genome.fa.s8228.2.7.7.80.10.50.1000.9.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  9  of  20  ( 2363 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)
1467993--1468054	22	2.8	22	90	0	97	22	17	41	17	1.90
1468203--1468375	20	8.6	20	76	14	151	20	15	23	41	1.90
1468203--1468391	60	3.1	59	80	10	195	21	15	24	39	1.91
1474540--1474748	110	1.9	110	89	2	321	33	24	19	22	1.97
1476253--1476293	19	2.2	19	86	8	57	24	2	0	73	0.96
1476249--1476301	26	2.0	26	85	3	70	22	5	0	71	1.06
1485063--1485120	29	2.0	29	83	6	73	29	13	15	41	1.86
1485151--1485213	29	2.2	28	88	2	90	26	26	34	11	1.90
1485278--1485361	29	2.9	29	94	0	141	17	26	36	19	1.94
1485376--1485425	25	2.0	25	92	0	82	18	32	20	30	1.96
1485796--1485839	21	2.1	21	91	0	70	29	0	15	54	1.42
1485816--1485878	28	2.2	30	94	5	112	30	0	12	57	1.36
1486364--1486400	17	2.2	17	90	0	56	37	0	13	48	1.43
1486377--1486420	23	2.0	24	86	13	67	29	0	15	54	1.42
1489307--1489412	14	8.1	14	77	14	127	48	1	7	42	1.42
1489497--1489607	14	8.2	13	72	15	57	40	5	9	45	1.59
1489508--1489575	21	3.2	21	70	15	68	38	7	5	48	1.55
1491792--1491825	15	2.2	16	94	5	61	55	5	0	38	1.24
1494833--1494902	19	3.7	19	69	7	61	47	14	20	18	1.83
1496745--1496813	21	3.4	21	79	16	67	28	34	17	18	1.94
1496756--1496813	21	2.7	23	81	13	77	27	34	18	18	1.95
1504816--1504862	24	1.9	25	91	4	78	38	17	21	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504815--1504868	24	2.2	25	83	3	74	44	14	20	20	1.86
1505275--1505315	21	2.0	20	90	4	64	26	0	2	70	0.99
1507303--1507389	42	2.1	42	82	4	104	39	17	17	26	1.91
1507840--1507886	22	2.1	22	88	0	67	46	4	19	29	1.68
1508755--1508787	14	2.4	14	94	0	57	48	0	3	48	1.17
1510234--1510280	22	2.1	22	96	0	85	44	8	19	27	1.79
1516244--1516401	44	3.6	44	85	1	203	32	23	16	27	1.96
1516395--1516478	43	2.0	43	87	0	123	33	22	17	26	1.96
1516407--1516595	43	4.4	43	79	2	182	34	23	16	25	1.96
1518110--1518134	13	1.9	13	100	0	50	24	0	4	72	1.02
1518194--1518237	18	2.5	17	81	3	52	45	0	0	54	0.99
1520787--1520899	60	1.9	60	83	0	145	47	4	16	30	1.66
1529376--1529421	2	23.0	2	100	0	92	50	0	0	50	1.00
1541731--1542065	126	2.7	125	91	1	526	27	18	21	32	1.97
1541731--1542024	42	7.0	42	94	0	498	27	19	22	31	1.97
1542485--1542793	53	5.8	53	85	1	386	32	20	25	22	1.98
1544407--1544456	3	16.7	3	100	0	100	32	0	0	68	0.90
1555869--1555923	25	2.2	25	93	0	92	21	29	16	32	1.95
1556616--1557009	82	4.8	81	86	4	513	34	16	11	37	1.85
1566446--1566490	23	2.0	23	86	0	63	26	26	26	20	1.99
1568316--1568360	21	2.1	21	91	0	72	15	22	28	33	1.95
1570248--1570294	24	2.0	24	100	0	94	21	21	12	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571371--1571415	23	2.0	23	86	0	63	26	26	26	20	1.99
1573234--1573278	21	2.1	21	87	0	63	15	24	28	31	1.96
1576574--1576612	15	2.6	15	95	0	69	15	30	20	33	1.94
1581309--1581383	32	2.3	33	84	9	100	53	0	1	45	1.08
1581371--1581505	64	2.1	63	85	6	182	34	13	7	44	1.72
1582195--1582223	5	5.8	5	100	0	58	37	20	41	0	1.53
1582706--1582751	6	8.4	5	92	7	56	0	19	54	26	1.44
1582893--1582940	19	2.5	19	100	0	96	41	18	20	18	1.90
1582849--1582961	22	5.4	22	86	6	112	38	23	19	18	1.93
1582843--1583023	41	4.4	40	72	14	113	40	22	18	18	1.92
1582821--1583022	82	2.4	83	80	6	223	40	21	17	21	1.92
1582953--1583069	20	5.8	20	78	3	108	39	23	18	18	1.92
1582953--1583069	61	1.9	61	96	0	216	39	23	18	18	1.92
1584421--1584530	30	3.8	28	74	19	91	31	1	2	63	1.19
1584433--1584530	29	3.3	29	81	8	110	30	1	3	65	1.15
1584658--1584729	30	2.2	32	80	14	85	31	5	0	62	1.18
1584795--1585025	29	7.6	29	70	16	137	54	1	6	36	1.36
1588129--1588203	20	3.7	19	70	16	62	41	0	0	58	0.98
1588296--1588626	181	1.8	179	96	1	617	41	7	11	40	1.69
1589114--1589142	7	4.1	7	100	0	58	41	41	17	0	1.49
1593000--1593050	21	2.4	21	96	0	93	33	33	13	19	1.91
1594047--1594091	20	2.2	21	88	4	65	4	13	6	75	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596865--1596910	23	2.0	23	82	4	56	50	6	6	36	1.54
1597179--1597373	42	4.5	43	71	13	123	23	32	20	24	1.98
1597797--1597830	3	11.3	3	87	12	52	32	0	0	67	0.91
1599320--1599568	30	8.4	30	71	3	135	16	15	10	57	1.66
1599322--1599455	29	4.6	29	75	2	97	18	14	10	55	1.67
1599322--1599455	59	2.3	59	81	0	151	18	14	10	55	1.67
1609535--1609890	195	1.8	195	87	1	534	27	28	17	26	1.98
1614050--1614078	2	14.5	2	100	0	58	51	0	0	48	1.00
1615007--1615047	2	20.5	2	100	0	82	51	0	0	48	1.00
1620403--1620521	60	1.9	63	80	8	138	31	15	14	38	1.87
1627638--1627692	28	1.9	28	85	3	74	76	1	12	9	1.10
1627638--1627693	29	1.9	29	82	7	69	76	1	12	8	1.08
1628923--1628980	13	4.2	13	77	6	53	67	3	1	27	1.17
1629009--1629246	38	6.3	38	72	16	140	44	6	2	46	1.44
1629231--1629266	2	18.5	2	94	5	65	50	0	0	50	1.00
1630027--1631506	164	9.0	164	80	6	915	25	19	24	30	1.98
1630308--1631506	244	4.9	243	82	5	1250	25	19	24	30	1.98
1630244--1631547	165	7.9	165	79	5	1058	25	19	23	30	1.98
1629942--1631547	328	4.9	332	82	5	1186	25	19	23	30	1.98
1632648--1632874	95	2.6	87	78	12	246	31	19	19	29	1.96
1632706--1632887	95	1.9	95	88	2	276	30	18	19	31	1.95
1636695--1636724	16	1.9	15	93	6	51	10	26	43	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637029--1637107	33	2.3	32	83	12	95	45	5	6	43	1.51
1636995--1637231	38	6.5	36	72	18	147	42	10	4	42	1.60
1637252--1637307	2	28.0	2	100	0	112	50	0	0	50	1.00
1639250--1639322	6	11.5	6	78	10	56	72	1	1	24	1.00
1639250--1639322	13	5.7	13	73	3	58	72	1	1	24	1.00
1639255--1639322	19	3.6	18	78	7	73	72	1	1	25	1.02
1639258--1639309	3	16.7	3	80	7	59	69	1	1	26	1.10
1639254--1639313	25	2.6	24	85	15	74	71	1	1	25	1.04
1639359--1639467	42	2.6	40	85	8	155	46	7	2	43	1.46
1639451--1639527	30	2.6	30	87	0	109	50	5	1	42	1.32
1639492--1639736	37	6.4	37	80	8	235	43	8	4	43	1.55
1639492--1639736	111	2.1	114	83	5	309	43	8	4	43	1.55
1639532--1639760	111	2.0	114	83	5	288	43	9	5	42	1.59
1639750--1639780	12	2.6	12	89	0	53	38	0	9	51	1.35
1640325--1641568	164	7.6	164	86	1	1517	25	19	24	30	1.98
1640325--1641513	492	2.4	491	87	1	1700	25	19	24	30	1.98
1642630--1642855	94	2.6	83	75	18	240	33	19	17	29	1.95
1647079--1647137	24	2.5	26	73	18	65	6	6	28	57	1.50
1647611--1647686	6	11.5	6	72	17	53	72	1	1	25	1.00
1647611--1647686	13	5.7	13	75	6	62	72	1	1	25	1.00
1647619--1647673	3	17.7	3	81	7	65	69	1	1	27	1.09
1647690--1647936	37	6.6	36	77	10	221	43	6	4	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1647738--1647945	111	1.8	115	83	11	277	42	7	5	44	1.55
1647963--1648009	2	24.0	2	86	4	69	48	0	4	46	1.21
1648202--1648282	25	3.2	25	100	0	162	29	12	23	34	1.91
1648788--1648852	22	3.0	22	89	8	91	23	40	13	23	1.90
1649208--1649312	20	5.6	20	79	13	132	10	20	19	50	1.76
1649213--1649312	34	2.7	38	86	9	136	11	20	19	50	1.77
1651278--1651319	4	10.5	4	84	0	57	23	2	4	69	1.20
1651278--1651319	12	3.5	12	90	0	66	23	2	4	69	1.20
1651469--1651579	21	5.3	21	76	8	100	20	36	20	22	1.96
1651463--1651579	42	2.8	42	89	0	180	21	35	19	23	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20