genome.fa.s9582.2.7.7.80.10.50.1000.19.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: 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  19  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)
3685141--3685215	15	5.0	15	93	0	123	50	0	0	49	1.00
3685156--3685270	33	3.5	32	80	14	126	44	0	6	49	1.27
3685247--3685289	22	2.0	22	100	0	86	34	0	13	51	1.42
3685269--3685353	32	2.7	32	98	0	161	35	0	11	52	1.38
3685337--3685454	22	5.5	22	71	20	99	31	0	15	53	1.42
3685386--3685437	18	2.8	19	78	18	65	32	0	11	55	1.36
3685214--3685611	84	4.9	80	90	6	606	32	0	14	52	1.42
3685203--3685665	54	8.5	54	71	18	307	33	0	14	52	1.41
3685619--3685666	22	2.4	18	73	23	51	33	0	14	52	1.42
3685384--3685831	211	2.1	219	89	7	709	32	0	14	52	1.44
3685465--3685782	132	2.4	134	96	1	597	33	0	14	52	1.42
3685596--3685911	80	3.9	80	88	6	490	33	0	13	52	1.44
3685675--3685814	32	4.7	32	81	16	192	34	0	12	52	1.40
3685708--3685750	22	2.0	22	100	0	86	34	0	13	51	1.42
3685596--3685925	166	2.0	166	95	0	597	33	0	13	52	1.43
3685677--3685925	54	4.5	54	74	13	247	34	0	12	52	1.43
3685939--3685997	31	1.9	31	92	0	100	40	11	6	40	1.68
3688480--3688522	21	2.0	21	91	8	70	20	11	2	65	1.36
3692126--3692897	106	7.4	106	93	2	1294	33	25	18	22	1.96
3694826--3694868	21	2.0	21	91	8	70	20	11	2	65	1.36
3695913--3695983	25	2.9	26	81	8	78	36	7	9	46	1.64
3695913--3695969	23	2.3	24	85	8	71	40	5	8	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695928--3695987	26	2.3	27	80	11	72	31	8	10	50	1.66
3708895--3708961	22	3.1	21	75	12	57	26	10	19	43	1.83
3708959--3709027	23	3.0	23	89	0	102	17	17	26	39	1.91
3709065--3709105	17	2.4	17	95	0	73	34	21	2	41	1.67
3715710--3715748	21	1.9	20	84	5	51	53	0	2	43	1.14
3716202--3716251	2	25.0	2	100	0	100	50	0	0	50	1.00
3717443--3717469	6	4.5	6	100	0	54	0	14	18	66	1.25
3721077--3721123	22	2.1	22	92	0	76	36	36	17	10	1.84
3721127--3721159	13	2.5	14	85	14	52	54	12	6	27	1.60
3721183--3721238	24	2.3	24	100	0	112	28	19	14	37	1.91
3725291--3725411	23	5.2	23	80	7	129	37	22	19	21	1.95
3725291--3725410	46	2.6	46	84	4	152	36	22	19	21	1.95
3725618--3725681	15	4.5	14	71	11	51	37	21	12	28	1.90
3731373--3731439	23	2.9	23	81	0	71	31	22	19	26	1.98
3731401--3731453	23	2.3	23	83	6	63	35	15	16	32	1.90
3732981--3733009	4	7.2	4	100	0	58	0	27	0	72	0.85
3736754--3736796	21	2.0	21	100	0	86	32	4	27	34	1.78
3738838--3738919	26	3.2	26	91	1	130	36	29	13	20	1.91
3743305--3743467	29	5.7	29	78	3	159	41	25	5	28	1.77
3743475--3743545	13	4.8	13	75	21	54	15	22	43	18	1.87
3743483--3743535	17	3.1	16	91	8	79	13	22	45	18	1.84
3750625--3750787	29	5.7	29	78	4	159	41	25	5	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3750628--3750787	87	1.8	86	89	1	248	40	26	5	27	1.78
3750799--3750823	13	1.9	13	100	0	50	16	16	48	20	1.82
3750847--3750885	11	3.8	11	80	19	57	35	25	20	17	1.95
3750847--3750885	19	2.0	20	95	5	71	35	25	20	17	1.95
3750847--3750884	10	3.8	10	82	10	51	36	26	21	15	1.93
3752638--3752671	16	2.1	16	94	0	59	32	8	26	32	1.87
3758982--3759048	15	4.3	15	75	17	57	29	4	4	61	1.36
3761076--3761479	188	2.1	191	83	7	509	40	5	8	45	1.59
3762823--3762850	10	2.8	10	100	0	56	32	0	60	7	1.24
3764826--3764873	25	1.9	25	91	0	78	50	22	10	16	1.76
3764861--3764914	17	2.7	20	75	24	60	55	20	9	14	1.66
3765260--3765335	33	2.3	33	88	0	116	34	14	26	25	1.94
3766118--3766247	28	4.4	28	80	12	161	50	13	6	28	1.67
3766105--3766227	63	2.0	63	98	0	237	49	16	5	28	1.68
3773604--3774031	217	2.0	218	90	1	671	24	20	23	32	1.98
3773604--3774039	44	10.0	44	89	1	646	24	21	22	31	1.98
3777955--3777989	18	1.9	18	94	0	61	28	31	17	22	1.96
3777974--3778094	22	5.5	22	91	2	190	28	28	26	16	1.97
3777971--3778094	65	1.9	66	96	1	232	28	28	25	17	1.98
3777959--3778086	43	3.0	43	86	6	183	28	29	24	17	1.98
3782534--3782582	24	2.0	26	88	8	75	32	34	0	32	1.58
3782880--3782929	17	3.1	17	68	26	54	20	6	22	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3783637--3783854	44	5.0	44	94	2	375	23	21	22	32	1.98
3783776--3783875	44	2.5	38	82	9	101	19	24	25	32	1.98
3793119--3793390	20	13.6	20	79	8	89	36	24	18	20	1.95
3793163--3793329	20	8.4	20	83	7	139	36	23	19	20	1.95
3793119--3793269	80	1.9	79	83	4	196	36	25	17	20	1.94
3793206--3793372	60	2.8	60	72	18	175	35	23	20	19	1.96
3793357--3793448	19	4.7	19	82	8	87	33	22	14	29	1.93
3793422--3793468	18	2.5	19	82	6	60	29	23	14	31	1.95
3794382--3794435	24	2.2	24	93	0	90	20	18	20	40	1.91
3795216--3795251	18	2.0	18	94	0	63	58	25	0	16	1.38
3795592--3795717	20	6.5	20	68	14	93	22	20	21	35	1.96
3795787--3795897	51	2.2	52	86	3	154	52	15	2	29	1.56
3797276--3797372	42	2.3	42	81	10	117	21	18	34	25	1.96
3797276--3797372	21	4.6	21	75	13	92	21	18	34	25	1.96
3799987--3800037	22	2.3	22	83	10	68	19	15	41	23	1.90
3800148--3800234	20	4.3	20	89	2	122	17	12	25	44	1.83
3800228--3800274	20	2.3	20	92	0	76	21	17	25	36	1.94
3800148--3800254	40	2.7	40	81	11	114	18	13	24	43	1.85
3800264--3800315	20	2.6	20	81	0	68	25	13	32	28	1.93
3802541--3802850	43	7.2	44	77	6	285	33	17	23	25	1.96
3812410--3812474	28	2.3	28	83	0	85	43	16	15	24	1.87
3820083--3820138	30	1.9	30	85	7	80	42	0	19	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820083--3820146	30	2.1	30	82	5	76	43	0	18	37	1.51
3822632--3822690	24	2.5	23	81	5	73	20	18	20	40	1.91
3822647--3822696	24	2.1	24	88	0	73	20	20	22	38	1.94
3822702--3822764	23	2.7	24	80	9	76	23	25	19	31	1.98
3822721--3822773	24	2.2	24	90	3	81	20	32	15	32	1.93
3836642--3836679	11	3.5	11	92	0	67	10	18	0	71	1.14
3838003--3838057	27	2.0	28	96	3	103	36	0	0	63	0.95
3838016--3838072	27	2.1	27	83	3	71	43	0	0	56	0.99
3838252--3838294	18	2.4	18	100	0	86	20	25	4	48	1.69
3840380--3840431	23	2.3	23	83	3	61	46	7	7	38	1.61
3842225--3842293	35	2.0	35	94	0	120	34	15	8	40	1.79
3846584--3846610	11	2.5	11	100	0	54	40	0	0	59	0.98
3849939--3849975	13	2.8	13	100	0	74	13	16	56	13	1.67
3850623--3850708	4	21.5	4	87	0	118	50	6	0	43	1.29
3850619--3850708	24	3.8	24	96	0	162	50	7	0	42	1.31
3855767--3855822	19	2.9	20	89	7	89	19	16	10	53	1.71
3856648--3856679	2	16.5	2	93	6	57	50	0	0	50	1.00
3856756--3856800	9	4.9	9	83	5	63	28	0	0	71	0.87
3856747--3856823	19	4.3	19	74	17	67	35	0	0	64	0.93
3856743--3856839	28	3.3	29	81	11	117	38	0	0	61	0.96
3856749--3856831	24	3.2	26	77	18	91	36	0	0	63	0.94
3858908--3858932	13	1.9	13	100	0	50	80	4	16	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3860445--3860829	134	2.9	133	79	6	429	33	17	20	28	1.95
3862691--3862750	30	2.0	29	84	9	77	23	11	10	55	1.66
3862956--3863025	36	1.9	36	83	11	90	45	1	7	45	1.39
3865024--3865122	49	2.0	49	100	0	198	28	28	18	25	1.98
3866085--3866158	36	2.1	35	89	2	112	14	13	9	62	1.55
3866414--3866649	116	2.0	116	98	0	454	30	13	23	32	1.93
3866772--3866974	99	2.1	99	91	0	325	33	14	18	33	1.91
3868067--3868706	169	3.8	170	81	4	684	36	19	17	26	1.94
3868067--3868705	84	7.5	84	83	4	665	36	19	17	26	1.94
3870855--3870927	25	3.0	25	75	13	80	42	4	1	52	1.29

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