genome.fa.s8180.2.7.7.80.10.50.1000.9.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

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

This is table  9  of  14  ( 1585 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)
1571816--1571892	40	1.9	41	91	2	129	11	27	16	44	1.83
1571971--1572041	33	2.2	33	86	0	97	47	16	22	12	1.80
1572417--1572610	20	9.6	20	82	5	221	19	19	25	35	1.95
1572417--1572610	60	3.2	60	83	0	253	19	19	25	35	1.95
1573017--1573177	2	78.0	2	67	21	75	46	3	5	44	1.42
1573017--1573085	7	10.0	7	75	12	54	49	2	4	43	1.37
1573039--1573177	9	15.2	9	70	24	62	44	2	6	46	1.44
1573017--1573177	20	8.7	19	69	19	99	46	3	5	44	1.42
1573045--1573127	7	12.1	7	74	14	50	45	2	3	48	1.33
1573261--1573297	19	1.9	19	94	0	65	32	29	16	21	1.95
1573388--1573433	20	2.3	20	100	0	92	39	15	21	23	1.92
1573420--1573502	41	2.0	41	92	0	139	39	24	15	20	1.91
1573422--1573495	20	3.7	20	70	10	69	35	25	17	21	1.95
1573930--1573966	19	1.9	19	100	0	74	27	29	5	37	1.79
1573931--1574016	19	4.2	19	73	16	64	30	26	5	37	1.80
1574214--1574293	18	4.4	18	71	12	65	47	7	5	40	1.54
1574234--1574471	20	12.3	20	69	19	85	43	4	5	46	1.47
1574270--1574431	11	14.4	11	70	21	77	43	3	4	48	1.40
1574216--1574303	36	2.4	38	84	9	128	47	5	4	42	1.47
1574273--1574325	17	2.9	17	83	8	52	50	3	1	43	1.30
1574321--1574453	9	14.8	9	68	22	50	40	3	6	48	1.47
1574327--1574451	31	3.9	32	80	9	146	40	4	5	49	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574299--1574431	22	6.1	22	70	12	87	43	3	4	48	1.41
1574327--1574455	11	12.1	11	75	15	110	39	3	6	50	1.46
1580148--1580216	35	2.0	35	91	0	111	50	15	10	23	1.74
1580324--1580361	19	2.0	19	100	0	76	36	5	21	36	1.76
1586748--1586789	21	2.0	21	95	0	75	50	0	7	42	1.30
1587020--1587065	21	2.1	21	88	4	65	52	2	8	36	1.45
1602052--1602128	24	3.6	22	75	20	67	29	19	25	24	1.98
1602857--1602909	2	27.0	2	96	3	99	50	0	0	49	1.00
1603653--1603720	23	3.0	23	86	0	91	17	27	26	27	1.98
1605712--1605790	40	2.0	40	89	0	122	26	16	22	34	1.95
1605945--1605987	21	2.0	22	82	13	54	34	0	16	48	1.46
1606540--1606584	21	2.1	21	87	0	63	31	28	24	15	1.96
1606939--1606978	18	2.4	16	87	8	53	37	5	17	40	1.72
1606939--1606979	16	2.4	18	88	8	59	36	4	17	41	1.71
1607453--1607608	31	5.0	31	91	1	233	21	21	21	35	1.96
1610613--1610657	21	2.1	21	87	0	63	31	28	24	15	1.96
1610992--1611036	23	2.0	22	86	4	63	40	4	15	40	1.67
1611011--1611050	16	2.4	17	91	4	64	35	5	17	42	1.71
1611522--1611677	31	5.0	31	91	1	233	21	21	21	35	1.96
1614113--1614155	21	2.0	22	82	13	54	34	0	16	48	1.46
1614708--1614752	21	2.1	21	87	0	63	31	28	24	15	1.96
1615104--1615143	18	2.4	16	87	8	53	37	5	17	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615104--1615144	16	2.4	18	88	8	59	36	4	17	41	1.71
1615621--1615776	31	5.0	31	91	1	233	21	21	21	35	1.96
1616499--1616615	47	2.5	46	83	6	146	40	6	16	36	1.75
1619217--1619279	7	9.1	7	80	3	65	19	0	33	47	1.49
1619224--1619278	20	2.7	20	85	2	74	20	0	30	49	1.49
1619729--1619819	11	8.7	11	69	20	61	38	1	2	58	1.18
1619727--1619786	19	3.0	21	78	11	63	38	0	1	60	1.07
1619735--1619794	30	2.1	29	87	6	86	41	1	1	55	1.20
1629733--1629791	29	2.0	29	81	12	68	74	6	11	6	1.21
1632071--1632119	25	2.0	25	100	0	98	36	12	12	38	1.80
1635419--1635535	58	2.0	58	91	0	189	18	9	29	42	1.82
1649578--1649678	32	3.2	31	81	5	112	27	17	21	32	1.96
1650502--1650579	32	2.4	32	86	0	111	29	20	16	33	1.95
1651439--1651485	19	2.5	19	100	0	94	38	4	4	53	1.40
1652324--1652350	14	1.9	14	100	0	54	7	29	0	62	1.22
1653153--1653277	31	4.0	31	90	4	182	21	18	22	37	1.94
1654096--1654161	22	3.0	22	84	4	80	19	19	15	45	1.85
1654390--1654526	61	2.2	61	81	2	159	20	24	27	27	1.99
1657165--1657198	13	2.6	13	86	13	52	41	0	17	41	1.50
1657551--1657695	55	2.6	55	87	0	218	28	17	22	31	1.97
1665757--1665790	18	1.9	17	94	5	59	20	29	17	32	1.96
1667118--1667166	21	2.3	21	92	0	80	20	14	30	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668606--1668638	12	2.8	12	100	0	66	33	9	6	51	1.58
1672810--1672840	7	4.4	7	100	0	62	25	29	29	16	1.96
1672830--1672870	17	2.4	17	95	0	73	17	24	41	17	1.89
1672864--1672927	19	3.4	19	84	4	76	26	29	25	18	1.98
1672882--1672942	28	2.1	29	87	3	88	27	29	24	18	1.98
1672906--1672943	20	1.9	20	94	0	67	34	26	21	18	1.96
1672882--1672942	9	6.4	9	78	10	68	27	29	24	18	1.98
1680098--1680138	17	2.4	17	95	0	73	17	24	41	17	1.89
1680132--1680222	19	4.7	19	84	9	103	25	28	26	19	1.99
1680150--1680221	9	7.4	9	73	14	63	26	29	26	18	1.98
1681216--1681240	10	2.5	10	100	0	50	84	0	0	16	0.63
1682170--1682218	25	2.0	25	84	8	64	44	4	6	44	1.47
1690852--1691079	41	5.4	41	82	10	271	20	20	23	35	1.96
1690986--1691059	21	3.6	21	77	3	96	20	18	27	33	1.96
1691007--1691099	20	4.6	20	83	2	132	13	22	23	39	1.90
1691010--1691136	61	2.1	60	85	8	168	15	21	22	40	1.91
1691212--1691256	6	7.5	6	100	0	90	33	51	15	0	1.44
1691737--1691780	5	9.0	5	97	2	81	0	59	20	20	1.39
1691784--1691837	6	9.5	6	97	2	87	0	16	53	29	1.43
1691921--1691986	19	3.3	19	72	12	69	40	21	18	19	1.91
1691936--1692007	22	3.4	22	73	11	87	37	25	16	20	1.93
1691958--1692210	61	4.1	60	80	9	237	38	23	20	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691930--1692154	123	1.8	124	87	6	341	38	23	20	17	1.93
1691930--1692154	41	5.5	41	90	6	275	38	23	20	17	1.93
1691930--1692153	82	2.7	82	90	6	330	38	23	20	17	1.93
1691999--1692173	82	2.1	81	92	3	271	38	24	22	14	1.92
1691996--1692214	61	3.6	61	84	5	289	38	24	21	15	1.92
1692142--1692239	41	2.4	41	100	0	196	36	24	20	18	1.94
1692040--1692239	102	2.0	102	95	2	366	37	24	21	17	1.94
1694760--1694789	11	2.6	12	89	10	53	16	6	0	76	0.99
1694760--1694831	26	2.9	23	73	15	63	19	4	2	73	1.12
1694803--1694835	17	1.9	17	93	0	57	15	0	6	78	0.93
1696531--1696592	24	2.6	24	92	0	97	11	12	20	54	1.68
1696542--1696592	14	3.9	14	73	19	56	11	11	19	56	1.65
1697665--1697709	16	2.8	16	89	0	72	11	13	20	55	1.68
1697779--1697811	16	2.1	16	100	0	66	6	12	24	57	1.57
1700754--1700798	24	2.0	24	82	8	58	28	11	2	57	1.45
1703606--1703653	14	3.4	14	80	5	51	8	10	64	16	1.48
1710684--1710724	16	2.6	16	80	0	55	26	19	9	43	1.82
1710946--1710999	23	2.3	24	93	3	92	44	0	7	48	1.31
1713911--1714159	121	2.1	121	97	0	471	39	5	20	34	1.75
1714803--1714875	35	2.1	35	87	5	103	30	17	26	26	1.98
1715729--1715799	21	3.4	21	75	7	72	29	14	16	39	1.88
1715717--1715800	42	2.0	42	92	0	141	25	16	21	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716189--1716239	16	3.2	16	91	0	84	52	23	15	7	1.68
1716174--1716216	22	2.0	22	95	0	77	48	27	18	4	1.68
1717178--1717216	20	2.0	20	89	0	60	33	10	23	33	1.88
1718997--1719038	14	3.0	14	85	0	57	52	21	16	9	1.72
1722487--1722553	20	3.6	19	73	19	61	29	17	26	25	1.98
1722485--1722553	35	2.0	35	94	0	120	28	17	28	24	1.97
1723416--1723487	21	3.4	21	68	12	67	27	13	19	38	1.90
1723401--1723493	42	2.2	42	88	3	134	23	16	21	38	1.92
1724957--1725005	24	2.0	24	84	0	62	10	10	42	36	1.73
1725020--1725078	24	2.5	23	88	5	82	10	5	40	44	1.60

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