100	0	78	56	5	0	38	1.22
1228734--1228797	14	4.1	16	73	26	57	51	1	0	46	1.10
1230502--1230553	17	3.2	16	76	15	54	32	0	0	67	0.91
1230653--1230693	22	1.9	22	90	5	66	31	0	0	68	0.90
1236688--1236721	17	1.9	18	88	5	52	35	2	2	58	1.28
1237202--1237281	42	1.9	42	92	0	133	20	18	25	36	1.95
1237195--1237344	63	2.4	63	92	2	241	20	18	27	34	1.95
1237252--1237411	42	3.8	40	87	6	160	21	18	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237195--1237365	63	2.7	62	87	5	195	20	18	25	35	1.95
1237195--1237386	63	3.1	61	83	10	162	20	18	26	34	1.95
1237231--1237407	21	8.4	21	73	14	82	21	18	23	36	1.95
1237273--1237411	42	3.3	42	92	2	217	21	17	24	35	1.95
1239640--1239776	72	1.9	72	90	0	220	57	4	2	35	1.31
1244311--1244358	24	2.0	24	83	0	60	22	10	16	50	1.76
1254086--1254111	10	2.6	10	100	0	52	15	0	38	46	1.46
1267073--1267117	22	2.0	23	86	4	65	11	8	17	62	1.53
1268682--1268711	16	1.9	16	93	6	53	20	13	10	56	1.65
1280911--1281008	35	2.8	34	73	15	83	45	5	7	41	1.53
1281001--1281119	37	3.2	37	84	5	161	45	1	5	47	1.34
1281013--1281131	37	3.2	37	82	8	143	46	3	4	46	1.39
1282585--1282622	2	19.0	2	100	0	76	50	0	0	50	1.00
1286097--1286141	2	22.5	2	95	0	81	46	0	0	53	1.00
1287866--1287916	14	3.6	14	89	0	75	11	15	17	54	1.70
1296162--1296205	18	2.4	19	81	11	56	59	2	0	38	1.10
1296197--1296237	20	2.1	19	86	4	55	51	2	2	43	1.28
1336055--1337357	106	12.3	106	93	0	2094	33	24	18	22	1.97
1356393--1356419	13	2.1	13	100	0	54	51	0	0	48	1.00
1358215--1358270	23	2.4	23	75	0	58	19	28	5	46	1.72
1363654--1363703	25	1.9	27	88	8	77	44	2	8	46	1.44
1363593--1363889	38	7.9	37	74	13	180	46	3	5	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363733--1363757	11	2.3	11	100	0	50	40	8	8	44	1.63
1363757--1363850	39	2.4	39	87	1	136	44	1	1	53	1.14
1363908--1363982	3	25.3	3	81	12	93	32	0	1	66	1.00
1363906--1363997	13	7.1	13	80	13	77	31	1	1	66	1.06
1363939--1364013	30	2.6	29	85	8	98	24	2	4	69	1.19
1367057--1367101	19	2.4	19	96	3	83	11	11	8	68	1.39
1370447--1371232	84	9.4	84	85	3	1000	28	26	21	23	1.99
1370447--1371232	332	2.4	332	90	2	1209	28	26	21	23	1.99
1371986--1372238	37	6.9	37	76	12	155	45	3	5	45	1.42
1371981--1372236	38	7.0	36	74	18	147	44	3	5	46	1.43
1372125--1372149	11	2.3	11	100	0	50	40	8	8	44	1.63
1372298--1372364	3	22.3	3	87	6	100	31	0	1	67	1.00
1376802--1376844	19	2.1	22	83	12	56	34	0	30	34	1.58
1378919--1378995	24	3.0	26	90	7	106	40	0	1	58	1.06
1378919--1378984	3	22.0	3	80	11	73	37	0	1	60	1.06
1379369--1379403	16	2.2	16	90	10	54	77	5	17	0	0.96
1379377--1379416	20	2.1	19	86	13	55	75	2	22	0	0.93
1380171--1380223	19	3.0	18	83	10	65	22	0	5	71	1.06
1380237--1380277	20	2.0	21	85	4	57	36	2	2	58	1.24
1380933--1380984	20	2.6	21	76	11	56	26	7	0	65	1.20
1380969--1381014	16	3.0	16	76	17	53	26	0	0	73	0.83
1386890--1387053	82	2.0	81	97	2	312	30	14	23	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391155--1391633	76	6.4	76	95	2	873	21	21	21	36	1.95
1391155--1391633	148	3.2	150	95	3	860	21	21	21	36	1.95
1391155--1391633	224	2.1	224	96	2	883	21	21	21	36	1.95
1391769--1391845	24	3.0	26	90	7	106	40	0	1	58	1.06
1391769--1391834	3	22.0	3	80	11	73	37	0	1	60	1.06
1392216--1392249	16	2.2	16	89	5	52	76	5	17	0	0.98
1392216--1392262	19	2.7	18	84	15	55	74	4	21	0	0.99
1393017--1393069	16	3.0	18	83	10	65	24	0	5	69	1.09
1393083--1393123	20	2.0	21	85	4	57	36	2	2	58	1.24
1394580--1394641	31	2.0	31	100	0	124	29	25	6	38	1.81

Tables:   1   2   3   4   5   6   7   8