genome.fa.s8798.2.7.7.80.10.50.1000.8.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: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1825372

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1068 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)
1518596--1518722	30	4.3	30	89	6	206	29	25	22	22	1.99
1519731--1519774	21	2.2	20	91	4	70	18	25	25	31	1.97
1522267--1522396	30	4.3	30	97	0	242	29	26	23	21	1.99
1523420--1523464	21	2.1	21	91	0	72	17	24	26	31	1.97
1524592--1524688	47	2.0	48	82	9	119	40	12	6	41	1.68
1530135--1530177	16	2.7	16	100	0	86	58	18	11	11	1.63
1536558--1536639	39	2.1	40	84	6	105	30	14	26	28	1.95
1537451--1537483	15	2.2	15	94	0	57	75	0	0	24	0.80
1537476--1537537	28	2.2	28	86	11	83	66	1	4	27	1.21
1537471--1537537	29	2.3	28	82	12	82	65	1	4	28	1.21
1538021--1538157	38	3.7	37	86	2	159	51	4	0	43	1.27
1538021--1538157	37	3.7	37	85	2	159	51	4	0	43	1.27
1541386--1541570	38	4.9	37	83	4	194	44	6	4	43	1.51
1541392--1541535	75	1.9	74	87	1	207	45	6	4	44	1.48
1541934--1541973	21	1.9	21	89	0	62	17	22	17	42	1.89
1541929--1541981	21	2.5	21	78	0	61	20	24	18	35	1.95
1541971--1542137	20	8.3	20	88	5	248	37	20	20	22	1.95
1541971--1542158	60	3.1	60	78	15	201	36	21	19	22	1.95
1542999--1543052	24	2.2	24	93	0	90	20	18	20	40	1.91
1545484--1545568	20	4.3	20	85	4	111	35	24	21	18	1.96
1545564--1545631	33	2.1	33	88	0	100	14	23	19	42	1.88
1545744--1545780	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547732--1547776	20	2.2	20	96	0	81	42	20	22	15	1.89
1547732--1547790	20	3.0	20	89	0	73	40	20	18	20	1.91
1547831--1547879	20	2.5	20	86	0	71	34	24	20	20	1.96
1547922--1548067	20	7.6	20	83	9	187	19	19	21	39	1.93
1547886--1548067	94	1.9	93	86	1	256	19	19	19	40	1.92
1547922--1548064	54	2.5	54	86	6	187	19	20	20	39	1.93
1549949--1550012	20	3.2	20	86	2	94	50	21	15	12	1.77
1550030--1550076	20	2.3	20	88	0	67	21	19	23	36	1.95
1550650--1550722	20	3.7	20	92	0	119	26	20	17	35	1.95
1550723--1550768	21	2.2	21	84	0	56	36	19	28	15	1.92
1553341--1553365	12	2.1	12	100	0	50	32	0	0	68	0.90
1553725--1553758	17	2.1	17	88	5	52	23	0	2	73	0.97
1553721--1553747	14	1.9	14	100	0	54	22	0	7	70	1.12
1555310--1555545	119	2.0	119	93	3	404	29	15	19	35	1.92
1562284--1562324	20	2.0	20	95	0	73	31	17	9	41	1.82
1565980--1566017	2	19.0	2	100	0	76	50	0	0	50	1.00
1566353--1566395	20	2.2	20	86	0	59	18	9	2	69	1.26
1566436--1566485	22	2.2	23	79	13	59	18	10	8	64	1.48
1568651--1568686	3	12.0	3	88	11	56	69	0	0	30	0.89
1571581--1571605	3	8.3	3	100	0	50	68	0	0	32	0.90
1580458--1580503	23	2.0	23	91	0	74	43	13	8	34	1.74
1580465--1580514	23	2.2	23	81	0	55	46	14	8	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581426--1581466	18	2.3	18	87	4	57	29	7	2	60	1.36
1583679--1583770	25	3.8	24	70	22	66	26	5	4	64	1.34
1584274--1584308	17	2.1	17	94	0	61	22	8	37	31	1.85
1587130--1587157	12	2.3	12	100	0	56	67	0	0	32	0.91
1587312--1587421	51	2.2	51	80	6	127	25	28	31	14	1.95
1589715--1589756	19	2.2	19	91	0	66	35	21	14	28	1.92
1592965--1593000	18	2.0	18	94	0	63	55	25	2	16	1.55
1593360--1593404	20	2.2	20	84	7	56	26	17	17	37	1.93
1593470--1593521	25	2.1	25	92	0	86	28	5	21	44	1.75
1593906--1593942	18	2.1	18	89	0	56	29	8	10	51	1.65
1593898--1593950	24	2.2	24	89	0	79	33	5	13	47	1.66
1594254--1594340	39	2.2	39	97	0	165	47	20	14	17	1.83
1594516--1594558	20	2.2	20	91	0	68	41	23	16	18	1.89
1594661--1594826	66	2.6	65	77	14	186	56	15	1	27	1.47
1596168--1596263	21	4.6	21	76	8	97	21	18	36	22	1.95
1596168--1596263	42	2.3	42	82	7	122	21	18	36	22	1.95
1598891--1598935	20	2.2	20	96	0	81	17	17	24	40	1.91
1599289--1599415	64	2.0	64	93	0	218	33	31	13	21	1.92
1600613--1601045	42	10.6	39	79	10	234	28	21	18	31	1.97
1600688--1601043	42	8.6	43	85	8	456	26	21	18	32	1.97
1600643--1601043	83	4.9	85	84	10	457	27	21	18	32	1.96
1600644--1601043	125	3.3	123	88	4	555	27	21	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604689--1604747	21	2.8	21	81	0	64	18	6	18	55	1.64
1604907--1605167	43	6.1	43	84	4	321	29	21	21	27	1.98
1606884--1606972	29	3.1	29	96	0	160	19	26	37	16	1.93
1606959--1607080	60	2.0	60	100	0	244	13	21	42	22	1.87
1607100--1607183	29	2.9	28	92	3	132	23	29	30	15	1.95
1607258--1607293	11	3.2	11	84	7	54	22	22	19	36	1.95
1607487--1607524	9	4.2	9	83	10	51	31	0	2	65	1.06
1607607--1607659	28	1.9	27	88	3	79	32	1	16	49	1.57
1607606--1607670	27	2.3	29	82	10	82	36	1	15	46	1.55
1607779--1607840	29	2.2	28	88	5	90	38	0	6	54	1.26
1607865--1607904	21	1.9	21	94	0	71	25	2	15	57	1.50
1608083--1608208	30	4.4	30	73	22	94	42	1	9	46	1.46
1608155--1608202	22	2.1	23	92	3	80	45	2	10	41	1.50
1609479--1609514	18	2.0	18	88	0	54	44	0	2	52	1.15
1609483--1609528	23	2.0	23	87	8	67	41	0	4	54	1.20
1609477--1609527	22	2.5	21	80	20	63	41	0	1	56	1.10
1610501--1610545	14	3.4	14	79	17	60	44	17	0	37	1.49
1610501--1610555	25	2.4	22	85	11	67	47	14	0	38	1.45
1610517--1610566	21	2.3	22	80	10	59	52	8	0	40	1.31
1610566--1610592	10	2.7	10	100	0	54	40	18	0	40	1.51
1610576--1611283	49	13.3	49	79	16	709	46	11	0	41	1.41
1610513--1610701	60	3.2	59	87	3	299	47	11	0	41	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610576--1611404	109	7.6	108	85	8	848	46	11	0	41	1.41
1610734--1610859	60	2.1	60	94	1	218	45	11	0	42	1.41
1610517--1611403	158	5.4	158	85	10	1009	46	11	0	41	1.41
1610849--1610968	60	2.0	60	98	0	231	45	13	0	40	1.49
1610953--1611077	60	2.1	60	92	1	207	46	12	0	41	1.41
1611165--1611252	24	3.6	24	64	3	59	48	12	0	38	1.41
1611267--1611406	21	7.0	21	63	21	57	45	12	0	41	1.42
1611218--1611406	60	3.2	60	93	0	326	46	12	0	41	1.41
1614464--1614517	28	1.9	28	92	0	90	57	14	0	27	1.38
1614460--1614524	28	2.3	28	82	10	87	55	12	0	32	1.37
1615172--1615256	29	2.9	30	89	3	120	16	29	34	20	1.94
1615301--1615356	29	1.9	29	92	0	94	12	19	41	26	1.87
1615870--1615919	20	2.5	20	83	0	64	32	6	4	58	1.41
1617818--1617879	23	2.7	22	75	22	65	61	4	4	29	1.37
1619267--1619323	3	19.0	3	83	7	71	61	0	1	36	1.07
1619267--1619329	33	2.0	31	90	6	99	60	0	1	38	1.07
1619451--1620169	76	9.5	76	97	0	1357	36	21	20	22	1.95
1621238--1621393	54	2.9	53	90	1	231	23	21	16	37	1.93
1622268--1622437	74	2.3	74	83	3	207	29	19	16	34	1.94
1623684--1624078	83	4.7	83	89	0	565	37	21	13	28	1.91
1626649--1626688	2	20.0	2	100	0	80	50	0	0	50	1.00
1631870--1631939	11	6.0	11	70	23	54	62	4	4	28	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633319--1633370	3	17.0	3	78	11	52	59	0	1	38	1.08
1633297--1633369	37	2.0	36	82	12	87	56	0	1	42	1.08
1633297--1633366	28	2.6	25	82	13	68	55	0	1	42	1.08
1635433--1635498	20	3.3	20	79	8	89	36	21	21	21	1.95
1635429--1635508	40	2.0	39	95	2	142	33	20	22	23	1.97
1635429--1635569	20	6.7	20	72	13	86	30	22	21	25	1.99
1636393--1636446	24	2.2	24	93	0	90	20	18	20	40	1.91
1638708--1638747	18	2.2	18	95	0	71	55	25	2	17	1.55
1638864--1639137	20	14.7	20	72	15	167	36	19	20	23	1.95
1638869--1639025	54	2.9	54	94	0	260	36	20	21	22	1.95

Tables:   1   2   3   4   5   6   7   8   9