genome.fa.s1497.2.7.7.80.10.50.1000.7.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: VEPZ01001497.1 Hibiscus syriacus cultivar Beakdansim tig00002919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1780709

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 861 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)
1408279--1408325	15	3.1	15	73	14	51	51	0	0	48	1.00
1415596--1415624	10	2.9	10	100	0	58	62	0	37	0	0.96
1424595--1424671	38	2.0	38	94	0	136	50	18	14	16	1.78
1425197--1425236	20	2.0	21	85	5	55	20	10	0	70	1.16
1425682--1425708	5	5.4	5	100	0	54	18	62	18	0	1.32
1427635--1427667	14	2.3	15	89	5	50	54	18	3	24	1.57
1427685--1427720	2	18.0	2	94	0	63	47	0	2	50	1.15
1427716--1427828	56	2.0	56	98	0	217	26	1	23	47	1.61
1430169--1430211	22	2.0	21	82	8	52	32	13	23	30	1.93
1431108--1431193	29	3.0	29	91	0	136	16	31	30	22	1.95
1431311--1431385	33	2.3	33	86	4	98	10	40	22	26	1.87
1431377--1431409	14	2.4	14	94	0	57	6	30	39	24	1.79
1443274--1443440	56	2.9	56	80	7	158	32	12	5	49	1.63
1461360--1461430	25	2.8	25	70	8	63	57	1	1	39	1.16
1461417--1461454	16	2.4	15	87	12	58	63	0	0	36	0.95
1461405--1461456	17	3.1	16	86	8	68	65	0	0	34	0.93
1465091--1465148	23	2.5	23	71	20	57	31	1	13	53	1.50
1469535--1469565	16	1.9	16	93	0	53	25	6	6	61	1.45
1471070--1471110	19	2.2	18	91	4	64	41	0	2	56	1.13
1472795--1472821	14	1.9	14	100	0	54	59	0	11	29	1.32
1475742--1475789	22	2.2	22	100	0	96	12	4	39	43	1.62
1479793--1479830	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1484513--1484548	7	5.1	7	93	0	63	72	0	25	2	0.98
1489368--1489474	34	3.1	34	86	0	142	37	2	3	56	1.32
1489995--1490063	21	3.3	21	88	8	104	21	27	31	18	1.97
1490073--1490112	21	1.9	21	89	0	62	22	12	37	27	1.90
1490072--1490118	21	2.2	21	80	0	58	21	12	40	25	1.89
1491691--1491779	32	2.6	33	79	10	92	58	2	0	39	1.11
1491719--1491786	20	3.7	19	72	20	54	60	2	0	36	1.12
1491691--1491770	35	2.3	35	81	12	96	60	1	0	38	1.05
1491723--1491799	35	2.2	34	82	8	93	62	5	0	32	1.17
1492871--1493000	49	2.7	49	93	0	224	20	34	30	15	1.93
1495819--1495852	2	17.0	2	100	0	68	50	0	0	50	1.00
1508253--1508317	25	2.5	25	80	16	62	36	4	1	56	1.29
1514192--1514253	32	1.9	32	87	6	90	53	1	1	43	1.20
1514863--1515033	90	1.9	91	83	1	227	40	8	9	40	1.68
1518590--1518631	2	21.0	2	95	0	75	50	2	0	47	1.14
1520998--1521046	18	2.5	19	80	12	55	24	4	2	69	1.17
1521947--1521980	15	2.3	15	100	0	68	20	5	38	35	1.77
1527803--1527854	23	2.4	22	83	6	61	51	7	5	34	1.54
1527812--1527856	23	2.0	23	90	0	72	48	8	8	33	1.65
1531665--1531691	9	3.0	9	100	0	54	22	33	22	22	1.97
1532243--1532285	23	1.9	22	90	4	68	37	0	0	62	0.95
1535475--1535538	2	32.5	2	84	3	85	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535437--1535517	32	2.5	33	85	4	110	51	0	0	48	1.00
1535556--1535590	12	2.9	12	86	0	52	28	48	11	11	1.74
1536268--1536335	31	2.2	31	89	0	100	27	26	11	33	1.91
1537636--1537702	31	2.2	31	91	0	107	25	23	14	35	1.94
1542022--1542086	27	2.7	23	73	17	58	72	7	6	13	1.27
1542205--1542235	16	1.9	16	100	0	62	25	6	0	67	1.14
1543765--1543819	19	2.9	19	97	0	101	32	27	16	23	1.96
1543805--1543881	20	3.8	20	70	13	59	25	24	16	32	1.96
1543974--1544013	19	2.1	19	100	0	80	27	25	20	27	1.99
1544585--1544690	20	5.4	20	81	3	90	16	15	21	47	1.82
1546602--1546650	20	2.5	20	90	6	73	32	26	22	18	1.97
1546642--1546717	33	2.3	34	90	2	118	46	19	19	14	1.84
1546684--1546721	20	1.9	20	94	0	67	47	18	21	13	1.82
1546717--1546759	19	2.3	19	88	8	61	18	16	20	44	1.87
1546722--1546760	19	2.0	20	95	5	71	15	15	17	51	1.77
1546766--1546833	20	3.4	20	88	8	102	17	20	26	35	1.95
1546820--1546862	20	2.2	20	95	0	77	13	11	23	51	1.74
1546765--1546853	40	2.2	40	82	4	108	16	17	25	39	1.91
1547392--1547450	21	2.8	21	71	5	57	20	33	20	25	1.97
1547339--1547450	42	2.7	42	79	5	136	18	34	19	26	1.95
1548991--1549051	20	3.0	20	90	0	95	45	21	19	13	1.84
1549096--1549160	20	3.3	19	76	6	67	27	23	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549052--1549194	73	1.9	74	83	4	182	24	20	20	34	1.97
1549123--1549268	54	2.7	53	69	7	132	24	18	21	35	1.95
1549200--1549276	20	3.8	20	92	0	127	25	18	22	33	1.96
1549044--1549276	34	6.3	40	76	12	164	25	19	21	34	1.96
1549247--1549529	140	2.0	140	96	0	521	43	14	13	28	1.82
1551885--1551938	24	2.2	24	90	0	81	42	20	16	20	1.89
1552091--1552143	22	2.4	22	96	0	97	33	7	28	30	1.85
1552775--1552818	20	2.2	20	91	0	70	25	18	31	25	1.97
1552926--1552964	19	2.1	19	90	0	60	25	15	25	33	1.95
1563567--1563606	21	1.9	21	94	0	71	45	17	0	37	1.49
1571244--1571288	17	2.6	17	75	0	54	42	0	0	57	0.98
1571299--1571332	16	2.1	16	89	10	52	58	14	0	26	1.36
1572631--1572727	36	2.7	36	91	0	149	35	19	14	30	1.92
1581890--1581921	2	16.0	2	100	0	64	50	0	0	50	1.00
1611374--1611400	2	13.5	2	100	0	54	48	0	0	51	1.00
1624451--1624484	15	2.2	16	94	5	61	55	2	35	5	1.39
1627781--1627807	4	6.8	4	100	0	54	77	0	0	22	0.76
1628256--1628306	15	3.4	15	70	20	52	43	5	3	47	1.46
1628247--1628308	30	2.1	30	100	0	124	46	6	3	43	1.45
1628426--1628518	21	4.4	21	78	10	118	38	18	19	23	1.93
1628419--1628558	42	3.3	42	78	11	153	35	21	20	23	1.96
1628510--1628564	21	2.6	21	94	0	92	30	29	21	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628419--1628558	63	2.2	61	83	7	199	35	21	20	23	1.96
1628572--1628625	21	2.6	21	87	0	81	24	22	27	25	2.00
1636429--1636497	31	2.3	31	82	5	88	36	4	13	46	1.62
1638106--1638131	3	8.7	3	100	0	52	30	0	0	69	0.89
1638683--1638718	16	2.3	16	90	4	56	38	8	0	52	1.32
1645835--1645891	11	5.0	11	76	6	51	15	10	1	71	1.21
1645847--1645900	23	2.3	23	96	3	99	16	11	0	72	1.12
1655980--1656120	21	6.8	21	82	4	169	31	24	19	23	1.98
1656021--1656164	41	3.3	41	74	22	148	33	21	21	23	1.97
1656304--1656346	6	7.5	6	94	2	54	25	58	16	0	1.38
1656991--1657127	21	6.6	21	78	11	147	30	25	20	23	1.98
1656991--1657168	83	2.1	83	85	6	236	29	24	20	25	1.99
1657117--1657189	20	3.6	20	79	17	96	23	21	19	35	1.96
1657054--1657284	41	5.4	41	77	15	218	25	23	21	29	1.99
1657053--1657193	21	6.8	21	76	16	91	26	24	20	29	1.99
1657117--1657300	21	8.6	19	71	22	77	23	22	21	32	1.98
1657177--1657232	29	1.9	29	100	0	112	23	25	23	28	1.99
1662002--1662074	30	2.4	30	93	0	119	31	24	19	24	1.98
1662057--1662185	63	2.1	61	87	7	188	32	20	20	27	1.97
1662060--1662187	31	4.1	31	80	9	152	33	21	18	26	1.96
1663561--1663606	21	2.2	21	88	0	65	15	26	28	30	1.96
1666996--1667068	30	2.4	30	88	0	110	31	23	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667051--1667179	63	2.1	61	87	7	188	32	20	20	27	1.97
1667054--1667181	31	4.1	31	80	9	152	33	21	18	26	1.96
1668552--1668597	21	2.2	21	88	0	65	15	26	28	30	1.96
1669532--1669669	42	3.3	41	82	6	145	31	18	18	31	1.95
1669604--1669681	40	2.0	40	94	0	138	28	25	19	26	1.99
1669965--1669989	9	2.8	9	100	0	50	36	8	32	24	1.84
1705765--1705795	15	2.0	16	93	6	55	48	6	6	38	1.55
1709366--1709427	30	2.1	31	90	6	101	38	12	19	29	1.89
1712770--1712801	5	6.8	5	86	13	50	81	0	18	0	0.70
1714924--1714984	2	30.5	2	100	0	122	49	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8