genome.fa.s7884.2.7.7.80.10.50.1000.7.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: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2814991

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

This is table  7  of  13  ( 1544 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)
1338796--1338880	43	2.0	42	83	2	107	18	18	12	49	1.79
1339365--1339447	43	1.9	44	85	2	114	34	22	12	30	1.91
1341636--1341707	2	36.0	2	100	0	144	50	0	0	50	1.00
1341814--1341853	21	1.9	21	85	10	55	67	5	5	22	1.30
1343027--1343083	3	18.3	3	78	7	60	56	1	0	42	1.10
1343023--1343055	16	2.1	16	100	0	66	48	0	0	51	1.00
1343027--1343092	22	3.0	22	88	0	105	56	1	0	42	1.08
1343024--1343088	16	4.4	15	75	16	64	52	1	0	46	1.10
1345538--1345579	22	1.9	22	90	0	66	61	0	0	38	0.96
1348710--1348746	15	2.5	15	100	0	74	40	18	8	32	1.80
1353197--1353255	10	5.6	12	70	29	62	30	23	27	18	1.98
1353192--1353264	20	3.7	20	98	0	137	28	24	26	20	1.99
1357962--1357995	17	1.9	18	94	5	61	67	0	11	20	1.21
1358756--1358801	2	23.0	2	100	0	92	50	0	0	50	1.00
1358908--1358947	21	1.9	21	85	10	55	67	5	5	22	1.30
1360111--1360190	3	26.3	3	80	7	90	57	1	1	40	1.15
1360111--1360195	22	4.0	22	86	4	122	56	1	1	41	1.14
1361223--1361302	3	26.7	3	97	0	151	33	1	0	65	1.01
1361298--1361329	11	2.8	11	95	4	55	56	0	0	43	0.99
1361804--1361828	13	1.9	13	100	0	50	80	4	16	0	0.87
1374461--1374505	16	2.8	16	83	10	56	28	8	6	55	1.56
1375244--1376215	83	11.7	83	92	1	1528	28	13	21	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376873--1377493	113	5.5	113	91	3	879	37	14	19	28	1.91
1376854--1377493	227	2.8	225	88	3	890	37	13	19	28	1.91
1377629--1377697	3	23.7	3	91	5	115	34	1	0	63	1.03
1377691--1377722	11	3.0	11	95	4	57	56	0	0	43	0.99
1378005--1378036	13	2.5	13	100	0	64	18	53	21	6	1.67
1382816--1382887	24	3.0	24	81	0	81	51	18	11	19	1.75
1388787--1388873	20	4.3	20	98	0	165	29	25	26	18	1.98
1388786--1388864	10	7.6	12	68	30	65	30	24	27	17	1.97
1388920--1388994	23	3.3	23	90	3	109	25	18	34	21	1.96
1392023--1392115	20	4.7	20	84	0	123	30	22	25	21	1.99
1392135--1392192	20	2.8	20	82	12	64	22	20	32	24	1.98
1393025--1393069	23	2.0	23	86	0	63	26	28	24	20	1.99
1393048--1393351	149	2.0	149	98	0	590	34	19	17	28	1.95
1393992--1394021	2	15.0	2	100	0	60	50	0	0	50	1.00
1399081--1399194	33	3.5	33	72	13	126	33	7	22	36	1.81
1399060--1399256	66	3.0	65	91	5	294	33	7	23	35	1.83
1399186--1399227	20	2.0	21	86	4	59	30	9	16	42	1.80
1401174--1401345	85	2.0	84	90	1	272	55	6	5	31	1.50
1401771--1401819	23	2.1	23	84	0	62	46	8	14	30	1.73
1401920--1402002	23	3.6	23	81	0	67	42	8	16	32	1.79
1401759--1402273	158	3.1	158	80	12	618	43	11	12	32	1.78
1401939--1401992	23	2.3	23	93	0	90	38	9	16	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401783--1402150	181	2.0	181	90	0	583	43	11	12	32	1.79
1402101--1402157	23	2.5	23	79	0	69	43	8	14	33	1.76
1402365--1402612	73	3.4	72	82	5	300	39	14	11	34	1.83
1402692--1403174	112	4.3	112	89	4	733	43	12	12	31	1.80
1402692--1403174	222	2.2	222	91	3	776	43	12	12	31	1.80
1408503--1408528	2	13.0	2	100	0	52	50	0	0	50	1.00
1408646--1408672	14	1.9	14	100	0	54	59	0	0	40	0.98
1410512--1410553	19	2.2	19	100	0	84	45	0	16	38	1.48
1410687--1410751	28	2.3	28	83	0	76	36	21	16	24	1.94
1418337--1418365	13	2.2	13	100	0	58	62	6	6	24	1.45
1418876--1418984	30	3.7	29	80	3	119	42	10	10	37	1.72
1418868--1418979	60	1.9	59	85	5	154	45	8	10	35	1.68
1418898--1418979	31	2.8	29	83	5	101	46	7	8	37	1.62
1419267--1419306	19	2.1	19	86	9	55	47	2	2	47	1.29
1419514--1419566	11	5.4	10	76	19	58	60	0	1	37	1.08
1419514--1419550	19	1.9	19	89	10	58	59	0	2	37	1.12
1419519--1419566	19	2.6	18	81	15	53	64	0	0	35	0.94
1426751--1426789	21	1.9	20	85	15	53	33	10	5	51	1.58
1430471--1430559	37	2.4	37	76	9	92	47	0	0	52	1.00
1433396--1433468	2	37.0	2	94	2	130	49	0	1	49	1.09
1433810--1433834	11	2.3	11	100	0	50	16	16	48	20	1.82
1434358--1434410	16	3.5	15	77	7	54	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435024--1435065	19	2.2	19	83	8	50	38	0	2	59	1.10
1442013--1442051	17	2.3	17	95	0	69	17	12	25	43	1.85
1449846--1449969	45	2.8	45	91	1	187	29	23	7	40	1.81
1454036--1454132	6	16.3	6	74	13	67	4	18	2	75	1.06
1454033--1454132	17	6.1	15	74	17	60	4	18	2	76	1.04
1454015--1454106	28	3.2	29	77	14	86	5	19	2	72	1.14
1454044--1454102	22	2.5	24	84	15	88	5	18	3	72	1.17
1454095--1454135	14	2.9	14	88	0	55	2	17	0	80	0.82
1454015--1454135	18	6.9	17	72	15	77	4	19	1	74	1.09
1462150--1462217	23	3.0	23	84	0	91	19	26	25	29	1.98
1471367--1471402	2	18.0	2	100	0	72	50	0	0	50	1.00
1481122--1481170	9	5.6	9	75	22	50	0	14	2	83	0.73
1481125--1481175	16	2.8	19	85	14	72	0	13	1	84	0.71
1481125--1481178	7	7.9	7	76	15	51	0	14	1	83	0.73
1482137--1482269	3	43.7	3	89	3	203	33	0	2	63	1.12
1483519--1483554	19	1.9	19	94	5	65	22	0	5	72	1.05
1483608--1483640	15	2.3	15	89	5	50	54	3	0	42	1.15
1494937--1494977	1	41.0	1	90	0	64	95	0	4	0	0.28
1494939--1494977	14	2.8	14	100	0	78	94	0	5	0	0.29
1495919--1496634	52	13.7	52	96	1	1283	24	15	23	37	1.93
1497191--1497863	113	5.9	113	95	0	1139	37	14	19	28	1.91
1498160--1498289	3	42.7	3	89	3	197	33	0	2	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499541--1499576	19	1.9	19	94	5	65	22	0	5	72	1.05
1499630--1499662	15	2.3	15	89	5	50	54	3	0	42	1.15
1501590--1501618	2	14.5	2	100	0	58	51	0	0	48	1.00
1501792--1501879	24	3.7	24	87	0	86	37	20	17	25	1.93
1501792--1501889	48	2.0	48	80	0	106	39	18	16	25	1.91
1502741--1503570	413	2.0	413	99	0	1651	27	18	13	40	1.88
1511151--1511203	2	30.5	2	72	27	50	52	0	0	47	1.00
1511151--1511203	10	5.9	9	79	16	65	52	0	0	47	1.00
1511151--1511203	5	10.2	6	77	22	50	52	0	0	47	1.00
1511197--1511254	24	2.4	25	77	11	59	41	3	10	44	1.55
1511871--1511951	42	1.9	42	87	5	119	27	33	20	18	1.96
1515863--1515908	24	1.9	24	90	0	74	13	34	19	32	1.90
1515860--1515911	27	1.9	27	96	0	95	13	34	19	32	1.90
1516261--1516301	18	2.3	18	86	0	64	21	17	29	31	1.96
1517782--1518114	111	3.0	111	97	0	612	44	11	7	36	1.69
1518361--1518516	50	3.1	49	71	17	124	19	30	32	17	1.95
1518690--1518739	23	2.1	24	82	17	61	44	0	2	54	1.11
1518709--1518789	43	1.9	43	82	9	105	49	1	0	49	1.08
1521457--1521543	45	1.9	45	97	0	165	33	24	3	39	1.72
1528915--1529050	68	2.0	67	97	1	254	46	4	9	39	1.57
1535355--1535385	5	6.0	5	96	3	53	0	0	77	22	0.77
1538905--1538994	42	2.1	42	91	0	144	30	10	7	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542154--1542202	25	2.0	25	100	0	98	32	8	24	34	1.85
1542150--1542208	25	2.3	25	85	2	91	33	10	22	33	1.87
1542689--1542792	37	2.8	37	88	0	145	42	12	14	30	1.83
1543148--1543190	18	2.5	17	85	7	61	25	4	2	67	1.22
1543311--1543356	18	2.8	17	81	15	53	19	6	0	73	1.04
1547443--1547979	183	2.9	183	96	0	977	27	20	21	30	1.98
1549161--1549277	36	3.1	36	67	4	90	28	18	14	38	1.90
1549120--1549303	72	2.5	75	84	8	220	28	16	12	41	1.85
1549311--1549446	39	3.2	39	67	25	112	27	22	13	36	1.92
1549366--1549684	105	3.1	104	92	2	509	31	20	12	36	1.89

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