genome.fa.s7744.2.7.7.80.10.50.1000.7.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1862 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)
1535969--1536046	31	2.6	31	91	4	124	46	3	2	47	1.34
1535947--1536046	31	3.2	30	83	8	103	48	5	2	45	1.36
1536012--1536131	40	3.1	38	84	5	150	45	8	2	43	1.47
1536582--1536639	30	2.0	30	83	10	75	51	3	10	34	1.53
1537002--1537083	2	42.5	2	70	20	59	50	2	1	46	1.22
1537000--1537083	17	4.9	17	78	18	77	50	2	1	46	1.22
1537028--1537180	15	10.5	15	71	19	94	50	4	2	42	1.36
1537003--1537097	17	5.6	17	74	20	67	47	2	2	48	1.25
1537115--1537235	53	2.2	53	81	14	140	50	2	4	42	1.34
1537004--1537187	15	12.3	15	68	23	72	50	3	2	42	1.34
1537541--1537584	20	2.2	20	84	4	54	45	6	9	38	1.63
1537562--1537606	13	3.3	13	82	17	56	51	13	0	35	1.41
1537681--1537764	7	12.3	7	75	9	57	50	32	1	16	1.53
1537681--1537760	21	3.9	21	75	8	76	50	32	1	16	1.53
1537824--1537943	57	2.1	58	86	7	165	43	7	6	42	1.59
1537863--1537903	15	2.6	16	88	7	66	46	7	4	41	1.53
1537881--1537932	24	2.3	23	83	6	61	40	7	5	46	1.57
1537977--1538029	21	2.5	21	87	0	79	39	7	5	47	1.56
1540282--1540321	11	3.5	11	83	6	53	40	7	5	47	1.54
1551531--1551615	40	2.1	38	82	8	98	49	5	17	27	1.69
1551559--1551641	40	2.1	40	84	4	105	42	7	21	28	1.80
1554111--1554227	60	1.9	62	91	5	193	25	19	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556037--1556090	27	1.9	28	82	14	67	37	3	24	35	1.73
1557991--1558037	23	2.0	24	88	8	71	21	12	29	36	1.91
1558667--1559058	192	2.0	191	97	2	734	37	7	15	39	1.77
1564386--1564436	26	2.0	26	92	0	84	19	11	31	37	1.88
1566397--1566454	21	2.8	21	94	0	98	18	25	24	31	1.98
1566478--1566611	68	2.0	68	98	0	259	30	17	15	36	1.91
1569917--1569956	21	1.9	21	94	0	71	22	25	25	27	2.00
1570496--1570541	24	1.9	24	100	0	92	41	15	13	30	1.85
1577759--1577804	24	1.9	24	95	0	83	39	15	15	30	1.88
1581694--1581788	31	3.1	31	77	8	95	40	17	7	34	1.78
1583293--1583327	18	2.0	17	94	5	61	14	28	28	28	1.95
1585913--1586155	88	2.7	89	87	6	339	19	22	25	32	1.98
1590723--1590999	91	3.1	88	84	9	337	22	20	24	32	1.98
1592094--1592142	19	2.7	19	81	12	59	24	0	16	59	1.37
1592094--1592147	18	3.1	17	80	17	65	25	0	14	59	1.36
1596961--1597405	224	2.0	225	83	6	562	48	12	6	31	1.68
1597587--1597626	20	2.0	21	90	5	64	80	2	2	15	0.93
1600041--1600116	29	2.6	30	80	12	86	64	1	1	32	1.10
1600048--1600120	30	2.4	29	82	10	78	63	1	0	35	1.04
1600153--1600248	38	2.3	43	86	13	139	45	2	7	44	1.43
1603102--1603146	21	2.1	21	84	8	56	28	11	8	51	1.68
1604514--1604543	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605258--1605475	75	2.9	75	88	1	323	52	19	4	23	1.64
1605428--1605515	40	2.2	40	91	0	140	57	17	2	22	1.50
1609337--1609370	18	1.9	18	88	5	52	23	14	23	38	1.92
1610180--1610249	27	2.6	27	86	4	88	44	24	8	22	1.81
1610205--1610269	27	2.5	27	85	5	80	50	21	9	18	1.74
1622269--1622318	26	1.9	26	87	0	73	40	22	12	26	1.88
1622573--1622613	21	2.0	21	90	0	64	39	7	12	41	1.70
1629758--1629800	20	2.3	19	84	15	54	18	27	6	46	1.75
1636682--1636757	31	2.4	32	78	8	93	27	27	26	18	1.98
1643044--1643097	23	2.3	24	84	9	76	31	22	25	20	1.98
1643056--1643105	23	2.2	23	96	0	91	30	26	24	20	1.98
1644332--1644403	29	2.4	29	81	4	72	40	1	19	38	1.60
1644358--1644466	29	3.8	29	74	12	100	33	1	18	46	1.60
1644358--1644617	57	4.6	55	73	13	204	32	3	16	47	1.62
1644485--1644632	29	5.2	28	75	5	118	34	3	16	45	1.65
1644485--1644636	57	2.7	56	79	8	155	33	3	17	46	1.64
1650082--1650121	20	2.0	20	90	4	64	37	0	7	55	1.29
1652928--1652961	3	11.3	3	93	0	59	32	0	0	67	0.91
1655219--1655258	20	2.0	20	90	4	64	37	0	7	55	1.29
1660439--1660501	6	10.5	6	92	0	108	33	47	15	3	1.62
1661229--1661480	42	5.9	42	82	7	278	38	23	18	20	1.94
1661254--1661494	65	3.8	65	90	4	341	37	22	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1661282--1661494	44	4.9	45	77	10	146	38	21	19	21	1.94
1661233--1661494	21	12.3	23	74	13	213	38	22	18	20	1.94
1664229--1664348	46	2.6	46	75	0	114	30	20	17	31	1.95
1667990--1668146	16	9.9	16	71	4	84	14	12	23	49	1.78
1667995--1668161	32	5.3	32	71	5	133	16	12	21	49	1.78
1667986--1668159	95	1.8	95	85	2	242	16	12	22	49	1.78
1668631--1668701	2	36.0	2	97	2	135	50	0	0	49	1.00
1672004--1672352	54	6.4	54	87	2	475	26	18	19	34	1.95
1671999--1672352	108	3.3	108	89	0	528	26	18	19	35	1.95
1678459--1678697	54	4.5	53	86	2	343	24	16	22	36	1.94
1678459--1678697	107	2.2	108	90	2	365	24	16	22	36	1.94
1681301--1681347	21	2.2	21	100	0	94	25	19	4	51	1.65
1681602--1682163	36	15.2	36	66	6	210	38	10	18	33	1.84
1681605--1682164	74	7.5	74	85	0	672	37	10	18	33	1.85
1684283--1684343	30	2.0	30	90	6	97	59	9	16	14	1.61
1684283--1684343	29	2.1	30	93	3	106	59	9	16	14	1.61
1688885--1688997	39	2.9	39	80	6	106	47	1	14	36	1.54
1693732--1693770	21	1.9	20	85	15	53	48	25	7	17	1.74
1703300--1703541	3	78.7	3	87	6	299	28	2	2	66	1.15
1704780--1704831	27	1.9	27	92	0	86	25	40	7	26	1.82
1709365--1709416	27	1.9	27	92	0	86	25	40	7	26	1.82
1710951--1710993	21	2.0	21	91	8	70	20	11	2	65	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714077--1714126	16	3.4	14	86	10	64	80	6	12	2	0.98
1715679--1716419	106	7.0	106	92	0	1223	34	24	18	22	1.96
1716879--1716911	2	17.0	2	93	6	59	48	0	0	51	1.00
1718366--1718408	21	2.0	21	91	8	70	20	11	2	65	1.36
1722799--1722850	19	2.7	19	91	5	79	50	17	19	13	1.78
1727445--1727495	24	2.1	24	100	0	102	31	23	9	35	1.87
1730807--1731184	119	3.2	117	79	9	383	37	16	20	24	1.93
1731282--1731396	3	38.7	3	84	8	110	26	3	5	65	1.30
1731295--1731396	41	2.5	41	79	3	107	25	3	4	65	1.30
1738704--1738784	26	3.2	25	83	11	110	11	18	0	70	1.16
1742692--1742743	24	2.2	24	82	0	59	50	17	11	21	1.77
1742712--1742829	24	4.9	24	86	6	150	40	19	16	23	1.90
1742715--1742833	48	2.5	48	86	8	170	41	19	15	24	1.89
1745290--1745366	18	4.6	18	70	15	74	12	19	49	18	1.79
1745284--1745362	31	2.5	31	85	0	113	15	20	46	17	1.83
1745284--1745312	13	2.2	13	100	0	58	13	20	48	17	1.81
1747452--1747503	24	2.2	24	82	0	59	50	17	11	21	1.77
1747472--1747589	24	4.9	24	88	6	150	40	19	16	22	1.91
1747475--1747606	48	2.7	47	79	11	142	42	18	15	22	1.89
1750036--1750067	7	4.4	7	92	7	55	25	28	34	12	1.92
1750037--1750084	8	6.6	8	80	20	61	22	25	37	14	1.92
1750037--1750084	15	3.3	15	88	8	73	22	25	37	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752208--1752259	24	2.2	24	82	0	59	50	17	11	21	1.77
1752228--1752345	24	4.9	24	88	6	159	40	19	17	22	1.91
1752231--1752362	48	2.7	47	80	11	151	42	18	16	21	1.89
1754792--1754823	7	4.4	7	92	7	55	25	28	34	12	1.92
1754793--1754840	8	6.6	8	80	20	61	22	25	37	14	1.92
1754793--1754840	15	3.3	15	88	8	73	22	25	37	14	1.92
1756964--1757015	24	2.2	24	82	0	59	50	17	11	21	1.77
1756984--1757101	24	4.9	24	88	6	150	40	19	16	22	1.91
1756987--1757118	48	2.7	47	79	11	142	42	18	15	22	1.89
1759546--1759577	7	4.4	7	92	7	55	25	28	34	12	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16