genome.fa.s8041.2.7.7.80.10.50.1000.16.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

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  ( 2430 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)
3645631--3645673	15	2.9	15	82	0	50	13	62	13	9	1.53
3645639--3645681	15	2.9	15	85	0	50	11	62	13	11	1.54
3648757--3648806	3	16.7	3	83	8	57	64	2	4	30	1.23
3648774--3648811	12	3.2	12	82	14	51	71	2	0	26	1.00
3652407--3652463	12	4.9	11	75	12	51	3	14	3	78	1.01
3656167--3656211	2	22.5	2	82	8	56	48	0	6	44	1.29
3659767--3659885	57	2.1	57	98	0	229	31	12	31	23	1.92
3662443--3662503	32	1.9	32	86	0	86	24	13	18	44	1.85
3671425--3671473	15	3.3	15	97	0	89	22	22	22	32	1.98
3671985--3672016	16	1.9	17	93	6	57	37	9	12	40	1.75
3672348--3672377	13	2.3	13	94	0	51	46	10	3	40	1.54
3672388--3672486	33	3.0	33	94	1	164	45	15	7	32	1.73
3675874--3675925	23	2.3	23	80	9	63	42	3	0	53	1.19
3686203--3686265	12	5.2	12	71	21	51	41	22	9	26	1.84
3686160--3686285	24	5.2	24	84	3	155	40	19	10	30	1.84
3687276--3687345	26	2.7	26	90	0	95	24	30	15	30	1.96
3687289--3687345	26	2.2	26	96	0	105	24	29	19	26	1.98
3689666--3689699	13	2.6	13	100	0	68	38	17	29	14	1.90
3691758--3691782	13	1.9	13	100	0	50	56	0	0	44	0.99
3693123--3693169	22	2.1	22	100	0	94	63	8	19	8	1.48
3698967--3699066	44	2.2	44	85	3	137	30	14	17	39	1.88
3698970--3699039	22	3.2	22	68	8	61	28	14	18	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3699036--3699081	24	1.9	24	86	0	65	32	15	19	32	1.93
3699754--3699825	32	2.2	33	82	2	83	27	6	11	54	1.61
3703097--3703134	15	2.5	15	100	0	76	5	5	39	50	1.48
3712334--3712662	51	6.5	51	76	5	270	28	10	18	41	1.84
3712740--3713037	69	4.3	68	74	8	210	32	20	19	27	1.97
3715244--3715296	22	2.4	22	74	0	52	33	11	16	37	1.85
3724085--3724162	22	3.4	23	80	7	79	48	1	0	50	1.09
3724111--3724229	29	4.0	30	74	10	93	47	1	0	49	1.17
3724104--3724299	53	3.9	49	69	19	127	48	1	1	48	1.20
3724405--3724477	33	2.4	28	82	17	83	47	4	0	47	1.21
3724405--3724477	31	2.3	32	84	13	98	47	4	0	47	1.21
3724492--3724547	25	2.2	26	78	9	62	46	0	1	51	1.11
3724680--3724710	14	2.2	14	94	0	53	41	19	12	25	1.87
3724702--3724739	20	1.9	20	88	0	58	34	18	7	39	1.80
3724715--3724773	14	4.1	14	86	4	91	37	20	6	35	1.79
3724713--3724771	29	2.0	29	93	0	100	33	20	8	37	1.83
3727994--3728060	33	2.0	33	100	0	134	37	20	20	20	1.95
3728004--3728075	33	2.2	33	82	0	81	40	18	16	25	1.91
3733671--3733850	45	4.0	45	99	0	351	35	11	25	28	1.90
3734900--3734955	20	2.8	20	91	0	85	35	16	23	25	1.94
3734938--3735147	72	3.1	72	63	17	174	27	13	25	33	1.93
3735040--3735093	21	2.6	21	93	0	99	20	12	33	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3735141--3735193	21	2.6	20	79	5	61	20	13	30	35	1.91
3735153--3735192	21	1.9	21	89	0	62	17	15	32	35	1.91
3735164--3735227	32	2.0	32	93	0	110	25	12	29	32	1.92
3739907--3739969	19	3.3	19	81	0	81	23	26	28	20	1.99
3739995--3740158	29	5.7	29	87	6	217	32	5	15	45	1.69
3740001--3740158	59	2.7	57	89	5	228	33	4	15	46	1.65
3740187--3740339	76	2.0	78	97	2	292	30	17	11	40	1.85
3740902--3740940	2	19.5	2	91	0	60	46	0	2	51	1.14
3742137--3742197	23	2.7	22	75	7	68	24	19	29	26	1.99
3745967--3746006	21	1.9	21	85	10	55	32	5	5	57	1.42
3747838--3747886	21	2.3	21	96	0	89	32	24	18	24	1.97
3748006--3748045	19	2.1	19	95	0	71	15	17	40	27	1.89
3751419--3751451	16	2.0	17	88	5	50	27	12	18	42	1.85
3751876--3751939	31	2.1	31	82	11	78	34	6	20	39	1.78
3757172--3757267	31	3.2	29	78	12	97	44	9	18	27	1.80
3757220--3757286	31	2.2	31	86	7	93	44	8	17	28	1.79
3778707--3778756	21	2.4	21	96	0	91	38	8	14	40	1.75
3779258--3779372	54	2.1	54	90	6	180	32	13	16	38	1.87
3783542--3783566	3	8.3	3	100	0	50	0	0	32	68	0.90
3788446--3788582	72	1.9	73	81	1	168	35	11	24	28	1.90
3792105--3792159	24	2.3	25	81	9	69	34	12	20	32	1.90
3794597--3795092	54	9.2	54	91	0	769	30	11	18	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3796994--3797096	2	51.5	2	100	0	206	49	0	0	50	1.00
3797334--3797383	17	3.0	17	69	13	50	28	4	8	60	1.43
3800046--3800083	16	2.4	16	86	8	51	7	13	2	76	1.11
3800044--3800085	17	2.5	17	85	14	61	9	14	2	73	1.18
3805971--3806003	17	1.9	17	100	0	66	6	30	15	48	1.69
3809577--3809655	26	3.0	26	88	0	113	24	25	21	29	1.99
3813443--3813476	17	2.0	17	100	0	68	52	5	23	17	1.66
3814068--3814188	59	2.0	60	96	1	226	38	14	15	32	1.87
3818392--3818547	30	5.3	30	79	11	162	48	9	12	30	1.72
3818392--3818547	59	2.7	57	82	5	170	48	9	12	30	1.72
3819452--3819586	69	1.9	70	98	1	263	31	13	10	44	1.77
3820432--3820472	2	20.5	2	100	0	82	48	0	0	51	1.00
3821929--3821967	17	2.2	17	86	4	51	48	7	5	38	1.54
3822063--3822119	25	2.1	27	90	9	91	40	8	10	40	1.71
3823688--3823730	19	2.3	19	100	0	86	9	46	13	30	1.75
3824839--3824874	3	12.7	3	88	11	58	66	0	0	33	0.92
3824839--3824874	11	3.2	11	88	4	54	66	0	0	33	0.92
3829607--3830132	140	3.8	139	82	3	621	26	15	28	30	1.96
3829607--3830132	279	1.9	279	85	3	727	26	15	28	30	1.96
3829604--3830172	139	4.1	140	82	3	662	25	15	28	30	1.96
3830339--3830523	67	2.7	67	88	0	253	40	16	17	25	1.91
3830405--3830699	37	8.4	37	76	13	221	39	15	17	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3830491--3830551	22	3.1	22	65	30	64	40	19	13	26	1.88
3830405--3830662	104	2.5	102	87	3	365	39	15	17	27	1.90
3830576--3830699	36	3.4	37	89	1	135	39	11	18	30	1.86
3830590--3830701	15	5.9	21	65	24	59	40	11	17	30	1.86
3830733--3830859	67	1.9	66	85	6	175	35	11	18	34	1.87
3835117--3835161	19	2.4	19	88	7	65	31	28	22	17	1.97
3835133--3835189	19	2.9	19	78	5	60	33	24	19	22	1.97
3842324--3842366	14	3.1	14	96	0	77	6	23	48	20	1.73
3842393--3842432	21	1.9	21	94	0	71	42	25	17	15	1.88
3842359--3842431	9	7.6	9	72	14	56	32	28	23	15	1.95
3859922--3859981	27	2.2	28	79	11	70	36	16	11	35	1.85
3860052--3860364	101	3.1	101	70	8	251	38	9	13	38	1.78
3859955--3860344	201	1.9	201	86	2	550	38	10	13	37	1.80
3860521--3860793	98	2.7	97	75	13	259	38	11	11	38	1.79
3861360--3861519	61	2.6	61	89	2	232	34	17	16	31	1.92
3867627--3867660	14	2.4	14	95	0	59	23	14	14	47	1.82
3871034--3871239	94	2.2	94	98	0	394	30	16	23	30	1.96
3873982--3874046	23	3.0	22	71	15	62	27	21	24	26	1.99
3873977--3874080	43	2.4	44	81	10	124	29	21	23	25	1.99
3874158--3874222	23	3.0	22	71	15	62	27	21	24	26	1.99
3873916--3874268	176	2.0	177	99	0	699	35	18	20	25	1.95
3874153--3874256	43	2.4	44	81	10	124	29	21	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3879343--3879381	21	1.9	21	89	5	62	53	2	5	38	1.37
3880230--3880266	17	2.1	18	90	5	58	37	0	0	62	0.96
3880252--3880356	51	2.0	52	83	1	131	38	2	7	51	1.45
3918950--3919192	117	2.1	117	96	0	450	44	6	5	44	1.52
3919009--3919249	117	2.1	116	82	4	288	47	5	4	41	1.48
3920095--3920137	20	2.1	20	86	4	59	44	32	0	23	1.54
3920098--3920186	7	12.9	7	78	2	54	46	28	1	24	1.60
3920125--3920187	21	3.0	21	77	9	65	47	25	1	25	1.61
3920098--3920187	14	6.5	14	72	10	60	45	27	1	25	1.61
3920268--3920300	14	2.4	14	94	0	57	51	33	0	15	1.43

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