genome.fa.s2660.2.7.7.80.10.50.1000.9.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: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2211860

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1072 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)
1987441--1987485	12	3.8	12	91	8	67	8	15	44	31	1.77
1987509--1987576	19	3.5	19	74	8	57	47	0	0	52	1.00
1987560--1987589	2	15.5	2	93	6	53	50	0	0	50	1.00
1987617--1987645	13	2.3	13	94	5	51	10	17	58	13	1.62
1987689--1987713	6	4.2	6	100	0	50	0	64	16	20	1.30
1988177--1988219	18	2.4	18	96	0	77	58	4	0	37	1.19
1991753--1991813	29	2.1	29	93	0	104	24	8	11	55	1.62
2000288--2000314	6	4.5	6	100	0	54	14	0	66	18	1.25
2000494--2000539	19	2.4	19	85	7	58	41	2	4	52	1.33
2000824--2000907	29	2.9	29	77	7	80	41	14	4	39	1.67
2000853--2000953	30	3.4	30	86	5	125	37	13	5	42	1.69
2000823--2000953	60	2.2	59	81	6	140	38	13	6	41	1.70
2001634--2001743	40	2.8	40	81	1	132	35	13	9	41	1.76
2014964--2014993	2	15.0	2	100	0	60	50	0	50	0	1.00
2021239--2021295	30	1.9	30	100	0	114	42	28	10	19	1.84
2021513--2021553	19	2.2	19	90	0	64	53	0	7	39	1.29
2026661--2026736	34	2.3	32	77	8	80	27	11	5	55	1.57
2026713--2026808	41	2.3	43	84	8	126	29	13	8	48	1.71
2031673--2031711	17	2.4	17	86	4	53	66	0	2	30	1.05
2032048--2032076	2	14.5	2	100	0	58	48	0	0	51	1.00
2034082--2034128	24	2.0	24	91	0	76	12	14	14	57	1.66
2044536--2044579	19	2.3	19	84	4	52	27	4	22	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2045744--2045885	36	4.0	36	94	0	241	33	23	23	19	1.97
2046573--2046599	13	2.1	13	100	0	54	44	7	22	25	1.79
2047461--2047519	31	1.9	31	92	0	100	40	6	10	42	1.65
2047545--2047589	22	2.0	22	95	0	81	51	11	0	37	1.38
2047549--2047597	22	2.2	22	85	3	62	55	12	0	32	1.37
2047184--2047794	226	2.7	222	91	3	1001	46	10	6	37	1.63
2047687--2047745	31	1.9	31	89	0	91	40	5	10	44	1.60
2048424--2048461	14	2.6	15	88	12	53	42	5	2	50	1.39
2051231--2051290	28	2.2	28	87	3	86	40	15	5	40	1.68
2051646--2051692	16	2.8	16	73	20	51	40	6	2	51	1.39
2054093--2054119	7	3.9	7	100	0	54	44	0	44	11	1.39
2054788--2054840	26	2.0	27	85	3	72	26	18	5	49	1.70
2056418--2056487	25	2.7	26	84	8	81	41	10	4	44	1.57
2057175--2057210	2	18.0	2	94	0	63	52	0	0	47	1.00
2057984--2058067	30	2.9	29	83	3	105	51	11	5	30	1.63
2058009--2058060	17	3.3	17	65	29	51	51	15	1	30	1.54
2058072--2058159	29	3.3	29	74	21	109	52	14	3	29	1.58
2058084--2058179	22	4.0	22	74	19	86	53	14	4	28	1.60
2058072--2058179	51	2.1	51	96	0	198	51	13	3	30	1.59
2059114--2059160	24	2.0	25	87	8	71	57	6	4	31	1.43
2058443--2059947	499	3.0	499	99	0	3003	48	13	10	28	1.74
2060611--2060649	12	3.4	12	79	13	55	58	7	15	17	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2060626--2060706	34	2.4	34	87	0	117	45	19	16	18	1.85
2060703--2060737	17	2.1	17	100	0	70	31	11	40	17	1.85
2062415--2062452	18	2.1	19	85	5	51	34	0	13	52	1.40
2071294--2071329	18	1.9	19	88	5	56	19	11	11	58	1.62
2084326--2084445	21	5.8	21	71	3	109	25	17	25	32	1.97
2084318--2084436	41	2.9	41	93	0	211	21	19	25	34	1.96
2084343--2084415	20	3.6	20	70	3	74	16	23	24	35	1.95
2085167--2085239	20	3.6	20	77	3	92	38	24	21	15	1.92
2085164--2085242	41	1.9	41	100	0	158	36	24	20	18	1.95
2085304--2085454	41	3.7	41	94	2	252	38	23	18	19	1.93
2085304--2085445	20	7.0	21	66	4	94	38	23	18	19	1.93
2086782--2086815	16	2.1	16	88	0	50	50	0	5	44	1.26
2092701--2092769	29	2.3	30	80	5	86	43	24	4	27	1.73
2092814--2092849	17	2.1	17	94	0	63	13	25	44	16	1.85
2095454--2095502	2	24.5	2	100	0	98	51	0	0	48	1.00
2101177--2102233	352	3.0	352	97	0	1974	35	14	17	33	1.90
2103453--2103496	22	2.0	22	100	0	88	31	18	4	45	1.69
2108591--2108764	58	3.2	57	65	28	153	41	10	10	36	1.74
2108598--2108798	102	2.0	102	100	0	402	42	10	10	35	1.74
2108624--2108927	102	3.0	102	84	7	335	43	11	11	33	1.77
2108766--2108957	95	2.0	96	98	1	377	46	13	11	28	1.78
2114064--2114147	34	2.5	34	80	16	95	61	13	2	22	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2114625--2114688	33	1.9	33	87	0	92	23	20	40	15	1.90
2115855--2115957	30	3.5	30	93	1	172	17	21	41	19	1.90
2115855--2115976	60	2.1	58	83	7	147	22	19	39	18	1.93
2116542--2116693	50	3.0	50	100	0	304	56	15	1	25	1.50
2116834--2116915	34	2.6	30	78	14	92	18	40	20	20	1.92
2116841--2116909	34	2.0	34	91	0	111	18	42	21	17	1.90
2117197--2117251	16	3.2	17	76	7	58	67	1	0	30	1.01
2117215--2117277	24	2.7	23	76	16	67	68	3	0	28	1.05
2117231--2117275	23	1.9	24	86	13	67	68	4	0	26	1.08
2119821--2119887	28	2.4	28	100	0	134	19	23	2	53	1.59
2129871--2129913	14	3.0	14	93	6	77	41	0	13	44	1.44
2129871--2129911	8	5.5	8	77	16	52	43	0	14	41	1.45
2129871--2129913	15	2.9	15	96	3	79	41	0	13	44	1.44
2133032--2133089	31	1.9	30	82	3	71	67	5	0	27	1.12
2140443--2140492	23	2.3	23	89	6	77	18	16	22	44	1.87
2141657--2141718	21	3.1	21	65	13	58	35	6	20	37	1.79
2142000--2142051	19	2.4	23	75	24	76	32	13	15	38	1.86
2142010--2142054	19	2.4	19	100	0	90	31	15	17	35	1.92
2149683--2149726	16	2.8	16	86	6	54	54	0	0	45	0.99
2152363--2152397	17	2.1	17	100	0	70	28	22	11	37	1.89
2157224--2157257	16	2.1	17	88	5	52	35	0	0	64	0.94
2161851--2161890	3	13.3	3	100	0	80	65	0	0	35	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2162602--2162677	38	2.0	38	97	0	143	31	14	13	40	1.84
2166901--2166983	29	2.8	29	90	1	130	42	10	14	32	1.80
2171666--2171748	29	2.8	29	90	1	130	42	10	14	32	1.80
2178581--2178617	20	1.9	19	89	10	58	48	10	21	18	1.78
2194139--2194200	30	2.1	31	82	11	76	14	11	16	58	1.64
2195985--2196040	27	2.1	26	83	3	67	32	5	58	3	1.37
2200504--2200581	23	3.3	23	67	22	63	17	3	32	46	1.67
2200982--2201043	31	2.0	31	84	12	83	54	8	11	25	1.63
2205649--2205740	41	2.5	33	69	24	76	21	17	23	36	1.94
2205661--2205798	41	3.4	41	88	1	161	18	18	21	42	1.90
2205691--2205818	20	6.3	20	81	1	148	16	20	18	44	1.87
2205665--2205738	21	3.6	21	68	3	60	21	17	25	35	1.95
2205688--2205818	40	3.2	40	87	1	172	16	20	19	43	1.88
2205790--2205902	41	2.8	41	83	5	131	20	17	19	42	1.89
2205812--2205880	19	3.3	21	78	10	79	20	15	23	40	1.91
2205982--2206010	6	5.0	6	95	4	51	31	51	17	0	1.45
2206589--2206654	19	3.3	19	74	12	69	42	19	18	19	1.90
2206582--2206675	41	2.3	41	90	0	143	41	23	14	20	1.89
2206604--2206752	22	6.7	22	64	21	60	36	24	18	19	1.94
2206737--2206788	20	2.6	20	84	0	68	44	23	21	11	1.84
2206777--2206830	21	2.6	21	93	0	90	29	25	16	27	1.97
2207374--2207512	50	2.8	49	87	11	194	28	6	30	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2210290--2210332	2	22.0	2	95	4	79	48	0	0	51	1.00
2211053--2211095	21	2.0	21	86	0	59	34	4	20	39	1.74

Tables:   1   2   3   4   5   6   7   8   9

The End!