genome.fa.s6710.2.7.7.80.10.50.1000.7.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: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941931

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

This is table  7  of  11  ( 1236 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)
1536622--1536672	23	2.3	23	86	6	79	19	21	41	17	1.91
1545295--1545335	14	3.1	14	86	10	59	48	0	0	51	1.00
1546625--1546690	27	2.4	28	77	7	73	43	0	7	48	1.31
1546648--1546695	21	2.3	20	89	3	69	43	0	6	50	1.27
1546663--1546709	21	2.2	21	84	0	58	48	0	6	44	1.28
1553979--1554095	51	2.4	47	80	8	119	35	18	20	24	1.95
1565445--1565489	2	22.5	2	100	0	90	48	0	0	51	1.00
1578811--1578854	15	2.9	16	84	15	58	18	6	0	75	1.02
1584434--1584613	57	3.2	55	74	11	132	46	17	2	33	1.62
1584411--1584633	28	7.8	27	74	9	131	47	17	3	32	1.63
1584658--1584732	29	2.6	29	75	14	73	33	17	8	41	1.78
1584977--1585020	12	3.6	12	75	6	52	34	13	0	52	1.41
1585175--1585220	24	2.0	23	95	4	83	41	8	6	43	1.61
1585376--1585432	18	3.0	18	85	10	78	42	1	10	45	1.49
1586787--1586834	3	16.7	3	91	8	82	33	0	0	66	0.92
1586786--1586834	20	2.5	20	96	0	89	34	0	0	65	0.93
1586866--1586899	13	2.6	13	86	13	52	41	32	14	11	1.82
1588222--1588361	30	4.6	30	82	1	172	20	12	8	58	1.60
1588222--1588359	61	2.3	60	88	3	197	20	12	8	58	1.60
1589136--1589172	16	2.3	15	90	9	56	24	5	8	62	1.44
1592071--1592110	7	5.7	7	85	11	55	65	10	25	0	1.24
1592086--1592143	31	1.9	30	92	3	98	68	10	20	0	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1592106--1592167	17	3.6	16	82	10	61	77	6	16	0	0.97
1592127--1592179	12	4.6	11	76	17	54	83	1	15	0	0.74
1592127--1592177	17	3.1	17	91	2	77	82	1	15	0	0.76
1592130--1592191	22	2.7	23	87	5	81	80	3	16	0	0.83
1592127--1592191	23	2.8	24	86	6	89	80	3	16	0	0.85
1593532--1593620	30	3.0	29	82	8	108	31	14	12	41	1.83
1593727--1593758	16	2.1	16	94	5	57	15	43	18	21	1.87
1593747--1594148	130	3.1	129	78	7	344	25	32	17	24	1.97
1594081--1594187	43	2.6	40	82	7	126	23	33	16	26	1.96
1594344--1594390	3	16.7	3	80	12	55	31	0	4	63	1.13
1594344--1594390	14	3.4	14	91	5	69	31	0	4	63	1.13
1595751--1595825	30	2.6	29	91	2	123	21	12	6	60	1.55
1596570--1596607	17	2.2	18	90	4	60	44	5	5	44	1.49
1596892--1596974	31	2.7	31	87	5	107	44	8	6	40	1.59
1597021--1597078	26	2.2	26	84	6	73	18	15	17	48	1.82
1617077--1617146	20	3.5	20	80	5	63	34	7	21	37	1.81
1618828--1619046	83	2.6	83	81	1	251	33	12	19	34	1.89
1618860--1619086	83	2.7	83	80	2	242	33	12	19	34	1.89
1626390--1626432	21	2.0	22	86	9	61	34	16	0	48	1.46
1631245--1631270	13	2.0	13	100	0	52	15	0	23	61	1.33
1631238--1631280	20	2.2	20	86	0	59	18	2	20	58	1.50
1638573--1638615	20	2.2	20	86	0	59	20	4	18	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645271--1645297	3	9.0	3	100	0	54	66	33	0	0	0.92
1691634--1691701	24	2.8	24	77	4	75	27	20	22	29	1.98
1694168--1694200	13	2.4	14	95	5	59	18	0	21	60	1.36
1713390--1713428	2	19.5	2	100	0	78	48	0	0	51	1.00
1724534--1724562	14	2.0	15	93	6	51	0	17	6	75	1.01
1728800--1728828	5	5.8	5	100	0	58	17	0	0	82	0.66
1736153--1736187	6	5.7	6	93	6	61	82	0	17	0	0.66
1736153--1736187	13	2.8	12	91	8	61	82	0	17	0	0.66
1739413--1739468	23	2.4	23	93	0	94	42	19	3	33	1.69
1742255--1742309	2	27.5	2	100	0	110	49	0	0	50	1.00
1744510--1744542	16	2.1	16	100	0	66	39	6	30	24	1.79
1746904--1746943	21	1.9	21	85	10	55	62	0	17	20	1.33
1746966--1747006	22	1.9	21	90	5	64	26	2	36	34	1.70
1751038--1751095	18	3.2	19	80	7	57	8	6	1	82	0.90
1761058--1761098	22	1.9	21	90	5	64	34	36	2	26	1.70
1761351--1761426	38	1.9	38	84	12	100	2	15	5	76	1.08
1761351--1761428	19	3.9	19	80	17	88	3	16	5	74	1.15
1761747--1761787	22	1.9	21	85	5	55	19	2	34	43	1.64
1764406--1764433	2	14.0	2	100	0	56	50	0	0	50	1.00
1764433--1764473	2	20.5	2	100	0	82	0	0	48	51	1.00
1768804--1768879	35	2.2	35	90	0	116	26	36	2	34	1.71
1769014--1769059	15	2.9	15	81	18	58	8	30	0	60	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1772987--1773014	3	9.3	3	100	0	56	67	32	0	0	0.91
1777754--1777796	16	2.7	15	83	16	52	37	9	9	44	1.69
1778425--1778535	35	3.2	35	83	2	134	32	2	36	27	1.71
1782946--1783056	35	3.2	35	85	2	152	33	3	35	27	1.75
1784749--1784790	19	2.2	19	83	8	50	35	9	7	47	1.64
1785615--1785649	6	5.7	6	86	6	52	80	2	17	0	0.84
1785612--1785649	13	3.0	13	88	3	60	78	2	18	0	0.86
1788770--1788824	25	2.4	22	83	16	83	20	21	29	29	1.98
1788777--1788834	25	2.3	25	96	0	107	25	20	25	27	1.99
1789725--1789789	28	2.3	28	94	0	112	33	4	23	38	1.75
1801403--1801436	13	2.4	15	85	14	54	20	0	0	79	0.73
1801455--1801577	7	17.4	7	70	12	65	60	4	0	34	1.21
1802798--1802861	29	2.1	29	82	8	74	50	1	1	46	1.20
1802888--1802933	14	3.4	14	81	6	67	34	0	0	65	0.93
1802901--1803067	41	4.5	36	72	18	123	41	0	2	55	1.17
1802878--1802951	27	2.9	26	80	9	64	41	0	1	56	1.07
1802901--1803023	41	3.1	37	80	14	131	41	0	2	55	1.19
1802964--1803002	16	2.4	16	82	0	51	41	0	0	58	0.98
1805328--1805687	189	1.9	190	86	5	523	46	8	6	37	1.62
1809124--1809492	190	1.9	190	84	5	496	43	9	6	40	1.62
1814175--1814227	3	17.7	3	84	11	65	66	0	1	32	1.03
1814429--1814650	40	5.4	40	68	14	146	24	19	32	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814412--1814650	83	2.9	82	84	3	302	24	19	31	23	1.98
1814676--1814966	132	2.2	130	79	6	318	38	15	22	24	1.92
1814676--1814965	65	4.4	65	81	4	314	38	15	22	23	1.92
1814996--1815067	36	1.9	38	83	8	94	43	9	16	30	1.80
1814994--1815079	36	2.3	36	80	7	93	38	9	16	36	1.81
1814968--1815163	102	1.9	102	82	4	243	38	11	14	34	1.83
1815158--1815237	37	2.2	37	79	4	90	40	15	13	31	1.86
1816400--1816488	15	6.2	14	76	8	81	2	15	7	74	1.15
1816448--1816509	19	3.5	18	71	24	60	0	19	6	74	1.03
1816469--1816507	20	1.9	20	84	5	51	0	20	5	74	1.01
1819874--1819948	22	3.5	22	88	1	116	0	17	16	66	1.25
1820446--1820490	19	2.4	19	81	7	56	51	0	0	48	1.00
1820446--1820489	22	2.2	19	88	12	61	52	0	0	47	1.00
1820460--1820490	16	2.0	15	93	6	53	51	0	0	48	1.00
1820450--1820501	25	2.1	25	85	7	70	50	1	0	48	1.12
1820724--1821626	175	5.2	175	91	0	1423	24	19	17	37	1.93
1821660--1821746	20	4.3	20	85	5	104	36	20	19	22	1.95
1828449--1828495	13	3.4	13	78	21	51	51	2	0	46	1.13
1828449--1828499	14	3.6	14	75	19	52	52	1	0	45	1.12
1829277--1829347	22	3.2	22	84	4	81	2	22	8	66	1.32
1829564--1829595	16	1.9	17	93	6	57	34	18	25	21	1.96
1829839--1829902	25	2.3	30	84	15	84	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843365--1843399	15	2.3	15	100	0	70	5	0	25	68	1.11
1851139--1851362	107	2.1	107	94	1	387	33	13	16	35	1.89
1851139--1851362	54	4.2	54	94	1	380	33	13	16	35	1.89
1851139--1851413	54	5.2	53	88	3	365	32	15	17	34	1.91
1851139--1851413	107	2.6	105	86	5	372	32	15	17	34	1.91
1853484--1853681	40	4.9	40	72	6	132	31	14	15	38	1.87
1853456--1853687	120	1.9	120	83	1	295	32	14	15	37	1.89
1853483--1853847	41	9.0	41	75	5	177	31	17	15	35	1.91
1853653--1853847	82	2.4	82	78	2	203	30	20	14	33	1.93
1853653--1853834	41	4.4	40	83	1	184	30	20	14	35	1.92

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