genome.fa.s9625.2.7.7.80.10.50.1000.14.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  14  of  25  ( 2922 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)
4258091--4258204	57	2.0	57	100	0	228	35	3	33	28	1.74
4282461--4282670	104	2.0	104	90	0	330	24	11	19	43	1.85
4283202--4283293	40	2.3	40	86	5	123	47	13	5	33	1.65
4291572--4292698	216	5.3	215	91	3	1710	51	8	11	28	1.67
4291572--4292698	428	2.6	427	92	1	1819	51	8	11	28	1.67
4292780--4292863	2	43.5	2	69	15	52	46	1	4	47	1.31
4292781--4292844	22	2.8	22	83	4	74	45	0	4	50	1.22
4292836--4292883	20	2.5	20	89	3	71	45	10	4	39	1.58
4292964--4293286	112	2.9	112	85	3	418	30	27	5	37	1.80
4293375--4293431	29	1.9	30	92	3	98	24	40	3	31	1.72
4293423--4293475	22	2.3	23	83	3	72	37	45	5	11	1.64
4293808--4293886	36	2.1	37	84	9	99	32	2	12	51	1.53
4293869--4294228	31	11.6	31	85	3	431	23	4	23	49	1.68
4293869--4294228	93	3.9	93	86	3	483	23	4	23	49	1.68
4296579--4296637	20	3.0	20	82	0	64	15	13	13	57	1.65
4297383--4297480	51	1.9	52	89	2	153	47	5	5	41	1.47
4297450--4297490	17	2.4	17	95	0	73	46	7	0	46	1.30
4297609--4297643	16	2.2	16	89	0	52	31	17	28	22	1.96
4305320--4305407	24	3.7	24	78	0	86	25	14	17	43	1.87
4311815--4311875	27	2.3	27	94	0	104	44	8	18	29	1.78
4315471--4315551	24	3.4	24	82	0	99	24	14	18	41	1.88
4317618--4317802	60	3.1	60	88	0	253	38	11	22	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4328128--4328451	45	7.2	45	89	2	481	19	21	13	45	1.84
4334599--4334787	45	4.2	45	89	0	288	19	21	13	45	1.84
4334715--4334787	24	3.2	24	66	25	66	20	21	12	45	1.84
4337050--4337470	210	2.0	209	94	0	743	33	7	21	37	1.82
4337466--4337649	59	3.1	59	92	3	289	37	11	25	25	1.90
4339868--4340401	55	9.7	55	92	0	800	35	17	11	35	1.85
4345241--4345366	47	2.8	46	83	7	152	31	19	7	41	1.79
4349005--4349700	55	12.7	55	93	0	1126	34	18	12	34	1.89
4351347--4351376	7	4.3	7	91	0	51	80	3	0	16	0.85
4356183--4356223	21	2.0	21	85	0	55	43	9	14	31	1.78
4357568--4357638	37	1.9	37	85	0	97	22	21	22	33	1.97
4364212--4364246	2	18.0	2	94	5	63	51	0	0	48	1.00
4364411--4364467	13	4.4	13	82	8	62	38	17	17	26	1.92
4364269--4364431	85	1.9	85	84	2	220	33	18	20	28	1.96
4364983--4365037	20	2.8	19	78	8	56	30	18	25	25	1.98
4365065--4365127	32	2.0	32	100	0	126	31	9	26	31	1.88
4370158--4370237	8	10.1	7	75	21	54	78	1	16	3	0.95
4370170--4370232	9	7.3	9	75	22	64	79	0	17	3	0.86
4370170--4370232	17	3.6	17	93	2	99	79	0	17	3	0.86
4372118--4372332	90	2.4	90	90	1	335	29	16	19	34	1.94
4372406--4372557	66	2.3	67	78	6	157	30	19	12	37	1.89
4372455--4372578	36	3.6	36	76	12	152	28	20	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4372455--4372654	66	3.0	66	83	4	235	28	20	14	36	1.92
4372490--4372605	30	3.7	30	73	20	101	28	18	15	37	1.92
4373049--4373488	91	4.8	91	86	1	596	37	15	22	25	1.93
4373059--4373488	182	2.4	182	88	2	659	37	14	22	24	1.92
4373491--4373905	96	4.3	96	89	1	636	28	25	16	29	1.97
4376624--4376770	55	2.7	54	79	1	150	34	12	19	33	1.90
4376975--4377457	243	2.0	242	82	6	593	37	11	22	27	1.89
4376994--4377460	81	5.8	81	82	5	498	38	10	22	28	1.88
4382113--4382165	20	2.7	19	80	8	61	30	16	30	22	1.96
4382962--4383682	81	9.0	81	81	5	716	37	11	23	27	1.89
4383114--4383579	233	2.0	232	81	3	544	39	11	22	27	1.88
4383074--4383660	314	1.9	314	86	1	845	38	10	22	27	1.88
4386914--4387436	118	4.5	118	88	1	687	39	15	19	25	1.91
4387750--4387777	3	9.3	3	100	0	56	35	0	0	64	0.94
4393853--4393939	43	2.0	43	95	0	156	21	18	27	32	1.97
4394187--4394216	14	2.1	14	100	0	60	33	20	23	23	1.97
4407763--4407806	20	2.1	21	84	12	56	54	11	4	29	1.56
4408565--4408606	22	1.9	22	85	9	59	73	0	11	14	1.09
4409785--4409837	24	2.3	23	84	12	72	77	0	9	13	0.99
4409864--4409961	11	8.1	11	67	17	52	46	5	1	46	1.31
4409862--4410169	38	8.1	37	85	7	395	44	6	1	47	1.38
4409862--4410169	75	4.1	75	87	6	433	44	6	1	47	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4413454--4413482	11	2.7	11	94	5	51	86	0	3	10	0.69
4415496--4415586	45	2.0	46	91	2	148	27	19	24	28	1.99
4415606--4415643	20	1.9	20	94	0	67	18	15	34	31	1.92
4417804--4417842	13	3.1	13	88	3	53	48	2	7	41	1.45
4418216--4418248	17	1.9	17	100	0	66	39	0	42	18	1.50
4422260--4422299	21	1.9	21	85	10	55	35	10	0	55	1.34
4423972--4424004	10	3.2	11	91	8	52	9	15	15	60	1.58
4424277--4424367	45	2.0	46	93	2	157	26	19	26	27	1.99
4424387--4424424	20	1.9	20	94	0	67	18	15	34	31	1.92
4425876--4426152	39	7.3	37	89	4	378	45	6	1	46	1.37
4426720--4426761	18	2.3	18	100	0	84	21	14	26	38	1.91
4427558--4427698	61	2.4	59	79	5	151	27	28	17	26	1.98
4431554--4431585	16	1.9	17	93	6	57	43	15	0	40	1.47
4432597--4432750	61	2.6	57	77	7	166	24	28	18	28	1.98
4440646--4440698	23	2.3	23	90	0	88	39	1	3	54	1.29
4440773--4440818	23	2.0	24	86	4	67	54	0	4	41	1.20
4441431--4441515	40	2.1	40	84	0	116	27	28	25	18	1.98
4441962--4442037	29	2.6	29	74	17	68	40	3	1	53	1.27
4442521--4442546	8	3.2	8	100	0	52	26	0	0	73	0.84
4447643--4447691	2	25.5	2	91	8	84	46	0	0	53	1.00
4447916--4447965	20	2.5	20	80	6	57	30	6	24	40	1.79
4449498--4449537	19	2.1	19	100	0	80	52	12	10	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460214--4460259	2	23.0	2	100	0	92	50	0	0	50	1.00
4462853--4462957	37	2.8	37	88	0	156	40	15	15	29	1.88
4463570--4463616	22	2.0	22	84	12	58	29	0	2	68	1.02
4463873--4463925	20	2.8	19	88	8	74	41	0	0	58	0.98
4463817--4463925	24	4.8	22	73	16	71	33	2	2	60	1.25
4463881--4463925	2	25.0	2	79	20	55	44	0	0	55	0.99
4463856--4463922	11	6.1	11	77	19	68	38	2	0	58	1.14
4463881--4463924	13	3.5	13	80	20	58	43	0	0	56	0.99
4464141--4464178	18	2.1	18	85	9	51	34	2	0	63	1.09
4467045--4467085	15	2.5	17	76	19	50	19	21	9	48	1.77
4468236--4468284	25	1.9	26	91	4	82	81	4	10	4	0.95
4468230--4468301	11	6.2	11	74	16	58	81	4	11	2	0.92
4468227--4468314	37	2.4	35	82	16	115	80	5	10	3	0.99
4468225--4468308	34	2.5	33	76	12	82	79	5	10	3	1.02
4468232--4468312	21	4.2	19	76	13	76	80	4	11	3	1.00
4468903--4468979	22	3.5	22	96	0	145	36	25	12	24	1.92
4469656--4471484	106	17.3	106	90	1	2710	34	24	17	23	1.96
4472209--4472313	37	2.8	37	88	0	156	40	15	15	29	1.88
4472881--4472925	23	2.0	23	91	8	74	28	4	0	66	1.11
4472880--4473007	59	2.2	58	79	12	136	24	7	0	67	1.22
4473002--4473031	12	2.6	11	94	5	51	23	6	6	63	1.43
4473240--4473274	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4490519--4490565	21	2.3	21	85	10	62	40	12	10	36	1.78
4491312--4491344	16	2.1	16	88	5	50	36	0	0	63	0.95
4501405--4501448	24	1.9	22	90	9	70	31	0	38	29	1.58
4501405--4501453	24	2.2	24	85	10	68	34	0	38	26	1.57
4507831--4507879	24	2.0	24	96	0	89	8	40	16	34	1.78
4508959--4509140	48	4.0	45	75	15	142	42	13	19	24	1.87
4508960--4509101	45	3.2	44	79	8	155	45	12	18	23	1.84
4515285--4515339	20	2.6	22	77	5	60	32	18	27	21	1.96
4515745--4515837	44	2.1	44	87	0	132	44	7	19	29	1.78
4515788--4515893	56	1.9	56	86	0	149	41	12	16	29	1.85

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