genome.fa.s426.2.7.7.80.10.50.1000.6.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  6  of  15  ( 1749 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)
1194176--1194211	18	2.1	18	89	5	56	2	25	0	72	0.98
1194522--1194594	32	2.3	32	80	4	85	34	12	13	39	1.82
1195721--1195759	16	2.4	16	86	0	60	15	12	20	51	1.76
1196700--1196949	129	1.9	129	92	1	421	34	14	23	27	1.94
1197801--1197836	17	2.1	17	94	0	63	13	16	33	36	1.89
1198806--1198861	21	2.7	21	97	0	103	46	12	37	3	1.59
1198791--1198867	12	7.0	11	72	18	63	48	12	36	2	1.56
1199236--1199352	42	2.8	41	79	10	121	31	24	21	22	1.98
1200029--1200077	16	3.1	15	80	11	53	18	8	20	53	1.70
1201688--1201735	21	2.3	21	96	0	87	27	18	12	41	1.86
1206332--1206379	21	2.3	21	96	0	87	27	18	12	41	1.86
1206670--1206742	32	2.3	32	83	4	94	32	13	13	39	1.84
1207869--1207907	16	2.4	16	86	0	60	15	12	20	51	1.76
1208840--1209083	129	1.9	127	89	3	382	34	15	23	27	1.94
1209333--1209366	15	2.3	15	89	0	50	41	20	0	38	1.53
1209875--1209908	17	2.0	17	94	0	59	14	17	32	35	1.91
1210925--1210973	21	2.3	21	82	3	53	48	12	36	2	1.52
1210924--1210978	12	4.8	12	76	13	62	49	12	36	1	1.52
1212165--1212212	16	3.0	16	81	0	51	14	10	18	56	1.66
1213155--1213404	129	1.9	129	91	1	412	34	14	22	28	1.94
1216160--1216194	1	35.0	1	100	0	70	0	0	0	100	0.00
1216724--1217024	115	2.7	115	84	10	362	24	19	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217034--1217312	128	2.1	131	82	10	340	25	21	18	35	1.96
1218200--1218253	20	2.5	21	82	17	67	48	5	0	46	1.25
1218200--1218243	23	2.0	20	87	12	61	47	6	0	45	1.29
1220679--1220750	2	36.5	2	97	2	137	50	0	0	50	1.00
1222503--1222558	19	3.2	19	65	19	57	41	7	17	33	1.77
1222503--1222570	34	2.0	34	94	0	118	44	8	14	32	1.76
1225776--1225800	11	2.3	11	100	0	50	36	20	24	20	1.95
1226017--1226060	20	2.2	20	95	0	79	54	22	0	22	1.45
1239379--1239424	24	2.0	23	82	4	56	52	0	2	45	1.13
1245904--1245961	20	2.8	20	72	10	55	13	22	24	39	1.90
1245904--1245967	21	3.1	21	73	8	60	15	21	23	39	1.92
1247111--1247225	22	5.4	22	75	8	121	39	23	17	20	1.92
1247093--1247245	41	3.7	41	88	6	227	39	22	18	18	1.92
1247189--1247308	20	5.9	20	75	8	109	42	21	20	15	1.88
1247217--1247330	60	1.9	61	92	1	194	40	22	19	17	1.91
1250430--1250469	20	2.0	21	85	5	55	37	12	12	37	1.81
1252297--1252354	26	2.2	25	80	14	64	37	6	15	39	1.74
1255799--1255883	23	3.8	21	80	12	89	21	16	9	52	1.71
1261599--1261641	14	3.0	14	89	3	59	32	11	18	37	1.87
1261755--1261830	24	3.0	26	74	20	72	50	2	0	47	1.15
1261794--1261963	88	1.9	86	80	9	191	44	0	4	51	1.22
1261933--1261983	23	2.2	23	82	0	57	45	1	1	50	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261991--1262203	27	8.2	26	66	23	69	50	0	1	47	1.16
1261991--1262107	54	2.1	55	83	12	143	48	0	0	49	1.12
1262126--1262212	23	3.7	23	73	19	65	48	0	2	49	1.13
1270477--1270589	60	1.9	60	83	3	147	33	9	4	52	1.54
1276306--1276333	14	2.0	14	100	0	56	42	0	7	50	1.30
1277292--1277372	36	2.2	35	80	10	90	53	2	4	39	1.36
1277495--1277540	18	2.6	18	89	0	65	28	23	8	39	1.84
1277864--1278000	68	1.9	71	85	10	192	40	8	7	43	1.63
1306472--1306646	20	8.6	20	77	5	154	28	25	20	26	1.99
1306820--1306862	22	2.0	22	90	0	68	27	41	11	18	1.85
1307249--1307355	20	5.4	20	83	3	101	14	16	22	46	1.83
1309091--1309140	18	2.8	18	93	0	91	32	18	6	44	1.74
1309358--1309413	20	2.8	20	100	0	112	16	19	25	39	1.91
1309358--1309424	20	3.5	19	93	4	100	14	19	26	38	1.91
1309914--1310018	21	5.0	21	74	3	95	20	37	19	22	1.95
1309911--1310021	42	2.6	42	78	5	118	20	37	18	22	1.94
1311407--1311468	14	4.3	14	73	6	52	38	1	14	45	1.55
1311582--1311620	20	2.0	20	94	0	69	48	23	20	7	1.75
1311630--1311879	40	6.8	34	75	16	139	24	18	22	34	1.96
1311663--1311907	20	12.9	20	76	11	237	25	18	22	33	1.97
1311623--1311805	74	2.5	74	88	0	285	24	19	22	33	1.97
1311683--1311899	54	3.9	54	79	10	231	24	17	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311878--1312147	140	1.9	140	97	0	513	42	15	13	29	1.84
1312207--1312241	18	1.9	18	94	0	61	17	2	25	54	1.57
1314278--1314314	14	2.6	14	91	4	56	5	21	21	51	1.68
1315379--1315437	20	3.0	20	92	0	82	23	20	30	25	1.98
1315387--1315505	20	5.9	20	86	3	107	26	19	22	31	1.98
1315804--1316064	87	3.0	86	88	6	359	40	11	6	41	1.66
1321578--1321620	22	1.9	23	95	4	79	55	2	11	30	1.48
1323322--1323362	21	1.9	21	85	5	55	29	19	9	41	1.83
1323428--1323487	29	2.0	31	87	6	88	25	10	10	55	1.64
1336129--1336265	32	4.3	32	82	5	152	18	23	26	31	1.98
1337318--1337376	28	2.2	26	88	11	84	44	5	13	37	1.66
1337323--1337387	29	2.3	29	94	2	114	43	6	12	38	1.67
1340655--1340695	21	2.0	21	90	0	64	34	2	0	63	1.08
1341624--1341663	3	14.0	3	89	10	66	67	0	0	32	0.91
1341624--1341663	20	2.0	20	95	0	71	67	0	0	32	0.91
1343599--1343656	14	4.4	14	73	20	61	12	15	15	56	1.67
1343615--1343667	25	2.1	25	89	6	81	13	11	15	60	1.59
1355186--1355406	52	4.3	52	77	5	216	34	24	5	34	1.80
1355186--1355406	103	2.1	103	95	0	397	34	24	5	34	1.80
1360565--1360599	16	2.1	18	89	10	56	65	0	8	25	1.21
1360727--1360797	33	2.1	33	84	5	88	60	8	2	28	1.40
1361173--1361274	34	2.9	36	88	7	163	28	13	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361820--1362753	105	9.0	105	92	2	1443	22	17	26	34	1.96
1363396--1363553	68	2.4	66	83	6	194	36	9	22	31	1.86
1363529--1363808	36	8.0	35	77	12	261	40	14	20	25	1.90
1363477--1363790	138	2.3	137	84	1	414	39	13	20	26	1.89
1363565--1363753	102	1.9	102	88	2	290	40	13	19	26	1.89
1364288--1364322	17	2.0	18	88	5	54	40	31	8	20	1.82
1364736--1364784	22	2.2	22	92	0	80	28	14	24	32	1.94
1364748--1364791	22	2.0	22	86	0	61	31	13	22	31	1.93
1365435--1365490	16	3.4	17	78	4	53	0	16	8	75	1.05
1368701--1368735	16	2.1	18	89	10	56	65	0	8	25	1.21
1368848--1368933	35	2.5	33	81	5	82	60	8	4	26	1.45
1369303--1369404	34	2.9	36	88	7	163	28	13	13	44	1.82
1384109--1384135	13	2.1	13	100	0	54	37	14	25	22	1.93
1384146--1384184	4	9.8	4	89	10	62	25	2	0	71	0.98
1386824--1386855	11	2.9	11	100	0	64	53	0	0	46	1.00
1387151--1387240	20	4.5	20	83	5	101	36	25	16	21	1.94
1387932--1387978	24	2.0	24	87	8	69	25	14	21	38	1.92
1388153--1388177	12	2.1	12	100	0	50	72	0	28	0	0.86
1390476--1390765	53	5.5	53	97	0	537	46	17	22	13	1.83
1390462--1390641	86	2.1	84	85	12	233	47	18	21	12	1.82
1390476--1390765	105	2.7	106	96	1	537	46	17	22	13	1.83
1390476--1390765	158	1.8	158	96	0	544	46	17	22	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390742--1390857	53	2.2	52	86	3	160	18	23	18	38	1.93
1390780--1390867	19	4.8	19	82	14	123	13	22	15	47	1.81
1390958--1390994	14	2.6	14	91	0	65	45	21	0	32	1.52
1392917--1393089	19	9.6	19	78	12	159	45	23	20	10	1.81
1393011--1393067	14	3.7	14	75	20	51	43	22	22	10	1.84
1392992--1393084	33	2.8	33	95	0	168	46	21	21	10	1.81
1392951--1393089	52	2.7	52	74	8	147	46	23	21	9	1.80
1393085--1393129	19	2.4	19	100	0	90	6	15	31	46	1.72
1393120--1393176	14	3.7	14	75	20	51	10	22	22	43	1.84
1393101--1393194	33	2.8	33	85	4	127	10	19	25	44	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15