genome.fa.s8356.2.7.7.80.10.50.1000.11.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  11  of  56  ( 6656 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)
1966219--1966272	17	3.1	17	81	2	63	46	0	3	50	1.19
1966063--1966307	99	2.5	98	79	9	248	45	3	4	45	1.42
1966324--1966384	7	8.9	7	81	3	79	21	0	36	42	1.53
1966332--1966384	27	2.0	27	88	0	79	22	0	33	43	1.54
1966390--1968108	6	286.8	6	97	1	2705	16	12	17	53	1.73
1966380--1968783	12	203.5	12	93	4	1395	21	9	12	57	1.63
1966381--1970053	18	207.3	18	88	7	1077	25	6	8	58	1.52
1967885--1970094	6	378.0	6	83	12	2360	32	1	2	63	1.17
1968908--1968967	23	2.7	23	80	16	72	38	6	1	53	1.37
1970091--1970233	33	4.3	33	72	16	125	40	7	6	45	1.58
1970100--1970283	51	3.7	50	76	11	166	39	7	6	46	1.58
1970194--1970243	22	2.3	22	82	6	66	40	4	6	50	1.46
1970173--1970253	20	4.3	18	70	25	53	38	8	7	45	1.63
1970316--1970373	17	3.3	17	88	7	80	46	0	0	53	1.00
1970314--1970375	22	2.8	22	80	14	74	48	0	0	51	1.00
1971541--1971591	20	2.5	20	90	0	75	11	7	17	62	1.51
1972391--1972490	51	1.9	51	85	6	137	50	6	4	40	1.46
1977384--1977412	10	2.9	10	100	0	58	58	0	10	31	1.31
1978495--1978538	5	8.8	5	94	0	79	61	0	2	36	1.09
1979700--1980179	84	5.7	84	83	1	534	24	18	24	32	1.97
1980184--1980399	66	3.4	66	65	22	188	24	18	24	31	1.98
1980181--1981025	124	6.8	124	90	1	1257	25	18	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1985229--1985260	10	3.1	10	95	4	55	78	0	0	21	0.76
1986523--1986925	38	10.9	37	76	12	266	43	7	3	44	1.52
1988677--1988725	19	2.6	18	81	9	62	73	2	4	20	1.10
1989312--1989487	71	2.6	67	84	9	209	54	14	1	30	1.47
1996784--1996808	7	3.6	7	100	0	50	76	0	24	0	0.80
1996865--1996900	11	3.5	11	78	21	51	72	0	0	27	0.85
1996863--1996910	23	2.1	22	84	3	60	72	2	0	25	0.95
2001958--2002001	21	2.1	21	83	8	54	4	34	4	56	1.40
2003306--2003354	22	2.2	23	78	10	57	22	14	22	40	1.90
2010315--2010344	16	1.9	15	93	6	51	36	0	0	63	0.95
2010560--2010602	13	3.4	13	74	6	52	39	2	11	46	1.53
2014208--2014365	21	7.8	20	70	7	77	37	25	17	19	1.93
2014333--2014701	20	18.5	20	84	5	451	34	26	18	20	1.96
2015599--2015623	12	2.1	12	100	0	50	72	0	28	0	0.86
2017877--2018165	19	16.4	19	82	15	372	46	18	20	14	1.83
2017877--2018187	127	2.6	125	86	10	436	46	18	20	14	1.84
2017941--2018187	52	4.6	53	85	11	294	46	17	20	15	1.84
2018194--2018294	19	5.6	19	82	14	142	14	23	17	43	1.87
2018401--2018437	14	2.6	14	91	0	65	45	21	0	32	1.52
2020375--2020431	14	3.7	14	77	20	60	45	22	21	10	1.82
2020356--2020447	33	2.8	33	93	1	159	46	21	20	10	1.81
2020319--2020452	19	7.6	19	77	16	119	45	23	19	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2020448--2020539	33	2.8	31	90	6	139	7	18	27	46	1.76
2020448--2020574	18	7.3	18	73	18	117	8	17	28	45	1.78
2020617--2021075	89	5.1	93	93	6	795	46	18	12	22	1.83
2020617--2021075	182	2.5	184	93	5	807	46	18	12	22	1.83
2022761--2022850	14	5.7	14	74	23	81	42	23	25	8	1.83
2022753--2022867	33	3.5	33	95	0	212	45	20	24	9	1.81
2022760--2022872	19	6.8	18	72	23	88	43	22	24	9	1.83
2022884--2022938	14	3.6	14	73	21	56	9	25	23	41	1.83
2022868--2022938	33	2.2	33	94	0	124	8	22	25	43	1.81
2022879--2022960	33	2.5	33	89	2	119	9	25	21	42	1.84
2023057--2023127	33	2.2	33	92	0	115	47	18	22	11	1.80
2023306--2023360	22	2.5	22	81	0	74	20	16	40	23	1.91
2023501--2023693	20	9.6	20	80	5	210	19	20	25	34	1.96
2023501--2023693	60	3.2	60	81	0	242	19	20	25	34	1.96
2023749--2023800	20	2.6	20	96	0	95	21	13	26	38	1.90
2033134--2035132	200	10.0	200	91	1	3049	43	13	13	28	1.83
2033134--2035132	401	5.0	399	91	1	3060	43	13	13	28	1.83
2036961--2037019	23	2.6	23	86	0	82	33	16	6	42	1.75
2036885--2037121	87	2.7	87	94	0	411	32	14	10	42	1.80
2037056--2037100	23	2.0	23	90	0	72	37	17	8	35	1.81
2037322--2037358	2	18.5	2	100	0	74	48	0	0	51	1.00
2038459--2038503	21	2.1	22	80	12	58	44	4	2	48	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2038951--2038981	2	15.5	2	100	0	62	0	51	0	48	1.00
2041711--2041796	43	2.0	43	95	0	154	33	10	16	39	1.83
2044346--2044377	16	2.0	16	93	0	55	31	15	12	40	1.85
2045306--2045354	16	3.1	16	82	2	55	75	4	6	14	1.14
2046294--2046345	25	2.1	25	92	0	86	61	3	11	23	1.46
2046506--2046595	29	3.1	29	80	4	83	55	5	11	27	1.57
2047676--2048157	122	4.0	122	81	0	606	26	15	23	35	1.94
2047968--2048159	61	3.1	61	66	11	142	26	14	23	35	1.93
2047688--2048159	244	1.9	244	87	1	687	26	14	23	35	1.93
2048180--2048456	139	2.0	139	84	1	367	24	15	27	32	1.96
2048939--2049006	2	34.0	2	100	0	136	50	0	0	50	1.00
2049720--2049753	2	17.0	2	100	0	68	50	0	0	50	1.00
2050012--2050066	2	27.5	2	100	0	110	50	0	0	49	1.00
2054805--2054838	17	1.9	18	88	5	52	38	5	5	50	1.51
2056895--2056920	3	8.7	3	100	0	52	65	0	0	34	0.93
2057136--2057168	17	1.9	17	88	11	50	33	3	0	63	1.10
2065125--2065167	10	3.7	12	84	15	63	16	25	25	32	1.96
2065123--2065177	22	2.4	23	77	14	69	18	27	20	34	1.95
2069054--2069122	23	3.0	23	93	0	111	20	26	26	27	1.99
2070059--2070159	23	4.3	24	79	5	116	19	24	22	32	1.97
2072128--2072162	13	2.7	13	100	0	70	60	5	17	17	1.55
2076455--2076493	12	3.2	12	79	13	53	28	12	23	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2076440--2076554	24	4.8	24	88	6	153	26	13	20	40	1.89
2076787--2076826	2	20.0	2	100	0	80	50	0	0	50	1.00
2081157--2081289	48	2.8	49	83	5	148	24	14	20	40	1.89
2081157--2081271	24	4.8	24	90	4	169	24	16	20	39	1.92
2084066--2084115	27	1.9	26	88	8	75	40	0	22	38	1.54
2085781--2085895	24	4.8	24	87	4	151	25	14	19	40	1.89
2087320--2087369	4	12.0	4	80	4	55	24	4	4	68	1.24
2087312--2087369	18	3.2	17	76	21	55	24	5	3	67	1.27
2091748--2091802	21	2.6	21	77	8	58	30	18	16	34	1.93
2095135--2095209	39	2.0	39	89	5	118	33	42	8	16	1.77
2099818--2099843	5	5.2	5	100	0	52	19	0	0	80	0.71
2102540--2102582	13	3.5	13	75	12	54	4	9	9	76	1.14
2102534--2102584	24	2.1	24	100	0	102	3	11	7	76	1.13
2108147--2108289	69	2.1	68	84	1	178	27	25	19	27	1.99
2110584--2110635	26	2.0	26	96	0	95	59	5	0	34	1.21
2110590--2110635	15	3.3	15	71	22	55	56	6	0	36	1.25
2114658--2115281	127	4.9	127	95	0	1113	21	24	20	33	1.97
2115729--2115753	13	1.9	13	100	0	50	36	0	0	64	0.94
2115711--2115811	34	3.0	34	82	0	148	38	3	3	53	1.38
2118182--2118259	30	2.4	32	83	12	88	57	0	0	42	0.98
2120647--2120691	3	14.7	3	90	4	72	31	2	0	66	1.04
2122351--2122395	10	4.4	10	81	15	56	17	2	0	80	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2122348--2122394	20	2.3	20	85	7	69	19	2	0	78	0.85
2123678--2123710	9	3.7	9	92	8	50	18	0	0	81	0.68
2123676--2123710	14	2.6	13	91	8	61	17	0	0	82	0.66
2133748--2133790	7	5.7	7	86	13	59	74	0	13	11	1.07
2133748--2133798	23	2.2	23	93	6	86	76	0	13	9	1.02
2133745--2133782	16	2.4	16	100	0	76	76	0	13	10	1.02
2135231--2135321	3	29.7	3	86	8	130	29	3	0	67	1.07
2135289--2135335	24	2.0	24	82	0	58	34	4	0	61	1.15
2136923--2136967	10	4.4	10	81	15	56	17	2	0	80	0.82
2136920--2136966	20	2.3	20	85	7	69	19	2	0	78	0.85

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56