genome.fa.s8539.2.7.7.80.10.50.1000.9.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  9  of  31  ( 3630 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)
1596348--1596625	83	3.3	83	86	4	360	25	19	21	33	1.97
1597734--1597778	21	2.1	21	84	8	56	26	8	2	62	1.37
1608638--1608683	21	2.2	21	84	7	58	26	8	2	63	1.35
1614567--1614661	11	8.4	11	69	19	61	71	2	4	22	1.14
1614573--1614679	25	4.6	24	75	13	107	71	2	5	20	1.20
1614589--1614698	44	2.7	39	75	15	114	71	2	6	19	1.19
1614671--1614701	15	2.1	15	94	5	55	70	0	3	25	1.02
1614736--1614809	30	2.6	28	83	12	96	64	4	10	20	1.41
1614736--1614819	29	2.9	27	80	13	96	63	5	10	20	1.47
1615682--1615731	23	2.2	23	92	0	82	34	26	20	20	1.96
1615690--1615746	23	2.5	23	88	0	78	33	26	21	19	1.97
1617213--1617334	64	1.9	64	83	6	158	22	20	25	31	1.98
1617278--1617315	20	1.9	20	88	0	58	15	28	34	21	1.94
1617832--1617869	5	7.4	5	90	3	58	57	0	39	2	1.12
1619045--1619117	10	7.3	10	71	25	57	73	0	1	24	0.90
1619047--1619119	29	2.5	28	81	16	87	73	0	1	24	0.90
1619045--1619119	33	2.2	34	79	15	84	73	0	1	25	0.91
1619117--1619311	73	2.7	72	87	4	275	45	8	2	43	1.47
1619299--1619328	2	15.5	2	93	6	53	50	0	0	50	1.00
1619118--1619311	37	5.4	36	81	9	225	45	8	2	43	1.47
1619310--1619487	36	4.7	38	83	12	197	44	6	2	46	1.40
1619310--1619474	73	2.2	72	81	14	174	44	6	2	47	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620332--1620547	42	5.2	42	89	3	314	21	19	22	36	1.95
1620373--1620617	63	3.9	61	82	11	275	21	20	21	36	1.95
1620332--1620610	42	6.7	40	83	11	264	21	20	21	36	1.95
1620332--1620603	84	3.2	83	85	7	295	21	20	21	36	1.95
1620707--1620747	18	2.3	18	95	0	73	21	58	17	2	1.50
1620714--1620748	6	5.8	6	93	0	61	20	62	17	0	1.32
1621229--1621295	5	13.6	5	95	1	118	1	38	20	38	1.62
1621292--1621316	6	4.2	6	100	0	50	0	16	48	36	1.46
1621476--1621592	21	5.6	20	89	5	117	22	20	24	32	1.98
1621476--1621592	42	2.8	42	85	2	155	22	20	24	32	1.98
1626138--1626262	20	6.2	20	80	8	137	42	24	13	20	1.87
1626151--1626322	40	4.3	40	82	7	161	38	23	12	24	1.90
1626229--1626320	19	4.7	19	93	4	139	34	23	10	30	1.89
1626229--1626337	39	2.8	39	87	6	141	34	22	11	31	1.89
1626189--1626337	20	7.6	19	82	6	131	37	23	11	27	1.89
1627127--1627160	12	2.8	12	90	0	50	55	29	0	14	1.40
1627281--1627334	24	2.2	24	86	0	72	20	18	20	40	1.91
1629596--1629630	18	2.0	17	94	5	61	57	22	2	17	1.53
1629881--1629995	20	5.8	20	78	0	113	20	19	20	40	1.91
1630051--1630179	65	2.0	66	93	3	226	51	17	1	29	1.54
1631525--1631592	21	3.3	19	72	15	55	25	20	32	22	1.98
1631501--1631592	42	2.2	42	84	11	118	25	20	33	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633775--1633813	20	1.9	21	84	5	53	17	7	17	56	1.64
1634152--1634198	22	2.1	22	96	0	85	21	14	42	21	1.88
1634362--1634576	40	5.4	40	79	6	247	18	15	24	41	1.89
1634362--1634613	60	4.2	60	80	10	275	19	15	23	42	1.89
1634362--1634587	20	11.3	20	77	11	196	18	15	24	41	1.89
1634503--1634652	60	2.5	60	77	12	155	22	13	24	40	1.90
1635965--1636122	21	7.8	20	72	7	86	38	25	17	18	1.92
1636089--1636282	20	9.6	20	80	5	212	35	25	19	19	1.95
1636089--1636282	60	3.2	60	82	0	244	35	25	19	19	1.95
1636665--1636735	33	2.2	33	92	0	115	11	22	18	47	1.80
1636815--1636924	21	5.8	20	72	17	99	45	19	23	11	1.83
1636814--1636891	41	1.9	41	94	0	138	44	17	24	12	1.84
1636875--1636931	14	3.7	14	75	20	60	43	22	24	8	1.81
1636867--1636947	33	2.5	33	95	0	144	46	22	22	8	1.78
1636943--1637026	19	4.7	19	80	14	106	10	22	22	44	1.84
1636943--1637048	52	2.0	52	96	0	194	10	23	20	45	1.82
1638746--1639121	93	4.1	93	98	0	718	22	12	18	46	1.83
1639168--1639296	19	7.3	19	75	17	125	45	28	17	8	1.77
1639204--1639296	33	2.8	32	91	4	150	46	27	18	7	1.76
1639168--1639296	52	2.5	52	74	14	140	45	28	17	8	1.77
1639292--1639426	19	7.6	19	73	16	119	11	19	22	45	1.83
1639314--1639366	14	3.4	14	75	22	52	9	22	22	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639297--1639389	33	2.8	33	93	0	159	11	20	20	47	1.81
1641349--1641384	14	2.6	14	95	0	63	33	0	22	44	1.53
1641482--1641571	19	4.9	19	82	14	127	46	15	23	14	1.82
1641482--1641587	53	2.0	53	96	1	196	45	16	24	14	1.84
1641594--1641746	33	4.5	33	74	16	159	13	22	17	45	1.84
1641616--1641832	19	12.4	19	77	19	249	13	21	17	46	1.83
1641594--1641804	52	4.0	52	99	0	413	13	23	17	45	1.83
1641635--1641846	33	6.2	33	77	14	234	13	22	18	46	1.83
1644128--1644152	12	2.1	12	100	0	50	0	28	0	72	0.86
1644327--1644373	24	2.0	24	87	8	69	38	21	14	25	1.92
1645056--1645285	20	11.5	20	85	1	237	19	18	24	36	1.94
1645272--1645354	21	4.0	21	73	6	78	25	16	24	33	1.96
1645252--1645350	42	2.4	43	77	11	100	21	18	23	37	1.94
1646925--1646980	2	28.0	2	100	0	112	50	0	0	50	1.00
1650841--1650884	23	1.9	23	85	0	61	18	18	11	52	1.74
1652241--1652378	50	2.6	55	79	12	171	30	18	21	28	1.97
1658672--1658729	22	2.6	22	97	0	107	24	24	27	24	2.00
1659982--1660067	23	3.9	22	78	14	88	20	23	25	30	1.99
1661755--1662270	283	1.8	283	93	3	900	24	7	10	57	1.57
1661795--1662329	283	1.9	274	86	8	690	24	8	10	56	1.61
1663780--1663835	28	2.0	28	89	0	85	33	3	5	57	1.39
1664190--1664231	16	2.8	16	82	13	54	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664415--1664447	16	2.1	16	100	0	66	27	36	6	30	1.81
1664910--1664947	19	1.9	19	89	5	58	52	28	0	18	1.45
1665703--1665742	20	2.0	21	85	5	55	52	0	2	45	1.14
1665708--1665771	31	2.0	33	85	14	89	50	1	1	46	1.20
1673764--1673803	5	8.0	5	97	0	71	77	0	2	20	0.88
1674431--1674531	37	2.7	37	87	0	139	40	13	13	31	1.84
1675296--1675351	18	2.9	18	76	10	58	28	1	3	66	1.19
1675406--1675446	15	2.6	16	81	14	50	14	7	0	78	0.96
1675398--1675466	25	2.7	26	78	10	72	15	10	0	73	1.08
1678727--1678762	8	4.6	8	89	6	56	13	16	13	55	1.69
1678727--1678762	15	2.3	16	90	4	56	13	16	13	55	1.69
1679580--1679612	14	2.4	14	94	0	57	42	18	6	33	1.75
1679926--1680013	20	4.6	19	75	10	65	81	3	11	3	0.93
1679926--1680014	26	3.3	27	82	14	89	80	3	12	3	0.95
1679935--1680000	13	5.3	12	75	15	55	81	3	12	3	0.91
1679926--1680013	46	1.9	44	84	11	115	81	3	11	3	0.93
1680619--1680670	22	2.4	21	90	9	86	38	28	13	19	1.89
1681088--1681123	18	2.0	18	88	0	54	19	8	27	44	1.79
1681269--1682425	106	10.9	106	94	0	1893	33	24	18	23	1.96
1683159--1683258	36	2.7	37	89	1	139	42	14	14	30	1.84
1684027--1684142	18	6.2	19	68	20	59	28	5	1	64	1.24
1684119--1684189	24	2.9	24	77	10	81	16	9	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684713--1684771	31	1.9	31	92	0	100	40	6	10	42	1.65
1684796--1684838	22	2.0	22	100	0	86	51	13	0	34	1.42
1684798--1684846	22	2.2	22	88	3	71	55	14	0	30	1.40
1684787--1685349	54	10.4	54	77	12	564	53	12	0	33	1.43
1684818--1685225	32	14.7	31	68	28	246	52	13	0	33	1.45
1684920--1684973	14	3.6	14	75	18	54	59	3	0	37	1.15
1684964--1685012	22	2.2	22	85	3	62	55	12	0	32	1.37
1685015--1685058	22	2.0	22	95	0	79	54	13	2	29	1.51
1685018--1685066	22	2.2	22	85	3	62	59	14	2	24	1.46
1685072--1685120	22	2.2	22	85	3	62	53	16	0	30	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31