genome.fa.s8958.2.7.7.80.10.50.1000.8.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: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2490255

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

This is table  8  of  11  ( 1296 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)
1468569--1468652	23	3.7	23	90	0	105	29	26	25	19	1.98
1469168--1469286	64	1.9	63	80	5	141	22	18	21	37	1.94
1472583--1472641	30	2.0	29	83	3	73	35	10	22	32	1.87
1472739--1472960	104	2.1	104	83	0	264	22	15	22	39	1.91
1475713--1475743	16	2.0	16	93	6	55	41	6	19	32	1.77
1478036--1478131	47	2.0	47	95	0	174	25	19	17	37	1.94
1478280--1478327	24	2.0	24	84	4	62	29	20	20	29	1.98
1481455--1481497	21	2.2	21	84	12	56	11	32	6	48	1.66
1499077--1499119	20	2.1	21	87	8	63	18	13	0	67	1.23
1499076--1499125	20	2.5	20	75	15	59	18	18	0	64	1.30
1505571--1505624	21	2.5	21	81	3	72	37	5	22	35	1.77
1505637--1505667	14	2.2	14	94	0	53	32	16	12	38	1.86
1505765--1505889	48	2.5	49	72	11	112	44	1	0	52	1.16
1505868--1505937	30	2.3	31	76	13	74	45	0	4	50	1.21
1505978--1506040	23	2.7	23	80	5	63	46	1	1	50	1.20
1506016--1506068	20	2.7	20	75	16	56	49	1	0	49	1.12
1506024--1506179	30	5.5	29	71	20	100	48	1	0	50	1.14
1506380--1506493	42	2.7	42	85	4	133	52	15	10	21	1.72
1507686--1507716	2	15.5	2	100	0	62	48	0	0	51	1.00
1509581--1509613	3	11.3	3	93	6	59	33	0	0	66	0.92
1510755--1510790	16	2.2	16	100	0	72	25	16	0	58	1.38
1516651--1516748	31	3.1	31	79	5	90	47	15	7	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516671--1516748	32	2.5	31	81	6	86	48	12	7	30	1.69
1516688--1516768	31	2.6	31	82	2	90	44	16	8	30	1.77
1517686--1517836	60	2.5	60	82	5	164	43	4	19	31	1.72
1526070--1526114	23	1.9	23	82	13	56	51	6	0	42	1.28
1527431--1527543	21	5.5	21	74	4	122	20	18	26	34	1.96
1527450--1527561	20	5.5	20	74	4	116	16	21	25	37	1.93
1527425--1527590	41	4.0	41	94	3	273	19	19	24	36	1.95
1528686--1528796	55	2.0	55	85	0	150	46	15	4	33	1.66
1532318--1532342	6	4.2	6	100	0	50	68	0	0	32	0.90
1534416--1534495	40	2.0	40	85	4	108	41	15	27	16	1.88
1535499--1535542	22	2.0	23	86	4	63	79	0	13	6	0.92
1542074--1542116	20	2.2	20	95	0	77	16	2	51	30	1.57
1545573--1545597	10	2.5	10	100	0	50	52	20	8	20	1.71
1563499--1563526	14	2.0	14	100	0	56	57	7	0	35	1.26
1570339--1570387	23	2.1	23	100	0	98	48	4	16	30	1.64
1571712--1571752	21	2.0	21	100	0	82	58	14	4	21	1.55
1572754--1572820	34	2.0	33	85	2	89	20	25	17	35	1.95
1573185--1573240	21	2.8	20	94	5	103	25	23	23	28	1.99
1584390--1584420	13	2.4	13	100	0	62	51	0	35	12	1.40
1587397--1587430	17	2.1	16	88	5	50	14	8	0	76	1.01
1593507--1593731	80	2.8	80	81	6	215	28	23	8	40	1.83
1593532--1593743	80	2.6	81	80	8	236	29	22	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593532--1593746	81	2.7	80	81	5	247	29	22	10	38	1.87
1593703--1594504	68	11.8	68	90	0	1194	29	23	14	32	1.94
1593703--1594504	271	3.0	272	89	0	1241	29	23	14	32	1.94
1594721--1594866	54	2.7	54	88	4	213	33	17	10	37	1.85
1597737--1597772	15	2.4	15	90	0	54	36	13	2	47	1.58
1597750--1597806	23	2.5	23	88	0	87	45	8	1	43	1.45
1600074--1600114	11	3.5	12	80	12	50	73	2	14	9	1.19
1601221--1601263	18	2.4	18	92	0	77	0	16	0	83	0.64
1602934--1602966	17	1.9	17	93	0	57	87	6	0	6	0.65
1609670--1609709	21	1.9	21	84	0	53	30	20	22	27	1.98
1616694--1616765	21	3.4	21	92	0	108	25	22	25	27	2.00
1619887--1619913	13	2.1	13	100	0	54	77	0	14	7	0.97
1620454--1620871	208	2.0	209	99	0	820	38	17	18	25	1.92
1621439--1621506	3	23.7	3	88	8	106	36	0	0	63	0.95
1622177--1622278	45	2.3	45	96	1	188	32	13	18	35	1.90
1622894--1622996	28	3.7	29	84	7	133	31	4	26	37	1.77
1627820--1627886	33	2.0	34	97	2	127	34	17	20	26	1.96
1629750--1629797	19	2.5	19	96	0	87	16	33	33	16	1.92
1629740--1629783	10	4.5	10	80	5	54	20	36	29	13	1.91
1629807--1629863	29	2.0	29	92	0	96	31	7	24	36	1.82
1629808--1629884	29	2.7	29	85	4	93	32	6	23	37	1.80
1632051--1632075	13	1.9	13	100	0	50	16	4	8	72	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639584--1639630	24	2.0	22	84	8	58	57	6	2	34	1.36
1643753--1643827	23	3.4	22	77	5	89	24	24	26	25	2.00
1643753--1643815	21	2.9	22	80	4	74	22	25	25	26	2.00
1643937--1644013	23	3.5	22	78	5	93	23	23	27	25	2.00
1643678--1644048	184	2.0	185	99	0	735	31	16	24	26	1.96
1643937--1644013	21	3.5	21	80	5	91	23	23	27	25	2.00
1645003--1645058	23	2.4	23	84	0	67	30	26	23	19	1.98
1645021--1645065	23	2.0	23	95	0	81	22	26	31	20	1.98
1645082--1645400	103	3.1	103	95	2	581	37	24	12	25	1.91
1645941--1645983	21	2.0	21	86	0	59	18	20	27	32	1.96
1647220--1647252	16	2.1	16	100	0	66	45	18	0	36	1.49
1652081--1652192	57	2.0	57	87	5	165	29	19	21	29	1.98
1652081--1652209	57	2.3	55	83	10	154	27	19	22	30	1.98
1652799--1652871	18	3.9	18	80	7	83	27	28	20	23	1.99
1653491--1653542	19	2.7	19	96	0	95	21	30	19	28	1.97
1661862--1661904	21	2.0	22	90	4	70	55	0	0	44	0.99
1662415--1662491	38	2.1	36	83	9	93	33	3	1	61	1.23
1662433--1662474	22	2.0	21	90	4	66	35	4	0	59	1.19
1662430--1662493	22	2.8	23	69	23	55	32	3	0	64	1.10
1662458--1662527	16	4.5	15	80	16	72	37	1	1	60	1.15
1662475--1662552	32	2.4	32	77	10	77	39	1	2	56	1.21
1667389--1667457	29	2.4	29	100	0	138	46	24	0	28	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668027--1668058	17	1.9	17	93	6	57	50	0	0	50	1.00
1668327--1668379	20	2.7	20	100	0	106	37	20	20	20	1.94
1668366--1668452	20	4.3	20	91	0	138	29	26	19	24	1.98
1668286--1668439	40	3.8	39	77	10	123	30	24	19	25	1.98
1669294--1669347	24	2.2	24	93	0	90	20	18	20	40	1.91
1671748--1671841	20	4.8	18	83	12	82	36	24	19	20	1.95
1671748--1671841	40	2.3	40	84	10	113	36	24	19	20	1.95
1671833--1671908	33	2.3	34	93	2	127	48	18	21	11	1.79
1671923--1671998	33	2.3	34	97	2	145	11	23	19	44	1.84
1671945--1671998	14	3.5	14	73	22	54	11	24	20	44	1.83
1672124--1672160	14	2.6	14	86	0	56	48	21	0	29	1.50
1673530--1673621	42	2.2	42	82	3	105	21	17	35	25	1.95
1674132--1674238	20	5.3	20	89	4	153	37	20	17	24	1.94
1674263--1674418	34	4.4	34	74	13	154	17	19	20	42	1.90
1674285--1674441	20	8.5	20	76	18	144	18	19	21	41	1.91
1676333--1676472	39	3.7	39	79	10	157	43	24	17	14	1.86
1676333--1676441	20	5.5	20	83	2	121	42	25	17	14	1.87
1676330--1676472	59	2.5	59	83	6	181	44	23	17	13	1.85
1676809--1676874	22	3.0	22	86	0	87	22	15	36	25	1.93
1677071--1677139	20	3.5	20	91	0	111	20	18	18	42	1.90
1677577--1677632	19	3.3	19	63	31	54	17	16	14	51	1.76
1677523--1677656	31	4.3	31	89	0	169	19	16	12	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677866--1677904	11	3.6	11	86	3	53	48	0	2	48	1.15
1678937--1678975	17	2.2	18	95	4	71	66	0	0	33	0.92
1680856--1680932	4	16.4	5	82	15	62	20	2	0	76	0.90
1680857--1680909	4	13.0	4	86	13	65	22	0	0	77	0.77
1680857--1680928	27	2.7	27	89	4	101	20	2	0	76	0.91
1680857--1680928	23	3.1	23	86	11	87	20	2	0	76	0.91
1680857--1680932	15	4.6	17	77	22	83	21	2	0	76	0.91
1680987--1681017	16	1.9	16	93	0	53	12	9	6	70	1.31
1680878--1681133	83	3.1	81	73	13	211	18	8	3	69	1.29
1681003--1681044	13	3.2	13	96	3	75	7	14	7	71	1.29

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