genome.fa.s2890.2.7.7.80.10.50.1000.16.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  16  of  21  ( 2516 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)
3768777--3768990	117	1.8	118	88	5	335	26	22	14	35	1.93
3770250--3770763	54	9.6	55	78	7	434	41	17	8	31	1.80
3772089--3772156	28	2.4	28	92	0	109	20	7	33	38	1.81
3772876--3772980	23	4.7	23	78	9	101	2	17	3	76	1.06
3772875--3772980	46	2.4	45	82	9	119	2	16	3	76	1.05
3772876--3772980	11	9.4	11	74	10	88	2	17	3	76	1.06
3774109--3774562	224	2.0	226	99	0	894	30	21	17	30	1.96
3774574--3774602	13	2.1	14	93	6	51	62	6	10	20	1.50
3776635--3776886	136	1.9	135	82	5	321	40	13	15	30	1.85
3777026--3777056	16	1.9	16	100	0	62	45	6	22	25	1.76
3778401--3778431	14	2.2	14	100	0	62	25	6	16	51	1.68
3780522--3780547	11	2.4	11	100	0	52	46	0	15	38	1.46
3780685--3780729	18	2.5	18	85	0	63	20	26	13	40	1.89
3784193--3784449	54	4.8	54	86	1	345	33	19	18	28	1.95
3784926--3785127	95	2.1	94	81	7	230	28	24	14	32	1.95
3785017--3785074	22	2.8	20	85	10	80	27	27	15	29	1.96
3788365--3788732	184	2.0	184	95	4	663	50	6	11	31	1.65
3789203--3789229	13	2.1	13	100	0	54	0	7	7	85	0.75
3789633--3789744	3	36.7	3	85	3	152	61	0	0	36	1.08
3789873--3791025	74	15.4	76	95	2	2081	35	21	21	21	1.96
3789873--3791025	150	7.7	152	95	3	2081	35	21	21	21	1.96
3792113--3792276	54	3.2	53	88	6	230	22	20	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3792715--3792762	25	1.9	25	100	0	96	43	10	16	29	1.81
3794314--3794647	90	3.7	91	92	2	539	36	22	14	26	1.93
3802693--3802725	17	1.9	17	88	11	50	18	15	48	18	1.81
3802923--3803034	3	36.7	3	85	3	152	61	0	0	36	1.08
3803291--3803364	29	2.6	29	93	2	132	43	14	21	20	1.88
3810125--3810198	29	2.9	24	73	21	60	44	13	21	20	1.85
3810138--3810216	29	2.8	29	92	1	133	44	15	20	20	1.87
3810296--3810358	15	4.2	15	79	0	72	17	17	31	33	1.93
3810296--3810358	30	2.1	30	87	0	90	17	17	31	33	1.93
3812696--3812742	19	2.5	19	89	0	76	10	40	8	40	1.70
3821833--3821878	20	2.3	19	85	14	58	50	8	15	26	1.73
3824595--3824858	54	4.9	54	91	0	420	32	20	20	26	1.97
3824647--3824733	27	3.2	27	63	18	63	32	18	20	28	1.96
3825267--3825318	22	2.5	20	82	11	68	30	28	13	26	1.94
3825218--3825390	95	1.8	96	82	6	226	30	21	13	33	1.93
3825790--3825827	15	2.6	15	95	4	69	42	23	0	34	1.55
3826881--3826977	47	2.0	48	96	2	178	30	8	20	40	1.82
3827994--3828068	17	5.0	15	74	19	68	22	1	0	76	0.87
3827994--3828066	22	3.2	22	75	13	69	21	1	0	76	0.86
3828008--3828068	19	3.3	19	78	17	58	22	1	0	75	0.89
3827994--3828066	8	8.6	8	73	19	51	21	1	0	76	0.86
3827983--3828068	9	9.6	9	74	20	65	22	1	0	76	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3827998--3828084	46	2.0	43	82	11	104	22	3	1	72	1.07
3828126--3828150	12	2.1	12	100	0	50	8	8	0	84	0.79
3830312--3830353	20	2.1	20	95	0	75	66	9	21	2	1.32
3830970--3831020	25	2.0	25	88	7	77	37	13	29	19	1.90
3831930--3832169	95	2.7	95	83	10	290	30	18	21	30	1.97
3833307--3834237	84	11.2	83	79	4	975	30	24	20	24	1.98
3833307--3834267	165	5.8	164	82	4	1088	30	24	20	24	1.98
3833307--3834278	498	1.9	498	87	2	1405	30	24	20	24	1.98
3835686--3835730	20	2.3	20	84	3	56	15	2	2	80	0.92
3835688--3835731	23	1.9	23	86	9	63	15	2	2	79	0.93
3835686--3835730	11	4.4	11	75	13	51	15	2	2	80	0.92
3835739--3835867	56	2.3	56	79	12	140	17	12	1	68	1.27
3835734--3835869	57	2.4	56	77	12	136	16	12	1	69	1.27
3835885--3835986	41	2.5	40	78	15	100	20	4	4	69	1.26
3837314--3837387	31	2.4	31	88	0	112	51	12	14	21	1.75
3837995--3838034	20	2.0	20	85	0	53	17	20	20	42	1.89
3842294--3842554	130	2.0	130	100	0	522	29	19	15	34	1.93
3853325--3853372	19	2.5	19	93	3	78	33	25	14	27	1.94
3854842--3854910	34	2.0	34	100	0	138	28	11	24	34	1.91
3856188--3856265	3	25.3	3	84	5	93	38	0	1	60	1.05
3857628--3857712	35	2.4	35	77	11	86	36	3	1	58	1.23
3860563--3860603	7	5.9	7	83	11	57	14	17	9	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3865209--3865546	114	3.0	114	95	0	577	32	15	20	31	1.94
3868742--3869124	76	5.0	76	95	0	676	23	19	21	35	1.96
3869281--3869346	3	21.3	3	81	6	69	39	0	1	59	1.07
3870708--3870792	35	2.4	35	77	11	86	36	3	1	58	1.23
3871779--3871816	19	2.0	20	89	5	60	18	18	31	31	1.95
3873587--3873633	3	16.0	3	91	4	78	31	2	0	65	1.04
3874041--3874066	10	2.6	10	100	0	52	23	23	30	23	1.99
3874949--3875110	30	5.4	30	77	10	145	19	12	10	58	1.63
3875038--3875121	29	2.9	30	82	8	77	20	13	9	57	1.63
3875892--3875929	16	2.3	17	81	4	51	26	5	7	60	1.46
3885302--3885345	21	2.1	21	83	8	54	18	15	25	40	1.90
3897464--3897507	18	2.4	18	100	0	88	38	4	15	40	1.68
3898483--3898555	18	3.9	18	77	7	74	21	16	30	31	1.95
3903940--3904030	18	4.9	18	87	10	121	20	20	29	28	1.98
3903940--3904031	38	2.5	38	85	7	127	21	20	29	28	1.98
3906225--3906294	2	35.0	2	100	0	140	50	0	0	50	1.00
3907358--3907403	4	12.0	4	86	9	69	50	23	0	26	1.50
3907358--3907402	18	2.6	18	86	6	67	51	24	0	24	1.49
3907362--3907403	22	1.9	22	95	0	75	50	23	0	26	1.50
3907756--3907828	36	2.0	37	89	2	112	28	21	10	38	1.88
3908017--3908123	28	3.8	28	77	10	103	32	14	7	45	1.72
3908072--3908249	67	2.7	64	80	6	196	30	14	13	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3908090--3908253	67	2.5	65	81	10	199	29	14	14	42	1.84
3908084--3908253	65	2.6	65	81	9	202	31	14	13	41	1.84
3908159--3908287	65	2.0	65	80	8	147	27	14	15	41	1.86
3908221--3908312	36	2.6	37	86	8	120	27	19	13	40	1.88
3908542--3908821	134	2.1	135	83	4	352	27	30	17	23	1.97
3909111--3909156	16	2.9	16	93	0	74	32	2	2	63	1.19
3909111--3909163	3	17.0	3	84	7	70	32	1	1	64	1.15
3910574--3910641	29	2.3	28	82	9	82	25	11	7	55	1.61
3910619--3910673	29	1.9	28	81	3	65	10	3	14	70	1.28
3911432--3911471	16	2.4	18	76	16	50	30	5	5	60	1.40
3913827--3913885	22	2.5	22	83	8	73	32	5	1	61	1.28
3914183--3914413	30	7.6	30	72	17	156	55	0	4	38	1.27
3914186--3914315	65	2.0	67	84	6	176	52	0	6	40	1.28
3914298--3914349	25	2.0	26	81	11	61	57	1	1	38	1.21
3914175--3914413	59	3.9	59	72	17	170	55	0	5	38	1.29
3915752--3915783	16	2.0	16	100	0	64	56	12	25	6	1.59
3916026--3916102	33	2.3	33	95	0	136	19	14	18	48	1.82
3916617--3916732	56	2.0	57	95	3	207	31	12	18	37	1.89
3918812--3918886	37	2.0	37	94	0	132	34	12	17	36	1.87
3918821--3918895	37	2.0	37	86	0	105	38	10	14	36	1.81
3924903--3924930	7	4.0	7	100	0	56	14	28	28	28	1.95
3926256--3926317	29	2.2	28	80	11	72	35	12	12	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3927074--3927106	17	2.0	17	88	5	50	39	39	6	15	1.72
3931639--3931696	24	2.3	26	77	20	68	37	36	6	18	1.78
3931656--3931702	24	2.0	24	100	0	94	38	38	8	14	1.77
3937039--3937182	76	1.9	75	91	1	234	37	9	15	37	1.80
3939221--3939334	52	2.2	52	85	1	147	42	17	7	32	1.76
3947112--3947165	2	28.0	2	92	7	94	50	0	0	50	1.00
3950509--3950540	13	2.5	13	94	0	55	43	21	18	15	1.87
3950554--3950589	14	2.6	14	86	0	54	27	19	25	27	1.99
3956809--3956838	2	15.0	2	100	0	60	50	0	0	50	1.00
3969170--3969319	80	1.9	79	84	4	203	24	12	12	50	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21