genome.fa.s9582.2.7.7.80.10.50.1000.18.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  18  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)
3494677--3494736	23	2.7	22	87	10	79	30	28	16	25	1.97
3494930--3494956	14	1.9	14	100	0	54	44	7	14	33	1.73
3496803--3496854	23	2.5	20	80	20	54	69	1	7	21	1.24
3502164--3502234	24	3.0	24	78	0	79	30	28	22	18	1.97
3505325--3505349	3	8.3	3	100	0	50	64	0	0	36	0.94
3505642--3505683	14	2.8	15	82	17	52	73	9	0	16	1.08
3507194--3507258	23	2.8	23	76	0	76	24	23	24	27	2.00
3508101--3508179	20	4.0	20	86	0	122	25	29	20	25	1.99
3508085--3508179	40	2.4	40	87	0	127	25	29	21	24	1.99
3511204--3511254	16	3.2	16	86	5	59	58	19	3	17	1.54
3511560--3511844	20	14.9	20	75	10	254	34	21	16	27	1.95
3511753--3511875	34	3.4	34	76	16	131	35	21	17	25	1.95
3511560--3511875	74	4.2	74	80	7	298	34	21	17	26	1.95
3512025--3512079	29	1.9	28	85	3	74	45	16	0	38	1.47
3512020--3512081	14	4.3	14	81	6	70	45	14	0	40	1.45
3514077--3514143	20	3.5	18	86	11	89	35	26	19	17	1.94
3514088--3514143	20	2.8	20	94	0	94	35	25	19	19	1.95
3514186--3514253	20	3.4	20	91	0	109	19	20	25	35	1.96
3514528--3514573	21	2.2	21	84	7	58	36	34	15	13	1.86
3516167--3516217	20	2.5	20	87	0	75	39	25	19	15	1.91
3516204--3516247	19	2.3	19	92	0	70	50	22	13	13	1.77
3516830--3516915	20	4.3	20	87	0	127	24	23	27	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3518926--3518956	3	10.3	3	100	0	62	67	32	0	0	0.91
3526172--3526912	81	9.2	81	91	0	1126	34	12	21	30	1.91
3526907--3527059	46	3.3	46	83	0	171	44	15	17	22	1.86
3528280--3528358	23	3.5	22	85	3	95	18	20	26	34	1.96
3528324--3528408	24	3.6	24	79	6	84	23	23	21	31	1.98
3530476--3530505	15	2.0	15	93	0	51	40	16	0	43	1.48
3530872--3530945	23	3.3	22	74	14	80	33	22	24	18	1.97
3534531--3534559	14	2.1	14	100	0	58	6	17	27	48	1.72
3535643--3535717	10	7.7	10	67	21	52	9	12	22	56	1.64
3535649--3535713	16	4.1	16	93	0	112	7	12	24	55	1.63
3542303--3542343	17	2.6	16	82	17	50	48	0	0	51	1.00
3544446--3544484	17	2.4	16	86	4	51	20	0	43	35	1.52
3545178--3545473	147	2.0	144	96	3	540	20	16	27	35	1.94
3548616--3548650	17	2.1	16	89	5	52	0	11	31	57	1.34
3552037--3552112	34	2.2	34	97	0	143	26	21	11	40	1.87
3551955--3552130	93	1.9	93	93	0	307	26	23	11	38	1.89
3552668--3552719	20	2.6	21	93	6	90	17	30	17	34	1.93
3564313--3564355	17	2.5	17	96	0	77	51	20	4	23	1.66
3564694--3564751	23	2.7	23	92	7	95	37	3	12	46	1.58
3564763--3564797	13	2.8	13	91	4	54	57	0	0	42	0.99
3567788--3567832	8	5.9	8	78	17	51	37	0	24	37	1.56
3567788--3567832	15	2.9	15	78	15	56	37	0	24	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3567894--3568621	126	5.8	126	97	0	1372	21	26	20	32	1.98
3567894--3568621	251	2.9	252	97	0	1381	21	26	20	32	1.98
3569008--3569106	33	3.0	34	82	4	130	39	3	4	53	1.35
3569624--3569717	21	4.5	21	89	5	120	21	25	35	18	1.95
3569721--3569768	21	2.3	21	85	0	60	22	12	39	25	1.89
3571483--3571553	14	4.7	15	73	14	65	57	1	0	40	1.07
3571480--3571556	16	4.7	18	64	26	55	58	1	0	40	1.06
3571482--3571556	32	2.4	31	84	8	89	58	1	0	40	1.06
3573525--3573559	18	2.0	17	88	5	52	48	0	0	51	1.00
3576774--3576830	23	2.5	23	97	0	105	54	7	12	26	1.63
3577718--3577793	11	6.5	11	68	25	50	63	3	3	28	1.30
3577763--3577822	15	3.8	17	73	13	65	70	0	6	23	1.11
3577768--3577811	19	2.3	19	84	7	54	70	0	4	25	1.06
3579199--3579303	3	34.7	3	84	1	138	60	0	0	38	1.10
3579184--3579286	24	4.0	27	83	9	85	56	0	1	40	1.17
3579434--3580904	76	19.4	76	95	0	2581	35	21	19	23	1.96
3579434--3580904	303	4.8	304	95	0	2626	35	21	19	23	1.96
3581762--3581814	22	2.4	22	93	0	97	41	13	11	33	1.80
3583281--3583346	35	1.9	34	90	3	105	34	22	9	33	1.86
3584201--3584422	114	1.9	114	93	0	381	32	18	13	34	1.91
3588595--3588633	14	2.8	14	85	11	53	58	7	17	15	1.59
3591573--3591648	11	6.5	11	68	25	50	63	3	3	28	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3591618--3591677	15	3.8	17	73	13	65	70	0	6	23	1.11
3591623--3591666	19	2.3	19	84	7	54	70	0	4	25	1.06
3593072--3593168	3	31.7	3	83	4	122	60	1	0	38	1.03
3593932--3593964	16	2.0	17	94	5	59	48	0	21	30	1.50
3595932--3595960	12	2.3	13	94	5	51	31	0	0	68	0.89
3597247--3597276	6	5.0	6	100	0	60	50	0	0	50	1.00
3598946--3598994	26	2.0	26	88	8	75	59	0	4	36	1.17
3600580--3600624	23	2.0	23	95	0	81	22	22	13	42	1.88
3606782--3606820	16	2.4	16	100	0	78	20	28	28	23	1.99
3609110--3609180	22	3.2	22	100	0	142	36	18	19	25	1.94
3615320--3615736	207	2.0	210	96	3	781	54	14	13	17	1.72
3616532--3616566	17	2.1	17	94	0	61	51	2	5	40	1.40
3619140--3619169	15	2.0	15	93	0	51	50	0	3	46	1.18
3619403--3619441	21	1.9	20	84	5	51	53	0	10	35	1.35
3621518--3621676	57	2.8	58	77	8	182	41	8	3	45	1.53
3621659--3621898	91	2.6	89	76	7	241	43	10	6	40	1.64
3621995--3622201	111	1.9	110	81	7	249	45	9	4	40	1.58
3621979--3622417	57	8.1	53	70	16	186	43	10	5	40	1.62
3622205--3622479	58	4.7	57	80	9	245	42	11	8	37	1.72
3622584--3622750	45	3.8	44	78	7	169	41	11	13	32	1.81
3622722--3622781	31	1.9	31	90	6	95	48	16	13	21	1.80
3623469--3623496	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3623527--3623592	27	2.4	28	82	5	82	37	21	18	22	1.94
3627978--3628194	109	2.0	108	96	2	400	32	14	14	38	1.87
3631584--3631763	96	1.9	96	83	4	238	35	12	17	34	1.88
3639211--3639266	27	2.1	27	96	0	103	21	16	19	42	1.89
3643731--3643775	23	1.9	24	86	4	65	28	15	26	28	1.96
3645184--3645216	16	1.9	17	88	11	50	30	18	0	51	1.46
3649961--3650016	20	2.9	19	75	19	62	66	0	8	25	1.21
3651031--3651091	30	2.1	29	82	11	72	34	6	3	55	1.42
3651426--3651681	132	1.9	132	86	1	361	25	14	12	46	1.80
3651551--3651847	138	2.1	140	82	3	368	27	11	13	47	1.78
3653419--3653480	27	2.3	27	82	0	79	9	17	12	59	1.59
3654254--3654311	31	1.9	30	85	3	80	29	3	8	58	1.44
3654286--3654318	16	2.0	17	88	5	50	27	3	6	63	1.32
3655229--3655265	18	2.1	17	90	5	56	45	0	0	54	1.00
3660066--3660134	34	2.0	34	97	0	129	43	11	11	33	1.77
3664480--3664551	35	2.0	36	84	7	94	13	8	0	77	0.98
3664503--3664549	24	2.0	24	87	8	69	17	2	0	80	0.80
3668894--3668936	15	2.8	15	82	3	59	65	0	2	32	1.06
3669705--3669748	19	2.4	18	92	7	79	13	50	0	36	1.42
3670697--3670748	22	2.3	23	84	12	65	73	0	3	23	1.00
3670697--3670753	24	2.7	20	76	20	53	73	0	3	22	0.98
3670717--3670767	21	2.3	21	83	12	59	70	1	3	23	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3671201--3671372	91	1.9	92	85	1	238	33	16	19	30	1.94
3671201--3671396	91	2.1	92	81	2	225	32	16	19	31	1.94
3671293--3673787	132	18.9	132	83	3	2739	30	17	21	30	1.96
3671074--3671506	224	1.9	224	79	4	480	31	16	20	30	1.95
3671293--3673787	525	4.7	524	83	3	2825	30	17	21	30	1.96
3671293--3673787	657	3.8	658	91	1	3737	30	17	21	30	1.96
3674530--3674644	45	2.6	45	81	13	130	48	18	12	20	1.80
3676183--3676268	42	2.0	44	93	4	149	29	22	15	33	1.94
3676868--3677308	221	2.0	221	99	0	866	30	14	13	40	1.85
3682201--3682230	5	6.0	5	92	0	51	76	0	3	20	0.92

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