genome.fa.s7964.2.7.7.80.10.50.1000.6.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: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1737572

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 720 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)
1392896--1392945	21	2.4	21	100	0	100	46	14	8	32	1.73
1400560--1400586	14	1.9	14	100	0	54	44	25	7	22	1.79
1400581--1400618	14	2.8	14	84	4	51	36	2	21	39	1.67
1406319--1406427	54	2.0	55	89	1	166	33	21	17	28	1.96
1410961--1410998	15	2.5	15	83	8	51	31	0	0	68	0.90
1412395--1412442	13	3.5	13	83	8	60	58	12	0	29	1.35
1414110--1414317	103	2.0	103	99	0	407	27	14	22	35	1.93
1414300--1414335	18	2.0	18	100	0	72	11	22	33	33	1.89
1414197--1414439	121	2.0	121	95	0	441	24	14	24	36	1.93
1414446--1414506	23	2.7	23	92	0	104	19	24	27	27	1.99
1419031--1419260	103	2.2	103	94	3	397	27	13	23	35	1.93
1419243--1419278	18	2.0	18	88	0	54	16	19	33	30	1.94
1419140--1419367	121	1.9	121	97	0	429	25	14	25	35	1.93
1419389--1419449	23	2.7	23	92	0	104	19	24	27	27	1.99
1421223--1421339	33	3.5	34	96	3	220	35	0	0	64	0.94
1421884--1421919	18	2.0	18	88	0	54	69	5	2	22	1.22
1435888--1436270	2	193.0	2	66	15	170	44	6	5	43	1.53
1441890--1441971	3	26.7	3	85	4	110	62	0	0	37	0.96
1442214--1442269	17	3.2	17	69	18	51	17	23	8	50	1.74
1442243--1442830	225	2.6	224	90	5	968	30	18	15	36	1.91
1442197--1442830	113	5.7	112	86	5	811	30	18	14	36	1.91
1443267--1443321	22	2.5	23	88	8	87	36	14	12	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443693--1443893	54	3.8	54	84	6	245	24	21	14	38	1.92
1445987--1446322	115	3.0	114	92	2	529	30	20	14	33	1.93
1455157--1455193	14	2.6	15	87	8	51	0	13	13	72	1.11
1455609--1455690	3	26.7	3	82	4	92	59	0	0	40	0.97
1458280--1458318	19	2.0	20	85	5	53	53	0	5	41	1.23
1460836--1460916	31	2.6	31	88	1	119	24	12	7	55	1.62
1471211--1471311	31	3.2	31	79	8	123	33	17	18	29	1.95
1472686--1472729	21	2.2	20	87	4	61	15	25	27	31	1.96
1482942--1482989	21	2.3	21	92	0	78	14	12	10	62	1.54
1493336--1493376	2	20.5	2	100	0	82	51	0	0	48	1.00
1496083--1496139	18	3.2	18	85	2	80	21	15	33	29	1.94
1501353--1501749	44	9.0	44	92	0	605	34	18	5	40	1.75
1501826--1502264	59	7.4	59	75	7	343	28	20	11	38	1.88
1501826--1502275	177	2.5	177	77	6	448	28	20	11	38	1.88
1503337--1503398	30	1.9	34	84	12	87	29	14	3	53	1.57
1507386--1507489	52	2.0	52	92	0	172	19	23	14	43	1.87
1508812--1508856	22	2.0	22	86	0	63	31	24	13	31	1.93
1511062--1511109	19	2.5	19	86	0	69	29	16	12	41	1.85
1516731--1516775	2	22.5	2	100	0	90	51	0	0	48	1.00
1520275--1520315	18	2.3	18	100	0	82	17	17	36	29	1.92
1524198--1524256	25	2.5	24	86	8	84	59	0	5	35	1.20
1524300--1524354	15	3.5	15	71	9	56	47	5	3	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526327--1526399	19	3.8	20	76	8	55	54	1	5	38	1.32
1526439--1526499	31	2.0	30	83	3	77	55	4	11	27	1.56
1537042--1537077	17	2.2	16	90	5	54	30	0	5	63	1.17
1537051--1537089	17	2.3	17	86	8	53	38	0	2	58	1.12
1537046--1537099	24	2.2	24	83	6	65	38	0	1	59	1.08
1537195--1537258	27	2.3	27	83	2	83	45	4	4	45	1.45
1537161--1537371	73	3.1	66	79	13	185	45	2	5	46	1.38
1537235--1537527	37	8.1	37	72	15	247	45	2	5	46	1.40
1537235--1537527	73	4.1	71	78	15	300	45	2	5	46	1.40
1537493--1537549	29	2.0	29	89	0	87	45	7	5	42	1.53
1537493--1537559	29	2.3	29	84	7	82	47	7	4	40	1.52
1537587--1537624	12	3.1	13	88	7	53	34	0	2	63	1.09
1538730--1538763	4	8.5	4	100	0	68	23	0	0	76	0.79
1551689--1552037	174	2.0	176	98	1	684	23	26	14	35	1.93
1560554--1560583	3	10.3	3	92	7	53	66	0	0	33	0.92
1561016--1561262	123	2.0	123	100	0	494	40	12	19	28	1.87
1562698--1562761	23	2.9	22	74	4	74	31	6	6	56	1.49
1562685--1562776	45	2.0	45	87	8	134	29	7	4	58	1.45
1562686--1562758	22	3.3	22	75	7	76	31	6	4	57	1.44
1567135--1567159	2	12.5	2	100	0	50	52	0	0	48	1.00
1571253--1571289	2	18.5	2	100	0	74	51	0	0	48	1.00
1575497--1575531	12	2.9	12	100	0	70	34	14	34	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575603--1575635	12	2.8	12	100	0	66	36	15	33	15	1.88
1575499--1575707	104	2.0	104	100	0	418	30	19	29	21	1.97
1576982--1577039	28	2.0	30	83	6	75	32	12	5	50	1.62
1577511--1577555	2	23.0	2	95	4	83	51	0	0	48	1.00
1579930--1580070	66	2.1	66	97	2	264	25	14	12	48	1.78
1579951--1580052	31	3.2	31	63	15	80	25	17	9	47	1.78
1584991--1585025	16	2.2	16	89	0	52	45	0	2	51	1.16
1585523--1585551	2	14.5	2	100	0	58	48	0	0	51	1.00
1585918--1585946	15	1.9	15	100	0	58	31	0	6	62	1.22
1606176--1606200	12	2.1	12	100	0	50	16	16	44	24	1.86
1606663--1606699	2	18.5	2	100	0	74	51	0	0	48	1.00
1610770--1610828	6	9.8	6	94	0	82	18	5	49	27	1.68
1612856--1612911	26	2.1	27	83	3	69	57	1	0	41	1.09
1612877--1612973	42	2.5	40	83	9	119	54	3	1	41	1.23
1612926--1613016	39	2.4	37	82	12	98	52	3	2	41	1.30
1614348--1614389	21	2.0	21	86	4	59	38	4	2	54	1.34
1614932--1614996	30	2.1	30	86	8	87	44	7	13	33	1.73
1615214--1615274	31	2.0	31	90	0	95	29	4	31	34	1.79
1619257--1619316	21	2.7	23	79	10	79	26	26	20	26	1.99
1619771--1619810	21	1.9	21	84	0	53	32	22	20	25	1.98
1623016--1623113	33	2.9	33	86	4	126	24	14	23	37	1.92
1623027--1623113	34	2.6	33	87	1	111	21	14	25	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627726--1627822	33	2.9	32	80	10	106	26	13	20	39	1.90
1640190--1640235	24	1.9	24	82	8	58	26	8	6	58	1.52
1640963--1641006	16	2.6	17	92	7	81	20	0	27	52	1.47
1645895--1645942	21	2.3	20	82	6	60	62	6	0	31	1.20
1651443--1651839	203	1.9	206	87	5	579	31	12	14	41	1.83
1653171--1653203	17	1.9	17	93	0	57	33	3	0	63	1.10
1657812--1657869	24	2.4	24	81	13	75	70	5	6	17	1.28
1657819--1657865	25	1.9	24	87	12	69	72	6	6	14	1.25
1678077--1678121	23	2.0	23	82	8	56	40	2	22	35	1.66
1686437--1686601	64	2.5	64	79	7	156	26	16	16	39	1.91
1688988--1689014	8	3.4	8	100	0	54	33	0	0	66	0.92
1691569--1691609	17	2.4	16	88	8	55	46	7	2	43	1.44
1694810--1694969	65	2.5	63	85	6	214	30	23	19	26	1.98
1694941--1694989	19	2.6	19	84	9	57	24	28	20	26	1.99
1697338--1697386	21	2.3	21	100	0	98	38	12	34	14	1.83
1701006--1701073	31	2.2	30	82	10	75	20	17	26	35	1.95
1703345--1703384	21	1.9	21	89	0	62	30	7	7	55	1.56
1713951--1713985	18	1.9	18	88	0	52	17	45	25	11	1.81
1713981--1714083	29	3.7	28	79	7	111	29	4	21	44	1.73
1721255--1721303	10	5.1	10	76	18	59	18	30	32	18	1.95
1721256--1721303	19	2.5	19	86	6	71	16	31	33	18	1.94
1721232--1721304	29	2.6	28	83	14	96	16	31	32	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721256--1721304	9	5.2	9	79	16	55	16	32	32	18	1.93
1721302--1721352	18	2.9	18	85	2	68	19	43	23	13	1.87
1721365--1721403	19	2.2	18	82	13	53	38	5	20	35	1.75
1721383--1721443	29	2.1	30	90	3	97	29	4	18	47	1.69
1726278--1726348	29	2.4	29	83	0	79	21	35	26	16	1.95
1726506--1726588	29	2.9	29	94	0	139	8	32	39	19	1.81
1729660--1729704	18	2.4	18	85	3	54	53	0	2	44	1.13
1735527--1735608	29	2.8	29	88	0	119	24	8	23	43	1.81
1735605--1735670	27	2.4	27	84	0	78	43	3	4	48	1.38
1735641--1735700	28	2.2	26	82	5	66	36	1	15	46	1.55

Tables:   1   2   3   4   5   6

The End!