genome.fa.s9633.2.7.7.80.10.50.1000.9.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

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

This is table  9  of  13  ( 1552 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)
1524819--1524859	21	2.0	21	95	0	73	26	29	24	19	1.98
1525593--1525653	22	2.8	22	87	5	88	24	26	21	27	1.99
1526512--1526551	20	2.0	21	85	14	57	17	35	30	17	1.93
1526816--1526840	12	2.1	12	100	0	50	40	24	0	36	1.55
1528114--1528310	92	2.1	93	92	1	326	54	12	1	31	1.44
1528325--1528386	18	3.6	18	76	24	78	64	8	0	27	1.21
1528325--1528395	18	4.1	17	71	23	58	64	8	0	26	1.22
1528905--1528998	39	2.4	39	77	7	102	22	21	29	26	1.99
1529906--1529983	23	3.3	23	76	1	66	32	20	19	28	1.97
1529990--1530207	103	2.1	103	95	1	393	37	23	13	25	1.91
1535536--1535599	23	2.8	23	82	0	74	29	25	25	20	1.99
1535619--1535832	103	2.1	103	97	0	401	36	24	13	26	1.92
1536356--1536390	15	2.3	15	100	0	70	28	34	22	14	1.93
1543205--1543239	15	2.3	15	100	0	70	28	34	22	14	1.93
1547128--1547262	65	2.1	65	97	0	252	30	25	17	26	1.97
1549987--1550088	47	2.1	50	81	5	120	50	1	6	40	1.40
1550866--1550906	21	2.0	21	85	9	57	41	7	46	4	1.53
1551051--1551094	15	3.0	14	80	9	52	43	4	2	50	1.35
1551565--1551601	18	2.1	18	89	0	56	8	64	13	13	1.48
1552063--1552102	20	2.0	20	100	0	80	25	10	25	40	1.86
1561014--1561052	18	2.2	18	86	13	55	58	2	5	33	1.33
1561006--1561055	16	3.1	16	76	20	50	56	2	4	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562980--1563013	16	2.1	16	88	0	50	20	0	8	70	1.13
1563079--1563142	28	2.3	28	94	0	110	39	31	0	29	1.57
1563095--1563156	28	2.2	28	85	0	79	45	29	0	25	1.54
1567643--1567690	17	2.8	17	87	0	60	43	2	6	47	1.40
1567785--1567858	27	2.8	27	87	4	107	25	18	14	40	1.89
1567784--1567870	27	3.3	27	83	3	88	27	17	17	37	1.92
1578564--1578615	23	2.3	22	78	12	61	40	1	5	51	1.37
1581298--1581324	3	9.0	3	100	0	54	66	0	33	0	0.92
1582442--1582534	36	2.6	36	100	0	186	38	21	20	19	1.93
1588556--1588671	40	2.9	41	85	6	139	33	22	17	26	1.96
1588601--1588672	20	3.6	20	92	0	117	37	23	18	20	1.94
1588640--1588701	19	3.2	19	90	2	88	38	19	12	29	1.89
1588878--1588911	16	2.1	16	88	0	50	29	5	0	64	1.17
1589623--1589676	24	2.2	24	93	0	90	20	18	20	40	1.91
1592152--1592219	23	3.0	23	84	0	91	30	22	23	23	1.99
1592231--1592551	103	3.1	103	95	0	572	37	22	13	26	1.92
1597383--1597451	23	3.0	23	89	0	102	27	26	24	21	1.99
1597474--1597787	103	3.0	103	96	0	565	36	23	13	27	1.91
1599272--1599320	22	2.2	22	78	7	55	10	28	28	32	1.90
1600596--1600631	18	2.0	18	94	0	63	55	25	2	16	1.55
1600937--1600982	20	2.3	20	92	0	74	21	17	23	36	1.94
1601048--1601097	25	2.0	25	96	0	91	26	8	22	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601483--1601519	18	2.1	18	89	0	56	32	5	10	51	1.60
1601475--1601527	24	2.2	24	86	0	70	35	3	13	47	1.61
1601831--1601917	39	2.2	39	95	0	156	48	20	13	17	1.81
1602160--1602213	20	2.7	20	79	0	63	14	9	27	48	1.75
1605200--1605356	64	2.4	63	77	12	158	34	21	18	26	1.96
1606014--1606138	31	4.0	31	90	2	180	19	17	22	40	1.91
1610092--1610248	64	2.4	63	81	6	165	35	21	17	26	1.95
1610905--1611029	31	4.0	31	92	2	198	18	18	23	40	1.92
1611809--1612040	77	3.0	75	80	7	270	33	12	13	40	1.83
1611798--1612032	75	3.1	73	81	6	263	33	13	12	40	1.82
1611950--1612158	100	2.1	100	88	2	303	33	11	11	43	1.78
1613684--1613733	18	2.8	18	90	0	82	42	0	22	36	1.54
1614310--1614399	38	2.4	39	85	7	123	40	34	11	14	1.81
1619494--1619536	4	11.0	4	87	5	61	23	0	2	74	0.93
1619529--1619784	37	6.9	36	76	9	221	45	4	6	43	1.50
1619914--1619971	3	18.7	3	83	13	73	29	1	0	68	0.99
1619911--1619972	10	6.5	10	90	5	94	29	1	0	69	0.98
1622378--1622402	11	2.3	11	100	0	50	8	0	0	92	0.40
1623032--1623076	19	2.4	19	96	3	83	11	15	8	64	1.49
1626401--1627514	84	13.4	83	83	5	1289	28	25	21	24	1.99
1626401--1627514	165	6.7	164	89	3	1445	28	25	21	24	1.99
1626401--1627531	249	4.6	246	86	4	1463	29	25	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628143--1628181	4	10.0	4	86	5	53	23	0	2	74	0.94
1628174--1628429	37	6.9	36	76	10	214	45	4	6	42	1.51
1628559--1628633	3	25.7	3	84	12	95	28	2	0	69	1.02
1632373--1632447	27	2.8	27	89	0	114	33	6	45	14	1.71
1639266--1639314	3	16.0	3	82	4	62	36	2	0	61	1.08
1640224--1640413	93	2.0	93	84	4	249	30	10	24	34	1.89
1648853--1648906	4	13.8	4	79	14	51	22	5	0	72	1.05
1648842--1648912	25	2.8	25	78	20	67	22	8	1	67	1.25
1653668--1654446	66	11.8	66	95	0	1375	29	20	17	31	1.96
1654713--1654763	3	16.7	3	83	4	66	35	1	0	62	1.06
1658425--1658472	2	25.0	2	91	8	82	50	0	0	50	1.00
1659032--1659560	145	3.6	145	79	3	431	22	24	21	32	1.98
1660116--1660318	48	4.2	47	83	5	221	33	17	21	27	1.96
1660116--1660318	96	2.1	96	88	5	295	33	17	21	27	1.96
1660346--1660482	46	2.9	47	90	5	206	33	17	21	27	1.96
1660190--1660595	159	2.5	159	92	2	652	32	18	22	26	1.97
1660393--1660708	113	2.8	111	87	6	451	30	18	24	27	1.98
1661053--1661155	43	2.4	43	86	0	143	23	17	30	29	1.97
1661369--1661490	43	2.8	43	87	0	163	20	19	30	29	1.97
1660848--1661609	335	2.3	335	94	0	1326	24	19	24	32	1.97
1661765--1661826	32	1.9	32	93	0	106	33	27	9	29	1.88
1662873--1662902	14	2.2	13	94	5	51	0	6	3	90	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663545--1663600	27	2.1	27	83	6	69	46	10	5	37	1.62
1666248--1666389	55	2.6	55	87	6	207	21	23	13	41	1.88
1670157--1670214	3	19.0	3	85	3	80	62	0	1	36	1.06
1671829--1671859	3	10.3	3	100	0	62	0	35	0	64	0.94
1677594--1677621	14	2.0	14	100	0	56	57	0	14	28	1.38
1678790--1680745	617	3.2	617	96	0	3626	23	17	17	41	1.90
1685141--1685331	28	6.8	28	73	5	109	48	10	2	38	1.50
1687391--1687440	3	16.7	3	87	8	75	34	0	4	62	1.14
1687490--1687543	19	2.8	19	81	16	58	59	0	0	40	0.98
1687830--1687864	16	2.1	17	89	5	54	31	0	0	68	0.90
1688000--1688055	26	2.2	25	81	9	60	30	3	1	64	1.21
1688041--1688095	21	2.8	21	86	10	80	43	0	1	54	1.10
1688041--1688095	20	2.8	20	83	10	69	43	0	1	54	1.10
1688258--1688303	21	2.2	21	84	0	56	43	0	2	54	1.12
1688612--1688659	19	2.5	19	77	12	53	52	2	0	45	1.12
1690145--1690184	21	1.9	21	84	0	53	25	25	22	27	2.00
1691173--1691221	25	2.0	25	95	0	89	46	2	0	51	1.12
1691423--1691474	26	2.0	26	92	0	86	26	30	23	19	1.98
1697981--1698050	21	3.3	20	74	7	59	41	8	17	32	1.79
1698457--1698490	3	11.3	3	100	0	68	32	0	0	67	0.91
1699198--1699245	23	2.1	23	84	7	62	41	4	16	37	1.68
1699325--1699966	198	3.2	196	84	5	787	31	14	14	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1702350--1703485	200	5.7	199	85	3	1406	32	16	14	37	1.89
1702330--1703485	402	2.9	397	85	5	1495	32	16	13	36	1.89
1703839--1703887	19	2.6	19	96	0	89	55	10	2	32	1.45
1705439--1705477	18	2.2	18	95	0	69	7	35	0	56	1.28
1705733--1705776	21	2.1	21	86	0	61	18	31	13	36	1.90
1708202--1708994	182	4.4	182	89	1	1191	27	15	14	41	1.87
1708206--1708995	363	2.2	364	91	1	1253	27	15	14	42	1.86
1709412--1709449	17	2.2	17	95	0	67	15	21	31	31	1.94
1710244--1710284	17	2.3	17	87	8	55	39	4	0	56	1.21
1716845--1717138	49	6.0	49	89	3	448	39	14	20	26	1.90

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