genome.fa.s7915.2.7.7.80.10.50.1000.9.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: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667290

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

This is table  9  of  10  ( 1148 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)
1439226--1439277	11	4.6	11	80	4	59	80	1	13	3	0.93
1439227--1439265	12	3.2	12	85	0	51	84	2	12	0	0.72
1439219--1439265	23	2.0	23	87	0	67	80	2	14	2	0.89
1440339--1440432	31	2.9	32	80	4	118	29	10	19	40	1.85
1440332--1440445	32	3.6	32	77	4	115	28	12	20	38	1.89
1440915--1441130	105	2.0	106	87	0	308	33	23	19	23	1.97
1441470--1441709	101	2.4	101	89	2	367	31	19	12	37	1.89
1441530--1441683	37	4.4	37	66	21	116	29	18	12	38	1.88
1441388--1441563	86	2.0	87	91	1	282	32	17	13	36	1.88
1441612--1441683	37	2.0	37	91	2	119	26	19	13	40	1.89
1441761--1441822	21	3.2	20	70	25	62	27	22	11	38	1.88
1441747--1441848	36	2.8	36	92	1	177	28	22	12	36	1.91
1441760--1441945	101	1.8	102	87	3	277	28	19	11	39	1.87
1441863--1441979	36	3.2	36	85	7	173	26	17	13	41	1.87
1443179--1443358	9	18.7	9	71	19	55	20	3	1	74	1.05
1443175--1443300	42	3.0	42	75	19	120	26	2	1	69	1.10
1443230--1443313	4	21.8	4	73	22	56	25	1	1	72	0.99
1443276--1443439	5	33.6	5	71	17	55	15	7	1	75	1.10
1443207--1443313	34	3.2	34	78	11	98	26	1	1	70	1.08
1443224--1443331	54	2.1	51	82	8	128	21	3	0	74	1.03
1443224--1443356	27	5.3	25	74	17	82	18	3	0	76	0.98
1443177--1443372	41	4.9	39	71	17	125	21	4	1	72	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443224--1443357	52	2.7	52	81	15	135	18	3	0	76	0.97
1443304--1443357	22	2.4	22	84	6	72	9	5	0	85	0.75
1443266--1443358	31	3.1	27	70	21	53	12	4	1	81	0.88
1451800--1451841	15	2.8	15	85	0	57	21	33	19	26	1.97
1452160--1452184	3	8.3	3	100	0	50	32	0	0	68	0.90
1461402--1461438	19	2.1	17	90	10	56	54	5	5	35	1.47
1461545--1461608	26	2.5	26	78	19	71	53	4	1	40	1.31
1465207--1465248	16	2.6	16	85	7	50	61	2	0	35	1.09
1465611--1465637	14	1.9	14	100	0	54	14	0	14	70	1.17
1466864--1466980	21	5.6	21	94	0	189	29	23	22	23	1.99
1466989--1467076	21	4.2	21	94	0	149	28	20	26	25	1.99
1467124--1467211	21	4.2	21	76	12	83	26	22	18	32	1.97
1467124--1467204	41	2.0	40	85	11	110	24	22	18	34	1.96
1467123--1467211	42	2.2	40	82	10	108	26	22	17	32	1.97
1467778--1467809	6	5.3	6	100	0	64	0	15	50	34	1.45
1467894--1468029	21	6.7	19	82	9	137	36	21	19	22	1.96
1467901--1468020	21	5.8	21	81	9	140	37	20	20	21	1.94
1467894--1468029	40	3.3	40	84	8	168	36	21	19	22	1.96
1467901--1468020	63	1.9	62	93	3	206	37	20	20	21	1.94
1468270--1468351	2	41.0	2	100	0	164	50	0	0	50	1.00
1469228--1469276	18	2.7	18	83	0	53	44	2	0	53	1.12
1469778--1469983	97	2.0	102	91	8	343	32	10	15	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475930--1475978	24	2.0	24	92	0	80	36	12	20	30	1.89
1480725--1480765	21	1.9	22	85	5	57	26	9	26	36	1.88
1483884--1483926	22	2.0	22	95	0	77	30	37	11	20	1.89
1483954--1484037	32	2.7	31	76	10	89	29	32	26	11	1.92
1484849--1484893	19	2.4	19	88	0	63	35	20	28	15	1.93
1489431--1489541	60	1.9	58	82	12	140	39	12	11	36	1.80
1493108--1493161	25	2.2	25	83	12	67	20	1	14	62	1.40
1493738--1493778	21	2.0	21	90	0	64	34	26	17	21	1.95
1498025--1498096	32	2.2	32	82	2	81	20	9	22	47	1.79
1498075--1498146	37	1.9	38	88	2	110	15	9	30	44	1.78
1498676--1498755	16	5.0	16	95	0	142	25	27	6	41	1.79
1499813--1499874	31	2.0	31	90	3	99	14	3	22	59	1.49
1499821--1499872	16	3.3	16	71	15	54	13	3	19	63	1.44
1500097--1500155	10	6.7	10	70	28	53	55	22	13	8	1.64
1500101--1500149	16	3.1	16	96	0	89	55	24	14	6	1.62
1500338--1500389	11	4.6	11	78	4	59	26	25	19	28	1.98
1500314--1500389	35	2.2	35	83	2	100	28	25	19	26	1.99
1501259--1501304	14	3.3	14	84	0	65	52	23	13	10	1.71
1502552--1502612	19	3.3	17	78	19	52	75	3	4	16	1.11
1502628--1502674	21	2.1	23	74	25	55	65	0	4	29	1.11
1502714--1502749	2	18.0	2	100	0	72	50	0	0	50	1.00
1504439--1504607	37	4.8	36	73	17	149	37	12	22	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504565--1504658	50	1.9	48	86	4	134	32	9	21	36	1.86
1504522--1504695	84	2.0	84	85	3	231	38	9	20	31	1.85
1504632--1504731	36	2.8	36	85	5	125	43	11	16	30	1.82
1504528--1504813	120	2.4	122	91	2	452	38	10	19	31	1.86
1504735--1504812	36	2.2	35	86	2	102	38	11	17	32	1.86
1506493--1506551	19	3.1	18	77	17	57	77	1	3	16	0.98
1506571--1506620	21	2.4	21	80	6	57	66	0	8	26	1.19
1506660--1506698	2	19.5	2	100	0	78	51	0	0	48	1.00
1509044--1509083	22	1.9	21	85	10	55	52	7	2	37	1.43
1509913--1509958	3	15.3	3	100	0	92	34	0	0	65	0.93
1515714--1515752	21	2.0	19	85	14	53	33	15	28	23	1.95
1516462--1517418	509	1.9	516	91	3	1601	41	6	18	33	1.75
1517465--1517504	7	5.9	7	82	5	55	37	0	15	47	1.45
1517705--1517794	30	3.0	29	76	10	99	26	17	21	34	1.95
1518647--1519036	205	1.9	204	90	2	618	43	17	14	24	1.86
1524133--1524203	24	2.8	24	73	12	63	67	1	19	11	1.29
1531050--1531099	24	2.1	24	85	7	66	60	12	2	26	1.43
1531960--1531992	3	11.0	3	100	0	66	66	0	0	33	0.92
1532384--1533136	139	5.4	139	81	3	832	24	16	26	32	1.96
1532384--1533135	277	2.7	275	82	2	846	25	15	26	32	1.96
1533552--1533724	67	2.6	67	85	5	210	39	10	20	29	1.87
1541380--1541428	19	2.7	17	84	9	53	26	20	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541374--1541559	65	2.9	64	80	5	205	27	20	23	29	1.99
1541400--1541598	65	3.1	63	79	13	156	27	19	24	29	1.98
1549330--1549389	23	2.6	23	81	0	66	21	21	23	33	1.97
1553288--1553327	14	3.0	13	92	7	55	20	7	22	50	1.73
1553293--1553327	14	2.5	14	100	0	70	17	8	25	48	1.75
1553359--1553390	3	10.3	3	93	6	55	65	0	0	34	0.93
1560468--1560512	19	2.4	19	85	7	65	4	8	13	73	1.23
1564525--1564581	28	2.0	28	82	0	69	36	8	14	40	1.76
1565240--1565270	14	2.2	14	94	0	53	51	0	3	45	1.17
1565710--1565765	20	2.8	20	86	0	76	39	7	23	30	1.81
1565749--1565778	7	4.4	7	91	8	53	40	13	30	16	1.87
1565752--1565777	13	2.0	13	100	0	52	46	15	23	15	1.83
1566186--1566292	44	2.4	44	90	6	162	33	23	5	37	1.78
1566289--1566331	20	2.2	20	91	0	68	55	20	4	18	1.60
1566391--1566457	33	2.0	33	97	0	125	29	26	16	26	1.97
1571856--1572154	82	3.7	81	85	2	375	40	16	8	34	1.78
1571857--1572154	164	1.8	164	87	2	447	40	16	8	34	1.78
1575233--1575286	28	2.0	28	85	7	76	27	7	22	42	1.80
1576448--1576493	21	2.2	21	84	0	56	39	19	13	28	1.89
1578404--1578519	23	5.2	22	80	9	103	33	25	16	24	1.96
1578755--1578815	27	2.2	27	82	8	70	40	22	4	31	1.75
1578750--1578811	15	4.3	15	80	12	69	41	22	6	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580539--1580640	29	3.5	28	68	18	66	33	6	24	35	1.82
1580735--1580810	21	3.6	21	73	7	55	27	11	18	42	1.85
1580823--1580866	21	2.1	21	91	0	70	18	20	27	34	1.96
1580827--1580877	21	2.4	21	80	0	57	21	15	27	35	1.94
1581891--1581940	20	2.5	20	93	0	82	34	28	14	24	1.93
1582019--1582067	20	2.5	20	86	6	64	26	24	10	38	1.87
1587225--1587265	17	2.4	17	100	0	82	34	0	0	65	0.93
1589670--1589749	35	2.3	33	80	16	90	26	11	10	52	1.68
1593839--1594102	124	2.1	125	89	2	397	29	15	14	40	1.87
1594283--1594780	200	2.5	199	87	3	709	29	15	15	39	1.88

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