genome.fa.s8053.2.7.7.80.10.50.1000.8.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   32   

This is table  8  of  32  ( 3749 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)
1394521--1394550	2	15.0	2	100	0	60	50	0	0	50	1.00
1394950--1395001	22	2.5	20	79	17	61	44	19	13	23	1.86
1397450--1397529	40	2.0	40	100	0	160	55	10	7	27	1.60
1398662--1398758	31	3.1	31	88	5	142	31	24	18	24	1.97
1410209--1410249	19	2.2	19	86	8	57	39	9	0	51	1.35
1411245--1411303	21	2.7	22	78	5	75	22	23	20	33	1.97
1411320--1411425	20	5.3	20	89	0	149	23	26	24	25	2.00
1412007--1412113	20	5.4	20	86	3	110	14	15	23	45	1.84
1412077--1412120	20	2.2	20	87	0	61	13	11	20	54	1.69
1414050--1414116	20	3.5	19	86	8	91	17	19	26	35	1.94
1414607--1414648	21	2.2	19	87	12	59	21	35	19	23	1.96
1414631--1414712	42	2.0	42	82	4	103	24	36	18	20	1.95
1416866--1416927	14	4.3	14	77	6	61	38	0	14	46	1.45
1417026--1417078	20	2.7	20	87	0	70	45	24	16	13	1.83
1417142--1417295	74	2.1	74	81	4	177	25	18	21	34	1.96
1417088--1417265	94	1.9	94	88	0	266	25	19	20	34	1.96
1417073--1417281	20	11.1	20	69	14	131	26	19	21	32	1.97
1417296--1417557	140	1.9	140	95	0	479	41	15	12	30	1.84
1419679--1419713	14	2.4	15	85	9	54	5	25	22	45	1.74
1420786--1420873	20	4.4	20	89	0	122	27	20	25	27	1.99
1421075--1421114	16	2.4	16	91	4	62	22	5	17	55	1.61
1427336--1427391	29	1.9	30	86	13	82	60	3	3	32	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438065--1438214	30	4.9	30	83	6	201	28	24	16	31	1.96
1438092--1438213	64	1.9	64	94	0	217	27	24	15	31	1.96
1438364--1438432	22	3.2	22	95	2	122	46	8	4	40	1.55
1447139--1447172	17	2.0	17	88	0	50	14	2	29	52	1.56
1453242--1453279	20	1.9	20	88	0	58	21	26	10	42	1.85
1454433--1454472	19	2.0	20	95	4	73	27	22	20	30	1.98
1454993--1455043	19	2.7	19	93	0	84	29	23	21	25	1.99
1455091--1455143	21	2.5	21	84	0	70	20	26	18	33	1.96
1455133--1455240	20	5.3	20	82	3	126	39	15	21	23	1.91
1455133--1455240	41	2.7	41	89	1	155	39	15	21	23	1.91
1458665--1458719	19	2.8	20	83	2	67	38	21	21	18	1.94
1458692--1458818	33	3.8	33	91	0	209	44	18	24	12	1.84
1458672--1458822	19	8.7	19	63	21	62	43	19	24	12	1.85
1458818--1458912	19	5.3	19	78	14	87	13	16	23	46	1.83
1458833--1458896	33	1.9	33	87	6	94	10	15	23	50	1.76
1458877--1458920	19	2.3	19	88	0	61	15	20	18	45	1.85
1459019--1459055	14	2.6	14	91	0	65	45	21	0	32	1.52
1460405--1460471	21	3.2	21	68	4	55	19	20	35	23	1.95
1460924--1460998	19	3.8	19	75	12	62	52	16	17	14	1.76
1467734--1467776	20	2.2	20	86	0	59	34	20	13	30	1.92
1467843--1467880	20	1.9	20	94	0	67	7	15	26	50	1.72
1467869--1467908	14	2.9	14	88	0	62	10	17	25	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467899--1467953	20	2.8	19	86	5	74	10	21	16	50	1.75
1468044--1468420	94	4.1	95	92	3	599	47	18	11	22	1.81
1468044--1468420	189	2.0	184	91	3	603	47	18	11	22	1.81
1470101--1470163	20	3.2	20	82	8	83	46	17	23	12	1.83
1470204--1470260	14	3.7	14	72	20	51	10	22	22	43	1.84
1470188--1470268	33	2.5	33	93	0	135	9	20	22	46	1.80
1470218--1470321	21	5.6	19	74	17	76	11	20	20	48	1.80
1470215--1470321	19	5.8	20	72	20	83	11	20	19	48	1.79
1470273--1470318	18	2.4	18	85	7	56	15	15	23	45	1.84
1470861--1470953	20	4.7	20	91	0	159	21	20	20	37	1.94
1470943--1470995	21	2.5	21	81	0	61	35	18	24	20	1.95
1475473--1475503	16	1.9	16	93	0	53	41	0	6	51	1.27
1475794--1475838	21	2.1	21	91	0	72	46	2	13	37	1.55
1476880--1476942	11	5.9	11	73	14	60	57	1	1	39	1.18
1477059--1477123	21	3.1	21	86	4	78	46	30	0	23	1.53
1477059--1477123	14	4.6	14	75	7	69	46	30	0	23	1.53
1478851--1479230	181	2.1	181	97	2	717	47	15	17	19	1.82
1479911--1479949	12	3.3	12	82	3	53	33	20	23	23	1.97
1479911--1479965	23	2.3	24	90	3	85	34	20	20	25	1.96
1480001--1480032	16	2.0	16	100	0	64	12	12	25	50	1.75
1483647--1483686	18	2.2	18	90	0	62	20	52	15	12	1.74
1486177--1486291	24	4.8	24	80	7	135	25	15	18	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488328--1488361	16	2.2	16	94	5	61	14	29	26	29	1.95
1490802--1490917	24	4.8	24	88	6	164	23	17	18	40	1.91
1490854--1490926	24	3.1	24	84	5	69	21	15	19	43	1.87
1503844--1503918	38	2.1	36	83	14	93	37	21	6	34	1.80
1509393--1509429	19	2.0	19	89	5	58	18	27	40	13	1.88
1516204--1516253	23	2.2	23	92	3	84	20	26	36	18	1.95
1516204--1516266	23	2.7	23	87	4	74	20	26	30	22	1.98
1543847--1544097	67	3.8	67	86	1	299	30	22	15	31	1.95
1543997--1544497	115	4.4	115	83	5	606	29	20	16	33	1.95
1543997--1544507	230	2.2	227	86	3	704	29	20	16	33	1.95
1545038--1545106	24	2.8	24	82	4	84	24	44	15	14	1.84
1545037--1545173	26	5.3	26	81	1	152	27	43	13	15	1.85
1550626--1550699	26	2.8	26	89	0	112	14	16	43	25	1.86
1550924--1551001	23	3.3	25	75	13	76	52	0	0	47	1.00
1552238--1552623	183	2.1	184	90	4	611	42	3	8	45	1.49
1552595--1552630	16	2.2	16	100	0	72	44	0	5	50	1.25
1552602--1552649	16	3.1	16	85	11	57	47	0	2	50	1.12
1557137--1557191	27	2.1	25	90	6	83	58	0	0	41	0.98
1557164--1557249	43	2.0	43	88	2	129	56	1	1	40	1.14
1557132--1557236	36	3.0	35	77	16	119	57	0	0	41	1.05
1557457--1557512	27	1.9	28	86	13	78	55	0	3	41	1.17
1557460--1557506	19	2.5	19	75	6	51	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557839--1557882	21	2.1	21	86	0	61	56	2	0	40	1.11
1562218--1562297	38	2.1	39	84	9	103	51	3	0	45	1.19
1570918--1570942	7	3.6	7	100	0	50	0	16	12	72	1.13
1572777--1572831	21	2.6	21	94	0	92	29	21	25	23	1.99
1572961--1573027	14	4.5	14	77	7	62	65	2	0	31	1.07
1573334--1573420	31	2.8	30	83	10	104	42	0	3	54	1.17
1574148--1574227	11	7.7	10	71	17	56	52	3	0	43	1.19
1574141--1574227	31	2.8	30	83	10	104	54	3	0	42	1.17
1574145--1574194	19	2.5	21	84	9	70	56	2	0	42	1.11
1576340--1576459	62	1.9	62	98	0	231	23	25	20	31	1.98
1589805--1589845	20	2.0	20	90	9	66	53	4	9	31	1.55
1589866--1589945	35	2.3	35	93	0	133	23	6	30	40	1.79
1594868--1594952	23	3.7	23	75	10	84	17	24	27	30	1.97
1594884--1594948	24	2.8	24	76	6	71	16	24	26	32	1.96
1595653--1595695	12	3.8	12	81	12	63	23	20	13	41	1.88
1595653--1595704	12	4.8	10	79	13	50	25	19	13	42	1.87
1595653--1595719	22	3.0	22	88	4	89	25	19	13	41	1.88
1600410--1600449	16	2.4	17	83	4	55	22	5	25	47	1.71
1600991--1601078	23	3.8	23	78	14	99	17	26	26	30	1.97
1606380--1606413	17	1.9	18	88	5	52	23	8	0	67	1.18
1607053--1607121	31	2.2	30	87	7	102	46	2	1	49	1.25
1607083--1607148	25	2.7	24	80	13	73	51	3	0	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608600--1609296	291	2.3	297	89	4	1050	20	18	20	39	1.92
1610621--1610667	22	2.2	21	92	3	76	42	2	0	55	1.12
1612497--1612675	90	2.0	90	95	0	322	33	29	15	22	1.94
1631448--1631524	37	2.1	37	85	4	102	48	1	3	46	1.28
1632245--1632291	22	2.1	23	88	4	69	44	2	0	53	1.12
1632239--1632318	32	2.5	32	80	14	92	47	2	0	50	1.14
1632305--1632369	29	2.2	31	83	5	89	43	0	1	55	1.09
1632394--1632462	19	3.6	18	71	21	52	49	1	1	47	1.19
1632349--1632442	27	3.4	27	70	18	68	47	1	2	48	1.20
1632583--1632621	20	2.0	19	85	5	51	58	0	2	38	1.12

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   32