genome.fa.s9628.2.7.7.80.10.50.1000.7.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

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

This is table  7  of  10  ( 1154 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)
1561438--1561469	17	1.9	16	93	6	55	12	0	12	75	1.06
1565281--1565343	23	2.7	23	85	0	90	17	25	25	31	1.97
1568335--1568420	16	5.0	16	66	20	57	34	2	0	62	1.08
1571200--1571455	53	4.8	53	89	1	370	21	25	21	31	1.98
1571826--1572076	42	6.1	41	74	11	210	30	22	19	27	1.98
1571821--1572039	122	1.8	120	89	2	348	30	21	20	27	1.98
1571956--1572083	42	3.0	42	91	0	220	31	23	20	25	1.98
1572040--1572366	93	3.5	93	94	0	557	28	22	18	31	1.97
1571907--1572396	186	2.7	180	83	7	654	28	21	18	30	1.97
1572923--1573063	69	2.0	69	95	0	255	34	13	15	36	1.87
1575436--1575480	21	2.1	21	87	0	63	31	28	24	15	1.96
1577019--1577336	103	3.1	103	96	0	582	27	12	24	36	1.91
1577356--1577415	23	2.6	23	89	0	84	20	25	28	26	1.99
1577346--1577423	23	3.3	23	80	1	75	23	19	23	34	1.96
1584363--1584428	15	4.5	15	96	1	116	45	0	0	54	0.99
1584408--1585191	54	14.4	54	68	23	332	34	0	13	52	1.41
1584531--1584578	22	2.4	18	73	23	51	33	0	14	52	1.42
1584587--1585159	32	18.7	32	71	22	371	34	0	13	52	1.42
1584629--1584664	14	2.5	15	95	4	65	41	0	0	58	0.98
1584722--1584764	22	2.0	22	100	0	86	34	0	13	51	1.42
1584431--1584682	134	2.0	131	88	7	374	34	0	13	51	1.42
1584562--1585123	112	5.1	112	81	14	726	33	0	13	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584393--1585011	236	2.6	234	85	8	766	34	0	13	52	1.40
1584920--1584962	22	2.0	22	100	0	86	34	0	13	51	1.42
1585076--1585159	31	2.7	32	98	1	161	34	0	13	52	1.40
1585139--1585181	22	2.0	22	95	0	77	34	0	11	53	1.37
1585206--1585264	31	1.9	31	92	0	100	42	10	6	40	1.65
1586705--1586784	31	2.6	31	85	0	106	37	13	23	25	1.92
1588255--1588399	38	3.9	38	89	3	206	42	24	8	24	1.82
1591252--1591320	23	3.0	23	93	0	111	18	26	26	28	1.98
1612328--1612374	23	2.0	23	95	0	85	51	21	10	17	1.75
1621914--1621999	44	1.9	44	81	6	102	34	10	8	46	1.68
1625817--1625860	3	14.7	3	100	0	88	34	0	0	65	0.93
1627180--1627240	23	2.7	23	89	0	95	27	27	26	18	1.98
1628216--1628258	21	2.0	21	91	8	70	32	18	25	23	1.97
1632864--1632968	23	4.6	23	96	0	183	27	27	26	18	1.98
1633942--1633984	21	2.0	21	91	8	70	32	18	25	23	1.97
1650006--1650074	23	3.0	23	86	0	102	33	26	23	17	1.96
1650083--1650307	103	2.2	103	97	0	423	36	24	12	25	1.92
1652195--1652252	3	19.3	3	100	0	116	32	0	0	67	0.91
1667271--1667351	22	3.6	22	96	1	144	24	29	27	18	1.98
1667285--1667347	10	5.5	13	65	27	52	26	26	26	19	1.99
1668975--1669019	21	2.1	21	87	0	63	15	24	28	31	1.96
1669927--1669968	16	2.5	17	80	3	50	38	23	0	38	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672185--1672265	22	3.6	22	94	1	135	25	29	25	18	1.98
1673856--1673900	21	2.1	21	87	0	63	15	24	28	31	1.96
1674753--1674814	3	20.7	3	84	12	83	66	1	0	32	1.02
1674753--1674814	24	2.6	24	94	0	106	66	1	0	32	1.02
1680926--1681106	35	5.0	35	85	5	209	37	13	25	23	1.91
1680918--1681104	71	2.6	71	88	5	250	37	12	26	22	1.90
1680926--1681104	36	4.9	35	84	5	214	37	13	25	24	1.91
1691207--1691254	20	2.4	20	85	0	60	0	54	33	12	1.38
1702119--1702174	26	2.0	29	86	10	82	66	1	1	30	1.12
1702117--1702180	29	2.2	31	76	21	75	64	1	1	32	1.13
1709533--1709566	17	2.0	17	94	0	59	26	20	11	41	1.87
1710426--1710490	33	2.0	33	90	0	103	27	21	12	38	1.89
1711343--1711410	21	3.2	21	87	0	100	10	52	17	19	1.72
1715294--1715334	12	3.4	12	75	24	50	26	31	17	24	1.97
1718512--1718568	29	2.0	29	86	6	80	45	3	17	33	1.65
1718635--1718673	17	2.4	17	84	16	55	35	0	0	64	0.94
1718770--1718820	23	2.2	23	82	0	57	45	1	1	50	1.24
1718839--1718915	27	2.8	29	71	23	76	49	2	1	46	1.23
1718808--1718878	19	3.6	18	72	20	54	47	1	1	49	1.18
1718968--1719047	32	2.5	32	80	15	85	52	0	1	46	1.08
1718998--1719041	22	2.0	23	90	4	72	56	0	0	43	0.99
1718995--1719060	23	2.8	24	80	11	75	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1718995--1719060	22	2.9	22	80	10	71	54	0	0	45	0.99
1718996--1719077	25	3.5	25	78	15	77	52	0	0	47	1.00
1719730--1719768	20	2.0	20	90	10	62	28	17	20	33	1.96
1720630--1720683	24	2.2	24	96	0	99	20	16	20	42	1.89
1723193--1723236	20	2.3	19	84	4	52	38	20	20	20	1.94
1723220--1723317	19	5.8	17	69	22	55	44	19	24	11	1.83
1723220--1723313	33	2.8	33	96	0	170	44	19	24	11	1.84
1723313--1723358	19	2.4	19	85	0	56	15	10	23	50	1.75
1723328--1723413	33	2.6	33	90	3	129	10	18	22	48	1.78
1723527--1723576	14	3.7	14	81	5	59	52	20	0	28	1.47
1723519--1723576	14	4.4	13	77	10	55	51	18	0	29	1.47
1725452--1725584	33	3.8	33	85	6	149	47	20	21	11	1.81
1725428--1725587	19	8.8	19	70	15	106	47	20	20	11	1.81
1725613--1725649	19	1.9	19	94	0	65	13	16	18	51	1.76
1725740--1726019	94	3.1	92	90	5	410	46	18	12	22	1.82
1727708--1727803	20	5.2	20	66	25	75	44	18	23	12	1.84
1727768--1727832	19	3.7	19	74	19	77	44	21	23	10	1.83
1727706--1727827	33	3.5	33	83	7	145	45	19	23	11	1.83
1727828--1727920	33	2.8	33	86	1	114	11	19	23	45	1.83
1727892--1727942	20	2.5	20	90	0	75	13	13	21	50	1.76
1728494--1728669	20	8.6	20	84	2	217	21	20	18	39	1.92
1728494--1728669	41	4.3	41	87	5	225	21	20	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728468--1728684	102	2.1	102	85	5	296	23	19	19	37	1.94
1728666--1728711	21	2.2	21	88	0	65	36	17	28	17	1.92
1729120--1729168	22	2.2	22	78	7	55	16	12	8	63	1.51
1729644--1729692	20	2.4	20	75	3	53	51	0	4	44	1.20
1729795--1729835	16	2.5	17	88	11	68	39	0	0	60	0.96
1729799--1729835	8	4.6	8	93	6	58	35	0	0	64	0.94
1729854--1729921	14	4.6	14	67	25	50	54	1	0	44	1.09
1729839--1729903	29	2.2	29	83	5	78	49	3	1	46	1.27
1729908--1729962	20	2.7	21	77	11	60	52	0	1	45	1.11
1729902--1729953	20	2.7	19	79	5	59	55	0	1	42	1.10
1731579--1731643	24	2.7	24	80	13	71	53	0	0	46	1.00
1732612--1732695	36	2.3	36	83	4	98	16	51	7	25	1.70
1732654--1732724	30	2.4	30	95	0	124	14	54	4	26	1.57
1732639--1732724	30	2.5	35	76	21	110	13	54	4	26	1.59
1742704--1742741	6	6.3	6	87	0	58	65	15	18	0	1.27
1746143--1746202	13	4.7	13	79	4	68	23	25	0	51	1.48
1746143--1746222	25	3.0	25	83	10	81	23	26	1	48	1.58
1746219--1746278	19	3.2	19	73	2	59	35	25	6	33	1.82
1746267--1746310	19	2.3	19	88	0	61	29	15	4	50	1.64
1747622--1747673	14	3.7	14	94	0	86	15	13	13	57	1.65
1747608--1747666	24	2.3	26	77	13	70	16	11	15	55	1.68
1747946--1748028	10	7.6	10	70	21	60	10	9	18	61	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747947--1748028	23	3.7	22	77	16	80	10	9	17	62	1.54
1747975--1748005	14	2.2	14	94	0	53	3	12	25	58	1.50
1748014--1748214	81	2.5	81	97	1	377	38	12	12	36	1.81
1749983--1750088	30	3.5	30	74	13	101	36	17	1	43	1.61
1751087--1751176	23	3.9	23	82	2	117	61	18	8	11	1.55
1751096--1751132	13	3.1	13	77	22	53	62	21	8	8	1.49
1751087--1751190	10	9.4	10	73	17	64	60	18	8	12	1.57
1756897--1756930	11	3.0	11	87	8	50	14	29	35	20	1.93
1760109--1760141	8	4.0	8	96	4	57	48	0	3	48	1.17
1760769--1760815	22	2.1	22	88	0	67	31	6	14	46	1.70

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