genome.fa.s8259.2.7.7.80.10.50.1000.7.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: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373650

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

This is table  7  of  11  ( 1275 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)
1520375--1521809	718	2.0	718	95	0	2602	31	18	17	32	1.94
1522789--1523565	199	3.9	200	88	3	1117	38	12	15	33	1.85
1523534--1523583	21	2.4	21	96	0	91	44	16	16	24	1.86
1527021--1528142	199	5.6	200	90	2	1627	39	12	14	33	1.84
1527021--1528143	399	2.8	397	88	3	1632	39	12	14	33	1.84
1529511--1529545	17	2.0	18	88	5	54	31	14	8	45	1.75
1530946--1531015	6	11.7	6	80	6	61	30	8	7	54	1.58
1530946--1531014	24	2.9	24	89	4	86	30	7	7	55	1.55
1530946--1531015	30	2.3	30	87	0	104	30	8	7	54	1.58
1532129--1532597	247	1.9	247	87	0	688	42	15	14	26	1.86
1535107--1535443	131	2.6	131	80	4	367	42	15	9	32	1.79
1538288--1538368	42	2.0	41	87	2	117	23	22	22	32	1.98
1538008--1538908	246	3.7	246	89	1	1358	28	21	18	31	1.97
1538780--1538865	41	2.1	42	82	2	102	27	18	19	33	1.96
1540861--1541167	131	2.3	131	83	5	379	42	13	11	32	1.79
1543339--1543364	3	8.7	3	100	0	52	65	0	0	34	0.93
1543718--1544418	226	3.1	225	87	2	978	32	16	13	37	1.87
1547009--1547071	3	20.3	3	83	6	81	36	1	0	61	1.05
1546995--1547071	9	8.6	9	80	8	59	38	1	0	59	1.06
1548521--1548560	17	2.4	17	86	0	53	12	10	17	60	1.59
1548514--1548552	17	2.3	17	90	0	60	15	12	17	53	1.72
1553421--1553476	3	18.7	3	80	14	62	62	1	0	35	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553421--1553476	16	3.6	16	85	9	71	62	1	0	35	1.06
1553421--1553476	22	2.6	21	81	15	62	62	1	0	35	1.06
1553597--1554145	54	10.2	54	87	2	730	22	24	19	32	1.97
1553589--1554145	217	2.6	214	86	5	752	22	24	20	32	1.98
1555396--1555433	15	2.5	15	86	0	58	5	18	0	76	0.97
1555380--1555430	23	2.2	24	82	10	61	5	17	0	76	0.98
1559927--1560012	34	2.5	35	88	3	120	23	32	25	18	1.97
1559950--1560011	15	3.9	15	72	15	61	22	30	24	22	1.99
1560050--1560087	20	1.9	20	94	0	67	18	31	26	23	1.97
1560125--1560166	21	2.0	21	95	0	75	23	21	28	26	1.99
1560195--1560234	20	1.9	21	85	10	55	37	37	10	15	1.80
1563445--1563530	33	2.5	33	83	5	100	23	34	22	19	1.96
1563643--1563683	21	2.0	21	95	0	73	24	19	29	26	1.98
1564585--1564736	55	2.8	54	88	1	223	23	22	11	42	1.87
1568348--1568404	3	19.0	3	82	7	71	59	1	1	36	1.18
1568644--1568710	32	2.1	31	84	13	84	46	2	2	47	1.33
1569547--1569664	2	58.5	2	69	20	59	50	2	6	40	1.43
1569547--1569664	24	5.0	24	73	18	97	50	2	6	40	1.43
1569609--1569692	26	3.4	25	86	6	91	51	3	5	39	1.44
1569547--1569730	19	10.0	18	70	18	64	49	2	7	40	1.45
1572715--1572754	19	2.2	19	86	8	57	37	5	5	52	1.45
1573134--1573190	23	2.6	23	86	5	82	36	15	17	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578695--1578760	30	2.2	30	100	0	132	40	13	18	27	1.88
1579630--1579666	10	3.5	11	82	14	51	13	21	29	35	1.92
1582329--1582373	18	2.5	18	96	0	81	33	13	0	53	1.40
1582329--1582404	18	4.0	18	85	11	80	34	10	1	53	1.43
1582363--1582463	22	4.6	22	79	3	107	37	5	3	52	1.45
1582445--1582483	19	2.1	19	85	9	53	35	0	2	61	1.10
1582560--1582620	22	2.8	22	82	9	79	32	6	4	55	1.47
1582576--1582640	14	5.2	13	69	25	50	36	7	4	50	1.52
1582574--1582622	7	6.9	7	77	13	55	34	8	2	55	1.41
1582530--1582962	162	2.8	148	76	12	460	39	9	3	48	1.53
1582710--1582920	22	9.2	23	70	18	122	37	6	3	52	1.46
1582741--1582787	15	3.5	15	71	28	52	36	4	4	55	1.39
1582796--1582831	2	17.5	2	88	5	54	52	2	0	44	1.15
1582716--1582816	47	2.1	48	82	10	127	38	4	3	52	1.42
1582822--1582920	14	6.7	15	69	21	57	37	9	4	49	1.53
1582829--1582859	16	1.9	16	100	0	62	38	16	0	45	1.47
1582878--1582932	22	2.5	22	93	0	92	34	7	5	52	1.52
1582886--1582934	7	6.9	7	76	4	53	34	8	4	53	1.50
1582888--1582992	14	7.8	14	66	24	57	39	9	3	47	1.54
1583727--1583790	20	3.3	20	89	4	87	39	21	4	34	1.75
1584241--1584289	2	24.0	2	80	12	55	51	4	2	42	1.32
1584441--1584489	22	2.2	22	85	0	62	57	4	4	34	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584502--1584532	16	1.9	16	100	0	62	45	0	16	38	1.47
1585435--1585510	18	4.3	18	86	3	118	17	47	21	14	1.82
1585483--1585527	22	2.0	22	86	0	63	15	44	24	15	1.85
1585471--1585519	17	3.4	13	77	22	53	16	46	22	14	1.82
1587980--1588057	24	3.2	24	76	7	68	19	16	17	46	1.85
1587994--1588076	24	3.5	24	74	0	76	21	13	18	46	1.82
1588248--1588278	2	15.5	2	100	0	62	48	0	0	51	1.00
1590444--1590491	7	6.7	7	77	13	53	54	2	8	35	1.42
1590424--1590496	14	5.8	14	71	26	56	50	5	6	36	1.52
1590446--1591270	22	36.7	22	67	21	167	51	4	8	36	1.51
1590572--1590624	8	7.1	7	79	8	52	62	3	1	32	1.24
1590571--1591343	45	17.2	43	68	20	239	52	3	8	35	1.50
1590793--1591040	7	34.9	7	68	21	90	52	2	9	35	1.48
1590822--1590884	29	2.2	30	85	8	94	57	3	4	34	1.36
1590831--1590897	29	2.3	29	92	0	107	52	1	8	37	1.42
1590638--1591040	166	2.5	164	77	15	385	51	3	9	35	1.51
1590946--1591039	43	2.3	38	68	17	64	51	3	9	36	1.51
1590603--1591054	199	2.3	194	85	6	589	51	3	8	35	1.52
1590807--1591270	14	32.3	14	67	22	94	51	3	8	35	1.50
1590665--1591243	199	2.9	195	81	11	507	51	3	8	35	1.51
1591171--1591249	25	3.0	25	80	12	88	55	3	3	36	1.36
1591202--1591336	8	18.6	7	68	19	55	51	2	8	36	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1591224--1591353	50	2.7	46	83	12	140	53	3	8	35	1.47
1592155--1592225	36	1.9	37	88	2	108	32	33	0	33	1.58
1593134--1593240	39	2.7	38	80	12	110	9	6	11	72	1.26
1593250--1593309	27	2.3	27	80	11	70	21	8	13	56	1.63
1593338--1593400	21	2.9	21	81	9	81	14	6	6	73	1.24
1593361--1593427	16	4.1	16	76	18	66	19	1	4	74	1.07
1593361--1593430	28	2.5	27	80	15	79	20	1	4	74	1.07
1593338--1593426	44	2.0	44	84	4	117	16	4	5	73	1.20
1593361--1593427	32	2.1	33	86	8	93	19	1	4	74	1.07
1595483--1595542	29	2.1	29	84	6	77	40	3	16	40	1.65
1597529--1597625	36	2.7	36	91	0	167	25	15	15	43	1.86
1598762--1598875	56	2.0	57	87	1	167	27	16	9	46	1.78
1598988--1599043	22	2.5	22	82	5	69	25	8	30	35	1.86
1608070--1608125	23	2.4	23	90	0	85	23	17	23	35	1.95
1608072--1608133	23	2.7	23	85	5	63	22	20	22	33	1.97
1608114--1608171	23	2.5	23	81	10	64	27	24	20	27	1.99
1620290--1620340	13	3.6	13	76	19	57	66	5	11	15	1.41
1620280--1620343	30	2.1	30	100	0	128	64	6	9	20	1.45
1620280--1620327	17	3.1	17	74	20	59	62	6	8	22	1.46
1622629--1622709	27	2.8	28	78	16	78	74	6	8	11	1.23
1628829--1628862	17	2.0	17	94	0	59	8	11	26	52	1.67
1638202--1638233	16	2.0	16	100	0	64	68	18	0	12	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638557--1638612	2	28.0	2	100	0	112	50	0	0	50	1.00
1640410--1640478	28	2.5	28	87	0	111	43	33	8	14	1.76
1640411--1640511	33	3.2	32	74	17	104	45	31	7	14	1.74
1640943--1641108	86	1.9	86	95	2	298	42	10	12	34	1.77
1641971--1642020	23	2.2	23	96	0	91	36	22	8	34	1.83
1642529--1642578	23	2.2	23	96	0	91	36	22	8	34	1.83
1641540--1642934	559	2.5	558	95	1	2517	39	10	8	41	1.70
1645557--1646089	184	2.9	184	96	0	969	33	16	14	36	1.88
1647468--1647518	12	4.2	12	87	0	66	21	33	5	39	1.78
1647468--1647518	6	8.5	6	84	0	57	21	33	5	39	1.78

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