genome.fa.s2.2.7.7.80.10.50.1000.6.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  6  of  10  ( 1119 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)
1444069--1444094	2	13.0	2	100	0	52	50	0	0	50	1.00
1446643--1447529	115	7.8	115	92	2	1404	34	16	18	30	1.93
1446643--1447529	224	3.9	226	90	2	1369	34	16	18	30	1.93
1446643--1447529	339	2.6	339	92	1	1461	34	16	18	30	1.93
1450113--1450187	22	3.4	22	87	3	114	36	13	14	36	1.85
1450616--1451577	113	8.5	113	95	1	1766	38	13	18	28	1.89
1451811--1451877	3	22.7	3	88	8	93	35	0	0	64	0.94
1452159--1452194	19	1.9	19	88	5	56	27	22	22	27	1.99
1453168--1453196	12	2.4	12	100	0	58	31	6	0	62	1.22
1453379--1453420	20	2.2	19	86	4	57	33	0	2	64	1.07
1453476--1453534	31	2.0	29	83	12	75	47	1	0	50	1.11
1458988--1459145	64	2.5	64	76	8	151	31	19	21	27	1.97
1459118--1459168	20	2.6	20	84	3	68	25	23	27	23	2.00
1459911--1460128	103	2.1	103	94	0	382	24	13	24	37	1.92
1460135--1460212	23	3.3	23	73	8	77	24	17	23	34	1.96
1464599--1464760	64	2.5	65	77	8	170	31	20	21	25	1.98
1465544--1465769	103	2.2	103	93	1	391	26	13	23	36	1.92
1465787--1465840	23	2.3	23	100	0	108	22	24	25	27	2.00
1479781--1480078	49	6.1	50	72	9	186	35	19	15	29	1.93
1482208--1482240	15	2.2	15	89	10	50	72	6	3	18	1.18
1483282--1483370	3	30.0	3	79	10	94	67	2	0	30	1.03
1483515--1483797	124	2.3	122	85	6	360	23	18	15	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483744--1483832	36	2.5	36	94	0	151	20	21	10	48	1.78
1483886--1483988	38	2.6	39	87	7	136	24	21	10	43	1.84
1483727--1484103	154	2.5	147	89	6	573	28	19	11	39	1.87
1483931--1484458	113	4.7	113	93	1	823	27	19	14	38	1.91
1485200--1486164	83	11.6	83	98	0	1867	37	21	13	27	1.90
1487771--1488516	38	19.8	38	80	5	685	24	19	17	37	1.94
1488485--1488653	45	3.8	44	74	13	139	24	18	17	39	1.91
1489042--1489101	3	20.0	3	96	0	102	30	0	3	66	1.07
1492572--1492630	18	3.5	18	71	17	63	23	3	27	45	1.68
1500245--1500299	2	29.5	2	85	14	82	50	0	0	49	1.00
1500245--1500299	26	2.1	26	93	6	94	50	0	0	49	1.00
1502779--1503170	54	7.2	55	79	5	323	32	9	15	42	1.80
1502742--1502963	55	4.0	55	82	1	266	36	10	12	41	1.77
1502742--1502963	111	2.0	109	86	1	309	36	10	12	41	1.77
1503453--1503533	41	2.0	42	85	2	110	25	20	18	34	1.96
1503174--1503674	241	2.1	240	86	3	695	31	16	16	35	1.91
1504065--1504735	139	4.8	139	88	1	979	36	18	20	25	1.95
1504640--1504703	17	3.3	19	67	20	51	42	12	21	23	1.87
1504772--1505075	165	1.8	164	83	5	398	39	14	17	29	1.88
1513866--1514217	185	1.9	183	88	4	528	30	21	20	27	1.98
1520309--1520348	6	6.5	6	94	5	71	30	0	15	55	1.41
1526828--1526930	22	4.7	22	74	9	102	32	19	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535734--1535773	10	4.0	10	93	0	62	57	0	32	10	1.32
1542191--1542283	13	7.0	13	86	3	105	32	15	21	31	1.94
1542191--1542283	26	3.5	26	86	2	123	32	15	21	31	1.94
1547136--1547230	22	4.3	22	95	0	172	24	9	21	45	1.81
1549948--1550013	3	22.0	3	81	6	80	65	1	1	31	1.11
1550194--1550804	79	7.8	78	86	4	814	21	21	12	44	1.84
1550194--1550803	118	5.2	118	85	4	784	21	21	12	44	1.84
1550194--1550804	39	15.5	39	86	4	775	21	21	12	44	1.84
1550858--1551340	45	10.7	45	86	0	606	31	20	20	27	1.98
1551983--1552041	22	2.7	23	92	5	95	38	13	11	35	1.82
1557774--1557845	8	10.0	7	77	19	69	52	12	19	15	1.74
1557774--1557846	22	3.4	22	81	14	89	52	12	19	16	1.75
1557774--1557852	35	2.2	36	86	4	115	51	11	18	17	1.75
1557774--1557855	28	2.9	28	82	14	96	51	12	19	17	1.76
1558444--1558582	36	3.9	36	99	0	269	27	14	19	38	1.90
1562653--1562733	8	10.6	8	74	14	73	12	2	38	46	1.55
1562652--1562733	22	3.7	22	78	9	96	12	2	39	46	1.54
1562679--1562741	22	2.7	23	80	9	74	12	1	36	49	1.51
1562653--1562735	14	6.1	14	72	13	75	13	2	37	46	1.56
1562759--1562885	36	3.6	35	75	8	107	22	3	29	44	1.70
1562773--1562853	36	2.2	36	88	0	117	20	3	30	44	1.69
1562835--1562867	14	2.4	14	94	0	57	15	0	39	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562919--1562959	22	2.0	21	85	9	57	17	14	29	39	1.89
1562926--1562995	34	2.1	34	89	5	106	12	11	34	41	1.79
1562948--1563142	32	5.9	32	70	8	113	12	8	33	45	1.73
1563084--1563141	18	3.2	18	80	9	64	12	5	34	48	1.63
1563291--1563351	24	2.5	24	89	0	95	21	4	24	49	1.69
1563519--1563561	16	2.7	16	74	0	50	9	16	39	34	1.80
1563677--1563739	18	3.7	16	76	15	54	9	12	36	41	1.76
1563689--1563745	20	2.8	20	89	0	96	7	12	38	42	1.70
1563685--1563757	20	3.7	20	77	14	78	10	12	35	41	1.78
1568996--1569026	2	15.5	2	100	0	62	48	0	0	51	1.00
1571264--1571303	20	2.0	20	90	0	62	37	2	2	57	1.26
1572848--1572963	7	16.6	7	73	3	81	48	29	0	21	1.56
1572854--1572970	28	4.2	28	75	7	103	47	28	0	23	1.57
1572840--1572928	21	4.2	21	78	2	90	48	28	0	23	1.51
1573727--1573783	3	19.0	3	100	0	114	33	0	0	66	0.92
1574987--1575042	17	3.3	17	92	0	94	23	14	30	32	1.94
1575029--1575126	11	8.5	11	70	10	70	24	25	24	25	2.00
1575061--1575127	24	2.8	24	100	0	134	20	29	23	25	1.99
1575939--1575992	26	2.1	26	100	0	108	18	14	22	44	1.86
1576370--1576493	20	6.2	20	75	9	99	39	14	19	26	1.90
1576370--1576493	40	3.1	40	75	6	124	39	14	19	26	1.90
1578756--1578799	21	2.1	21	83	8	54	38	11	6	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578565--1580169	199	8.0	200	83	4	1607	38	13	12	34	1.83
1579359--1579397	20	1.9	21	89	5	62	30	7	15	46	1.74
1578613--1580169	399	3.9	395	80	5	1609	39	13	12	34	1.83
1580379--1580966	226	2.6	226	84	4	749	32	14	12	40	1.84
1581358--1581409	21	2.5	21	75	3	52	53	0	0	46	1.00
1584464--1584591	31	4.1	31	77	6	123	25	17	21	35	1.95
1584550--1584645	30	3.2	30	83	2	104	17	19	28	34	1.95
1586623--1586658	14	2.6	14	90	0	54	58	0	13	27	1.36
1588573--1588726	40	3.8	39	80	8	166	25	18	24	31	1.98
1588573--1588722	82	1.8	81	88	1	228	26	18	23	32	1.97
1591670--1591808	54	2.5	54	82	8	156	37	21	10	30	1.88
1591696--1591808	54	2.1	54	89	0	172	38	23	11	25	1.89
1594371--1594605	54	4.4	54	81	3	276	33	20	18	26	1.96
1594371--1594605	108	2.2	108	86	1	328	33	20	18	26	1.96
1598135--1598186	23	2.3	23	93	0	86	21	19	26	32	1.97
1602495--1602753	142	1.8	142	89	3	414	54	18	6	20	1.64
1602460--1602755	70	4.2	71	85	4	386	55	17	5	21	1.62
1604833--1604874	11	4.0	11	80	20	54	35	0	0	64	0.94
1606508--1606547	21	1.9	21	94	0	71	40	15	17	27	1.89
1606559--1606750	20	9.5	20	66	17	67	30	20	11	37	1.88
1609209--1609380	39	4.6	37	80	9	190	44	4	3	47	1.41
1609131--1609340	103	2.1	100	78	10	221	46	4	1	46	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610134--1611227	80	13.3	81	81	4	1192	24	19	24	30	1.98
1610069--1611243	248	4.7	248	96	1	2110	24	19	24	30	1.98
1617820--1618024	37	5.8	36	72	16	115	46	5	1	46	1.34
1617820--1617912	36	2.6	36	79	6	98	46	6	0	47	1.28
1617876--1617941	29	2.3	29	83	0	78	45	4	3	46	1.38
1617907--1618077	37	4.6	36	79	9	193	44	4	3	47	1.41
1617907--1618077	38	4.6	37	80	8	188	44	4	3	47	1.41
1618010--1618113	52	2.1	48	81	15	117	46	4	3	45	1.42
1618637--1618683	24	2.0	24	95	0	85	21	21	21	36	1.96
1621384--1621440	20	2.8	20	82	7	71	45	21	10	22	1.82

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