genome.fa.s8413.2.7.7.80.10.50.1000.5.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: VEPZ01008413.1 Hibiscus syriacus cultivar Beakdansim tig00111191_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2772818

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

This is table  5  of  10  ( 1103 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)
1381203--1381608	214	1.9	216	81	6	506	40	8	14	36	1.78
1381615--1381692	15	5.3	15	71	21	58	50	3	7	38	1.50
1381611--1381691	23	3.5	23	73	23	89	49	3	7	39	1.49
1381571--1381708	45	3.1	45	87	8	178	49	2	7	39	1.47
1381612--1381712	45	2.2	45	96	3	184	49	3	6	39	1.48
1382337--1382380	13	3.3	13	79	17	54	52	0	4	43	1.22
1392043--1392093	20	2.5	21	78	15	63	39	11	3	45	1.59
1393393--1393942	106	5.2	106	80	4	556	37	12	12	37	1.81
1395551--1395701	39	3.9	39	86	0	196	31	25	27	15	1.96
1401280--1401432	39	3.9	39	87	3	184	31	23	26	18	1.97
1401280--1401432	77	2.0	78	82	1	191	31	23	26	18	1.97
1402262--1402306	23	2.0	23	86	0	63	13	11	48	26	1.75
1402263--1402312	23	2.2	23	81	0	55	16	14	44	26	1.85
1402780--1402836	29	1.9	30	85	3	80	38	15	7	38	1.75
1404425--1404484	20	3.0	20	75	4	59	38	20	18	23	1.93
1404505--1404537	15	2.2	15	94	0	57	33	6	18	42	1.75
1418984--1419016	2	16.5	2	100	0	66	51	0	0	48	1.00
1428963--1429154	39	5.0	39	75	5	167	33	22	25	19	1.97
1429967--1430005	16	2.4	16	95	0	69	17	17	46	17	1.85
1434433--1434459	5	5.4	5	100	0	54	0	18	37	44	1.50
1434548--1434615	19	3.7	19	77	16	81	2	14	30	51	1.57
1434552--1434615	18	3.6	18	76	23	80	3	14	29	53	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435631--1435858	22	10.0	22	70	16	137	45	4	9	40	1.57
1435654--1435795	47	3.1	47	73	19	145	42	4	9	42	1.59
1435689--1435857	69	2.4	68	84	1	194	45	4	8	41	1.55
1435856--1435895	21	1.9	21	84	0	53	52	5	2	40	1.37
1440521--1440588	24	2.8	24	84	0	73	33	26	13	26	1.93
1454342--1454396	25	2.3	23	82	11	74	45	1	7	45	1.41
1454350--1454398	25	2.0	25	95	0	89	51	2	6	40	1.38
1454364--1454536	37	4.6	37	80	8	181	48	3	7	40	1.48
1454365--1454510	74	2.0	73	86	5	204	47	3	8	39	1.51
1454365--1454530	75	2.2	74	83	3	208	48	3	7	40	1.50
1454370--1454557	75	2.5	74	80	9	193	47	3	6	42	1.45
1458354--1458394	3	13.7	3	100	0	82	65	0	0	34	0.93
1461180--1461265	5	16.4	5	73	14	50	24	4	1	69	1.14
1461180--1461265	11	8.2	11	68	18	58	24	4	1	69	1.14
1461431--1461466	16	2.2	17	90	5	56	41	0	2	55	1.14
1461530--1461576	19	2.5	19	93	6	78	19	21	4	55	1.60
1461793--1461833	16	2.5	17	84	8	57	24	4	0	70	1.06
1462848--1462893	6	8.2	6	81	13	62	19	0	0	80	0.71
1462849--1462892	15	3.1	15	87	12	67	20	0	0	79	0.73
1473156--1473967	105	7.6	105	85	6	1006	33	26	18	22	1.97
1475447--1475503	29	2.0	29	86	6	80	21	7	0	71	1.08
1475414--1475498	35	2.5	33	81	14	95	24	4	1	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475759--1475808	19	2.6	19	90	6	75	18	24	4	54	1.61
1476023--1476063	16	2.5	17	84	8	57	24	4	0	70	1.06
1478031--1478063	15	2.2	15	100	0	66	51	12	6	30	1.63
1479202--1479242	13	3.2	13	85	0	64	36	0	0	63	0.95
1479197--1479254	26	2.3	26	80	14	68	44	0	1	53	1.10
1479269--1479351	29	2.8	29	81	13	82	50	1	1	46	1.16
1479269--1479351	17	5.5	15	72	21	68	50	1	1	46	1.16
1479269--1479324	16	3.6	16	79	16	57	48	0	1	50	1.11
1479269--1479352	30	2.8	30	81	13	93	50	1	1	47	1.16
1479658--1479693	2	18.0	2	100	0	72	50	0	0	50	1.00
1479846--1479879	2	17.0	2	100	0	68	50	0	0	50	1.00
1480536--1480615	5	16.4	5	69	23	55	61	2	0	36	1.10
1480536--1480614	30	2.5	31	84	10	90	60	2	0	36	1.10
1480560--1480616	24	2.4	23	75	11	62	64	0	0	35	0.93
1497755--1497809	2	27.5	2	100	0	110	50	0	0	49	1.00
1499198--1499254	30	1.9	30	85	0	78	43	5	14	36	1.67
1504384--1505047	82	8.1	82	86	1	884	25	15	19	38	1.92
1504384--1505047	247	2.7	244	87	2	936	25	15	19	38	1.92
1506214--1506339	36	3.5	36	80	9	141	32	23	13	30	1.93
1514934--1515227	147	2.0	147	93	0	498	37	15	16	30	1.90
1517723--1517804	20	3.7	20	69	27	67	19	26	12	41	1.87
1517695--1517957	47	5.6	47	90	4	388	22	22	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517695--1517958	140	1.9	142	88	5	410	23	22	10	43	1.84
1517720--1517957	93	2.5	94	90	2	388	22	23	11	43	1.85
1518526--1518576	20	2.5	20	81	9	59	33	17	19	29	1.95
1520372--1520451	38	2.2	35	82	10	90	27	16	25	31	1.96
1521365--1521461	45	2.2	45	86	0	131	22	9	27	40	1.85
1525625--1525660	18	2.0	18	100	0	72	33	16	16	33	1.92
1525882--1525932	23	2.3	23	96	3	95	7	31	15	45	1.75
1526112--1526170	28	2.1	28	81	6	66	32	8	3	55	1.46
1543709--1543755	19	2.5	19	82	0	67	17	14	2	65	1.36
1545163--1545257	50	1.9	50	81	8	115	21	14	25	38	1.91
1550562--1550659	19	5.1	19	75	13	74	29	24	25	20	1.99
1550585--1550659	29	2.5	31	82	8	93	30	22	25	21	1.99
1550566--1550659	9	9.8	9	71	11	62	29	24	25	20	1.99
1557773--1557810	7	5.4	7	93	0	67	28	28	26	15	1.96
1557824--1557863	19	2.1	19	90	0	62	30	30	22	17	1.97
1557835--1557929	10	9.9	10	81	10	110	29	27	26	16	1.97
1557835--1557929	19	4.9	20	84	8	110	29	27	26	16	1.97
1557836--1557929	29	3.3	28	85	8	127	28	27	26	17	1.97
1575341--1575427	3	29.7	3	76	9	63	54	1	3	41	1.25
1575346--1575427	31	2.7	31	84	7	89	53	1	3	41	1.26
1575380--1575427	11	4.5	11	74	10	55	58	0	4	37	1.18
1575341--1575428	25	3.5	25	76	13	74	53	1	3	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575341--1575434	14	6.6	14	75	15	77	53	1	3	42	1.24
1575672--1575959	112	2.6	112	88	3	427	35	15	21	28	1.94
1592684--1592716	16	2.1	16	100	0	66	24	18	27	30	1.98
1594149--1594205	21	2.7	21	80	0	60	31	28	8	31	1.87
1595090--1595307	44	4.9	44	75	4	177	33	18	16	31	1.93
1595081--1595263	90	2.0	90	87	0	258	34	17	15	31	1.92
1595119--1595307	90	2.1	89	83	3	238	34	19	15	30	1.93
1595090--1595585	134	3.7	132	80	1	497	32	17	15	34	1.92
1595345--1595570	44	5.1	44	72	6	152	30	19	15	34	1.92
1609833--1609859	2	13.5	2	100	0	54	51	48	0	0	1.00
1609859--1609889	2	15.5	2	100	0	62	51	0	0	48	1.00
1611083--1611271	94	2.0	95	88	3	283	36	14	22	26	1.93
1611085--1611292	94	2.2	95	85	5	278	36	14	22	26	1.93
1611606--1611811	59	3.5	59	88	2	290	35	10	18	35	1.86
1612029--1612441	68	6.1	68	88	0	576	32	14	23	29	1.94
1612374--1612828	81	5.6	81	90	0	676	35	10	22	30	1.89
1612824--1612882	29	2.0	29	86	0	82	50	8	16	23	1.72
1625171--1625216	24	1.9	24	81	0	56	13	6	41	39	1.70
1629165--1629592	139	3.1	139	84	2	513	27	19	17	35	1.94
1629816--1629868	21	2.5	21	96	0	97	18	16	39	24	1.91
1630273--1630442	45	3.8	45	87	3	236	32	23	7	37	1.82
1630471--1630511	19	2.1	20	90	4	66	51	24	9	14	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630566--1630646	40	2.0	40	97	0	153	33	25	17	23	1.96
1632639--1632998	138	2.6	139	87	4	521	24	20	16	37	1.93
1633485--1633870	101	3.8	98	79	7	336	38	9	19	32	1.84
1635349--1635455	20	5.2	21	73	18	84	2	24	2	70	1.14
1635356--1635454	21	4.9	20	75	18	89	3	25	3	68	1.18
1636772--1636831	20	3.0	20	80	2	68	48	11	21	18	1.80
1639436--1639489	27	2.0	27	88	0	81	31	25	20	22	1.98
1653006--1653048	17	2.5	17	100	0	86	16	39	11	32	1.84
1655987--1656354	184	2.0	184	100	0	736	23	22	20	33	1.97
1669597--1669997	92	4.4	90	77	8	341	43	7	4	43	1.55

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