genome.fa.s7819.2.7.7.80.10.50.1000.8.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  8  of  17  ( 2007 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)
1463151--1463190	20	2.0	20	90	9	64	47	10	5	37	1.59
1463147--1463275	53	2.5	52	94	3	233	49	11	6	32	1.64
1463204--1463243	20	2.0	21	90	5	64	45	15	5	35	1.68
1472517--1472568	21	2.5	21	84	6	61	38	21	9	30	1.85
1473413--1473569	42	3.9	39	78	11	147	31	26	13	29	1.94
1473448--1473566	20	5.8	20	73	14	91	27	24	14	33	1.94
1473448--1473614	81	2.0	83	80	6	189	28	23	14	32	1.94
1473744--1473791	22	2.2	22	92	0	78	20	45	14	18	1.85
1474124--1474161	20	1.9	20	100	0	76	57	23	7	10	1.58
1474192--1474235	20	2.2	20	87	0	61	18	11	18	52	1.74
1474206--1474255	20	2.5	20	93	0	82	16	10	20	54	1.70
1475750--1475847	42	2.3	42	91	0	151	27	33	19	19	1.96
1475962--1476011	21	2.4	21	80	6	57	18	14	34	34	1.90
1476013--1476110	42	2.3	42	96	0	178	25	8	32	33	1.85
1476424--1476478	21	2.6	21	91	0	92	23	40	18	18	1.91
1478027--1478082	20	2.8	20	88	0	67	14	17	23	44	1.85
1480815--1480848	12	2.8	12	90	0	50	14	0	29	55	1.40
1481439--1481477	15	2.5	15	83	4	51	66	0	5	28	1.12
1481612--1481676	20	3.2	20	75	16	71	35	12	21	30	1.90
1481613--1481702	40	2.2	40	84	0	108	36	12	21	30	1.90
1481683--1481740	20	2.9	20	82	5	64	37	10	25	25	1.88
1481724--1481808	41	2.1	40	84	2	107	30	9	24	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481724--1481903	20	8.9	20	70	14	93	28	11	27	32	1.92
1488048--1488203	31	5.0	31	94	1	260	37	23	19	19	1.95
1491591--1491663	38	1.9	37	91	2	119	39	38	10	10	1.76
1491356--1491725	186	2.0	183	90	4	584	34	29	13	22	1.92
1500233--1500486	55	4.7	54	89	3	295	27	24	17	30	1.97
1500240--1500654	51	7.9	51	90	4	474	27	26	15	29	1.96
1502005--1502150	8	17.7	9	67	26	60	8	17	0	74	1.05
1502010--1502157	15	9.7	15	73	20	103	7	18	0	74	1.04
1502010--1502142	15	8.3	15	80	13	142	7	18	0	74	1.04
1502016--1502080	7	8.7	7	78	11	67	7	13	0	78	0.95
1502126--1502163	10	3.8	10	86	10	51	7	18	0	73	1.06
1502120--1502157	9	4.2	9	83	9	51	5	18	0	76	0.97
1517207--1517231	3	8.3	3	100	0	50	32	0	0	68	0.90
1519096--1519154	2	29.5	2	100	0	118	49	0	0	50	1.00
1523109--1523163	27	2.0	27	96	0	101	30	23	7	38	1.82
1526429--1526526	50	1.9	51	93	2	171	39	9	11	39	1.73
1527996--1528037	3	14.0	3	100	0	84	0	33	0	66	0.92
1530486--1530526	21	2.0	21	100	0	82	29	19	4	46	1.71
1535381--1535432	19	2.7	19	90	0	86	28	32	19	19	1.96
1535315--1535477	84	2.0	83	84	6	213	28	25	19	26	1.99
1535443--1535478	18	2.1	17	89	5	54	27	22	22	27	1.99
1541986--1542066	23	3.7	23	78	8	96	27	25	24	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541967--1542061	44	2.2	42	87	7	129	28	26	22	23	1.99
1544252--1544292	2	20.5	2	100	0	82	48	0	0	51	1.00
1544820--1544945	64	2.0	64	85	4	173	29	22	19	28	1.98
1544917--1544965	19	2.6	19	84	9	57	24	28	20	26	1.99
1546514--1546598	21	4.0	21	71	6	57	25	31	15	27	1.95
1547324--1547366	21	2.0	22	86	13	63	83	6	9	0	0.80
1547401--1547448	23	2.1	22	84	3	60	70	2	18	8	1.22
1550825--1550867	21	2.0	21	81	0	50	30	30	25	13	1.94
1552445--1552507	23	2.7	23	85	0	81	22	23	25	28	1.99
1555986--1556041	27	2.0	28	86	3	78	30	8	3	57	1.47
1561019--1561058	20	2.0	21	90	5	64	42	2	0	55	1.13
1561153--1561197	23	2.0	23	90	0	72	44	0	2	53	1.13
1561154--1561204	23	2.2	23	85	0	66	47	0	1	50	1.12
1561192--1561256	19	3.4	19	75	8	60	49	1	1	47	1.20
1561153--1561219	34	2.0	34	83	11	86	46	0	2	50	1.16
1561339--1561392	23	2.3	23	87	6	74	42	1	1	53	1.22
1561390--1561433	22	2.0	22	83	16	56	54	0	4	40	1.21
1561389--1561445	22	2.6	21	77	20	55	52	0	3	43	1.18
1563072--1563198	67	1.9	67	80	6	150	30	10	11	47	1.73
1567776--1567850	33	2.3	33	80	0	96	10	50	13	25	1.73
1567673--1567918	129	1.9	132	80	9	299	15	50	12	21	1.77
1567869--1567948	33	2.4	33	85	0	106	20	60	7	12	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567976--1568123	33	4.5	33	88	0	224	14	47	22	15	1.81
1567933--1568123	99	1.9	98	80	7	215	15	49	19	16	1.80
1569165--1569270	54	2.0	54	86	0	149	26	22	22	28	1.99
1580719--1580831	39	2.9	39	83	9	140	43	11	6	38	1.66
1580855--1580999	74	1.9	76	88	2	222	46	8	6	39	1.59
1580855--1581128	39	6.8	39	71	17	177	45	11	6	36	1.65
1581247--1581461	58	3.7	57	83	4	252	40	12	7	39	1.72
1581614--1581772	46	3.5	45	77	9	135	39	15	7	37	1.76
1583426--1583531	34	3.2	34	74	15	130	43	14	1	40	1.56
1583444--1583547	32	3.2	32	74	15	122	42	12	0	44	1.49
1583419--1583551	66	2.0	66	100	0	266	44	13	1	40	1.53
1584367--1584493	59	2.1	59	79	15	129	36	14	17	32	1.89
1584842--1584991	77	2.0	73	87	5	210	49	8	12	30	1.68
1585582--1585625	15	2.9	15	86	0	61	59	4	0	36	1.18
1589065--1589163	24	4.2	24	71	6	76	46	17	14	22	1.83
1591015--1591087	36	2.0	36	97	0	137	28	20	8	42	1.81
1595536--1595604	36	1.9	36	93	0	120	30	15	7	46	1.73
1597615--1597902	146	2.0	146	88	4	431	37	27	12	23	1.91
1598442--1598564	64	1.9	64	85	6	169	30	21	17	30	1.96
1598470--1598627	64	2.5	64	85	2	192	31	23	15	29	1.96
1612682--1612713	16	1.9	17	93	6	57	46	3	6	43	1.44
1627127--1627197	29	2.4	29	97	0	133	26	12	15	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627945--1627993	24	2.0	24	88	0	71	40	26	4	28	1.74
1628099--1628159	2	30.5	2	100	0	122	49	0	0	50	1.00
1630365--1630510	41	3.6	41	87	4	206	42	6	14	36	1.72
1632540--1632585	19	2.4	19	100	0	92	10	10	10	67	1.43
1635649--1635856	84	2.5	84	86	3	285	31	24	19	24	1.98
1635895--1636059	3	54.7	3	87	1	240	35	1	1	61	1.14
1648793--1648870	5	15.6	5	75	19	74	80	0	16	2	0.82
1648794--1648871	9	8.4	9	75	22	65	79	0	17	2	0.84
1648788--1648871	27	3.1	27	76	20	86	79	0	17	2	0.83
1648794--1648870	20	3.9	20	85	9	97	80	0	16	2	0.82
1649943--1650151	82	2.5	82	98	0	400	28	14	20	37	1.91
1650109--1650264	52	3.0	52	93	0	267	25	15	21	37	1.93
1649859--1650387	135	3.9	135	74	13	582	28	14	20	36	1.92
1650025--1650441	187	2.2	186	96	1	757	26	14	21	37	1.92
1650295--1650440	52	2.9	50	92	3	247	23	14	22	39	1.91
1651091--1651651	113	4.9	113	91	2	843	37	14	20	27	1.92
1651948--1652109	3	53.7	3	87	1	234	35	1	1	61	1.14
1652491--1652552	34	1.9	32	84	15	83	66	17	16	0	1.26
1654061--1655149	84	13.1	83	79	5	1099	29	25	20	24	1.99
1654061--1655149	165	6.5	164	81	5	1059	29	25	20	24	1.99
1654061--1655042	249	3.9	249	89	2	1316	29	25	20	24	1.99
1656502--1656640	40	3.5	39	87	7	190	42	7	15	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657422--1658000	289	2.0	289	99	0	1149	28	22	26	22	1.99
1660939--1661082	60	2.4	59	82	5	157	45	5	15	33	1.70
1670405--1670440	2	18.0	2	100	0	72	50	0	0	50	1.00
1671373--1671428	17	3.3	17	74	16	53	58	1	1	37	1.19
1671698--1671911	43	5.0	43	75	8	190	26	17	5	50	1.66
1672438--1672499	30	2.1	30	85	11	83	43	0	1	54	1.09
1676174--1676227	19	3.0	18	74	20	51	40	0	1	57	1.09
1677830--1677860	14	2.2	14	94	0	53	25	9	19	45	1.81
1678037--1678076	20	2.0	20	85	9	55	37	2	0	60	1.11
1678061--1678133	33	2.3	31	82	13	87	46	0	4	49	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17