genome.fa.s8511.2.7.7.80.10.50.1000.7.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: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2221980

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1077 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)
1415013--1415165	20	7.6	20	73	10	105	20	17	20	41	1.91
1415023--1415099	40	1.9	40	97	0	145	23	19	15	41	1.89
1415870--1415901	14	2.3	14	100	0	64	21	0	43	34	1.53
1431523--1431554	2	16.0	2	100	0	64	50	0	0	50	1.00
1439937--1440005	26	2.5	26	79	9	66	40	15	15	27	1.88
1452058--1452100	22	2.0	22	85	0	59	46	27	2	23	1.64
1452954--1453022	31	2.2	31	82	5	86	33	24	21	20	1.97
1453689--1453734	21	2.3	20	82	10	58	47	2	2	47	1.26
1453770--1453803	15	2.3	15	90	5	52	58	0	0	41	0.98
1454704--1454770	30	2.4	28	85	9	84	41	5	43	8	1.60
1460647--1460708	24	2.6	24	89	0	97	16	32	17	33	1.92
1461231--1461257	6	4.5	6	100	0	54	14	51	14	18	1.76
1465615--1465795	23	7.8	23	83	4	204	30	25	23	20	1.99
1466981--1467551	3	195.0	3	77	16	531	63	0	36	0	0.96
1466982--1467551	251	2.3	243	82	13	646	63	0	36	0	0.96
1469808--1469883	31	2.4	32	85	10	104	44	1	5	48	1.33
1469843--1469885	21	2.0	22	86	4	61	48	2	2	46	1.27
1474853--1474898	2	23.5	2	95	4	85	0	50	0	50	1.00
1479279--1479336	3	19.3	3	100	0	116	32	0	0	67	0.91
1479880--1479919	13	3.3	13	76	20	50	70	7	0	22	1.12
1480658--1480718	31	2.0	31	86	0	86	26	13	24	36	1.92
1488075--1488103	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1495860--1495979	64	1.9	63	85	1	168	36	22	15	25	1.94
1495860--1496021	63	2.5	64	83	4	186	33	21	18	25	1.96
1496644--1496725	23	3.6	23	83	0	110	20	25	24	29	1.99
1497671--1497711	18	2.3	18	95	0	73	29	19	31	19	1.96
1508151--1508219	32	2.2	31	84	5	93	39	13	8	39	1.75
1510843--1511415	289	2.0	280	94	5	1017	39	7	9	43	1.66
1511540--1511577	12	3.2	12	88	0	58	52	0	0	47	1.00
1514961--1515060	33	3.0	34	83	2	139	39	3	4	54	1.35
1515613--1515666	21	2.6	21	90	0	81	25	29	25	18	1.98
1515572--1515665	42	2.2	42	83	7	111	24	27	29	18	1.98
1515669--1515715	21	2.3	21	85	3	60	23	10	40	25	1.87
1517306--1517370	18	3.8	16	72	22	53	58	3	0	38	1.14
1517282--1517356	30	2.4	31	78	10	91	60	1	0	38	1.06
1517311--1517385	33	2.3	33	80	13	84	62	5	0	32	1.17
1520656--1520712	13	4.7	13	85	14	86	15	47	22	14	1.82
1520749--1520899	29	5.3	29	73	6	121	31	6	22	39	1.80
1520725--1520878	83	1.9	83	88	0	236	29	7	22	40	1.80
1521604--1521655	24	2.2	24	85	0	68	23	9	19	48	1.78
1521610--1521692	24	3.5	24	73	1	69	22	14	19	43	1.87
1526702--1526891	24	7.5	25	69	22	114	44	2	6	46	1.44
1526705--1526891	13	14.8	12	67	25	68	44	2	6	45	1.44
1527938--1528009	27	2.5	28	84	8	101	33	9	1	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529390--1529971	298	2.0	297	88	3	877	33	19	18	27	1.96
1534087--1534155	23	3.0	23	89	0	102	26	26	27	20	1.99
1534171--1534378	103	2.1	100	90	5	332	36	23	14	25	1.93
1537666--1537722	18	3.2	18	92	0	96	24	22	28	24	2.00
1542052--1542422	188	2.0	189	99	0	735	33	21	15	29	1.94
1549679--1549843	83	2.0	82	95	1	294	38	20	10	30	1.87
1553679--1553712	18	1.9	18	94	5	61	64	5	14	14	1.46
1555211--1555236	10	2.6	10	100	0	52	0	23	0	76	0.78
1556764--1556792	14	2.1	14	100	0	58	37	13	13	34	1.85
1563032--1563110	32	2.5	31	80	15	90	39	2	0	58	1.12
1563032--1563109	31	2.5	32	81	10	90	38	2	0	58	1.12
1565264--1565335	31	2.4	30	90	4	117	34	9	2	52	1.49
1567963--1568023	32	1.9	32	100	0	122	40	19	9	29	1.84
1573798--1573860	33	1.9	33	96	0	117	23	12	25	38	1.90
1575413--1575438	12	2.2	12	100	0	52	30	23	19	26	1.98
1579620--1579739	60	2.0	60	81	0	141	40	7	10	42	1.67
1581162--1581222	28	2.2	28	82	5	70	50	1	6	40	1.38
1581627--1581656	2	15.0	2	100	0	60	50	0	0	50	1.00
1583817--1583863	24	2.0	24	100	0	94	40	12	8	38	1.74
1583931--1583980	17	2.9	17	100	0	100	18	12	24	46	1.82
1585930--1585967	16	2.4	16	100	0	76	18	15	36	28	1.92
1605327--1605375	25	2.0	24	84	4	62	30	46	10	12	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615645--1615692	25	1.9	25	86	0	69	41	0	0	58	0.98
1616295--1616934	320	2.0	321	94	1	1124	41	11	7	39	1.69
1619830--1619866	16	2.2	17	90	9	58	18	40	27	13	1.88
1619835--1619896	17	3.7	16	82	8	70	20	38	20	19	1.93
1635837--1635994	21	7.8	20	71	7	77	38	24	17	18	1.93
1635962--1636154	20	9.6	20	82	5	219	34	25	19	19	1.96
1636544--1636600	14	3.7	14	70	20	51	8	24	21	45	1.80
1636534--1636604	33	2.2	33	97	0	133	9	23	18	47	1.78
1636532--1636582	14	3.0	18	70	24	56	9	23	21	45	1.82
1636684--1636760	21	3.7	21	81	6	102	48	16	22	12	1.80
1636745--1636801	14	3.7	14	75	20	60	43	22	24	8	1.81
1636738--1636817	33	2.4	33	95	0	142	47	22	21	8	1.78
1636843--1636907	21	3.1	21	82	4	96	10	26	15	47	1.78
1636842--1636905	20	3.2	20	82	4	92	12	25	15	46	1.81
1638818--1638927	52	2.1	53	87	1	159	46	27	17	9	1.78
1638885--1638911	14	1.9	14	100	0	54	48	29	14	7	1.71
1638850--1638927	19	4.4	19	81	15	103	47	28	16	7	1.74
1638923--1639095	19	9.6	19	74	12	132	10	19	23	46	1.81
1638928--1639061	33	3.9	33	77	9	142	9	19	23	47	1.78
1638923--1639095	33	4.8	38	78	8	141	10	19	23	46	1.81
1639494--1639579	45	1.9	45	82	0	109	20	39	16	23	1.92
1641022--1641057	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641164--1641262	19	5.4	19	81	14	127	45	16	23	15	1.84
1641164--1641281	53	2.2	53	95	3	211	44	16	24	14	1.86
1641271--1641451	19	9.9	19	81	14	222	14	23	16	45	1.85
1641277--1641493	53	4.1	53	84	11	288	14	22	17	45	1.84
1641347--1641512	33	4.8	34	77	12	176	14	21	18	45	1.84
1641271--1641475	72	2.9	72	84	7	258	14	22	17	44	1.85
1641277--1641493	105	2.1	103	84	11	282	14	22	17	45	1.84
1643776--1643800	12	2.1	12	100	0	50	0	28	0	72	0.86
1643975--1644021	24	2.0	24	87	8	69	38	21	14	25	1.92
1644714--1644919	20	10.3	20	87	4	254	20	17	26	34	1.95
1645435--1645663	20	11.4	20	81	3	210	19	17	24	38	1.93
1644199--1645625	721	2.0	721	98	0	2728	30	16	20	32	1.95
1653792--1653837	3	15.7	3	95	4	85	69	0	0	30	0.89
1656896--1657111	105	2.1	104	84	0	279	38	22	14	23	1.92
1657556--1657725	82	2.0	85	95	4	310	32	21	4	41	1.73
1666153--1666204	26	2.0	26	100	0	104	42	7	15	34	1.75
1666158--1666212	26	2.3	24	84	12	69	38	9	14	38	1.78
1666660--1666703	23	1.9	23	86	9	63	43	0	2	54	1.12
1666655--1666706	23	2.3	22	81	15	61	46	0	1	51	1.12
1668418--1668494	23	3.2	24	75	14	70	45	1	1	51	1.17
1668579--1668618	20	2.0	20	85	0	53	42	2	0	55	1.13
1668572--1668649	27	3.0	27	70	18	67	46	1	0	52	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668544--1668651	51	2.1	51	79	8	121	48	1	0	49	1.18
1668829--1668860	15	2.2	14	94	5	55	62	3	0	34	1.11
1668871--1668913	22	1.9	23	85	4	61	46	0	4	48	1.22
1670762--1670823	18	3.5	18	80	10	74	66	0	1	32	1.02
1670777--1670821	19	2.6	18	86	13	67	64	0	0	35	0.94
1674226--1674266	21	2.0	21	95	0	73	36	21	26	14	1.93
1674246--1674381	72	1.9	72	89	0	209	36	20	22	20	1.95
1676161--1676218	23	2.5	23	100	0	116	48	13	3	34	1.60
1684760--1684798	15	2.6	15	87	0	51	15	35	20	28	1.93
1686660--1686881	111	2.0	111	95	1	401	45	10	8	35	1.69

Tables:   1   2   3   4   5   6   7   8   9