genome.fa.s8075.2.7.7.80.10.50.1000.9.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  9  of  10  ( 1176 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)
1505921--1505989	24	2.8	26	69	24	67	30	23	21	24	1.99
1505921--1505999	24	3.2	24	71	18	65	32	20	18	27	1.96
1505987--1506038	22	2.3	23	83	3	61	46	17	5	30	1.71
1506232--1506310	31	2.5	31	87	4	106	32	21	3	41	1.71
1506337--1506398	25	2.4	25	80	17	74	43	8	11	37	1.70
1506352--1506400	25	2.0	25	91	0	80	42	8	12	36	1.72
1507677--1507737	18	3.4	18	88	0	86	22	19	32	24	1.97
1507708--1507742	18	1.9	18	88	0	52	22	20	31	25	1.98
1507677--1507745	36	1.9	36	84	0	93	24	18	31	24	1.98
1510387--1510511	31	4.0	31	79	9	137	29	19	19	32	1.96
1510498--1510569	30	2.4	30	90	0	108	25	20	23	30	1.99
1515223--1515347	31	4.0	31	80	9	146	31	18	20	30	1.96
1519409--1519448	20	2.0	20	90	0	62	27	17	27	27	1.98
1526567--1526608	20	2.1	20	100	0	84	26	28	11	33	1.92
1532193--1532219	2	13.5	2	100	0	54	51	0	0	48	1.00
1532778--1532814	10	3.6	10	88	3	56	27	2	0	70	1.01
1536487--1536599	60	1.9	60	84	0	154	37	7	13	41	1.73
1536623--1536648	2	13.0	2	100	0	52	50	0	0	50	1.00
1542854--1542957	32	3.5	30	78	12	124	35	11	11	41	1.78
1543040--1543137	28	3.4	27	78	10	88	38	13	11	36	1.80
1545366--1545431	31	2.1	31	88	0	96	24	28	12	34	1.91
1546063--1546119	2	28.5	2	100	0	114	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547145--1547218	36	2.1	36	94	0	130	35	12	17	35	1.87
1547972--1548039	31	2.2	31	86	5	93	26	29	11	32	1.92
1549003--1549248	123	2.0	123	95	0	449	19	17	23	39	1.92
1552559--1552637	27	3.1	26	91	7	110	37	15	11	35	1.83
1552575--1552637	27	2.3	27	100	0	126	34	14	14	36	1.86
1555837--1555884	20	2.4	20	82	10	62	72	0	2	25	0.95
1560956--1561026	30	2.4	30	97	0	133	29	29	19	21	1.98
1561539--1561580	18	2.5	17	80	7	50	54	23	7	14	1.64
1562733--1562805	31	2.4	31	90	0	110	28	21	12	36	1.90
1562733--1562822	31	2.9	31	84	0	90	27	20	14	37	1.91
1565708--1565750	9	4.9	9	85	5	61	37	0	2	60	1.10
1565714--1565763	17	2.6	20	70	29	54	36	0	4	60	1.16
1565717--1565753	17	2.2	16	90	4	56	37	0	2	59	1.12
1579661--1579695	18	2.1	16	89	10	52	25	17	17	40	1.90
1582735--1582761	14	1.9	14	100	0	54	40	14	29	14	1.86
1588508--1588532	13	1.9	13	100	0	50	12	0	24	64	1.27
1598679--1598784	9	12.4	9	69	20	52	75	0	14	9	1.09
1598663--1598817	29	5.3	29	70	19	92	74	0	16	8	1.08
1598672--1598783	16	6.6	17	73	19	76	75	0	15	8	1.10
1598721--1598811	22	4.2	21	72	14	62	75	1	18	4	1.02
1598667--1598808	17	8.6	16	71	20	89	74	0	16	8	1.09
1599609--1600580	486	2.0	486	98	0	1899	34	14	20	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1600613--1600965	51	6.8	51	96	1	598	28	15	28	26	1.96
1600613--1601077	51	8.8	51	96	1	583	27	16	28	27	1.97
1600623--1601180	51	10.4	56	92	3	444	28	16	26	28	1.97
1600878--1601186	56	5.5	55	86	7	314	27	17	24	30	1.97
1606012--1606055	12	3.8	12	90	3	63	11	9	47	31	1.71
1606010--1606055	24	2.0	24	91	4	76	10	10	47	30	1.73
1606073--1606156	24	3.4	25	73	18	70	46	0	0	53	1.00
1606127--1606156	2	15.5	2	93	6	53	50	0	0	50	1.00
1606175--1606211	12	3.0	12	92	4	56	10	16	54	18	1.71
1615338--1615372	17	1.9	19	88	11	56	31	8	34	25	1.86
1623142--1623197	23	2.4	23	96	0	103	25	21	14	39	1.91
1623133--1623207	23	3.3	23	81	10	91	22	20	17	40	1.92
1624396--1624426	15	2.1	15	93	0	53	54	0	0	45	0.99
1635107--1635200	20	4.7	20	80	7	91	31	25	19	23	1.98
1635713--1635783	19	3.7	19	84	1	88	49	22	15	12	1.78
1635779--1635817	19	2.1	19	95	0	69	12	20	17	48	1.80
1635784--1635923	19	7.8	19	69	18	77	12	22	20	45	1.84
1635812--1635899	33	2.6	33	92	1	140	12	25	21	40	1.88
1635867--1635924	20	2.9	20	80	10	64	13	24	18	43	1.87
1637996--1638188	42	4.6	42	80	5	194	22	35	19	22	1.96
1638053--1638168	21	5.5	21	64	11	58	23	32	21	22	1.98
1637994--1638158	84	2.0	84	98	0	321	22	36	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638128--1638188	21	3.0	20	71	7	59	22	37	19	19	1.94
1637994--1638188	84	2.3	84	91	1	266	23	35	18	22	1.95
1639520--1639553	14	2.4	14	95	0	59	32	0	23	44	1.54
1639660--1639704	19	2.4	19	96	0	81	48	17	20	13	1.80
1639736--1639861	33	3.8	32	85	8	182	15	22	19	42	1.88
1639736--1639860	66	1.9	66	96	0	232	16	22	19	42	1.89
1642157--1642189	12	2.8	12	100	0	66	0	27	0	72	0.85
1642364--1642417	24	2.2	24	90	0	81	40	20	16	22	1.91
1643210--1643267	20	2.9	20	89	0	71	29	24	20	25	1.99
1643206--1643276	20	3.5	20	82	0	70	35	22	19	22	1.96
1643490--1643585	20	4.8	20	72	10	88	41	20	19	17	1.90
1643789--1643825	14	2.6	14	86	0	56	48	21	0	29	1.50
1645648--1645715	20	3.5	20	81	2	84	39	23	22	14	1.91
1645704--1645761	14	3.9	14	79	16	71	48	24	17	10	1.78
1645688--1645766	32	2.4	33	93	2	133	48	22	17	11	1.79
1645795--1645852	14	3.9	14	79	16	71	10	17	24	48	1.78
1645778--1645868	32	2.8	33	94	3	166	12	18	21	47	1.81
1645853--1645896	20	2.2	20	88	4	63	18	25	20	36	1.95
1646389--1646433	18	2.5	18	88	0	72	13	15	44	26	1.83
1647753--1647811	20	3.0	20	87	0	73	42	22	18	16	1.89
1648075--1648118	22	2.0	22	100	0	88	18	13	45	22	1.84
1648292--1648400	42	2.7	41	80	9	116	22	15	23	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648348--1648401	20	2.7	20	91	0	90	25	16	24	33	1.96
1648286--1648404	62	1.9	63	84	5	161	22	15	22	38	1.92
1648390--1648441	20	2.5	21	84	3	70	17	23	19	40	1.91
1654428--1654473	22	2.1	22	91	0	74	23	32	21	21	1.98
1654986--1655049	21	3.0	21	88	4	101	26	23	26	23	2.00
1665864--1665930	11	6.3	11	74	11	50	55	1	2	40	1.24
1665939--1665977	19	2.1	19	100	0	78	41	15	10	33	1.81
1666883--1666960	22	3.5	22	98	0	147	28	32	23	16	1.96
1670407--1670475	15	4.3	16	75	10	61	18	27	31	21	1.97
1670419--1670475	15	3.7	15	77	9	69	17	28	33	21	1.96
1670407--1670475	32	2.2	32	91	0	111	18	27	31	21	1.97
1672505--1672560	22	2.5	22	97	0	103	26	32	25	16	1.96
1672795--1672862	21	3.3	21	79	4	93	29	19	7	44	1.77
1672792--1672873	41	2.0	41	100	0	164	31	19	7	41	1.79
1672806--1672873	21	3.3	21	79	4	93	33	20	5	39	1.77
1673189--1673220	2	16.0	2	100	0	64	50	0	0	50	1.00
1681312--1681425	11	10.3	11	84	1	147	28	13	25	32	1.93
1681312--1681425	22	5.1	22	89	2	174	28	13	25	32	1.93
1681576--1681652	32	2.4	32	93	0	127	20	16	24	37	1.93
1681709--1681754	2	23.5	2	95	4	85	47	0	0	52	1.00
1702966--1702996	2	15.5	2	93	0	53	48	3	0	48	1.17
1703462--1703563	49	2.1	49	100	0	204	39	13	7	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706233--1706389	79	2.0	79	91	0	251	40	11	12	35	1.79
1706990--1707191	64	3.1	64	82	7	194	31	20	17	30	1.96
1712949--1713001	20	2.5	21	81	12	63	26	28	15	30	1.96
1712965--1713005	20	2.1	19	90	4	64	21	24	19	34	1.97
1723155--1723183	3	9.7	3	100	0	58	0	65	0	34	0.93
1727367--1727435	19	3.6	18	71	21	52	47	2	1	47	1.25
1727488--1727593	28	3.7	28	72	19	76	47	0	1	50	1.12
1727488--1727562	23	2.9	26	77	18	77	49	0	1	49	1.09
1730579--1730875	151	2.0	149	85	7	406	42	18	18	20	1.90
1738333--1738370	16	2.3	17	81	4	51	65	5	15	13	1.43

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