genome.fa.s9611.2.7.7.80.10.50.1000.14.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   26   27   

This is table  14  of  27  ( 3214 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)
3738254--3738280	2	13.5	2	100	0	54	51	0	0	48	1.00
3743575--3743639	22	3.0	22	86	10	89	20	10	16	52	1.73
3750311--3750389	29	2.8	29	79	9	85	35	10	0	54	1.34
3750800--3750866	24	2.8	24	91	8	111	46	11	4	37	1.61
3751554--3751614	13	4.5	13	75	15	61	49	1	1	47	1.21
3752575--3752615	21	2.0	21	85	0	55	46	7	9	36	1.65
3752620--3753020	198	2.0	201	90	4	639	36	14	15	33	1.88
3756463--3756497	17	2.1	17	94	0	61	8	11	25	54	1.64
3757460--3757517	29	2.1	28	81	9	66	44	13	17	24	1.85
3757660--3757703	20	2.2	20	91	0	70	36	11	25	27	1.90
3758092--3758333	121	2.0	121	97	0	457	38	7	13	40	1.73
3761944--3762006	32	2.0	32	96	0	117	25	17	25	31	1.97
3768043--3768085	22	1.9	23	85	4	61	11	18	4	65	1.42
3770192--3770231	2	20.0	2	100	0	80	50	0	0	50	1.00
3785744--3785787	23	2.0	23	82	8	56	59	18	15	6	1.58
3788764--3788943	60	3.0	60	88	3	247	37	20	18	23	1.94
3789966--3790023	23	2.5	23	88	0	80	32	24	24	18	1.97
3796632--3796675	22	2.0	21	82	13	52	47	6	20	25	1.74
3796766--3796813	22	2.2	22	84	0	60	41	16	16	25	1.89
3799351--3799588	119	2.0	119	98	1	460	37	14	21	27	1.92
3803844--3803887	23	1.9	23	86	9	63	34	0	0	65	0.93
3803925--3803959	12	2.9	12	82	0	52	25	0	11	62	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3803949--3803999	20	2.6	19	75	9	57	35	0	5	58	1.22
3803924--3804020	12	7.5	13	68	18	51	29	1	8	60	1.32
3805937--3805997	31	2.0	31	96	0	113	44	1	18	36	1.59
3806647--3806755	15	7.4	15	73	15	102	46	0	0	51	1.13
3806647--3806755	28	3.8	28	79	13	123	46	0	0	51	1.13
3806656--3806738	14	6.1	13	75	20	80	50	1	1	46	1.16
3806647--3806727	27	3.0	26	85	12	101	49	1	0	49	1.08
3806701--3806781	33	2.5	33	86	8	103	43	1	6	49	1.35
3806647--3806756	60	1.9	55	85	9	148	47	0	0	50	1.13
3806758--3806800	22	2.0	22	95	0	77	34	0	11	53	1.37
3806763--3806836	22	3.1	22	84	13	78	35	0	6	58	1.25
3806790--3807076	32	10.0	26	69	24	97	36	0	9	54	1.33
3806860--3807211	32	11.7	32	82	12	467	35	0	10	53	1.35
3806954--3807070	14	7.5	14	70	20	81	37	0	6	55	1.27
3806858--3807211	150	2.4	150	95	1	631	36	0	10	53	1.35
3807073--3807115	22	2.0	22	100	0	86	34	0	13	51	1.42
3806780--3807243	118	4.0	118	84	9	632	35	0	9	54	1.34
3807191--3807233	22	2.0	22	100	0	86	39	0	9	51	1.34
3806729--3807243	86	5.9	86	78	15	560	36	0	9	53	1.34
3810291--3810431	70	2.0	70	98	0	273	41	10	18	29	1.84
3819609--3819660	16	3.3	16	73	13	54	28	11	5	53	1.60
3819616--3819661	14	2.9	17	71	18	53	28	13	4	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3825505--3825853	176	2.0	172	96	3	637	23	11	35	29	1.90
3830253--3830283	15	2.1	15	93	0	53	29	0	6	64	1.18
3830521--3830667	70	2.1	70	96	0	267	25	20	27	26	1.99
3834431--3835022	83	7.2	82	78	4	521	28	18	16	36	1.93
3834430--3835025	166	3.6	165	80	5	639	28	18	16	36	1.93
3834899--3835162	137	1.9	134	81	6	307	30	18	18	32	1.95
3839350--3839434	39	2.2	40	97	2	163	25	16	22	35	1.95
3839892--3840407	105	4.9	105	93	0	863	23	23	17	36	1.95
3839892--3840494	210	2.8	210	90	3	891	22	22	18	36	1.95
3840387--3840422	15	2.4	15	100	0	72	22	36	5	36	1.78
3841399--3841474	8	9.4	8	73	18	68	5	11	0	82	0.81
3841398--3841474	17	4.4	17	79	9	75	5	12	0	81	0.84
3841400--3841482	26	3.2	25	83	13	98	6	13	0	80	0.88
3841413--3841494	8	10.0	8	78	15	78	8	13	0	78	0.97
3841438--3841506	32	2.2	31	82	10	77	10	14	0	75	1.05
3844974--3845000	14	1.9	14	100	0	54	66	3	22	7	1.33
3848847--3849164	156	2.0	158	98	1	622	23	27	16	33	1.96
3855705--3855768	28	2.4	27	86	5	85	37	21	9	31	1.85
3859365--3859389	13	1.9	13	100	0	50	32	48	0	20	1.50
3860451--3860490	21	1.9	21	90	10	64	35	0	10	55	1.34
3868343--3868370	2	14.0	2	100	0	56	50	0	0	50	1.00
3869295--3869378	43	2.0	43	88	4	125	21	2	19	57	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869745--3869801	30	1.9	30	85	7	80	47	10	1	40	1.48
3873551--3873880	43	7.6	45	73	5	191	48	6	18	26	1.73
3873555--3873771	87	2.5	87	79	6	224	46	6	21	25	1.76
3873550--3873847	130	2.3	131	78	5	293	48	6	19	25	1.73
3874324--3874394	2	35.5	2	100	0	142	50	0	0	49	1.00
3877005--3877051	22	2.2	22	85	11	62	55	0	2	42	1.12
3881252--3881304	26	2.0	26	85	0	70	20	1	18	58	1.49
3888320--3888644	165	2.0	165	98	0	632	36	22	17	24	1.95
3889064--3889325	128	2.0	128	94	0	461	33	18	15	32	1.92
3890324--3890469	74	2.0	75	81	9	174	39	3	19	38	1.68
3892842--3892874	16	2.1	16	100	0	66	57	24	12	6	1.57
3892940--3892998	16	3.7	16	93	0	100	59	22	10	8	1.56
3893283--3893330	23	2.1	23	100	0	96	41	18	8	31	1.80
3903934--3903994	32	1.9	32	93	0	104	34	1	19	44	1.61
3904812--3904862	22	2.3	22	93	0	84	27	19	37	15	1.92
3904879--3904922	23	1.9	23	100	0	88	9	25	40	25	1.84
3904880--3904929	23	2.2	23	92	0	82	12	24	40	24	1.88
3905375--3905733	172	2.1	173	89	1	551	39	5	17	37	1.73
3907991--3908560	8	74.8	8	75	16	464	49	6	2	41	1.42
3908086--3908580	39	12.3	39	80	13	506	49	7	2	41	1.43
3907991--3908560	47	12.5	47	76	13	484	49	6	2	41	1.42
3910296--3910344	18	2.7	18	87	0	80	28	30	14	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911634--3911688	21	2.7	21	82	2	58	45	3	3	47	1.38
3912460--3912493	17	1.9	18	88	5	52	44	0	5	50	1.26
3918291--3918346	14	4.4	14	78	19	61	16	48	25	10	1.78
3918319--3918356	17	2.2	17	100	0	76	18	47	23	10	1.79
3918346--3918387	7	6.0	7	94	0	75	11	28	28	30	1.92
3925478--3925556	9	8.3	9	79	10	86	13	26	31	27	1.94
3925478--3925553	19	3.9	19	92	1	116	13	25	32	28	1.93
3925544--3925599	14	4.4	14	78	19	61	16	48	25	10	1.78
3925572--3925609	17	2.2	17	100	0	76	18	47	23	10	1.79
3925599--3925640	7	6.0	7	94	0	66	9	28	28	33	1.88
3928586--3928623	19	2.0	20	89	5	60	10	26	0	63	1.27
3930018--3930105	45	2.0	45	90	4	142	28	19	26	26	1.99
3936245--3936280	15	2.4	15	90	0	54	44	13	19	22	1.86
3938306--3938350	12	3.8	12	85	5	65	40	0	0	60	0.97
3938358--3938416	19	3.1	19	76	16	59	59	0	5	35	1.20
3939404--3939479	2	38.5	2	97	2	145	48	0	0	51	1.00
3947082--3947124	20	2.2	20	87	4	61	4	11	18	65	1.42
3947617--3947647	16	1.9	16	93	0	53	51	22	6	19	1.69
3947700--3947727	14	2.0	14	100	0	56	42	0	7	50	1.30
3952076--3952235	80	2.0	80	98	0	311	31	13	21	33	1.92
3965822--3965849	13	2.2	13	100	0	56	25	21	0	53	1.46
3967080--3967131	25	2.0	26	85	3	70	48	0	7	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3967068--3967131	25	2.6	25	82	7	69	50	0	7	42	1.31
3968226--3968298	31	2.4	31	85	0	101	20	12	19	47	1.81
3968314--3968394	24	3.4	23	83	11	101	62	16	7	13	1.51
3968362--3968410	22	2.2	23	85	3	64	69	18	2	10	1.27
3968946--3968990	22	2.0	22	83	8	56	44	4	0	51	1.21
3970088--3970145	14	4.4	14	72	16	61	62	15	10	12	1.55
3970099--3970144	24	1.9	24	95	0	83	65	15	8	10	1.47
3975842--3975885	22	2.0	22	86	0	61	25	29	9	36	1.86
3976445--3976502	21	2.7	22	89	5	91	43	18	25	12	1.85
3980921--3980978	11	5.2	10	78	17	53	79	0	15	5	0.90

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   26   27