genome.fa.s7748.2.7.7.80.10.50.1000.19.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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  19  of  24  ( 2778 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)
3672601--3672663	28	2.2	29	91	2	101	22	28	30	19	1.98
3673711--3673752	20	2.1	20	100	0	84	23	11	40	23	1.88
3674716--3674782	27	2.5	27	100	0	134	26	23	19	29	1.98
3674716--3674797	27	3.0	27	89	3	85	30	21	17	30	1.96
3682009--3682345	166	2.0	168	97	2	642	39	21	11	28	1.87
3683244--3683269	3	8.7	3	100	0	52	0	0	69	30	0.89
3691508--3691536	14	2.1	14	100	0	58	31	34	6	27	1.83
3697022--3697060	2	19.5	2	94	0	69	53	0	0	46	1.00
3698498--3698545	25	1.9	25	95	0	87	25	20	18	35	1.95
3699510--3699556	22	2.1	22	88	7	69	38	14	31	14	1.87
3701916--3701962	20	2.3	20	85	3	58	23	23	21	31	1.98
3701931--3701982	20	2.6	20	87	0	68	25	15	23	36	1.93
3702952--3702993	15	2.8	15	100	0	84	69	0	30	0	0.89
3702945--3703001	18	3.3	18	79	20	68	63	0	36	0	0.95
3704004--3704153	60	2.5	59	74	9	151	32	19	4	43	1.71
3706040--3706083	20	2.2	20	100	0	88	36	4	13	45	1.64
3709394--3709456	25	2.5	25	100	0	126	49	0	15	34	1.45
3709654--3709695	17	2.5	18	85	11	54	54	0	0	45	0.99
3709926--3710035	39	2.5	44	76	19	131	21	0	27	50	1.49
3709942--3710028	39	2.2	39	93	0	147	22	0	25	51	1.48
3710013--3710037	7	3.6	7	100	0	50	16	0	36	48	1.46
3709935--3710016	20	4.2	19	81	4	92	24	0	21	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709935--3710029	19	4.9	19	79	3	100	22	0	25	52	1.47
3710054--3710096	7	6.0	7	91	5	50	23	0	20	55	1.43
3710064--3710096	7	4.7	7	96	0	57	24	0	15	60	1.35
3710236--3710276	21	2.0	21	90	0	64	24	2	26	46	1.65
3710581--3710634	27	2.0	28	85	3	74	22	1	29	46	1.62
3711022--3711075	20	2.7	20	77	11	74	27	31	14	25	1.95
3711099--3711187	19	4.6	20	85	4	103	38	20	13	28	1.90
3712087--3712133	24	2.0	24	91	0	76	25	21	19	34	1.96
3712092--3712145	24	2.2	24	93	0	90	20	18	20	40	1.91
3714375--3714410	18	2.0	18	94	0	63	55	25	2	16	1.55
3714696--3714745	20	2.5	20	86	0	82	46	24	16	14	1.83
3714754--3714792	20	2.0	20	94	0	69	33	23	20	23	1.97
3714795--3714861	20	3.3	20	91	0	107	19	19	23	37	1.94
3714926--3714975	25	2.0	25	88	0	73	28	6	20	46	1.74
3715362--3715398	18	2.1	18	89	0	56	32	5	10	51	1.60
3715354--3715406	24	2.2	24	86	0	70	35	3	13	47	1.61
3715709--3715794	39	2.2	39	97	0	163	47	19	15	17	1.82
3715946--3715987	20	2.1	20	90	0	66	38	21	21	19	1.94
3715966--3716039	34	2.2	34	83	9	89	40	18	21	18	1.91
3716169--3716222	14	3.9	14	82	0	72	48	18	0	33	1.49
3717648--3717742	21	4.6	21	75	11	88	23	17	34	24	1.96
3719909--3719951	20	2.2	20	91	4	70	11	18	25	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3720386--3720450	20	3.2	20	76	8	78	20	16	21	41	1.90
3720386--3720490	40	2.6	41	79	11	101	22	14	24	38	1.92
3722526--3722608	39	2.1	38	82	8	96	43	1	4	50	1.31
3723175--3723250	36	2.1	36	85	7	100	47	1	3	47	1.29
3723396--3723433	20	1.9	20	88	0	58	21	26	10	42	1.85
3728347--3728377	3	10.7	3	93	6	55	32	0	0	67	0.91
3733503--3733580	2	42.5	2	80	16	89	46	0	0	53	1.00
3733826--3733895	23	3.0	23	97	0	131	25	24	4	45	1.71
3735824--3735857	2	17.0	2	100	0	68	50	0	0	50	1.00
3737540--3737573	17	2.0	17	88	0	50	70	2	0	26	1.01
3737970--3738184	76	2.8	76	90	3	317	58	12	0	28	1.40
3755561--3755593	2	16.5	2	100	0	66	51	0	0	48	1.00
3757940--3757973	3	11.7	3	93	6	61	32	0	0	67	0.91
3757941--3757969	14	2.1	14	100	0	58	34	0	0	65	0.93
3757939--3757977	17	2.4	16	91	8	69	30	0	0	69	0.89
3758156--3758584	212	2.0	214	98	1	835	33	17	20	28	1.95
3769583--3769676	49	1.9	50	86	4	138	24	21	5	48	1.70
3770060--3770098	20	2.0	20	94	0	69	35	10	23	30	1.88
3778589--3778627	20	2.0	20	89	0	60	33	10	23	33	1.88
3790420--3790486	2	33.5	2	100	0	134	49	0	0	50	1.00
3793520--3793657	21	6.8	20	69	11	82	36	23	17	21	1.94
3793622--3793676	20	2.8	19	80	5	65	43	25	18	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3793663--3793817	20	7.7	20	83	4	204	32	25	20	21	1.98
3793624--3793818	40	4.9	39	80	3	183	35	25	20	19	1.96
3793624--3793817	60	3.2	60	82	0	235	35	25	20	19	1.96
3794199--3794268	32	2.2	33	89	2	106	11	22	18	47	1.81
3794347--3794450	20	5.6	19	73	16	94	44	19	25	11	1.84
3794346--3794454	40	2.9	40	80	16	135	44	18	25	11	1.84
3794405--3794461	14	3.7	14	75	20	60	43	22	24	8	1.81
3794347--3794477	33	3.7	33	84	12	138	44	21	23	10	1.83
3794495--3794550	14	3.7	14	78	17	67	8	25	23	42	1.82
3794478--3794556	32	2.4	32	97	2	149	10	22	20	46	1.80
3794535--3794599	21	3.1	21	82	4	96	10	26	15	47	1.78
3794534--3794597	20	3.2	20	82	4	92	12	25	15	46	1.81
3796276--3796645	91	4.1	91	95	3	640	22	12	19	45	1.84
3796276--3796645	184	2.0	180	94	3	652	22	12	19	45	1.84
3796693--3796819	19	7.2	19	72	17	112	47	28	16	7	1.74
3796727--3796819	33	2.8	32	90	4	141	47	27	17	7	1.74
3796692--3796819	52	2.5	51	74	13	127	46	28	16	8	1.76
3796815--3796986	19	9.6	19	77	12	159	11	19	23	45	1.82
3796837--3796893	14	3.7	14	77	20	60	10	21	22	45	1.82
3796837--3796970	51	2.6	53	83	11	154	9	19	23	47	1.79
3796815--3796986	33	4.8	38	81	7	159	11	19	23	45	1.82
3798900--3798938	14	2.7	14	92	4	60	35	0	23	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799040--3799137	19	5.4	19	82	13	134	46	17	21	14	1.83
3799044--3799156	53	2.2	53	96	1	210	46	17	23	13	1.83
3799146--3799346	19	11.7	19	74	20	185	14	21	18	44	1.86
3799152--3799360	33	6.2	33	75	16	214	13	22	18	45	1.85
3799146--3799315	52	3.3	52	96	1	306	14	22	17	44	1.85
3801629--3801653	12	2.1	12	100	0	50	0	28	0	72	0.86
3801839--3801893	24	2.3	24	83	0	65	38	20	14	27	1.91
3802552--3802781	20	11.5	20	85	1	237	19	18	24	36	1.94
3802768--3802850	21	4.0	21	73	6	78	25	16	24	33	1.96
3802748--3802846	42	2.4	43	77	11	100	21	18	23	37	1.94
3804794--3805125	75	4.4	75	82	5	379	41	9	13	35	1.77
3804818--3805125	149	2.1	150	87	1	440	41	9	13	35	1.78
3805100--3805150	23	2.2	23	92	0	84	35	15	15	33	1.90
3805110--3805171	23	2.7	23	84	0	70	38	16	9	35	1.81
3805220--3805314	23	4.1	23	90	0	136	34	17	14	32	1.91
3805035--3805291	120	2.1	121	88	2	383	38	12	14	34	1.84
3805100--3805435	143	2.3	144	88	0	494	37	13	14	34	1.85
3805364--3805435	23	3.1	23	77	0	81	36	12	13	37	1.83
3805263--3805484	121	1.8	121	91	1	365	37	11	14	35	1.83
3812811--3812837	2	13.5	2	100	0	54	48	0	0	51	1.00
3817324--3817406	29	2.9	29	98	0	157	40	16	10	31	1.83
3818316--3818693	141	2.7	140	83	3	442	21	30	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3819249--3819274	6	4.3	6	100	0	52	30	15	53	0	1.42
3820172--3820239	31	2.2	31	89	5	102	36	13	25	25	1.92
3821223--3821285	31	2.0	32	84	3	83	39	12	22	25	1.89
3824126--3824193	35	1.9	35	90	0	109	44	23	0	32	1.54
3824205--3824272	35	1.9	35	93	0	118	35	0	20	44	1.52
3826394--3826420	14	1.9	14	100	0	54	37	11	0	51	1.37
3828456--3828550	48	2.0	48	97	0	181	30	20	13	35	1.91
3829137--3829230	46	2.0	46	100	0	188	46	17	14	21	1.83
3832287--3832318	14	2.3	14	94	0	55	37	9	0	53	1.34
3832455--3832528	27	2.7	27	77	6	69	59	1	1	37	1.14

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