genome.fa.s9592.2.7.7.80.10.50.1000.10.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  10  of  39  ( 4673 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)
1952718--1952801	22	3.8	22	83	9	98	22	30	26	20	1.98
1956787--1956837	12	4.3	12	90	2	68	68	1	25	3	1.17
1956804--1956838	4	8.8	4	100	0	70	74	0	25	0	0.82
1965212--1965243	16	2.0	16	100	0	64	18	25	12	43	1.85
1967797--1967853	25	2.2	25	84	9	71	68	1	15	14	1.29
1968027--1968085	20	2.9	19	76	18	57	72	0	6	20	1.06
1968397--1968431	15	2.2	17	90	10	56	74	0	2	22	0.95
1968769--1968876	37	2.9	37	94	0	180	32	12	13	40	1.83
1969457--1970564	84	13.4	84	77	5	1126	24	19	24	30	1.98
1969457--1970564	165	6.7	165	78	6	963	24	19	24	30	1.98
1969457--1970564	249	4.5	249	91	0	1725	24	19	24	30	1.98
1972644--1972840	98	2.0	98	94	0	349	25	15	22	36	1.93
1976093--1976137	3	14.7	3	82	13	56	71	0	2	26	0.98
1976288--1976335	22	2.1	24	84	7	64	66	0	16	16	1.25
1976823--1976930	37	2.9	37	90	0	171	33	12	13	40	1.82
1979091--1979130	21	2.0	21	90	5	64	42	7	0	50	1.30
1979990--1980017	14	2.0	14	100	0	56	35	0	7	57	1.26
1981777--1981981	103	2.0	103	79	1	223	32	15	17	35	1.91
1986600--1986640	13	3.2	13	79	6	57	34	2	0	63	1.08
1986677--1986715	2	19.5	2	100	0	78	48	0	0	51	1.00
1987328--1987368	21	2.0	21	90	0	64	48	9	4	36	1.58
1993947--1993996	18	2.9	17	87	3	73	20	20	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1993944--1993996	17	3.1	17	83	5	79	18	18	22	39	1.92
1995940--1996024	36	2.5	33	81	10	116	23	16	40	20	1.91
1995953--1996037	36	2.4	36	93	0	143	24	14	42	18	1.88
1997810--1997858	22	2.2	22	85	7	64	53	0	2	44	1.12
1997784--1997880	50	1.9	50	82	14	119	48	0	1	50	1.07
1997790--1997934	27	5.6	25	71	20	93	47	0	1	51	1.09
1997946--1997990	23	2.0	23	86	0	63	53	2	2	42	1.25
1998006--1998054	20	2.5	20	83	3	64	46	0	0	53	1.00
1998234--1998274	14	2.9	14	85	0	55	39	17	12	31	1.86
1998291--1998341	15	3.4	15	81	10	68	37	17	5	39	1.74
1999197--1999236	21	1.9	21	84	0	53	50	0	5	45	1.23
2006364--2006412	23	2.1	23	85	7	64	26	2	14	57	1.48
2016048--2016096	23	2.1	23	85	7	64	26	2	14	57	1.48
2021518--2021577	24	2.5	24	83	5	77	26	20	15	38	1.91
2025331--2025382	24	2.2	24	82	0	59	50	17	11	21	1.77
2025351--2025468	24	4.9	24	88	6	159	40	19	17	22	1.91
2025354--2025485	48	2.7	47	80	11	151	42	18	16	21	1.89
2025590--2025688	47	2.1	47	100	0	198	43	14	17	25	1.86
2026604--2026644	18	2.3	18	86	0	55	26	17	2	53	1.56
2027939--2027979	18	2.3	18	100	0	82	9	21	51	17	1.74
2027919--2027962	13	3.3	13	87	3	61	18	22	40	18	1.91
2027957--2027986	13	2.3	13	94	0	51	16	20	50	13	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2031499--2031589	34	2.6	34	79	11	96	25	25	24	25	2.00
2031734--2031829	45	2.2	44	92	5	158	31	19	6	42	1.76
2032220--2032286	34	2.0	34	97	2	127	20	31	29	17	1.96
2032232--2032287	19	3.2	19	69	25	59	17	37	26	17	1.93
2035455--2035505	23	2.2	23	89	0	75	37	9	19	33	1.85
2035533--2035592	23	2.6	23	86	0	75	40	8	18	33	1.80
2035428--2035772	87	4.0	87	93	0	573	43	11	13	31	1.80
2035707--2035756	23	2.2	23	88	0	73	40	12	14	34	1.82
2035707--2035763	23	2.5	23	82	0	60	43	10	12	33	1.76
2035951--2036468	112	4.6	112	90	3	801	44	14	10	31	1.79
2035951--2036643	224	3.2	221	87	6	929	43	13	11	32	1.79
2036366--2036559	93	2.1	92	90	2	300	44	11	11	31	1.77
2036254--2036643	205	1.9	205	90	2	631	42	12	12	32	1.79
2036972--2037125	76	2.0	76	91	0	245	43	10	14	31	1.79
2037097--2037145	23	2.1	23	84	0	62	40	8	20	30	1.81
2037394--2037863	112	4.2	112	89	2	696	43	12	11	32	1.79
2039554--2039603	26	1.9	26	95	0	91	34	28	10	28	1.89
2039551--2039613	26	2.4	26	86	0	90	33	28	11	26	1.91
2045090--2045806	199	3.6	196	84	5	881	30	14	14	39	1.87
2048957--2049912	200	4.8	199	84	4	1190	32	16	13	37	1.88
2048963--2049913	390	2.4	391	85	4	1243	31	16	13	37	1.88
2051247--2051310	24	2.7	23	73	9	65	51	12	3	32	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2052586--2052624	12	3.2	12	85	0	51	30	28	2	38	1.70
2054158--2054427	149	1.8	149	85	0	387	32	15	15	36	1.89
2054307--2055232	200	4.5	200	84	4	1133	31	16	14	37	1.89
2055031--2055062	16	2.0	16	100	0	64	18	18	18	43	1.88
2055571--2055615	19	2.4	19	96	0	81	55	8	2	33	1.43
2057390--2057456	33	2.0	33	97	0	125	22	47	0	29	1.51
2057491--2057533	21	2.0	21	90	0	68	13	34	11	39	1.82
2057921--2057976	24	2.4	23	80	8	69	51	1	0	46	1.11
2059933--2060600	181	3.7	182	88	2	916	27	16	14	41	1.88
2061529--2061682	51	3.0	51	98	0	290	16	12	46	24	1.82
2069355--2069534	46	3.9	46	93	0	290	32	21	6	39	1.79
2069406--2069478	22	3.2	22	63	32	55	34	17	9	38	1.83
2069412--2069486	24	3.2	24	63	32	63	33	20	8	38	1.81
2069429--2069502	24	3.2	24	62	21	57	32	18	5	43	1.73
2075518--2075561	20	2.2	20	95	0	79	50	2	0	47	1.13
2075524--2075562	10	3.9	10	83	12	53	48	2	0	48	1.15
2075518--2075551	2	18.0	2	88	11	54	50	0	0	50	1.00
2075972--2076018	13	3.5	13	82	11	51	29	27	4	38	1.76
2076633--2076662	15	2.0	15	100	0	60	40	13	6	40	1.71
2079498--2079523	3	8.7	3	100	0	52	69	0	30	0	0.89
2081174--2081209	2	18.0	2	100	0	72	50	0	0	50	1.00
2081712--2081736	7	3.6	7	100	0	50	64	0	12	24	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2083881--2083910	6	5.0	6	100	0	60	0	16	50	33	1.46
2093908--2094084	89	2.0	89	89	2	275	42	3	12	40	1.62
2102434--2102822	58	6.7	58	90	0	573	34	19	12	33	1.89
2103250--2103324	19	3.7	19	70	20	55	28	25	14	32	1.95
2103362--2103399	20	1.9	20	94	0	67	18	34	15	31	1.92
2107111--2107213	45	2.3	45	98	0	197	26	12	16	44	1.83
2108208--2108284	29	2.7	29	100	0	154	50	0	9	40	1.34
2114112--2114154	23	2.0	21	86	9	59	65	0	6	27	1.18
2114999--2115050	24	2.2	24	82	0	59	9	13	26	50	1.72
2115009--2115056	24	2.0	24	95	0	87	8	10	25	56	1.61
2115015--2115070	24	2.3	24	84	0	67	12	7	19	60	1.55
2115849--2115901	16	3.4	16	84	5	74	15	11	15	58	1.63
2116225--2116261	3	12.3	3	100	0	74	32	0	0	67	0.91
2124803--2125333	55	9.7	55	90	1	798	28	28	15	27	1.96
2126341--2126374	9	3.8	9	96	0	59	8	2	0	88	0.62
2126362--2126401	14	2.7	15	80	11	55	10	20	0	70	1.16
2136354--2136391	16	2.3	16	95	4	67	36	28	7	26	1.84
2141839--2141882	22	2.0	22	100	0	88	40	13	13	31	1.84
2143459--2144254	134	6.0	133	82	7	888	32	21	15	30	1.95
2143459--2144253	265	3.0	264	84	5	1000	32	21	15	30	1.95
2146450--2146524	3	25.3	3	86	8	82	28	1	5	65	1.22
2146446--2146501	28	1.9	28	92	7	94	35	1	0	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2151301--2151658	131	2.7	131	83	2	459	34	11	15	38	1.84
2152505--2152789	131	2.2	131	84	1	367	33	10	15	40	1.81
2153716--2154103	185	2.1	183	89	5	586	42	3	9	44	1.54
2156333--2156371	2	19.5	2	100	0	78	51	0	0	48	1.00
2156972--2157363	93	4.2	93	85	3	506	29	16	31	22	1.96
2156965--2157354	183	2.1	184	85	3	518	29	16	32	22	1.95
2170128--2170158	2	16.0	2	93	6	55	51	0	0	48	1.00
2172492--2172524	5	6.6	5	100	0	66	18	21	18	42	1.89
2172605--2172639	16	2.2	16	94	0	61	62	0	0	37	0.95
2183958--2184012	2	28.5	2	92	7	96	50	0	0	49	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39