genome.fa.s9582.2.7.7.80.10.50.1000.22.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  22  of  24  ( 2799 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)
4355571--4355608	15	2.5	15	91	0	67	21	21	21	36	1.95
4359627--4359672	18	2.6	18	78	0	56	36	19	2	41	1.64
4359895--4360025	21	6.1	21	72	8	95	35	23	18	22	1.95
4359865--4359965	44	2.3	44	84	0	121	32	26	17	22	1.97
4359880--4359948	23	3.1	23	72	16	63	34	24	17	23	1.96
4359940--4360022	42	2.0	42	83	4	105	39	22	14	22	1.91
4364726--4364771	18	2.6	18	85	0	65	36	15	2	45	1.58
4364983--4365050	23	3.0	23	71	0	64	38	23	10	27	1.87
4365046--4365122	21	3.7	21	77	6	75	42	19	11	25	1.85
4365036--4365135	42	2.4	42	75	0	101	38	24	15	23	1.92
4373328--4373403	2	38.0	2	100	0	152	50	0	0	50	1.00
4373766--4373817	18	2.9	18	97	0	95	23	38	17	21	1.93
4373784--4373927	64	2.2	65	86	7	206	29	25	17	27	1.97
4379695--4379797	23	4.7	22	73	13	88	27	26	17	29	1.98
4382371--4382530	64	2.5	65	85	6	211	31	24	16	28	1.96
4385292--4386151	214	3.9	213	87	4	1123	33	15	18	32	1.92
4392738--4392819	35	2.3	35	91	0	128	25	25	13	35	1.93
4392753--4392813	20	3.3	18	73	21	56	24	27	13	34	1.93
4396090--4396151	31	2.0	31	96	0	115	41	8	6	43	1.60
4396803--4396841	2	19.5	2	100	0	78	51	0	0	48	1.00
4397858--4397922	17	3.9	16	94	6	96	26	55	18	0	1.43
4397858--4397925	5	12.6	5	95	4	91	26	54	19	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398566--4398635	20	3.5	20	69	18	63	40	24	22	12	1.89
4398516--4398741	41	5.5	41	81	5	271	37	23	21	18	1.94
4400243--4400367	53	2.3	54	88	1	180	23	26	28	22	1.99
4407489--4407693	75	2.7	76	87	7	301	20	25	32	20	1.98
4408298--4408349	2	26.0	2	100	0	104	50	0	0	50	1.00
4410776--4410820	21	2.2	20	84	11	56	55	15	0	28	1.41
4411599--4411649	3	17.3	3	95	4	95	35	0	0	64	0.94
4415980--4416022	21	2.0	21	95	0	77	16	41	27	13	1.86
4419410--4419509	20	4.9	20	80	6	103	23	34	26	17	1.96
4419410--4419509	21	4.9	21	80	4	98	23	34	26	17	1.96
4419857--4419925	34	2.1	31	84	7	84	33	14	30	21	1.93
4422854--4422956	22	4.7	21	76	13	84	74	0	17	7	1.04
4422911--4422970	10	6.3	9	76	16	50	80	0	15	5	0.88
4422882--4422968	37	2.3	38	82	5	97	74	0	19	5	1.01
4422850--4422951	45	2.4	45	77	9	106	76	0	16	6	0.99
4422939--4422980	19	2.2	19	91	0	66	73	0	19	7	1.05
4422854--4422946	17	4.7	19	71	17	64	76	0	16	7	1.00
4424871--4425365	38	12.8	38	78	6	437	24	17	16	41	1.90
4425338--4425638	45	6.7	45	73	5	196	24	17	17	40	1.91
4425329--4425657	90	3.6	90	75	4	279	24	18	16	41	1.90
4425338--4425631	136	2.2	135	81	0	327	24	17	17	39	1.91
4426239--4426272	3	11.3	3	100	0	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4432320--4432358	14	2.8	14	84	0	51	33	15	25	25	1.95
4433585--4433621	2	19.5	2	89	10	60	54	0	0	45	1.00
4436772--4436799	3	9.3	3	100	0	56	67	0	0	32	0.91
4442411--4442768	127	2.8	125	76	8	269	29	17	23	29	1.97
4442538--4443001	127	3.7	126	86	2	565	26	18	25	29	1.98
4443268--4443352	32	2.6	31	76	12	82	35	18	12	32	1.89
4443498--4443554	25	2.4	22	75	16	60	50	1	12	35	1.50
4444474--4444507	18	1.9	18	94	5	61	5	11	2	79	1.02
4444457--4444519	18	3.3	18	72	20	56	3	12	6	77	1.07
4444456--4444531	20	3.7	20	77	19	77	3	11	6	77	1.09
4456919--4456947	13	2.1	14	93	6	51	51	0	0	48	1.00
4460143--4460201	29	2.0	29	87	6	84	30	22	3	44	1.69
4460511--4460678	79	2.1	79	90	2	266	28	23	11	36	1.89
4461171--4461221	22	2.3	22	79	0	57	25	35	11	27	1.91
4473695--4473726	12	2.7	12	100	0	64	34	0	15	50	1.45
4480402--4480435	17	2.0	17	100	0	68	23	11	11	52	1.70
4486082--4486109	10	2.8	10	100	0	56	17	10	7	64	1.47
4486330--4486499	84	2.0	82	86	4	234	30	1	11	55	1.46
4488909--4488958	21	2.4	21	83	3	66	46	22	14	18	1.84
4495174--4495334	86	1.9	85	82	6	200	31	1	11	56	1.42
4495150--4495334	86	2.2	84	80	7	198	32	1	10	55	1.44
4508524--4508558	13	2.7	13	90	0	52	25	17	14	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4508537--4508702	85	2.0	85	80	4	192	33	19	15	31	1.93
4514122--4514152	15	2.0	16	93	6	55	58	16	0	25	1.38
4514554--4514781	46	4.9	46	89	0	321	20	21	11	46	1.81
4514537--4514784	20	10.4	26	66	21	132	21	19	11	47	1.81
4522622--4522651	13	2.2	14	94	5	53	20	3	6	70	1.25
4539054--4539421	181	2.0	184	97	2	706	24	17	16	41	1.89
4542216--4542250	18	1.9	18	88	0	52	8	22	2	65	1.34
4551786--4551955	85	2.0	85	100	0	340	30	20	20	29	1.97
4563711--4563742	11	2.9	11	100	0	64	28	0	9	62	1.26
4570190--4570223	17	2.0	17	100	0	68	29	5	11	52	1.61
4574893--4574938	20	2.3	20	92	0	74	28	19	19	32	1.96
4577043--4577082	3	13.3	3	89	0	62	62	0	2	35	1.09
4578728--4578848	57	2.1	57	100	0	242	18	13	20	47	1.81
4579528--4579657	29	4.8	29	70	18	100	34	8	6	50	1.60
4579541--4579639	50	2.0	48	86	3	135	31	9	7	52	1.60
4579590--4579712	28	4.3	28	72	9	88	34	5	9	50	1.59
4579694--4579738	19	2.3	20	85	11	58	48	0	0	51	1.00
4586301--4586617	107	3.0	107	97	0	580	38	21	16	23	1.93
4587700--4587736	13	2.9	12	88	11	56	78	0	5	16	0.93
4588625--4588761	44	3.1	45	67	17	115	56	12	2	29	1.48
4588625--4588799	84	2.0	84	91	7	282	57	11	2	29	1.46
4591199--4591257	13	4.5	13	76	17	59	71	1	6	20	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4591198--4591256	12	4.4	14	76	18	54	72	1	6	18	1.15
4591438--4591499	12	5.4	12	78	18	78	16	20	9	53	1.71
4591433--4591508	25	3.5	21	83	15	100	14	18	10	56	1.66
4592728--4592774	21	2.2	21	88	0	67	19	23	19	38	1.93
4594175--4594223	14	3.5	15	76	23	61	69	0	10	20	1.17
4595008--4595060	21	2.4	22	81	12	65	60	13	5	20	1.53
4597741--4598188	223	2.0	224	94	4	789	40	16	20	21	1.91
4599005--4599325	175	1.8	175	82	1	419	35	18	18	27	1.94
4599374--4599702	175	1.9	175	82	2	410	31	18	21	29	1.97
4601663--4601744	42	2.0	41	81	11	96	25	14	6	53	1.64
4602995--4603023	14	2.1	14	100	0	58	27	27	17	27	1.97
4605829--4605864	18	2.0	18	88	0	54	30	8	16	44	1.77
4607222--4607525	149	2.1	148	96	1	556	28	16	20	34	1.94
4609391--4609418	13	2.2	13	100	0	56	14	0	0	85	0.59
4616243--4616589	83	4.2	81	78	6	349	29	15	22	32	1.95
4616243--4616584	41	8.3	41	67	14	161	28	15	22	32	1.95
4616243--4616582	165	2.1	164	81	5	382	29	15	22	32	1.95
4617000--4617050	22	2.3	22	93	0	84	39	9	15	35	1.81
4618279--4618356	41	1.9	40	92	2	129	38	14	17	29	1.89
4618272--4618377	40	2.6	41	84	1	142	37	16	18	26	1.93
4620408--4620496	43	2.1	42	81	8	99	37	23	11	28	1.89
4623212--4623264	19	2.8	19	91	0	79	41	7	9	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4624142--4624213	23	3.1	23	93	2	117	41	19	18	20	1.90
4624222--4624291	36	1.9	37	82	2	88	31	24	21	22	1.98
4624357--4624461	36	2.8	36	81	8	122	30	16	18	35	1.92
4624469--4624554	36	2.4	36	84	3	111	39	12	23	24	1.89
4625364--4625468	29	3.7	29	84	2	131	23	8	22	44	1.80
4625422--4625488	29	2.3	29	84	0	80	28	7	22	41	1.80
4632585--4632617	13	2.5	13	95	0	57	18	48	21	12	1.80
4632636--4632770	58	2.3	57	89	2	198	25	8	21	45	1.79
4632636--4632745	29	3.8	29	91	4	177	23	9	20	46	1.79
4632636--4632770	29	4.6	30	84	5	170	25	8	21	45	1.79

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