genome.fa.s1711.2.7.7.80.10.50.1000.4.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

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

This is table  4  of  13  ( 1546 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)
1075775--1075806	10	3.3	10	95	4	57	0	18	0	81	0.70
1082918--1082986	28	2.4	28	92	2	111	28	26	15	28	1.96
1085044--1085096	19	2.6	20	85	8	63	41	7	11	39	1.69
1085772--1085840	33	2.1	33	83	5	86	31	1	36	30	1.67
1091447--1091515	33	2.1	33	83	5	86	31	1	36	30	1.67
1093298--1093357	30	2.0	31	83	3	77	55	10	6	28	1.58
1100696--1100745	21	2.4	21	83	12	68	56	0	24	20	1.43
1102013--1102045	8	4.1	8	88	11	50	60	0	0	39	0.97
1102013--1102044	15	2.1	16	88	11	50	62	0	0	37	0.95
1106013--1106344	159	2.1	159	91	0	538	30	17	24	28	1.97
1108229--1108405	34	4.9	34	75	15	158	36	11	24	27	1.90
1108263--1108765	79	6.4	79	76	8	359	33	13	22	30	1.93
1108432--1108536	45	2.8	34	67	26	84	24	20	13	40	1.89
1108612--1108786	45	4.2	45	69	16	158	36	12	24	26	1.91
1108783--1108993	20	9.7	20	72	18	145	43	11	25	19	1.84
1108747--1108882	66	2.0	67	90	4	213	41	11	24	22	1.87
1108803--1108922	46	2.6	46	91	0	204	45	11	23	20	1.83
1108823--1108910	26	3.6	24	71	21	69	45	12	21	20	1.84
1108756--1109006	112	2.3	111	91	0	394	45	11	23	19	1.83
1108849--1108993	65	2.2	66	92	1	238	43	11	24	20	1.85
1108915--1109006	45	2.0	46	87	2	132	46	11	22	18	1.82
1109389--1109507	29	4.1	29	86	0	166	44	10	23	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110946--1110972	10	2.7	10	100	0	54	77	7	14	0	0.97
1110932--1110982	11	4.6	11	82	7	50	80	11	7	0	0.90
1131313--1131366	24	2.3	23	84	9	74	61	16	14	7	1.55
1139065--1139119	24	2.3	25	81	6	60	32	16	21	29	1.95
1144745--1144798	24	2.3	23	81	9	65	61	14	16	7	1.55
1148692--1148720	10	2.9	10	100	0	58	31	20	10	37	1.86
1157858--1157983	47	2.8	46	81	8	134	30	22	7	40	1.80
1163098--1163129	16	2.0	16	93	0	55	28	12	12	46	1.78
1168424--1168471	2	24.0	2	100	0	96	50	0	0	50	1.00
1168827--1168898	37	1.9	37	94	0	126	33	18	9	38	1.83
1173717--1173772	20	2.8	20	75	20	55	3	16	3	76	1.06
1174912--1174948	18	2.1	18	100	0	74	32	40	0	27	1.57
1177031--1177060	13	2.4	13	94	5	53	43	0	30	26	1.55
1178288--1178361	37	2.0	37	97	0	139	32	22	10	33	1.89
1193368--1193397	15	1.9	16	93	6	53	26	50	0	23	1.50
1195574--1195609	18	2.0	18	94	0	63	63	0	16	19	1.30
1210954--1211079	47	2.8	45	85	5	164	30	22	8	38	1.84
1215071--1215109	20	2.0	20	90	5	62	30	15	10	43	1.80
1221032--1221082	20	2.6	20	90	3	77	37	13	5	43	1.69
1225494--1225556	19	3.5	17	79	12	54	73	4	14	7	1.23
1232608--1232679	21	3.6	20	88	5	101	41	5	13	38	1.68
1233568--1233627	30	2.0	31	86	3	86	53	10	8	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234655--1234738	24	3.5	24	80	3	89	28	19	17	34	1.95
1236015--1236059	19	2.5	19	85	7	58	4	20	2	73	1.11
1235998--1236056	19	3.0	20	73	16	52	5	18	1	74	1.09
1236706--1236756	19	2.6	20	87	9	70	45	5	13	35	1.68
1238246--1238297	24	2.2	24	85	0	68	63	17	13	5	1.48
1238981--1239386	202	2.0	202	96	0	749	32	16	21	28	1.96
1247189--1247220	15	2.2	15	94	5	57	81	6	12	0	0.87
1247197--1247234	20	1.9	20	84	10	51	81	5	13	0	0.85
1247187--1247223	14	2.6	14	88	12	58	78	8	13	0	0.96
1250075--1250124	23	2.2	23	82	7	57	66	10	10	14	1.46
1253859--1253890	16	1.9	17	93	6	57	31	31	0	37	1.58
1254181--1254218	20	1.9	20	89	10	60	21	10	10	57	1.61
1264079--1264121	19	2.3	20	80	15	56	0	16	6	76	0.99
1264389--1264422	16	2.1	16	100	0	68	47	8	17	26	1.77
1272483--1272534	24	2.2	24	82	0	59	21	21	40	17	1.91
1272473--1272526	24	2.2	24	96	0	99	20	20	40	18	1.91
1273129--1273170	22	1.9	22	85	0	57	42	16	0	40	1.48
1273896--1273937	18	2.3	18	84	8	50	69	0	4	26	1.08
1275662--1275700	17	2.1	20	86	13	57	53	7	5	33	1.51
1294623--1294663	20	2.1	20	90	4	66	41	4	12	41	1.64
1300430--1300471	16	2.5	17	84	7	59	64	2	21	11	1.38
1300674--1300716	19	2.3	20	80	15	56	0	16	6	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324553--1324610	6	10.0	6	76	10	50	79	3	15	1	0.95
1324800--1324860	16	3.8	15	78	16	61	14	19	0	65	1.27
1324801--1324854	16	3.1	17	81	10	65	14	18	0	66	1.25
1329812--1329841	13	2.3	13	94	0	51	23	33	0	43	1.54
1330942--1331591	324	2.0	324	87	3	941	26	25	11	36	1.90
1333330--1333401	21	3.4	21	80	5	74	70	12	6	9	1.32
1366512--1366554	7	6.3	7	84	10	54	2	11	0	86	0.67
1366510--1366551	13	3.1	13	80	19	50	2	14	0	83	0.75
1366512--1366559	14	3.4	14	77	11	53	2	12	2	83	0.83
1368168--1368199	13	2.5	13	89	0	55	25	15	0	59	1.36
1369710--1369748	20	2.0	20	84	0	51	25	5	5	64	1.35
1376696--1376736	6	6.8	6	89	10	66	82	0	17	0	0.66
1394727--1394765	20	2.0	20	89	0	60	25	7	5	61	1.44
1409814--1409851	19	2.0	19	85	10	51	81	5	13	0	0.85
1427576--1427616	11	3.8	12	81	18	54	58	0	14	26	1.37
1430247--1430299	16	3.3	15	74	10	52	71	3	18	5	1.21
1432471--1432529	19	3.0	19	77	20	59	64	0	8	27	1.22
1432943--1432985	19	2.2	19	84	12	52	51	6	9	32	1.61
1433895--1433953	30	1.9	31	86	3	84	50	10	10	28	1.68
1436205--1436263	8	7.4	8	76	14	50	3	15	1	79	0.94
1436205--1436272	19	3.4	18	77	16	64	2	14	2	79	0.97
1436527--1436575	19	2.5	20	78	21	59	67	0	8	24	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438665--1438707	15	2.8	16	80	16	54	55	4	6	32	1.47
1443992--1444017	6	4.3	6	100	0	52	65	0	15	19	1.27
1446923--1446986	19	3.3	19	84	4	74	7	12	4	75	1.18
1448478--1448502	12	2.1	12	100	0	50	60	0	24	16	1.36
1448512--1448560	16	2.9	16	84	9	53	65	2	18	14	1.37
1448735--1448777	19	2.3	20	80	15	56	0	16	6	76	0.99
1451972--1452024	17	3.1	17	88	0	70	39	7	15	37	1.75
1455094--1455142	19	2.5	20	86	3	64	48	6	10	34	1.62
1460712--1460760	24	2.0	24	88	0	71	8	12	16	63	1.51
1464616--1464680	27	2.4	28	80	12	80	61	10	16	10	1.56
1464670--1464704	5	7.2	5	87	6	54	77	0	22	0	0.78
1470765--1470814	19	2.6	20	84	6	59	46	4	16	34	1.65
1470893--1470946	22	2.5	22	96	0	99	35	7	33	24	1.83
1475433--1475485	24	2.2	24	89	0	79	37	11	26	24	1.89
1483496--1483578	34	2.4	34	78	4	96	39	15	18	26	1.90
1503100--1503185	42	2.0	42	90	0	136	37	26	18	17	1.93
1529700--1529734	13	2.7	13	95	0	61	8	20	37	34	1.83
1530008--1530042	13	2.7	13	90	0	52	8	20	34	37	1.83
1529577--1530194	308	2.0	308	97	0	1173	21	19	28	30	1.97
1531885--1531927	23	1.9	21	81	13	50	30	18	13	37	1.90
1550415--1550468	22	2.5	22	93	0	90	37	18	16	27	1.93
1553894--1553994	17	5.9	17	78	2	94	43	5	16	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553894--1553965	34	2.1	35	89	7	112	43	5	15	36	1.70
1569915--1569975	3	20.7	3	81	9	72	39	0	0	60	0.97
1571458--1571494	2	18.5	2	100	0	74	51	0	0	48	1.00
1571540--1571595	27	2.0	29	82	6	71	44	0	1	53	1.11
1574180--1574223	21	2.0	22	86	4	63	13	6	13	65	1.44
1576927--1576963	10	3.7	10	89	10	58	86	2	10	0	0.67
1576929--1576963	9	3.7	9	92	7	52	88	2	8	0	0.61
1577418--1577479	32	1.9	32	93	0	106	43	19	17	19	1.88
1581377--1581527	54	2.8	54	76	4	144	40	16	19	23	1.91
1582626--1582838	75	2.9	74	90	2	320	25	22	19	32	1.97

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