genome.fa.s6093.2.7.7.80.10.50.1000.8.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1555 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)
1549757--1549797	16	2.6	16	100	0	82	41	12	14	31	1.83
1555338--1555867	54	9.8	54	79	8	499	36	18	16	28	1.93
1555338--1555867	108	4.9	108	81	5	554	36	18	16	28	1.93
1566724--1566840	58	2.0	58	98	0	225	24	10	15	49	1.75
1567380--1567439	16	3.5	16	77	16	66	75	3	1	20	1.04
1567378--1567434	20	3.0	20	78	14	68	77	1	1	19	0.95
1568022--1568084	19	3.2	19	75	4	54	55	12	0	31	1.37
1568042--1568205	76	2.2	75	86	3	222	56	10	2	30	1.46
1569858--1569964	53	2.0	53	87	3	153	21	19	13	45	1.84
1570054--1570101	9	4.9	10	80	12	55	85	4	0	10	0.73
1570064--1570098	18	1.9	18	100	0	70	85	5	0	8	0.73
1574000--1574033	15	2.3	15	94	0	59	5	29	20	44	1.75
1575736--1575860	47	2.8	44	84	6	160	32	22	7	38	1.81
1575965--1576086	40	3.0	40	100	0	244	32	27	17	22	1.96
1578754--1578948	64	2.9	64	80	15	164	57	12	1	28	1.45
1578809--1578973	76	2.2	76	86	3	235	56	11	2	29	1.48
1579738--1579773	18	2.0	18	94	0	63	52	22	0	25	1.47
1588436--1588473	15	2.4	16	86	8	60	31	7	23	36	1.84
1600576--1600600	11	2.3	11	100	0	50	0	8	16	76	1.02
1606065--1606092	2	14.0	2	100	0	56	50	0	0	50	1.00
1606647--1607042	59	6.8	59	92	0	600	35	19	12	32	1.89
1611293--1611341	24	2.0	24	88	4	71	34	14	6	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611627--1611739	40	2.8	40	91	0	172	20	16	30	32	1.95
1612326--1612370	22	2.0	22	82	0	54	22	22	13	42	1.88
1614287--1614334	24	2.0	24	91	0	78	35	12	8	43	1.73
1614610--1614730	40	3.0	40	91	0	197	23	14	26	34	1.94
1614792--1614831	14	2.9	14	78	14	55	20	0	17	62	1.33
1615322--1615384	22	2.9	22	92	0	99	25	17	14	42	1.87
1622326--1622371	23	2.0	24	82	4	58	28	23	26	21	1.99
1622446--1622492	21	2.2	21	84	0	58	40	19	10	29	1.85
1636252--1636387	24	5.7	24	84	3	121	41	19	14	24	1.88
1636269--1636384	48	2.4	47	87	5	153	40	18	16	24	1.91
1638909--1638945	7	5.0	7	90	9	56	29	27	29	13	1.94
1638890--1638951	8	7.5	8	80	14	56	25	25	32	16	1.96
1638900--1638945	15	2.9	15	90	6	65	28	28	30	13	1.94
1638940--1639004	31	2.1	31	85	0	85	13	18	47	20	1.82
1638965--1639000	13	2.8	13	95	0	63	11	19	50	19	1.77
1643647--1643693	13	3.8	12	83	16	60	57	2	4	36	1.30
1645766--1645793	2	14.0	2	100	0	56	50	0	0	50	1.00
1646713--1646758	24	1.9	24	81	0	56	32	2	6	58	1.36
1648213--1648269	25	2.3	24	82	8	69	29	15	3	50	1.61
1653025--1653064	21	1.9	21	89	0	62	55	17	7	20	1.66
1653037--1653143	30	3.6	28	83	12	126	59	17	7	14	1.58
1653038--1653160	30	4.1	29	82	12	110	61	16	7	14	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654830--1654875	3	16.0	3	78	17	53	65	0	0	34	0.93
1654830--1654883	12	4.4	12	82	17	67	64	0	0	35	0.94
1655078--1655323	128	1.9	129	81	8	304	25	17	30	26	1.97
1655394--1655500	38	2.9	36	84	6	133	32	13	14	39	1.85
1655341--1655862	137	3.8	137	73	10	429	37	13	14	34	1.86
1655436--1655698	100	2.7	100	88	2	381	38	14	14	32	1.87
1655636--1655775	37	3.7	37	83	6	156	34	10	13	42	1.78
1655667--1655775	40	2.8	40	88	4	161	31	8	13	46	1.73
1655532--1655861	175	1.9	175	87	4	495	36	12	14	36	1.84
1655868--1655990	37	3.4	36	80	7	149	35	10	17	35	1.85
1655868--1656011	37	3.9	37	76	8	127	36	11	19	33	1.87
1657240--1657371	14	9.7	13	68	21	76	0	19	5	75	1.00
1657241--1657367	40	3.2	38	83	15	141	0	19	5	74	1.01
1657246--1657364	19	5.9	19	78	18	118	0	19	5	74	1.01
1657240--1657365	21	6.2	19	76	14	110	0	19	5	75	0.99
1660963--1661103	29	4.8	29	82	8	124	58	9	12	19	1.62
1661025--1661121	28	3.4	28	85	8	124	59	7	13	19	1.57
1661050--1661136	29	2.9	30	83	8	90	57	6	18	17	1.61
1662734--1662764	12	2.5	13	94	5	55	64	0	0	35	0.94
1664097--1664135	16	2.4	16	86	0	51	51	25	0	23	1.49
1664412--1664503	37	2.6	36	84	3	114	34	16	8	40	1.79
1664638--1664764	36	3.7	35	67	13	93	23	20	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664643--1664793	66	2.3	65	84	1	194	23	19	17	39	1.92
1664743--1664825	31	2.8	29	82	10	89	28	15	14	40	1.87
1664864--1665106	131	1.9	131	86	0	351	26	31	17	24	1.97
1665217--1665261	3	14.3	3	90	9	72	35	0	0	64	0.94
1667555--1667609	24	2.4	23	79	11	60	38	5	5	50	1.48
1669793--1669840	19	2.5	19	83	9	62	50	0	6	43	1.27
1669747--1669924	81	2.2	80	81	9	211	44	1	8	44	1.44
1669935--1669985	3	16.7	3	91	4	84	31	1	0	66	1.03
1674076--1674220	33	4.4	33	92	0	245	32	23	5	38	1.78
1674109--1674198	16	5.5	15	69	16	63	32	23	6	37	1.81
1676305--1676414	46	2.3	46	79	4	130	30	20	5	43	1.74
1676481--1676828	81	4.3	81	84	4	418	28	24	11	35	1.90
1676767--1676896	68	1.9	68	95	0	233	30	23	12	33	1.92
1676830--1677003	81	2.1	81	91	0	276	28	24	13	33	1.93
1676562--1677152	230	2.6	231	78	6	687	28	24	12	34	1.92
1676555--1677367	298	2.7	294	83	7	922	29	24	12	33	1.93
1676723--1677367	149	4.3	147	86	5	766	29	25	13	32	1.93
1677572--1677825	55	4.6	55	87	3	311	33	17	10	39	1.83
1677567--1677824	109	2.4	108	81	7	315	33	17	10	38	1.84
1682015--1682134	49	2.5	46	81	4	141	27	21	6	44	1.77
1682193--1682801	81	7.5	80	74	11	443	30	24	10	34	1.89
1682250--1682516	94	3.0	91	77	14	304	31	22	10	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682345--1682801	149	2.9	160	83	6	494	30	24	10	34	1.89
1682617--1682870	68	3.5	68	70	13	211	31	25	11	32	1.90
1682530--1683190	149	4.4	149	88	1	896	29	24	11	33	1.91
1682530--1683190	299	2.2	299	87	1	918	29	24	11	33	1.91
1682909--1683176	68	3.8	69	71	14	229	29	24	13	31	1.94
1683390--1683647	55	4.7	55	88	2	322	33	19	11	35	1.87
1686714--1686776	15	4.3	15	80	10	67	55	20	1	22	1.52
1693279--1693319	12	3.4	12	93	0	73	26	36	0	36	1.57
1697954--1697984	12	2.7	12	95	5	55	29	41	0	29	1.56
1699624--1699656	2	17.0	2	93	6	59	51	0	0	48	1.00
1699840--1699877	20	1.9	20	88	0	58	42	10	28	18	1.83
1711434--1711471	5	7.8	5	88	5	60	2	21	55	21	1.56
1711434--1711473	14	2.8	14	92	3	62	5	20	55	20	1.62
1718644--1718681	19	2.0	19	94	0	67	26	26	28	18	1.98
1718647--1718714	28	2.4	28	85	7	84	29	27	27	14	1.95
1718649--1718686	19	2.0	19	94	0	67	26	28	26	18	1.98
1718647--1718714	9	7.2	9	77	8	64	29	27	27	14	1.95
1722674--1722708	17	2.1	17	89	5	54	20	0	2	77	0.90
1727180--1727240	31	2.0	31	90	6	97	39	21	19	19	1.93
1727427--1727466	19	2.1	19	85	0	53	30	20	17	32	1.95
1727382--1727503	64	1.9	64	85	6	167	29	15	19	35	1.93
1727382--1727519	64	2.2	64	83	7	165	27	17	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728465--1728499	18	2.0	18	94	5	63	28	11	31	28	1.92
1728893--1728949	28	2.0	28	82	0	69	33	5	19	42	1.74
1729126--1729235	23	4.7	23	73	8	89	24	19	25	30	1.98
1731808--1731846	20	2.0	19	85	5	51	15	28	0	56	1.40
1732174--1732216	21	2.0	21	86	0	59	41	9	16	32	1.80
1743335--1743363	14	2.0	15	93	6	51	31	13	6	48	1.69
1745409--1745639	65	3.6	64	75	11	195	30	22	18	29	1.97
1745591--1745639	19	2.6	19	81	9	57	24	24	20	30	1.98
1748720--1748778	2	30.0	2	81	10	68	49	1	5	44	1.34
1752894--1752974	23	3.7	23	71	14	80	25	25	22	25	2.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13