genome.fa.s8000.2.7.7.80.10.50.1000.8.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: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1646480

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 964 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)
1472004--1472059	19	2.9	19	74	12	51	25	0	19	55	1.43
1482170--1482218	21	2.3	21	96	0	89	24	16	8	51	1.71
1484135--1484172	2	19.0	2	100	0	76	50	0	0	50	1.00
1485404--1485481	27	2.9	28	86	9	108	56	15	1	26	1.47
1486390--1486466	27	2.9	27	96	0	136	29	11	32	25	1.91
1490144--1490178	7	4.7	7	86	13	52	60	0	0	40	0.97
1490121--1490177	23	2.6	23	76	15	57	70	0	0	29	0.88
1490126--1490178	16	3.4	16	82	10	56	67	0	0	32	0.91
1490327--1490356	13	2.2	14	94	5	53	50	6	6	36	1.55
1492545--1492682	2	72.5	2	73	19	118	48	2	1	47	1.22
1492545--1492682	21	6.3	23	72	20	75	48	2	1	47	1.22
1492549--1492684	15	8.4	16	71	18	63	49	2	1	47	1.23
1492862--1492924	20	3.2	20	70	20	51	42	6	4	46	1.50
1492866--1492924	27	2.1	29	90	6	95	42	6	5	45	1.52
1492874--1492924	13	3.9	13	87	7	77	43	7	5	43	1.57
1493112--1493451	102	3.3	102	82	2	407	34	25	4	35	1.76
1493765--1493915	5	29.8	5	66	19	55	18	2	4	74	1.11
1493763--1493952	12	15.2	12	69	21	72	17	2	5	74	1.13
1493766--1493919	26	5.6	27	71	15	95	18	2	4	74	1.11
1493777--1493870	32	2.8	35	76	12	92	21	2	3	73	1.08
1493776--1493893	49	2.4	48	81	9	132	18	2	5	73	1.13
1493763--1493955	7	26.3	7	63	21	51	18	2	5	74	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1495448--1495498	2	25.5	2	100	0	102	49	0	0	50	1.00
1497504--1497564	23	2.7	23	84	0	77	18	29	22	29	1.97
1499388--1499462	31	2.4	31	86	4	89	25	26	12	36	1.91
1503341--1503516	89	2.0	89	88	0	262	32	10	9	48	1.68
1504569--1504626	28	2.1	28	100	0	116	50	12	10	27	1.72
1507622--1507678	3	19.3	3	80	3	53	31	3	38	26	1.73
1513779--1513841	29	2.2	29	85	0	81	39	0	9	50	1.35
1515176--1515287	48	2.3	48	90	3	179	27	16	15	41	1.88
1515423--1515501	11	6.7	11	73	18	61	45	1	3	49	1.28
1515466--1515550	14	6.2	14	76	17	74	45	0	10	43	1.38
1515469--1515537	32	2.1	33	89	7	106	44	0	10	44	1.37
1515458--1515550	11	8.4	11	70	22	52	46	0	9	44	1.36
1515778--1515830	11	4.4	11	84	15	61	45	5	7	41	1.56
1515778--1515898	24	4.9	24	71	12	93	45	4	8	42	1.53
1516219--1516251	14	2.3	15	94	5	59	30	3	0	66	1.06
1516491--1516531	7	5.9	7	88	0	64	43	36	0	19	1.51
1518339--1518459	24	4.9	24	71	12	84	42	9	4	44	1.55
1518407--1518459	11	4.4	11	84	15	61	41	7	5	45	1.56
1518682--1518741	14	4.0	14	78	16	66	46	10	0	43	1.37
1518663--1518741	32	2.5	32	87	2	115	48	8	1	41	1.42
1518706--1518754	24	2.0	24	85	14	66	48	6	0	44	1.27
1520105--1520158	22	2.5	22	96	0	99	35	14	0	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520119--1520158	11	3.6	11	80	12	55	35	12	0	52	1.39
1520345--1520395	23	2.3	23	80	6	61	29	3	0	66	1.09
1520716--1520762	14	3.4	14	71	11	51	46	0	0	53	1.00
1520724--1520790	24	2.6	27	74	16	68	52	1	0	46	1.09
1521725--1521783	2	29.5	2	96	0	109	50	0	0	49	1.00
1521984--1522108	31	4.0	31	90	2	189	38	22	18	20	1.93
1526644--1526784	31	4.5	31	98	0	264	39	21	19	19	1.93
1529951--1530028	32	2.4	32	84	0	102	33	16	14	35	1.89
1530632--1530688	21	2.6	22	81	13	64	77	1	3	17	1.00
1530631--1530672	20	2.0	21	86	4	59	78	2	2	16	0.96
1530809--1530904	44	2.2	44	94	0	165	30	16	16	36	1.91
1532052--1532083	3	10.3	3	93	6	55	68	0	0	31	0.90
1532300--1532499	84	2.4	85	83	2	251	23	17	25	34	1.96
1532491--1532586	39	2.8	33	72	18	86	31	7	18	42	1.78
1532573--1532891	37	9.1	37	69	19	184	40	13	19	26	1.88
1532539--1532689	67	2.2	66	85	9	189	37	9	21	31	1.86
1532582--1533113	138	3.9	138	76	12	440	40	13	19	27	1.89
1532777--1532891	36	3.2	36	83	2	149	40	13	18	26	1.88
1533043--1533129	37	2.4	36	86	1	111	41	12	20	25	1.88
1532912--1533299	102	3.9	102	88	7	578	36	13	20	29	1.91
1532936--1533299	195	1.9	197	91	2	608	36	13	20	29	1.91
1533146--1533222	37	2.1	37	87	2	111	41	14	20	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533327--1533477	72	2.0	75	82	9	186	40	14	15	29	1.87
1538652--1538693	3	13.3	3	95	5	66	69	0	0	30	0.89
1539477--1539501	12	2.1	12	100	0	50	24	28	24	24	2.00
1540256--1540321	26	2.5	26	92	0	105	33	4	13	48	1.63
1540251--1540335	26	3.3	26	80	4	93	34	3	15	47	1.63
1543115--1543175	23	2.7	23	89	0	86	26	24	27	21	1.99
1543115--1543183	23	3.0	22	81	8	75	24	24	28	21	1.99
1543199--1543411	103	2.1	103	90	1	347	37	23	12	26	1.90
1544758--1544816	20	2.9	21	89	5	93	18	27	25	28	1.98
1545691--1545733	17	2.6	16	78	7	50	39	25	0	34	1.56
1548486--1548546	23	2.7	23	89	0	86	27	26	26	19	1.99
1548634--1548685	20	2.5	20	81	3	59	40	21	11	26	1.87
1548577--1548777	103	2.0	103	94	0	357	37	21	12	28	1.90
1550411--1550446	12	3.0	12	100	0	72	50	16	0	33	1.46
1552677--1552744	2	35.0	2	94	5	122	50	0	0	50	1.00
1552955--1553015	23	2.7	23	86	0	77	29	26	24	19	1.99
1554497--1554555	20	2.8	21	84	7	84	22	23	20	33	1.97
1562052--1562083	16	1.9	17	93	6	57	37	6	21	34	1.79
1566110--1566191	35	2.3	35	100	0	164	32	13	14	39	1.85
1575187--1575223	13	2.8	13	87	0	56	21	24	37	16	1.93
1580273--1580327	23	2.4	23	96	0	101	60	9	14	16	1.59
1582970--1583042	23	3.2	23	94	0	128	35	20	8	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1583460--1583532	23	3.2	23	90	0	110	38	20	5	35	1.76
1583954--1584026	23	3.2	23	86	0	101	41	17	5	35	1.73
1584447--1584519	23	3.2	23	88	0	101	38	19	5	36	1.75
1584937--1585009	23	3.2	23	84	0	101	36	20	5	36	1.76
1585427--1585499	23	3.2	23	92	0	119	38	21	5	34	1.77
1582569--1585921	490	6.8	490	93	1	5732	40	10	7	41	1.68
1588718--1588832	20	5.8	19	68	11	70	32	25	16	26	1.96
1588716--1588827	39	2.8	41	76	11	99	32	25	15	26	1.95
1588796--1588866	20	3.6	20	86	1	90	38	25	14	22	1.92
1588815--1588881	19	3.5	19	87	2	89	37	22	11	28	1.90
1589612--1589645	12	2.8	12	90	0	50	55	29	0	14	1.40
1589771--1589824	24	2.2	24	90	0	81	20	16	20	42	1.89
1589999--1590023	12	2.1	12	100	0	50	72	0	28	0	0.86
1593251--1593339	39	2.3	39	92	0	142	47	17	13	21	1.82
1595333--1595378	4	11.5	4	90	0	65	69	0	0	30	0.89
1597630--1597676	22	2.1	22	96	0	85	23	10	40	25	1.87
1597791--1597867	20	3.9	19	90	8	118	16	19	24	38	1.92
1600879--1600910	16	2.0	16	93	0	55	59	0	0	40	0.97
1600879--1600911	14	2.4	14	85	14	50	60	0	0	39	0.97
1600938--1600968	2	15.5	2	93	0	53	51	3	0	45	1.17
1603617--1603652	12	3.0	12	87	0	54	11	13	47	27	1.77
1603667--1603791	2	66.0	2	78	10	120	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603811--1603858	13	3.8	13	89	8	73	12	16	54	16	1.72
1603811--1603858	24	1.9	26	87	8	73	12	16	54	16	1.72
1610687--1610735	24	2.0	24	100	0	98	24	40	22	12	1.88
1612564--1612596	7	4.9	7	92	3	50	42	24	15	18	1.88
1612541--1612611	37	1.9	36	91	2	115	36	22	18	22	1.95
1614497--1614545	23	2.1	23	96	0	89	30	8	22	38	1.83
1616672--1617335	182	3.7	182	88	1	924	43	14	15	27	1.85
1619291--1619345	24	2.4	23	80	11	69	43	0	7	49	1.30
1619994--1620784	200	4.0	200	91	0	1237	38	15	15	30	1.89
1624772--1625310	200	2.7	200	85	3	712	38	15	15	30	1.88

Tables:   1   2   3   4   5   6   7   8   9