genome.fa.s8029.2.7.7.80.10.50.1000.16.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

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

This is table  16  of  18  ( 2124 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)
3383289--3383363	23	3.2	23	79	5	71	28	16	18	37	1.92
3383309--3383374	23	2.8	23	77	11	71	27	18	21	33	1.96
3388461--3388505	20	2.2	20	84	11	56	35	11	22	31	1.89
3389227--3389283	15	3.9	15	81	2	62	31	5	22	40	1.76
3389417--3389496	23	3.4	23	85	1	97	25	18	23	32	1.97
3392487--3392547	30	2.0	30	90	0	95	27	16	19	36	1.93
3393668--3393728	32	1.9	32	89	0	95	24	11	26	37	1.89
3394899--3394977	32	2.5	31	85	4	106	21	17	21	39	1.93
3396036--3396092	30	1.9	30	88	0	87	28	17	17	36	1.93
3408460--3408498	20	2.0	20	84	0	51	35	23	10	30	1.88
3410650--3410685	18	2.0	18	94	0	63	41	22	0	36	1.54
3410656--3410693	18	2.1	18	90	0	58	47	18	2	31	1.62
3412235--3412709	197	2.4	196	88	3	688	32	14	13	39	1.86
3412517--3412555	20	2.0	20	94	0	69	35	10	15	38	1.81
3413089--3413202	20	5.7	20	71	12	72	28	13	13	45	1.80
3412718--3413126	197	2.1	196	90	0	649	30	15	13	40	1.86
3413089--3413207	40	3.0	40	75	9	125	28	14	12	44	1.81
3425093--3425140	21	2.3	21	85	0	60	25	39	12	22	1.89
3425120--3425237	42	2.8	42	81	10	134	20	33	23	22	1.97
3425147--3425237	21	4.3	21	86	5	103	19	31	26	21	1.98
3425757--3425858	33	3.1	33	81	6	127	56	4	1	36	1.32
3426217--3426816	127	4.7	128	93	4	1029	32	21	24	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3426217--3426816	251	2.4	252	93	3	994	32	21	24	20	1.98
3426897--3426936	15	2.5	17	73	19	50	40	25	0	35	1.56
3427988--3428320	167	2.0	165	94	5	591	33	20	24	21	1.97
3432787--3432821	2	18.5	2	88	11	56	48	0	0	51	1.00
3432787--3432821	11	3.1	12	88	12	56	48	0	0	51	1.00
3432787--3432821	15	2.3	15	100	0	70	48	0	0	51	1.00
3434122--3434161	16	2.3	18	87	8	57	42	7	0	50	1.30
3434515--3434548	2	17.0	2	100	0	68	50	0	0	50	1.00
3435088--3435149	2	31.5	2	96	3	117	50	0	0	50	1.00
3448029--3448073	24	2.0	21	83	12	54	51	4	6	37	1.49
3450983--3451031	23	2.0	25	85	14	68	40	6	4	48	1.47
3451273--3451349	35	2.2	35	97	0	145	15	7	19	57	1.63
3454594--3454625	9	3.7	9	91	8	57	21	0	0	78	0.76
3458828--3458861	16	2.1	16	88	5	50	47	20	5	26	1.73
3461559--3461608	19	2.6	19	93	0	82	42	14	4	40	1.64
3466642--3466680	13	3.0	13	88	0	60	25	0	17	56	1.41
3468014--3468100	23	3.8	22	75	10	77	39	20	21	18	1.93
3468014--3468111	46	2.1	46	81	7	119	38	20	22	18	1.93
3468038--3468111	23	3.2	22	74	14	69	37	21	22	17	1.94
3474937--3474988	23	2.2	23	86	3	68	38	19	19	23	1.93
3476343--3476514	90	1.9	88	91	2	281	37	10	7	44	1.67
3478728--3478822	24	4.0	24	71	5	75	25	11	16	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478983--3479015	2	16.5	2	100	0	66	48	0	0	51	1.00
3481310--3481388	37	2.1	37	92	0	131	46	18	6	27	1.73
3483017--3483060	14	3.1	15	90	6	65	15	6	13	63	1.49
3483008--3483068	24	2.4	26	81	10	81	21	8	14	55	1.65
3483338--3483367	10	3.0	10	95	0	51	6	10	23	60	1.52
3483320--3483360	13	3.3	13	75	25	52	4	9	24	60	1.47
3483445--3483475	16	1.9	16	100	0	62	9	12	19	58	1.62
3484750--3484805	26	2.1	27	90	3	87	62	0	0	37	0.95
3486010--3486034	2	12.5	2	100	0	50	48	0	0	52	1.00
3487245--3487319	36	2.1	34	80	9	80	16	13	18	52	1.75
3487269--3487319	24	2.0	26	88	7	79	15	11	17	54	1.70
3487580--3487683	10	9.1	10	76	19	73	10	8	19	61	1.54
3487580--3487673	23	3.9	23	82	9	107	10	8	19	61	1.53
3487580--3487661	13	6.7	13	80	16	95	10	8	18	62	1.53
3515563--3515625	23	2.7	23	85	0	81	15	22	26	34	1.94
3551858--3552120	147	1.8	142	97	2	395	16	23	19	41	1.90
3558088--3558511	211	2.0	212	98	1	818	41	14	8	34	1.77
3560618--3560879	53	4.9	53	81	1	292	23	25	20	30	1.98
3561291--3561399	41	2.6	42	84	7	125	28	22	21	27	1.99
3561321--3561401	42	2.0	41	90	2	126	27	22	22	28	1.99
3561389--3561413	13	1.9	13	100	0	50	24	20	24	32	1.98
3561402--3561573	80	2.2	80	96	0	317	27	21	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3561535--3561617	42	2.0	42	95	0	148	31	18	22	27	1.97
3577727--3577792	6	11.3	6	76	20	61	15	4	1	78	0.98
3577735--3577812	23	3.3	22	79	16	77	17	5	1	75	1.05
3577729--3577798	11	6.8	11	76	22	64	15	4	1	78	0.98
3577936--3578059	36	3.5	33	74	10	95	9	8	3	79	1.05
3577955--3578058	54	1.9	55	84	9	142	9	8	3	77	1.09
3578036--3578138	37	2.8	36	75	16	102	18	2	4	73	1.13
3578072--3578138	9	6.8	10	73	17	52	19	1	2	76	1.00
3578016--3578134	57	2.1	57	79	4	125	15	4	4	76	1.09
3578961--3578990	15	1.9	16	93	6	53	20	3	6	70	1.25
3583282--3583352	32	2.2	32	82	5	81	19	15	18	46	1.84
3583350--3583685	167	2.0	169	98	1	658	30	11	20	37	1.88
3584368--3584398	2	16.0	2	93	6	55	51	0	0	48	1.00
3592537--3592699	80	2.0	80	95	3	290	32	16	11	39	1.84
3596729--3596768	20	2.0	20	95	0	71	45	12	5	37	1.64
3596725--3596869	51	2.9	52	87	12	230	48	13	6	32	1.67
3596832--3596868	19	1.9	19	94	0	65	37	18	5	37	1.74
3596725--3596863	49	2.8	50	88	10	214	48	12	6	32	1.67
3603993--3604032	20	2.0	20	90	9	64	47	10	5	37	1.59
3603989--3604139	53	2.9	53	93	3	254	49	12	5	31	1.65
3604046--3604085	20	2.0	21	90	5	64	45	15	5	35	1.68
3604100--3604138	20	2.0	20	89	0	60	43	17	5	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3604293--3604548	125	2.0	128	90	3	401	29	22	7	39	1.82
3607449--3607563	57	2.0	57	94	0	203	28	27	8	34	1.87
3612888--3612918	2	15.5	2	100	0	62	51	0	0	48	1.00
3613751--3613847	32	3.1	31	78	14	117	29	16	18	35	1.93
3613750--3613850	31	3.2	31	79	10	116	29	17	18	33	1.95
3613838--3613911	30	2.4	30	95	2	130	22	21	24	31	1.99
3617076--3617118	2	21.5	2	100	0	86	51	0	0	48	1.00
3617948--3618044	32	3.1	32	78	14	128	28	17	18	35	1.94
3617950--3618042	31	3.0	31	81	7	116	30	18	19	32	1.95
3618035--3618127	30	3.1	30	89	3	125	19	20	27	32	1.97
3627755--3627793	6	6.5	6	87	0	51	33	35	12	17	1.88
3630415--3630941	255	2.0	256	86	9	741	27	13	18	40	1.88
3634108--3634325	30	7.3	30	73	6	149	57	13	12	16	1.66
3634201--3634325	29	4.2	28	75	9	97	58	10	12	18	1.62
3635749--3635816	3	23.0	3	82	14	88	66	0	0	33	0.92
3636004--3636348	130	2.6	133	82	5	398	24	16	33	26	1.96
3636424--3636575	31	4.8	31	67	18	98	40	14	16	28	1.87
3636405--3636513	34	3.3	34	68	13	82	43	15	16	24	1.87
3636360--3636533	65	2.6	66	81	6	210	40	14	17	27	1.88
3636680--3636766	37	2.3	38	92	2	140	31	14	13	40	1.86
3636610--3636914	135	2.2	137	86	4	438	40	14	12	33	1.83
3636798--3636903	37	2.9	38	87	5	146	33	13	12	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3637055--3637122	32	2.1	34	88	5	104	29	19	16	35	1.93
3637783--3637840	30	1.9	29	83	13	73	58	10	10	20	1.60
3637826--3637927	30	3.5	28	76	9	87	54	15	14	14	1.71
3637915--3638025	30	3.7	30	72	10	84	58	9	11	19	1.61
3639482--3639534	3	17.7	3	77	14	56	64	0	0	35	0.94
3639485--3639529	16	2.9	16	87	6	67	62	0	0	37	0.96
3640141--3640290	31	4.8	32	71	7	101	39	14	17	28	1.89
3640102--3640258	65	2.4	67	82	4	201	40	14	16	29	1.87
3640126--3640225	34	3.1	33	72	8	96	43	15	17	25	1.87
3640515--3640622	37	3.0	36	89	2	171	32	12	14	39	1.85

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