genome.fa.s8439.2.7.7.80.10.50.1000.6.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: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2703160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1013 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)
1385478--1385520	22	2.0	22	100	0	86	34	0	13	51	1.42
1385500--1385622	31	3.7	31	82	17	156	35	0	12	52	1.39
1385366--1385654	124	2.2	130	88	6	428	34	0	12	52	1.39
1385602--1385644	22	2.0	22	100	0	86	39	0	9	51	1.34
1385451--1385687	124	1.9	122	86	7	300	35	0	11	52	1.42
1410283--1410370	44	2.0	44	97	0	167	30	20	10	38	1.86
1412284--1412335	25	2.1	25	100	0	104	0	25	23	51	1.48
1414793--1414827	18	1.9	18	88	0	52	34	22	11	31	1.90
1415010--1415084	22	3.5	21	82	8	80	18	41	14	25	1.89
1415633--1415686	25	2.2	25	78	18	60	20	9	18	51	1.73
1418137--1418181	20	2.2	20	88	0	63	42	26	15	15	1.87
1418498--1418564	20	3.3	20	75	8	73	25	20	25	28	1.99
1422814--1423173	180	2.0	181	96	3	663	26	18	18	36	1.94
1426675--1426707	2	16.5	2	100	0	66	48	0	0	51	1.00
1434962--1435027	26	2.5	26	100	0	132	21	15	18	45	1.85
1435166--1435222	30	2.0	28	89	6	87	40	19	8	31	1.82
1436157--1436528	186	2.0	185	98	1	719	28	26	23	21	1.99
1440082--1440120	17	2.4	16	83	8	51	35	0	0	64	0.94
1440568--1440599	17	1.9	16	93	6	55	25	25	25	25	2.00
1440668--1440728	27	2.3	27	97	2	115	29	36	21	13	1.91
1451171--1451229	3	19.0	3	86	6	82	62	0	0	37	0.95
1451356--1451503	45	3.3	45	96	0	260	36	20	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451437--1452462	76	13.6	76	96	1	1879	35	21	20	21	1.96
1451437--1452462	150	6.8	152	96	1	1879	35	21	20	21	1.96
1451437--1452462	226	4.5	227	96	1	1875	35	21	20	21	1.96
1453531--1453642	54	2.1	54	87	0	161	21	24	16	38	1.93
1454828--1455167	114	3.0	114	94	0	572	31	19	14	33	1.92
1457414--1457447	17	2.1	16	94	5	59	0	20	0	79	0.73
1461988--1462030	9	4.9	9	81	13	54	67	0	2	30	1.03
1461993--1462040	18	2.6	18	73	3	51	68	0	2	29	1.01
1462025--1462066	17	2.5	17	85	11	59	73	0	4	21	1.01
1464264--1464325	3	20.0	3	80	6	70	59	0	0	40	0.97
1469144--1469210	29	2.3	29	89	0	107	41	11	13	32	1.81
1473904--1473970	29	2.3	29	89	0	107	41	11	13	32	1.81
1479799--1479848	25	2.0	26	84	11	68	64	12	4	20	1.43
1479913--1479958	23	2.1	21	84	8	56	58	2	4	34	1.30
1480551--1480596	2	23.5	2	95	4	85	50	0	0	50	1.00
1482777--1482820	16	2.6	17	82	3	54	45	0	2	52	1.13
1503186--1503227	17	2.4	18	84	11	52	47	2	0	50	1.14
1504557--1504608	2	26.0	2	100	0	104	50	0	0	50	1.00
1506091--1506134	6	7.3	6	100	0	88	34	0	47	18	1.49
1507773--1507805	5	6.8	5	93	6	59	42	0	0	57	0.98
1509325--1509364	17	2.3	19	79	16	50	35	10	7	47	1.65
1515098--1515151	23	2.3	23	81	15	67	35	0	3	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527909--1527971	14	4.4	14	80	4	72	26	20	6	46	1.75
1527906--1527969	29	2.3	28	86	7	94	26	18	6	48	1.72
1535906--1536312	209	2.0	207	96	1	751	33	7	21	37	1.81
1536883--1536914	8	4.0	8	100	0	64	62	0	37	0	0.95
1541774--1541804	2	15.5	2	100	0	62	48	0	0	51	1.00
1541804--1541838	17	2.0	18	88	5	54	62	5	0	31	1.18
1545444--1546287	291	3.0	276	91	5	1399	27	16	16	39	1.90
1554741--1554798	29	2.0	29	86	6	82	13	34	27	24	1.93
1554855--1555021	20	8.2	20	88	5	237	23	32	32	11	1.90
1554837--1555021	59	3.2	59	87	6	236	23	32	31	11	1.90
1554835--1555054	10	21.1	10	71	9	154	23	31	34	10	1.89
1554965--1555058	33	2.8	33	90	0	134	24	26	39	9	1.86
1555062--1555117	29	1.9	29	85	0	76	25	30	32	12	1.92
1558777--1558877	48	2.1	48	94	0	175	12	6	44	35	1.70
1559130--1559156	2	13.5	2	100	0	54	51	0	48	0	1.00
1572780--1572848	30	2.3	31	89	5	113	31	13	20	34	1.91
1572791--1572848	30	1.9	30	100	0	116	37	10	17	34	1.84
1573058--1573146	43	2.1	43	97	0	169	21	15	12	50	1.77
1590796--1590836	17	2.4	18	76	12	50	41	2	0	56	1.13
1602808--1602853	16	2.7	17	90	6	67	36	6	26	30	1.82
1606469--1606500	6	5.3	6	100	0	64	34	0	50	15	1.45
1607852--1608027	60	2.9	58	79	8	192	31	22	5	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608427--1608494	19	3.5	20	79	15	72	48	0	1	50	1.10
1608430--1608468	9	4.1	9	83	9	51	48	0	0	51	1.00
1610455--1610490	2	18.0	2	100	0	72	50	0	0	50	1.00
1610614--1610685	35	2.1	35	91	0	117	25	5	29	40	1.78
1611964--1612000	16	2.3	16	90	0	56	45	5	2	45	1.40
1617133--1617175	21	2.1	20	82	4	50	53	0	2	44	1.13
1619926--1619956	15	2.1	15	93	0	53	19	16	9	54	1.68
1624587--1624748	83	2.0	83	97	2	308	27	16	12	43	1.84
1627976--1628010	15	2.3	15	90	0	52	8	5	11	74	1.22
1641556--1641597	8	5.0	8	78	21	50	0	61	0	38	0.96
1650469--1650521	19	2.7	20	77	16	65	41	1	7	49	1.42
1650535--1650631	45	2.2	44	87	5	142	50	3	2	44	1.29
1650534--1650624	25	3.9	24	71	20	75	50	3	2	43	1.30
1651043--1651090	15	3.2	15	84	0	69	4	54	0	41	1.20
1665046--1665078	17	2.0	16	94	5	57	60	0	0	39	0.97
1673370--1673399	2	15.5	2	93	6	53	50	0	0	50	1.00
1673433--1673457	12	2.1	12	100	0	50	0	8	48	44	1.32
1675860--1675895	3	12.0	3	100	0	72	33	0	0	66	0.92
1698605--1698662	21	2.8	20	73	19	55	22	8	1	67	1.27
1698605--1698665	10	5.8	10	73	9	50	21	8	1	68	1.24
1703713--1703806	21	4.5	21	90	5	120	19	35	25	20	1.96
1704319--1704385	34	2.0	34	93	0	116	49	5	4	40	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704848--1704890	21	2.1	21	95	4	79	23	30	41	4	1.74
1704869--1705295	128	3.4	127	97	0	802	32	19	25	22	1.97
1705362--1705400	8	5.0	8	81	6	53	38	28	0	33	1.57
1713353--1713388	12	3.1	12	88	4	56	52	2	0	44	1.15
1713329--1713390	11	5.5	11	73	3	61	46	1	1	50	1.20
1714625--1714883	128	2.0	129	97	1	493	31	22	8	37	1.85
1735752--1735786	17	2.1	17	88	0	52	48	0	11	40	1.39
1746495--1746528	12	2.8	12	81	0	50	35	41	5	17	1.74
1747064--1747108	12	3.8	12	81	0	54	13	8	44	33	1.75
1755703--1755736	3	11.3	3	93	0	59	38	0	0	61	0.96
1758456--1758645	6	30.7	6	85	9	213	32	46	16	4	1.68
1759146--1759256	6	18.5	6	100	0	222	0	16	50	33	1.45
1759359--1759578	20	10.8	20	83	14	281	16	20	26	37	1.93
1759352--1759578	40	5.6	40	93	3	316	16	19	25	38	1.92
1759352--1759640	60	4.7	64	81	12	290	15	19	23	40	1.91
1759352--1759659	20	15.2	20	76	15	253	15	19	23	41	1.90
1761610--1761755	49	3.0	49	86	4	181	40	13	24	21	1.89
1762970--1763109	57	2.4	57	82	4	147	38	18	5	37	1.75
1764498--1764538	19	2.1	20	86	4	57	73	12	9	4	1.24
1764996--1765081	37	2.3	38	78	15	106	46	0	2	51	1.13
1768081--1768221	68	2.0	72	87	10	211	51	9	7	31	1.62
1773565--1773602	17	2.2	17	100	0	76	34	31	5	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773722--1773848	51	2.6	51	91	7	201	37	26	8	27	1.86
1785126--1785150	2	12.5	2	100	0	50	48	0	0	52	1.00
1785373--1785545	21	8.4	21	77	2	136	23	17	24	34	1.96
1785415--1785466	20	2.6	20	87	0	77	15	23	17	44	1.86
1785376--1785544	61	2.7	62	82	1	205	23	17	23	34	1.96
1785435--1785528	41	2.3	41	94	0	161	20	20	24	35	1.96
1785380--1785571	61	3.1	61	79	5	174	24	16	23	35	1.95
1786201--1786225	6	4.2	6	100	0	50	16	16	52	16	1.76
1787525--1787613	5	18.6	5	76	15	66	75	3	1	20	1.01
1787520--1787613	4	22.2	4	75	21	61	75	3	1	20	1.00

Tables:   1   2   3   4   5   6   7   8   9