genome.fa.s8150.2.7.7.80.10.50.1000.7.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: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3012591

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

This is table  7  of  14  ( 1639 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)
1480449--1480570	40	3.0	40	98	0	235	23	17	26	32	1.96
1480674--1480795	48	2.6	45	78	10	127	41	7	19	31	1.79
1486859--1486905	20	2.4	19	86	6	67	48	0	17	34	1.47
1486867--1486905	20	2.0	20	94	0	69	51	0	15	33	1.44
1486859--1486912	20	2.7	19	81	13	65	50	1	16	31	1.56
1488502--1488544	21	2.0	22	86	13	63	39	13	18	27	1.89
1491407--1491645	120	2.0	120	82	6	290	46	7	7	38	1.63
1493043--1493097	3	18.7	3	89	10	87	63	0	0	36	0.95
1493045--1493098	26	2.1	26	93	6	92	62	0	0	37	0.95
1493327--1493555	124	1.9	121	84	9	306	24	20	16	37	1.93
1493470--1494600	113	10.0	113	93	1	1865	28	18	14	38	1.90
1495000--1495051	22	2.4	22	90	0	77	38	11	9	40	1.74
1497574--1497800	115	2.0	114	91	0	364	31	21	14	32	1.94
1499908--1499939	16	2.1	16	94	5	57	0	31	0	68	0.90
1505435--1505673	120	2.0	118	81	4	275	46	7	8	37	1.64
1507125--1507164	3	13.3	3	89	10	64	62	0	0	37	0.95
1508695--1508764	29	2.3	30	82	4	79	52	5	4	37	1.45
1510676--1510815	3	47.3	3	67	20	55	58	2	0	38	1.15
1510679--1510767	14	6.0	14	73	19	58	60	1	1	37	1.11
1510691--1510909	5	45.2	5	67	23	89	55	3	1	40	1.25
1510688--1510910	36	6.2	35	69	18	106	55	3	1	39	1.24
1510695--1510899	53	3.9	51	74	16	143	55	3	0	40	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510686--1510909	48	4.6	46	71	22	124	55	3	1	39	1.24
1511561--1511950	199	2.0	200	84	3	525	26	17	20	35	1.94
1517835--1517864	14	2.1	15	93	6	53	76	0	16	6	0.99
1517995--1518038	20	2.2	20	92	4	72	36	18	4	40	1.71
1518961--1519019	5	12.8	5	77	16	56	79	1	0	18	0.81
1518954--1519020	13	4.7	13	76	20	71	80	1	0	17	0.79
1518954--1519019	9	7.3	9	76	10	64	80	1	0	18	0.79
1518961--1519019	18	3.2	18	85	2	82	79	1	0	18	0.81
1519948--1520444	5	100.8	5	85	13	662	58	1	0	40	1.07
1531668--1531948	144	1.9	144	79	7	309	29	19	7	44	1.77
1534005--1534177	15	11.5	15	84	8	208	49	0	1	49	1.11
1534007--1534177	30	5.7	29	86	6	234	49	0	1	49	1.11
1534007--1534178	59	2.9	59	88	6	240	49	0	1	48	1.11
1534208--1534571	31	13.2	30	68	24	121	33	0	13	52	1.43
1534257--1534298	21	2.0	22	85	4	59	38	2	11	47	1.53
1534226--1534381	52	3.0	54	91	6	259	35	0	12	51	1.45
1534310--1534350	21	2.0	21	100	0	82	36	0	14	48	1.44
1534352--1534409	18	3.4	18	65	18	52	31	0	13	55	1.39
1534331--1534839	32	15.4	32	70	17	269	34	0	12	52	1.43
1534157--1534521	140	2.7	135	86	9	462	34	0	13	51	1.45
1534450--1534490	21	2.0	21	85	9	57	36	0	12	51	1.40
1534365--1534857	52	9.2	53	77	16	459	34	0	12	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534210--1534573	192	1.9	193	93	5	630	33	0	13	52	1.43
1534553--1534645	22	4.0	22	77	20	107	35	1	12	50	1.48
1534693--1534749	21	2.8	21	84	13	82	38	0	12	49	1.41
1534693--1534747	20	2.7	19	88	8	65	36	0	12	50	1.41
1534603--1534944	105	3.2	107	79	15	372	35	0	12	52	1.44
1534753--1534809	18	3.4	18	72	18	68	33	0	10	56	1.34
1534522--1534921	137	2.9	138	78	15	418	35	0	12	52	1.44
1534793--1534937	77	1.9	76	90	8	231	32	0	15	52	1.43
1534901--1534942	21	2.0	22	95	4	77	35	0	14	50	1.43
1534967--1535025	31	1.9	31	92	0	100	42	10	6	40	1.65
1536001--1536344	171	2.0	172	93	5	599	21	11	36	30	1.88
1541472--1541524	16	3.3	15	76	12	52	69	1	1	26	1.09
1541485--1541522	13	2.8	14	84	8	51	68	2	0	28	1.03
1544177--1544243	19	3.5	19	95	0	116	20	31	26	20	1.98
1544697--1544763	21	3.2	20	76	14	64	23	23	20	31	1.98
1545472--1545518	6	8.2	6	83	2	53	2	14	44	38	1.58
1545618--1545707	19	4.5	19	78	10	99	34	22	20	23	1.97
1545600--1545682	42	2.0	42	95	0	148	36	21	20	21	1.96
1545607--1545715	19	5.4	19	74	10	74	36	22	19	21	1.95
1545711--1545763	21	2.5	21	90	6	81	15	20	32	32	1.93
1546484--1546845	178	2.0	184	96	3	682	32	12	14	41	1.82
1550563--1550600	14	2.7	14	95	0	67	39	18	36	5	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553144--1553243	24	4.2	24	71	10	87	48	16	15	21	1.81
1553137--1553245	48	2.3	48	75	3	112	49	15	14	20	1.79
1555487--1555599	27	4.1	27	82	4	136	12	20	0	66	1.29
1558406--1558439	18	1.9	18	88	5	52	41	8	2	47	1.50
1558239--1558980	137	5.4	137	80	5	755	42	13	13	31	1.82
1559344--1559386	14	3.1	14	80	3	52	69	0	6	23	1.12
1559373--1559415	18	2.4	19	80	11	54	62	2	4	30	1.28
1559368--1559416	17	2.8	17	84	3	53	61	2	8	28	1.36
1561398--1561430	17	1.9	17	100	0	66	33	6	24	36	1.80
1561590--1561622	17	1.9	17	93	0	57	24	15	6	54	1.63
1561510--1561699	97	2.0	97	83	4	240	30	17	14	37	1.90
1561437--1561830	216	1.8	216	83	3	533	27	19	14	38	1.91
1561607--1561904	119	2.5	119	89	1	440	25	21	14	37	1.92
1566375--1566435	23	2.7	23	84	5	79	57	3	19	19	1.54
1578447--1578843	139	2.9	138	79	3	415	43	14	11	30	1.81
1579752--1579802	15	3.3	15	86	2	75	64	5	5	23	1.38
1579752--1579808	30	1.9	30	89	7	89	64	5	5	24	1.35
1579929--1579981	23	2.4	22	80	3	61	45	3	20	30	1.69
1581997--1582209	11	18.4	10	68	22	50	75	2	7	14	1.14
1582017--1582368	9	37.0	9	63	16	63	73	2	6	16	1.16
1581998--1582045	13	3.9	13	74	23	50	81	0	10	8	0.88
1581997--1582041	22	2.0	23	91	4	74	80	0	11	8	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582008--1582215	22	9.2	22	68	13	84	75	2	7	14	1.15
1582060--1582373	18	17.7	17	67	22	102	73	2	6	17	1.16
1582006--1582164	43	3.8	42	75	18	122	76	2	8	13	1.11
1582171--1582246	4	17.8	4	74	23	50	69	1	2	26	1.09
1582181--1582245	7	8.9	7	73	20	53	67	1	3	27	1.14
1582182--1582246	11	5.9	11	73	20	55	67	1	3	27	1.14
1582171--1582250	37	2.2	36	81	14	94	71	1	2	25	1.06
1582297--1582368	14	5.6	12	74	19	56	80	0	6	12	0.89
1582835--1582904	3	23.7	3	88	2	106	65	2	1	30	1.15
1583808--1583846	20	2.0	20	89	0	60	33	10	23	33	1.88
1585126--1585169	15	2.9	15	82	0	52	72	2	6	18	1.17
1585147--1585191	22	2.0	22	83	8	56	75	0	13	11	1.05
1585118--1585231	31	3.7	30	73	16	99	73	2	8	14	1.18
1585175--1585285	25	4.4	25	74	15	79	75	3	7	13	1.14
1585199--1585338	5	28.6	5	66	24	52	75	5	5	14	1.16
1585413--1585471	19	3.4	18	78	19	54	76	1	6	15	1.07
1585428--1585501	22	3.4	21	77	15	80	78	1	8	12	1.02
1585967--1586029	3	21.7	3	88	6	94	69	3	0	26	1.03
1586930--1586968	20	2.0	20	89	0	60	33	10	23	33	1.88
1590564--1590602	16	2.5	16	88	12	55	64	0	15	20	1.30
1590563--1590624	24	2.5	25	78	19	60	61	0	17	20	1.35
1590579--1590633	9	6.4	9	76	19	55	58	0	16	25	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590589--1590633	18	2.6	18	89	3	65	57	0	15	26	1.38
1592951--1593099	47	3.2	47	80	6	124	32	18	7	40	1.79
1592990--1593099	47	2.3	47	87	3	150	32	16	7	43	1.75
1595602--1595626	13	1.9	13	100	0	50	64	0	0	36	0.94
1604671--1604707	18	2.1	18	100	0	74	10	35	27	27	1.90
1606166--1606196	2	15.5	2	100	0	62	48	0	0	51	1.00
1608052--1608379	135	2.4	134	87	2	462	28	17	18	35	1.94
1608963--1609064	42	2.5	42	77	1	107	33	22	20	23	1.97
1608675--1609444	260	3.0	257	87	3	1100	34	16	15	34	1.90
1611188--1611234	3	15.7	3	80	8	51	65	2	2	29	1.15

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