genome.fa.s8010.2.7.7.80.10.50.1000.7.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

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

This is table  7  of  14  ( 1680 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)
1362404--1362456	21	2.5	20	85	8	79	33	16	26	22	1.96
1364173--1364248	31	2.4	31	80	2	89	27	31	26	14	1.95
1364125--1364248	63	2.0	63	82	9	155	26	29	27	16	1.97
1365755--1365789	18	1.9	18	88	0	52	28	17	0	54	1.43
1367111--1367146	17	2.1	18	89	5	56	11	16	52	19	1.73
1372476--1372618	64	2.2	65	84	8	177	25	17	25	30	1.97
1379092--1379125	13	2.5	13	90	4	50	47	2	5	44	1.42
1380359--1380499	43	3.3	43	83	5	171	20	17	23	38	1.93
1380388--1380499	43	2.6	43	90	1	172	21	19	24	34	1.96
1380924--1380969	21	2.2	21	88	0	65	0	36	19	43	1.51
1390233--1390348	42	2.8	42	85	8	141	32	22	17	27	1.96
1390238--1390411	41	4.2	41	73	9	129	32	19	18	29	1.96
1391677--1391860	41	4.5	41	83	6	212	29	16	16	37	1.90
1391840--1392025	82	2.3	81	83	7	223	25	18	19	36	1.95
1391846--1392027	42	4.4	39	72	15	120	24	18	20	35	1.95
1391969--1392081	41	2.7	42	76	4	104	28	20	19	31	1.97
1394201--1394294	46	2.1	45	86	4	127	40	5	5	48	1.48
1395890--1395931	18	2.3	18	84	8	50	61	4	7	26	1.42
1400520--1400544	13	1.9	13	100	0	50	80	0	4	16	0.87
1416585--1416721	71	1.9	72	86	4	197	40	7	8	44	1.62
1422110--1422374	134	2.0	134	94	1	469	46	5	1	46	1.37
1423651--1423764	29	3.9	29	89	0	183	14	35	28	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423801--1423833	14	2.4	14	94	0	57	6	30	39	24	1.79
1424782--1424824	22	1.9	23	86	13	63	39	2	0	58	1.11
1424925--1424967	21	2.0	21	86	8	61	27	0	0	72	0.85
1426963--1427020	30	2.0	29	83	10	73	24	3	18	53	1.60
1427019--1427074	24	2.2	27	81	12	73	57	1	0	41	1.09
1427059--1427111	24	2.3	23	87	9	74	67	1	1	28	1.11
1427211--1427240	16	1.9	15	93	6	51	46	0	3	50	1.18
1431473--1431970	251	2.0	251	93	1	865	31	28	16	23	1.96
1432348--1432402	17	3.3	16	82	7	65	58	1	1	38	1.20
1435033--1435063	13	2.3	14	94	5	55	32	29	22	16	1.95
1435059--1435099	19	2.2	19	95	0	73	9	21	51	17	1.74
1435065--1435106	19	2.2	19	86	0	57	9	23	50	16	1.75
1441254--1441291	20	1.9	20	88	0	58	26	7	2	63	1.35
1441302--1441336	16	2.1	18	89	10	56	25	5	0	68	1.11
1443424--1443456	14	2.4	14	90	10	50	9	21	48	21	1.77
1443448--1443505	19	3.0	19	85	7	64	25	24	27	22	2.00
1446747--1446798	10	5.3	10	74	21	56	26	32	30	9	1.89
1446746--1446798	19	2.7	19	91	2	88	26	32	30	11	1.91
1446868--1446948	29	2.8	29	90	0	126	19	33	35	11	1.87
1446950--1447029	40	2.0	40	95	0	142	20	25	25	30	1.99
1447033--1447058	12	2.2	12	100	0	52	23	7	42	26	1.81
1447069--1447144	29	2.6	29	91	4	127	21	23	35	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449442--1449528	31	2.8	30	81	10	95	54	3	1	41	1.25
1450301--1450326	2	13.0	2	100	0	52	50	0	0	50	1.00
1454747--1454799	23	2.4	21	81	9	61	32	5	3	58	1.39
1472344--1472414	2	35.5	2	100	0	142	50	0	0	49	1.00
1473405--1473645	80	2.9	83	82	7	328	20	23	22	33	1.97
1475786--1475816	16	1.9	16	93	0	53	29	19	3	48	1.64
1479437--1479495	27	2.4	24	86	11	75	40	5	0	54	1.23
1479450--1479501	18	2.8	18	72	13	52	40	1	0	57	1.10
1479437--1479501	13	5.1	12	75	17	51	40	4	0	55	1.21
1480421--1480470	24	2.1	24	84	0	64	30	18	26	26	1.98
1480487--1480549	23	2.7	23	80	0	72	33	25	25	15	1.95
1480639--1480836	57	3.5	57	82	5	238	38	16	4	40	1.68
1483448--1483489	3	14.3	3	85	5	59	66	0	2	30	1.04
1483704--1483742	19	2.0	19	85	5	51	25	5	5	64	1.35
1486566--1486615	20	2.5	20	93	0	82	38	14	0	48	1.44
1486566--1486615	10	5.0	10	80	0	64	38	14	0	48	1.44
1488328--1488366	10	3.8	10	82	3	51	71	0	5	23	1.05
1489423--1489480	23	2.5	23	80	5	64	51	1	0	46	1.11
1490293--1490585	95	2.9	97	79	10	290	20	19	24	35	1.96
1491702--1491752	7	7.8	6	80	20	50	0	17	1	80	0.81
1491702--1491752	12	4.5	11	80	5	57	0	17	1	80	0.81
1491705--1491745	22	2.0	20	90	9	64	0	19	2	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491791--1491843	23	2.2	24	87	9	74	3	15	0	81	0.83
1491791--1491841	8	6.6	8	86	6	61	3	13	0	82	0.81
1491711--1491876	89	1.9	86	83	3	215	10	21	9	59	1.58
1503693--1503743	19	2.6	20	78	6	59	25	31	17	25	1.97
1503767--1503832	21	3.2	21	73	4	80	37	27	18	16	1.92
1503729--1503845	41	2.9	40	80	13	157	34	23	20	21	1.97
1503984--1504034	22	2.3	23	90	6	79	37	5	0	56	1.23
1510751--1510799	14	3.8	14	69	20	52	42	0	0	57	0.99
1510716--1510835	65	1.9	65	82	6	156	41	1	2	54	1.24
1510814--1510868	18	2.9	18	80	17	58	40	3	0	56	1.17
1510833--1510879	18	2.5	19	76	16	53	36	0	0	63	0.94
1511103--1511127	13	1.9	13	100	0	50	48	4	0	48	1.20
1511912--1511972	31	2.0	31	93	0	104	42	8	6	42	1.60
1519034--1519095	2	31.0	2	100	0	124	50	0	0	50	1.00
1520793--1520842	26	1.9	26	95	0	91	32	18	22	28	1.97
1522182--1522232	22	2.3	22	100	0	102	39	9	15	35	1.81
1525726--1525758	15	2.2	15	100	0	66	48	27	0	24	1.51
1527379--1527471	42	2.2	42	100	0	186	24	18	9	47	1.78
1534707--1534879	90	1.9	91	84	5	235	28	17	23	30	1.97
1535453--1535568	41	2.8	42	77	9	121	0	19	0	80	0.72
1535449--1535569	14	9.2	13	80	10	115	0	19	0	80	0.72
1535454--1535573	55	2.1	58	85	10	160	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538061--1538093	8	4.2	8	92	3	50	57	9	21	12	1.62
1541021--1541068	22	2.2	22	84	0	60	16	39	20	22	1.92
1541787--1541816	3	9.7	3	92	7	51	63	0	0	36	0.95
1544571--1544637	30	2.2	31	86	2	91	32	23	20	22	1.98
1544584--1544673	31	3.0	30	80	6	92	30	22	18	28	1.97
1544615--1544721	31	3.4	32	77	11	114	33	17	18	29	1.94
1548851--1548890	2	20.0	2	100	0	80	50	0	0	50	1.00
1556589--1557007	3	113.8	4	69	24	193	40	0	5	53	1.29
1556589--1557007	2	227.5	2	67	26	193	40	0	5	53	1.29
1556594--1557027	7	62.0	7	72	18	286	39	0	4	54	1.27
1561580--1561624	20	2.1	21	84	8	56	62	0	0	37	0.96
1563291--1563389	32	3.1	32	86	0	126	27	26	25	21	1.99
1565076--1565174	32	3.1	32	86	0	126	27	26	25	21	1.99
1566862--1566945	32	2.6	31	81	7	96	27	23	26	22	2.00
1566872--1566960	32	2.8	32	82	0	106	26	28	23	21	1.99
1574783--1574857	31	2.4	31	100	0	150	22	20	12	45	1.83
1575736--1575810	34	2.2	35	90	2	116	37	1	21	40	1.62
1576461--1576513	23	2.2	24	83	6	63	39	5	0	54	1.24
1580101--1580133	2	16.5	2	100	0	66	48	0	0	51	1.00
1586662--1586815	31	5.0	31	93	1	247	38	22	18	20	1.94
1590943--1591096	31	5.0	31	91	1	238	37	22	19	20	1.95
1593342--1593400	31	1.9	31	96	0	109	42	6	8	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593427--1593475	22	2.2	22	85	3	62	55	10	2	32	1.45
1593447--1593613	32	5.5	31	84	14	235	53	10	0	35	1.36
1593470--1593522	14	3.5	14	72	18	52	56	5	0	37	1.23
1593413--1593628	86	2.5	86	96	1	389	52	10	0	36	1.39
1593511--1593553	22	2.0	22	100	0	86	51	13	0	34	1.42
1593479--1593585	54	2.0	54	96	0	196	53	11	0	35	1.37
1593513--1593561	22	2.2	22	88	3	71	55	14	0	30	1.40
1593616--1593710	15	6.5	15	84	2	122	45	1	1	52	1.14
1593616--1593710	45	2.2	43	88	3	136	45	1	1	52	1.14
1593641--1593719	30	2.8	27	85	11	97	48	2	1	48	1.23

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