genome.fa.s8280.2.7.7.80.10.50.1000.7.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

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

This is table  7  of  17  ( 1944 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)
1458085--1458111	11	2.5	11	100	0	54	22	7	0	70	1.12
1458203--1458239	19	1.9	19	88	0	56	29	2	2	64	1.21
1458252--1458298	19	2.5	18	81	18	60	23	2	0	74	0.93
1458200--1458297	20	4.5	21	72	21	78	29	4	1	65	1.18
1459249--1459368	59	2.0	61	96	3	226	25	19	11	44	1.84
1460749--1460782	17	2.0	17	100	0	68	58	5	29	5	1.45
1462440--1462724	141	2.0	143	96	3	531	45	4	10	39	1.58
1463925--1463988	21	3.2	21	65	13	62	39	35	6	18	1.76
1463925--1464003	39	2.0	39	100	0	158	39	35	7	17	1.78
1465025--1465066	21	1.9	23	85	9	61	23	23	7	45	1.78
1465025--1465072	22	2.1	23	81	11	55	25	27	6	41	1.79
1476309--1476351	16	2.6	16	81	3	50	25	0	4	69	1.07
1476310--1476371	20	3.1	20	77	9	63	25	0	1	72	0.94
1476621--1476673	12	4.4	12	77	15	56	71	0	0	28	0.86
1476626--1476673	15	3.3	15	88	5	64	70	0	0	29	0.87
1478860--1478887	12	2.3	12	100	0	56	42	7	7	42	1.59
1478906--1479167	132	2.0	130	89	3	400	40	18	9	32	1.83
1482206--1482299	31	3.1	30	83	4	116	35	26	18	20	1.95
1482218--1482313	31	3.1	31	89	3	131	37	23	17	20	1.94
1487316--1487411	31	3.1	31	75	3	95	39	21	15	22	1.91
1491976--1492006	3	10.3	3	92	0	53	29	0	35	35	1.58
1495792--1495867	36	2.1	36	97	0	143	43	14	10	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500243--1500272	15	2.0	15	100	0	60	13	46	26	13	1.80
1500693--1500768	36	2.1	36	97	0	143	43	14	10	31	1.79
1502855--1502891	17	2.2	17	95	0	65	64	5	0	29	1.15
1506545--1506569	3	8.3	3	100	0	50	36	0	0	64	0.94
1506850--1506897	21	2.3	21	85	0	60	39	8	12	39	1.73
1507607--1507676	25	2.8	25	91	2	113	42	1	0	55	1.08
1507607--1507671	26	2.5	26	95	2	114	44	1	0	53	1.09
1524065--1524284	108	2.0	110	94	3	392	20	20	23	35	1.96
1526206--1526574	183	2.0	186	97	2	701	33	14	13	39	1.84
1535022--1535066	23	1.9	24	86	4	65	48	15	2	33	1.57
1535474--1535501	2	14.0	2	100	0	56	50	0	0	50	1.00
1542396--1542441	16	2.9	16	87	6	58	32	0	0	67	0.91
1551630--1551721	12	8.3	12	72	12	56	48	2	1	47	1.20
1551611--1551667	23	2.4	23	85	5	69	49	0	1	49	1.11
1551658--1551732	23	3.3	23	78	12	75	49	2	2	45	1.30
1552048--1552111	22	2.8	22	84	15	69	51	0	0	48	1.00
1552048--1552111	25	2.8	22	84	15	69	51	0	0	48	1.00
1552056--1552118	25	2.8	22	79	13	58	49	0	0	50	1.00
1552144--1552182	17	2.2	19	86	9	55	61	0	2	35	1.10
1560912--1562571	631	2.6	631	94	0	2849	29	18	19	32	1.96
1563038--1563069	16	2.0	16	100	0	64	12	12	25	50	1.75
1563671--1563725	21	2.6	21	97	0	101	32	29	27	10	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565113--1565173	22	2.8	23	78	14	67	3	32	4	59	1.35
1565283--1565337	21	2.6	21	97	0	101	32	29	27	10	1.91
1565813--1567233	631	2.3	631	92	0	2389	28	17	19	33	1.95
1568985--1569028	21	2.1	21	95	0	79	40	15	13	29	1.86
1570073--1570168	33	2.9	34	88	3	140	13	23	20	41	1.88
1570310--1570405	33	2.9	34	87	3	131	13	22	20	42	1.87
1570054--1570513	237	1.9	237	98	0	893	30	20	14	34	1.92
1570507--1570543	14	2.6	14	86	0	56	48	21	0	29	1.50
1571914--1572006	42	2.2	42	80	3	107	22	17	39	20	1.92
1572487--1572530	20	2.2	20	95	0	79	38	22	20	18	1.93
1572495--1572535	20	2.0	20	95	0	73	41	17	21	19	1.90
1572559--1572686	40	3.4	37	85	8	109	15	17	21	44	1.86
1572580--1572686	20	5.3	20	95	0	178	15	16	23	43	1.87
1574519--1574571	20	2.6	20	84	3	70	43	26	13	16	1.85
1574617--1574659	20	2.2	20	86	0	59	23	18	23	34	1.96
1575224--1575295	20	3.6	20	94	0	126	22	19	18	40	1.92
1575218--1575334	20	5.8	20	83	4	99	29	18	19	32	1.96
1575291--1575331	21	1.9	21	90	5	64	36	17	21	24	1.94
1582378--1582423	4	11.5	4	88	0	65	50	28	4	17	1.65
1582381--1582431	12	4.2	12	89	0	75	50	29	5	13	1.65
1582401--1582446	8	5.8	8	89	0	65	50	34	10	4	1.57
1584878--1584998	34	3.4	35	81	12	140	46	4	4	43	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584853--1585149	36	8.8	34	73	19	180	46	4	6	43	1.49
1584984--1585106	64	1.9	64	86	6	178	44	4	5	44	1.49
1584886--1585139	33	7.7	30	70	18	86	46	4	5	43	1.46
1591412--1592625	84	14.7	83	79	6	1295	29	26	21	22	1.99
1591412--1592496	165	6.6	165	93	1	1687	29	26	21	22	1.99
1593327--1593639	36	8.8	36	75	16	228	46	4	6	43	1.47
1593350--1593619	37	7.7	34	75	17	150	45	4	4	44	1.44
1593456--1593628	32	5.2	32	74	16	113	46	3	5	44	1.42
1593348--1593620	111	2.6	106	79	13	255	45	4	4	45	1.44
1593668--1593696	14	2.1	14	100	0	58	13	6	0	79	0.93
1604013--1604056	21	2.1	21	82	0	52	9	38	15	36	1.80
1604295--1604333	16	2.4	16	91	0	60	25	17	25	30	1.97
1605186--1605309	64	1.9	65	86	4	180	30	21	19	28	1.98
1605282--1605329	19	2.6	19	83	9	55	25	29	18	27	1.98
1607240--1607307	3	22.0	3	82	5	82	38	0	1	60	1.06
1608654--1608721	3	23.7	3	78	16	65	25	0	1	73	0.92
1608657--1608704	25	1.9	25	87	8	71	22	0	2	75	0.91
1608651--1608715	33	2.0	31	85	11	87	23	0	1	75	0.89
1609028--1609064	16	2.2	17	90	4	58	43	0	0	56	0.99
1609014--1609064	26	2.0	26	84	7	68	43	0	0	56	0.99
1609535--1609594	30	2.0	30	83	0	75	31	6	1	60	1.33
1613769--1613952	91	2.0	90	97	1	350	46	13	21	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615639--1615890	92	2.7	92	91	0	414	28	15	21	34	1.94
1618280--1618356	22	3.5	22	92	0	136	35	11	14	38	1.82
1619033--1619825	76	10.4	76	96	0	1388	23	20	21	35	1.96
1619957--1620024	3	22.0	3	82	5	82	38	0	1	60	1.06
1621350--1621435	16	5.6	15	74	14	61	23	2	1	73	1.02
1621365--1621432	3	23.7	3	78	16	65	25	0	1	73	0.92
1621452--1621502	2	26.0	2	92	4	86	52	0	0	47	1.00
1621758--1621786	14	2.1	14	100	0	58	41	0	0	58	0.98
1624104--1624184	20	4.1	20	79	6	101	38	28	13	19	1.90
1624177--1624305	57	2.3	57	84	2	161	27	15	20	35	1.93
1624221--1624382	77	2.1	78	89	4	249	27	13	22	36	1.92
1624279--1624324	20	2.3	20	92	0	74	26	13	26	34	1.92
1624298--1624496	57	3.5	56	86	4	272	26	15	22	36	1.93
1624177--1624760	134	4.4	134	77	6	617	26	15	21	36	1.92
1624468--1624516	20	2.5	20	86	0	71	26	16	24	32	1.96
1624412--1624634	77	2.9	77	93	0	374	26	15	19	38	1.92
1624369--1624764	211	1.9	211	94	0	693	27	15	20	36	1.93
1624572--1624707	57	2.4	57	91	2	211	26	13	21	38	1.91
1624679--1624727	20	2.5	20	93	0	89	26	16	26	30	1.97
1624622--1624808	77	2.4	79	84	6	238	26	16	22	35	1.94
1624800--1624850	20	2.5	20	90	0	75	19	15	19	45	1.86
1630006--1630048	22	1.9	22	85	4	59	46	4	16	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630950--1630975	5	5.2	5	100	0	52	23	57	19	0	1.40
1633936--1633980	25	2.0	22	83	16	56	48	17	0	33	1.48
1634266--1634296	2	15.5	2	100	0	62	48	0	0	51	1.00
1635241--1635270	2	15.0	2	100	0	60	50	0	0	50	1.00
1635315--1635402	37	2.4	37	84	5	106	37	28	11	22	1.89
1644241--1644277	16	2.4	16	82	8	51	78	5	0	16	0.93
1647644--1647749	45	2.3	47	88	6	153	31	9	19	39	1.84
1657370--1657545	14	11.9	14	84	11	167	75	0	13	11	1.05
1657410--1657545	7	18.7	7	93	4	209	75	0	11	13	1.06
1657370--1657566	7	26.4	7	82	11	135	76	0	13	10	1.03

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