genome.fa.s9625.2.7.7.80.10.50.1000.12.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   25   

This is table  12  of  25  ( 2922 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)
3821249--3821298	24	2.1	24	96	0	91	32	38	0	30	1.58
3823697--3823734	18	2.1	18	100	0	76	10	5	10	73	1.23
3825177--3825241	27	2.5	26	77	7	69	63	0	18	18	1.32
3827673--3827749	21	3.7	21	91	0	109	37	9	25	27	1.86
3827673--3827758	21	4.1	20	85	5	91	33	11	25	29	1.91
3829753--3829905	77	2.0	79	83	10	199	44	7	4	43	1.52
3839274--3840647	734	1.9	730	89	2	2049	34	13	19	33	1.90
3848849--3848901	27	1.9	28	88	3	81	5	16	1	75	1.08
3848865--3848910	19	2.5	18	82	10	58	4	17	4	73	1.15
3848849--3848908	14	4.4	13	77	10	66	5	16	1	76	1.04
3849175--3849214	19	2.0	20	85	4	55	62	0	17	20	1.33
3850796--3850845	25	2.1	24	85	10	68	54	8	18	20	1.68
3851252--3851335	39	2.2	39	93	2	143	30	4	15	48	1.65
3851261--3851339	39	2.0	39	100	0	158	34	2	15	48	1.58
3855151--3855206	28	2.0	29	86	10	80	41	0	7	51	1.29
3860642--3860715	22	3.4	22	98	0	139	51	4	33	10	1.56
3866632--3866829	36	5.5	36	90	2	281	42	18	19	19	1.90
3868098--3868155	28	2.0	29	87	9	84	44	0	3	51	1.18
3868100--3868155	21	2.6	21	81	13	60	44	0	3	51	1.18
3868202--3868241	13	3.2	13	82	7	55	45	2	7	45	1.45
3868204--3868236	12	2.6	13	90	4	50	54	0	9	36	1.32
3869109--3869145	5	8.0	5	82	17	53	0	16	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869099--3869144	22	2.1	22	88	4	67	0	15	2	82	0.76
3869542--3869573	16	2.1	15	94	5	55	65	0	15	18	1.27
3870819--3871215	196	2.0	200	97	2	748	31	14	17	36	1.90
3875498--3875587	8	11.6	8	74	18	68	56	1	3	38	1.23
3875498--3875567	8	9.7	7	78	21	74	57	0	2	40	1.14
3875499--3875584	22	3.8	22	77	14	86	56	1	3	38	1.24
3875498--3875569	11	7.1	11	76	17	68	56	0	2	40	1.13
3875747--3875794	20	2.4	20	78	0	51	31	18	22	27	1.97
3875731--3876010	119	2.4	119	92	1	463	33	18	16	31	1.93
3882565--3882609	22	2.0	22	82	0	54	60	13	8	17	1.58
3883594--3883703	3	37.7	3	70	15	79	56	0	4	39	1.20
3883594--3883692	8	12.6	8	79	17	79	56	0	4	39	1.18
3883594--3883704	14	8.0	14	74	15	72	55	0	4	39	1.20
3883595--3883695	22	4.7	22	79	17	97	56	0	4	38	1.21
3883596--3883704	9	11.2	10	73	21	90	55	0	4	39	1.20
3887217--3887275	26	2.3	27	85	8	86	44	5	3	47	1.42
3899536--3899570	14	2.5	14	90	0	52	25	20	25	28	1.99
3903051--3903113	32	2.0	32	96	3	119	33	6	22	38	1.79
3911373--3911424	27	2.0	26	88	3	77	30	25	17	26	1.97
3917839--3917899	22	2.8	22	82	0	68	42	11	21	24	1.86
3919034--3919066	15	2.3	15	89	5	50	57	0	15	27	1.38
3920298--3920372	39	1.9	39	97	0	141	29	17	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925535--3925577	9	4.9	9	91	5	61	58	2	0	39	1.11
3925818--3926333	79	6.7	78	74	8	464	23	19	23	33	1.97
3925948--3926406	116	4.0	115	71	11	405	23	19	23	34	1.97
3925758--3926252	153	3.2	153	90	2	753	23	19	22	35	1.96
3925758--3926360	37	15.8	37	69	14	312	22	19	23	34	1.96
3926707--3926807	42	2.4	41	80	3	112	30	20	24	23	1.99
3931850--3931879	6	5.0	6	91	0	51	46	16	20	16	1.84
3934134--3934179	25	2.0	24	83	12	60	52	2	6	39	1.40
3936376--3936796	37	11.1	37	69	8	265	23	19	21	36	1.95
3936442--3936955	79	6.6	79	72	11	384	24	19	22	33	1.97
3936381--3936871	153	3.2	153	87	1	698	23	19	21	35	1.96
3937035--3937353	151	2.1	151	88	1	471	34	16	13	35	1.88
3937326--3937432	42	2.6	42	76	7	110	28	19	23	28	1.98
3943382--3943411	6	5.0	6	91	0	51	46	16	20	16	1.84
3945665--3945710	25	2.0	24	83	12	60	52	2	6	39	1.40
3947081--3947248	89	1.9	89	98	0	327	22	17	12	47	1.81
3947768--3947810	9	4.8	9	91	8	70	55	0	0	44	0.99
3947759--3947810	18	3.0	17	86	10	70	57	1	0	40	1.10
3947993--3948407	37	11.0	37	69	8	253	23	18	21	36	1.95
3948053--3948567	79	6.7	79	72	11	447	23	19	22	33	1.97
3948182--3948644	116	4.0	116	71	11	401	23	20	22	33	1.97
3947993--3948482	153	3.2	153	88	2	707	23	19	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3948646--3948964	151	2.1	151	89	2	482	35	16	13	35	1.87
3956042--3956085	18	2.4	17	82	17	52	56	15	0	27	1.40
3956042--3956085	19	2.3	20	85	14	58	56	15	0	27	1.40
3956919--3957228	55	5.6	55	84	4	315	29	24	16	29	1.97
3956919--3957228	110	2.8	108	82	5	354	29	24	16	29	1.97
3956923--3957228	165	1.9	165	80	5	368	29	24	16	29	1.97
3957246--3957353	37	2.9	36	83	6	137	21	20	18	39	1.92
3957571--3957609	17	2.3	18	87	12	57	28	25	2	43	1.68
3958521--3958620	24	4.1	23	76	17	96	8	21	0	71	1.12
3958576--3958701	9	14.4	9	83	12	99	11	17	0	70	1.16
3958648--3958709	33	1.9	32	87	9	90	8	14	0	77	0.98
3958525--3958709	16	10.9	16	69	21	78	10	19	0	70	1.15
3958646--3958709	8	7.8	8	77	11	58	7	14	0	78	0.96
3958527--3958709	41	4.3	41	68	23	110	10	19	0	70	1.15
3968334--3968453	47	2.5	48	73	16	113	40	19	11	29	1.87
3970518--3970561	18	2.4	17	82	17	52	56	15	2	25	1.51
3970518--3970561	19	2.3	20	85	14	58	56	15	2	25	1.51
3979650--3979691	18	2.3	18	100	0	84	33	26	16	23	1.96
3984587--3984646	25	2.4	25	97	0	111	21	25	11	41	1.87
3985910--3986645	397	1.9	385	84	6	980	34	18	19	27	1.95
3986811--3986867	23	2.5	23	94	0	96	28	22	19	29	1.98
3991300--3991453	80	2.0	76	84	5	200	33	11	17	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3992535--3992600	29	2.3	29	81	0	78	27	28	21	22	1.99
3992535--3992600	15	4.6	14	71	5	51	27	28	21	22	1.99
3993707--3993791	32	2.7	31	76	7	91	27	31	29	11	1.92
3995544--3995607	15	4.4	14	72	5	56	21	23	32	21	1.98
3995546--3995601	29	1.9	29	85	0	76	23	23	33	19	1.97
3995544--3995607	29	2.2	29	77	0	74	21	23	32	21	1.98
3997340--3997427	43	2.0	43	100	0	176	29	6	18	45	1.75
4001172--4001198	2	13.5	2	100	0	54	0	0	48	51	1.00
4001698--4001790	46	2.0	46	89	0	141	20	22	10	46	1.81
4001711--4001992	66	4.2	66	74	16	263	21	23	10	44	1.82
4001777--4002158	46	8.3	46	91	0	620	20	22	10	45	1.82
4010711--4010736	12	2.2	12	100	0	52	15	7	26	50	1.71
4013134--4013164	11	2.8	11	100	0	62	32	29	9	29	1.89
4015266--4015368	54	1.9	54	91	0	170	34	6	18	39	1.77
4021774--4021880	44	2.4	44	82	3	135	30	18	18	31	1.95
4022345--4022385	12	3.1	14	79	10	50	36	9	2	51	1.48
4024547--4024671	65	1.9	65	83	6	164	32	19	16	32	1.93
4026144--4026349	41	4.9	41	77	10	216	19	19	25	34	1.96
4026169--4026241	20	3.6	20	75	3	83	10	21	27	39	1.87
4026148--4026253	20	5.2	21	68	7	67	17	19	26	35	1.95
4026282--4026354	21	3.5	21	67	3	67	20	13	28	36	1.91
4026464--4026490	6	4.5	6	100	0	54	33	51	14	0	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4026504--4026534	6	5.2	6	100	0	62	0	16	48	35	1.46
4026618--4026683	19	3.3	19	72	12	69	40	21	19	18	1.91
4026627--4026765	41	3.4	41	92	4	210	40	21	21	16	1.91
4026696--4026768	20	3.6	20	78	10	94	41	21	23	13	1.89
4026627--4026789	41	4.0	41	89	4	206	38	22	20	17	1.93
4026693--4026818	21	6.1	21	78	7	114	37	24	19	19	1.94
4032454--4032488	15	2.3	15	95	0	61	37	31	11	20	1.88
4033107--4033392	115	2.5	116	84	5	312	15	33	19	32	1.92
4033152--4033399	117	2.1	115	87	1	370	15	32	19	32	1.94
4036797--4037016	19	11.6	19	76	5	194	31	13	23	31	1.93

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   25