genome.fa.s8425.2.7.7.80.10.50.1000.8.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  8  of  12  ( 1340 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)
1439785--1439820	15	2.4	15	100	0	72	25	30	13	30	1.94
1440503--1440536	14	2.5	14	90	4	52	32	0	2	64	1.08
1441620--1441654	2	17.5	2	100	0	70	51	0	0	48	1.00
1443519--1443551	3	11.0	3	93	0	57	30	0	3	66	1.06
1444885--1444936	20	2.6	20	96	0	95	38	26	13	21	1.90
1444992--1445185	20	9.6	20	76	8	76	35	25	19	19	1.95
1444988--1445185	40	5.0	39	81	4	200	35	26	19	19	1.95
1444992--1445184	60	3.2	60	83	0	251	35	25	19	19	1.95
1445865--1445903	20	1.9	21	89	5	62	41	2	0	56	1.13
1448607--1448657	20	2.5	20	77	3	57	25	15	23	35	1.94
1450155--1450182	14	2.0	14	100	0	56	64	7	14	14	1.48
1452955--1453020	23	2.9	23	97	0	123	22	22	21	33	1.97
1462351--1462421	36	2.0	36	94	0	124	39	16	16	26	1.91
1462420--1462461	18	2.3	18	91	0	66	45	14	19	21	1.85
1462429--1462464	18	2.0	18	100	0	72	44	11	16	27	1.82
1470210--1470271	22	2.7	23	87	5	90	38	20	4	35	1.74
1470635--1470697	23	2.7	23	92	0	99	38	20	4	36	1.74
1469855--1471313	426	3.4	427	95	2	2601	38	12	7	40	1.72
1471063--1471125	23	2.7	23	92	0	99	38	20	4	36	1.74
1471537--1471623	39	2.2	39	95	0	156	17	13	20	48	1.81
1471895--1471931	18	2.1	18	89	0	56	51	10	8	29	1.65
1472316--1472363	25	1.9	25	95	0	87	45	22	8	22	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472639--1472710	23	3.2	23	88	4	101	38	22	4	34	1.73
1472727--1472773	21	2.2	22	81	11	62	36	10	12	40	1.78
1475593--1476212	183	3.4	183	96	0	1125	33	16	15	34	1.90
1476603--1476665	23	2.7	23	92	0	99	38	20	4	36	1.74
1478242--1478285	9	4.6	9	78	15	52	25	34	2	38	1.68
1478241--1478318	6	13.0	6	81	0	75	23	33	6	37	1.80
1478254--1478312	9	6.6	9	78	7	66	22	33	8	35	1.84
1478245--1478330	12	7.4	12	83	7	79	20	33	8	37	1.83
1478245--1478318	21	3.5	21	84	0	103	21	33	6	37	1.80
1478245--1478333	6	14.3	6	76	6	61	20	33	7	38	1.81
1479799--1480764	393	2.4	396	96	1	1760	30	17	15	36	1.91
1479799--1480764	199	4.9	198	96	1	1760	30	17	15	36	1.91
1480883--1480930	18	2.6	19	86	6	71	56	10	2	31	1.45
1482830--1482873	21	2.1	21	91	0	70	15	31	11	40	1.83
1485083--1485125	20	2.3	18	85	14	61	20	16	11	51	1.75
1485088--1485134	20	2.4	19	82	10	67	19	17	10	53	1.72
1485055--1485529	181	2.6	183	88	1	697	26	17	13	42	1.86
1485452--1485511	20	3.1	18	73	17	57	18	16	11	53	1.72
1485598--1486084	227	2.1	227	93	3	847	39	8	7	45	1.62
1491308--1491523	83	2.6	81	84	5	254	27	17	23	31	1.97
1491780--1492122	170	2.0	170	91	0	551	25	16	24	33	1.96
1492211--1492248	14	2.7	14	95	0	67	23	15	31	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492987--1493031	17	2.7	17	80	16	58	0	15	2	82	0.77
1492986--1493038	6	9.0	6	84	12	74	0	16	1	81	0.79
1499659--1499740	39	2.1	39	88	0	119	21	23	26	28	1.99
1502359--1502410	17	3.0	17	82	17	63	80	5	3	9	0.99
1511016--1511187	65	2.6	66	79	13	192	40	4	9	46	1.55
1514052--1514081	2	15.5	2	93	6	53	50	0	0	50	1.00
1514247--1514435	60	3.1	59	75	11	159	34	23	5	37	1.77
1514587--1514686	52	1.9	52	82	8	123	36	7	22	35	1.81
1515603--1515683	31	2.7	31	83	7	105	19	27	16	37	1.93
1516676--1516723	22	2.2	22	92	0	78	64	0	6	29	1.18
1516683--1516732	22	2.3	22	89	0	73	60	2	2	36	1.20
1517043--1517085	22	2.0	21	86	4	59	34	6	2	55	1.39
1517499--1517524	2	13.0	2	100	0	52	50	0	0	50	1.00
1526137--1526220	30	2.9	27	73	15	78	42	1	2	53	1.21
1526233--1526284	5	10.0	5	75	8	50	53	1	0	44	1.11
1526240--1526315	30	2.4	32	80	12	95	48	2	0	48	1.15
1526606--1526647	20	2.1	20	86	8	59	57	2	0	40	1.12
1535419--1535472	27	2.0	27	92	0	90	27	16	9	46	1.78
1537284--1537332	4	12.2	4	95	0	53	48	10	0	40	1.37
1537287--1537329	12	3.6	12	87	0	59	51	11	0	37	1.39
1537741--1537802	30	2.1	30	93	0	106	64	9	0	25	1.24
1542688--1542731	21	2.2	20	84	12	54	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545916--1545966	21	2.4	21	93	0	93	31	15	19	33	1.93
1547196--1547251	21	2.7	21	78	8	53	33	17	0	48	1.48
1547481--1547571	23	4.0	23	85	0	119	30	26	25	17	1.97
1549191--1549233	23	2.0	23	86	13	65	32	27	4	34	1.78
1552297--1552352	21	2.7	21	78	8	53	33	17	0	48	1.48
1552582--1552626	23	2.0	23	86	0	63	28	24	26	20	1.99
1553038--1553089	2	26.5	2	88	3	79	53	0	0	46	1.00
1553038--1553089	19	2.8	19	91	2	79	53	0	0	46	1.00
1554338--1554369	16	2.0	16	100	0	64	25	25	0	50	1.50
1557408--1557529	46	2.7	46	81	0	145	43	18	17	20	1.88
1557511--1557548	19	2.0	19	89	0	58	47	26	10	15	1.78
1557463--1557592	65	2.0	63	85	2	170	41	23	16	19	1.90
1558099--1558145	20	2.4	18	80	19	58	55	10	14	19	1.68
1557887--1558359	181	2.6	182	90	0	714	42	14	16	26	1.87
1560752--1560816	21	3.1	21	93	0	103	41	10	30	16	1.83
1560850--1560915	33	2.0	33	90	0	105	28	0	48	22	1.51
1562705--1562753	19	2.6	19	96	0	89	32	2	10	55	1.45
1562987--1563546	200	2.8	200	93	1	969	36	14	18	30	1.91
1565045--1565114	24	2.9	24	93	0	113	42	5	32	18	1.74
1565045--1565114	6	11.7	6	85	0	95	42	5	32	18	1.74
1566325--1566729	183	2.2	183	97	0	765	34	15	16	34	1.90
1566607--1566850	120	2.0	120	95	0	443	32	13	15	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1566420--1567921	303	5.0	303	97	0	2808	33	14	16	34	1.90
1566906--1567152	120	2.1	120	93	0	422	31	13	16	38	1.88
1567210--1567454	119	2.0	120	93	0	420	33	13	15	37	1.86
1566420--1567921	605	2.5	606	97	0	2817	33	14	16	34	1.90
1567511--1567757	120	2.1	120	96	0	449	31	14	16	37	1.88
1570647--1570719	23	3.2	23	90	0	110	34	5	20	39	1.76
1571136--1571208	23	3.2	23	94	0	119	34	4	21	39	1.73
1570461--1571610	489	2.4	489	96	0	2113	41	7	10	39	1.69
1572585--1572649	2	32.5	2	100	0	130	49	0	0	50	1.00
1576410--1576438	13	2.2	13	100	0	58	0	20	51	27	1.47
1578404--1578446	21	2.0	22	86	4	61	20	18	32	27	1.96
1578414--1578488	21	3.6	21	72	3	62	25	14	33	26	1.94
1579501--1579658	79	2.0	79	93	0	271	33	22	18	25	1.97
1581950--1581976	2	13.5	2	100	0	54	48	0	0	51	1.00
1585107--1585134	2	14.0	2	100	0	56	50	0	0	50	1.00
1586047--1586085	2	19.5	2	100	0	78	51	0	0	48	1.00
1587259--1587318	30	2.1	28	84	6	75	50	15	6	28	1.69
1587367--1587430	28	2.3	29	83	5	87	73	7	1	17	1.14
1587371--1587432	27	2.3	26	83	10	79	72	8	1	17	1.17
1588174--1588211	2	19.0	2	100	0	76	50	0	0	50	1.00
1589212--1589253	19	2.1	19	86	8	57	26	19	21	33	1.97
1590323--1590352	16	1.9	16	93	6	53	66	3	0	30	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590667--1590693	14	1.9	14	100	0	54	62	0	0	37	0.95
1595345--1595515	84	2.0	84	95	0	306	39	14	18	28	1.90
1598003--1598066	29	2.1	30	85	8	85	39	32	1	26	1.66
1598577--1598683	45	2.4	45	85	1	142	45	4	5	43	1.48
1598965--1599003	17	2.4	17	95	4	71	43	0	5	51	1.24
1601090--1601125	2	18.0	2	88	0	54	44	0	5	50	1.25
1606668--1606702	17	2.1	17	100	0	70	42	22	5	28	1.76
1607251--1607291	21	2.0	21	85	0	55	19	21	17	41	1.90
1607209--1607324	58	2.0	58	84	3	153	27	20	15	36	1.93
1607270--1607487	75	2.9	75	81	13	250	31	20	12	36	1.89

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