genome.fa.s8111.2.7.7.80.10.50.1000.8.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: VEPZ01008111.1 Hibiscus syriacus cultivar Beakdansim tig00110647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1666726

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1021 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)
1475475--1475515	21	2.0	21	95	0	73	36	29	19	14	1.92
1486574--1486621	25	1.9	25	83	8	62	27	4	2	66	1.21
1490115--1490200	32	2.7	31	85	7	109	29	15	24	31	1.95
1490791--1491042	110	2.3	106	80	9	258	32	23	20	23	1.98
1491158--1492246	84	13.0	84	87	2	1357	32	25	18	23	1.97
1495662--1495700	3	13.0	3	94	0	69	64	0	35	0	0.94
1505070--1505128	24	2.5	24	88	0	91	57	8	13	20	1.62
1506251--1506325	37	2.0	37	97	0	141	40	13	14	32	1.85
1506350--1506380	13	2.4	13	94	0	53	32	19	9	38	1.84
1506694--1506780	3	29.7	3	71	21	51	28	3	0	67	1.06
1506732--1506799	31	2.2	31	78	7	75	27	2	0	69	1.03
1507032--1507072	3	13.7	3	94	0	73	31	0	2	65	1.05
1507031--1507086	9	5.6	10	78	21	64	28	1	1	67	1.10
1507098--1507141	19	2.4	18	82	14	54	11	15	0	72	1.11
1507207--1507252	15	3.0	16	87	6	60	21	6	0	71	1.08
1508471--1508504	11	2.9	12	86	8	52	11	8	44	35	1.72
1508520--1508580	24	2.6	25	78	17	69	44	0	0	55	0.99
1508616--1508647	13	2.5	13	94	0	55	15	12	53	18	1.73
1510190--1510239	18	2.8	18	96	3	93	40	12	32	16	1.84
1511556--1511586	13	2.4	13	94	0	53	51	6	6	35	1.53
1511549--1511613	34	1.9	34	84	12	89	47	6	4	41	1.49
1511589--1511773	2	92.5	2	67	26	65	50	1	8	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511592--1511773	53	3.6	48	75	21	142	50	1	8	39	1.42
1511652--1511770	16	7.4	16	74	18	72	51	0	10	37	1.42
1511700--1511770	9	8.7	9	76	17	57	53	1	8	36	1.40
1511772--1511816	23	2.0	23	86	0	63	33	8	17	40	1.81
1511925--1511974	2	24.5	2	95	4	91	50	0	2	48	1.12
1512137--1512179	22	2.0	21	81	4	50	69	4	6	18	1.29
1512277--1512301	11	2.3	11	100	0	50	12	36	0	52	1.39
1512292--1512400	48	2.3	47	81	12	127	27	32	0	39	1.63
1512479--1512515	2	19.0	2	94	5	67	48	0	0	51	1.00
1512691--1512734	13	3.3	12	82	17	52	50	0	6	43	1.29
1513972--1514012	19	2.4	16	84	15	55	73	2	14	9	1.19
1515636--1515676	2	20.5	2	100	0	82	48	0	0	51	1.00
1516334--1516388	26	2.2	26	96	3	103	45	16	14	23	1.84
1521658--1521713	22	2.6	22	88	2	78	26	23	21	28	1.99
1521761--1521826	31	2.2	31	97	2	125	37	16	12	33	1.86
1526203--1526246	22	2.1	21	87	8	63	31	18	18	31	1.95
1528593--1528643	2	26.0	2	96	4	95	49	0	0	50	1.00
1528694--1528967	37	7.7	37	79	12	279	46	7	1	44	1.41
1528685--1528966	73	3.9	74	79	13	311	47	7	1	43	1.41
1528838--1528899	25	2.5	25	91	0	97	48	6	0	45	1.28
1528804--1528938	64	2.1	64	91	2	220	48	7	0	42	1.36
1528695--1528967	101	2.6	105	85	9	328	46	7	1	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528863--1528987	39	3.1	38	84	11	162	51	8	0	40	1.37
1532064--1532099	17	2.2	16	90	9	56	69	2	0	27	1.02
1539964--1540138	60	2.9	58	77	11	174	30	18	5	45	1.73
1540267--1540445	60	3.0	59	84	4	216	40	5	21	31	1.76
1540452--1540813	179	2.0	183	97	2	687	46	11	12	29	1.76
1551419--1552072	41	16.1	41	77	6	596	29	19	16	34	1.94
1551429--1551575	42	3.6	43	76	9	144	34	19	15	31	1.93
1552565--1552617	21	2.5	21	84	0	70	20	26	18	33	1.96
1552607--1552741	20	6.7	20	79	3	153	37	19	21	22	1.95
1552607--1552741	41	3.3	41	80	5	157	37	19	21	22	1.95
1552603--1552741	61	2.3	61	92	0	233	37	18	20	23	1.94
1553295--1553386	20	4.6	21	81	10	104	51	19	17	11	1.76
1553349--1553385	19	1.9	19	94	0	65	51	18	18	10	1.75
1553295--1553388	40	2.3	40	82	7	120	51	19	18	11	1.76
1553411--1553555	19	8.1	19	72	17	94	12	21	19	46	1.82
1553411--1553548	52	2.6	53	89	2	197	12	21	20	45	1.83
1553449--1553554	20	5.7	20	78	13	111	12	20	19	47	1.82
1555252--1555630	94	4.1	94	92	2	604	21	12	18	47	1.82
1555252--1555630	187	2.0	187	90	3	602	21	12	18	47	1.82
1555737--1555793	20	2.9	20	92	2	89	49	26	17	7	1.72
1555697--1555792	19	4.9	19	84	3	111	47	21	18	11	1.80
1555799--1555936	19	7.8	19	67	19	93	12	21	20	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555802--1555897	33	2.9	33	92	0	156	11	21	19	46	1.81
1556389--1556455	21	3.2	21	66	6	55	23	35	20	19	1.95
1556337--1556455	42	2.8	42	81	5	107	22	36	18	22	1.95
1557806--1557841	14	2.6	14	95	0	63	33	0	22	44	1.53
1557964--1558032	33	2.1	32	86	7	95	53	24	13	8	1.67
1557948--1558042	19	5.3	19	78	14	78	48	24	14	12	1.79
1558038--1558155	19	6.7	19	67	19	85	11	23	20	44	1.85
1558042--1558135	33	2.8	33	96	0	170	11	24	19	44	1.84
1558120--1558162	20	2.2	19	83	4	50	23	20	18	37	1.94
1560673--1560726	24	2.2	24	93	0	90	40	20	18	20	1.91
1561586--1561733	20	7.4	21	79	7	139	22	21	21	33	1.97
1561729--1561775	21	2.2	21	80	0	58	36	14	27	21	1.93
1565117--1565490	43	8.7	43	84	2	464	25	22	18	32	1.97
1568376--1568475	50	2.0	50	96	0	182	27	19	12	42	1.86
1571574--1571613	5	8.0	5	89	10	64	80	0	0	20	0.72
1571582--1571658	9	8.4	9	73	18	61	76	3	2	16	1.05
1571574--1571614	14	2.7	16	85	14	68	80	0	0	19	0.71
1571575--1571657	19	4.4	18	78	14	80	78	3	2	15	1.00
1571574--1571623	13	4.0	12	79	20	50	80	0	2	18	0.82
1571725--1571778	11	5.2	10	76	14	56	81	0	3	14	0.82
1571727--1571778	22	2.4	21	82	17	63	80	0	3	15	0.85
1571729--1571802	18	4.2	17	75	11	60	81	2	4	12	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571725--1571802	9	8.0	9	75	16	50	80	2	3	12	0.95
1571767--1571866	45	2.2	43	78	16	105	70	5	5	20	1.26
1571811--1571843	14	2.3	15	85	15	52	75	3	0	21	0.93
1572938--1572981	19	2.4	18	77	7	52	68	2	0	29	1.02
1572979--1573179	38	5.1	38	80	14	203	44	6	3	44	1.49
1573031--1573167	44	3.2	45	84	14	164	45	5	2	45	1.42
1572979--1573244	81	3.4	74	75	15	214	42	7	4	45	1.52
1573031--1573192	81	1.9	86	84	9	219	44	7	3	45	1.47
1572979--1573248	39	6.8	39	75	14	196	42	7	4	45	1.52
1573962--1574022	30	2.1	30	90	3	97	14	29	39	16	1.88
1574039--1574077	8	4.9	8	83	0	51	28	28	30	12	1.93
1574041--1574077	16	2.3	16	95	0	65	27	27	32	13	1.94
1574474--1574511	9	4.2	9	83	10	51	31	0	2	65	1.06
1574594--1574646	28	1.9	27	88	3	79	32	1	16	49	1.57
1574593--1574657	27	2.3	29	82	10	82	36	1	15	46	1.55
1574850--1574889	21	1.9	21	94	0	71	27	0	17	55	1.43
1575076--1575157	22	3.4	22	73	23	83	45	0	13	41	1.43
1575075--1575132	30	1.9	30	96	0	107	41	0	13	44	1.44
1575109--1575147	11	3.5	11	80	13	53	48	0	12	38	1.42
1575710--1575777	29	2.4	29	97	2	129	26	13	35	25	1.92
1577511--1577552	17	2.5	17	80	0	57	57	2	0	40	1.12
1577517--1577577	14	4.7	14	75	17	51	50	6	1	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577469--1577595	59	2.2	57	84	11	159	48	7	2	40	1.45
1577680--1577936	26	10.0	26	77	11	214	43	10	2	44	1.50
1577687--1577915	49	4.5	51	73	19	69	44	9	2	44	1.49
1577667--1577926	75	3.4	74	77	14	196	43	9	2	44	1.49
1577667--1577947	14	22.3	12	73	17	180	43	9	2	44	1.51
1578081--1578220	14	10.9	14	74	17	133	43	8	2	45	1.46
1578081--1578220	26	5.5	26	83	8	171	43	8	2	45	1.46
1578081--1578235	49	3.1	48	83	7	177	43	9	3	44	1.52
1578206--1578249	22	2.0	23	90	4	72	47	15	6	29	1.72
1581099--1581139	16	2.6	16	100	0	82	48	4	7	39	1.52

Tables:   1   2   3   4   5   6   7   8   9