genome.fa.s190.2.7.7.80.10.50.1000.16.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  16  of  62  ( 7381 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)
3734335--3734444	41	2.7	40	80	2	114	31	23	10	33	1.89
3734314--3734462	20	7.5	20	71	15	78	28	24	10	36	1.89
3734600--3734638	16	2.5	15	88	8	60	28	2	0	69	1.02
3735201--3735250	22	2.3	22	100	0	100	42	22	8	28	1.81
3735400--3735467	24	2.8	24	86	0	91	29	17	14	38	1.90
3740279--3740378	21	4.8	21	75	14	91	23	15	37	25	1.93
3740282--3740377	42	2.3	42	82	5	106	22	15	35	26	1.94
3740781--3740830	21	2.4	21	86	0	73	34	34	14	18	1.90
3740948--3741043	42	2.3	42	85	0	120	17	17	35	29	1.93
3742539--3742601	20	3.2	20	90	2	92	47	22	17	12	1.81
3742957--3743029	22	3.3	22	92	0	119	17	19	46	16	1.84
3743681--3743737	24	2.4	23	82	2	69	64	19	7	8	1.44
3744004--3744055	14	4.0	14	73	19	58	61	13	9	15	1.56
3744004--3744066	24	2.5	24	87	5	81	58	14	9	17	1.61
3744719--3745378	182	3.6	182	91	1	1022	42	14	16	26	1.87
3747839--3747905	33	2.0	33	100	0	134	28	0	47	23	1.52
3748089--3748127	18	2.2	18	95	0	69	56	0	35	7	1.28
3749679--3749727	19	2.6	19	96	0	89	32	2	10	55	1.45
3750654--3750689	14	2.6	14	86	0	54	41	13	13	30	1.84
3750183--3751351	201	5.8	201	86	5	1548	37	14	15	33	1.87
3750183--3751347	401	2.9	398	85	6	1590	37	14	15	32	1.87
3751561--3751630	22	3.1	22	87	4	95	10	7	17	65	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3753235--3753289	24	2.3	25	81	9	69	32	5	14	47	1.67
3753254--3753290	18	2.1	18	89	0	56	32	5	10	51	1.60
3753246--3753298	24	2.2	24	86	0	70	35	3	13	47	1.61
3754616--3755427	199	4.0	199	82	7	897	37	13	16	32	1.87
3755249--3755298	21	2.3	21	93	3	82	46	14	8	32	1.73
3757805--3758305	200	2.5	199	82	3	544	38	14	14	31	1.87
3758324--3758371	23	2.1	23	84	0	60	39	12	6	41	1.68
3758408--3758452	23	2.0	23	86	0	63	42	15	6	35	1.73
3760576--3760629	21	2.5	22	78	3	56	37	5	3	53	1.42
3760930--3761094	86	1.9	86	92	0	276	29	17	25	27	1.97
3764526--3764594	35	2.0	35	88	0	102	43	26	1	28	1.63
3765078--3765144	31	2.2	31	91	0	107	20	28	14	35	1.93
3768793--3768854	17	3.9	15	73	12	52	30	1	3	64	1.19
3768801--3768866	34	2.0	32	82	11	80	39	3	1	56	1.24
3771271--3771345	38	2.0	37	87	5	107	49	2	0	48	1.15
3773784--3774485	351	2.0	351	100	0	1404	33	20	17	28	1.95
3782147--3782240	48	2.0	48	85	4	127	28	22	5	43	1.75
3783903--3783958	20	2.8	20	97	0	103	16	16	37	30	1.90
3783731--3783938	65	3.2	64	78	14	221	25	17	24	31	1.97
3784379--3784440	2	31.0	2	100	0	124	50	0	0	50	1.00
3793902--3793942	20	2.0	21	85	9	57	31	7	0	60	1.24
3806574--3806631	20	2.6	24	73	18	61	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3806582--3806630	25	2.0	24	84	11	64	36	0	0	63	0.95
3806607--3806656	26	2.0	26	84	4	66	36	2	2	60	1.20
3806686--3806755	25	2.6	25	75	16	61	48	1	1	48	1.19
3806648--3806728	37	2.4	34	80	15	82	48	2	0	49	1.14
3815516--3815542	2	13.5	2	100	0	54	51	0	0	48	1.00
3817000--3817087	28	3.2	26	74	22	90	48	0	0	51	1.00
3817031--3817111	38	2.0	42	86	9	116	46	0	0	53	1.00
3816999--3817109	57	2.0	56	85	5	152	46	0	0	53	1.00
3817018--3817109	26	3.4	26	71	20	71	45	0	0	54	0.99
3819242--3819420	89	2.0	89	90	0	277	34	20	17	27	1.95
3820887--3821162	54	5.1	54	85	3	378	31	17	18	32	1.94
3828604--3828658	27	2.0	28	89	3	85	34	18	18	29	1.94
3830509--3830540	14	2.3	14	94	0	55	43	31	0	25	1.55
3835295--3835376	29	2.8	29	94	1	137	32	14	9	42	1.79
3840032--3840113	28	2.8	29	92	5	139	31	14	9	43	1.78
3841928--3841987	30	2.0	30	96	0	111	33	5	13	48	1.64
3847054--3847092	3	13.0	3	100	0	78	33	0	0	66	0.92
3858193--3858251	21	2.9	20	85	12	68	72	10	15	1	1.18
3859809--3859879	36	1.9	37	83	8	92	28	21	14	36	1.92
3859959--3860012	28	1.9	28	81	7	65	35	12	14	37	1.85
3860826--3860984	84	1.9	82	89	2	246	35	23	17	23	1.95
3860730--3861084	188	1.9	189	92	1	597	35	24	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3860908--3861129	106	2.1	106	93	0	372	33	22	19	23	1.97
3862468--3862510	21	2.0	21	81	0	50	30	30	25	13	1.94
3863031--3863340	145	2.1	147	91	4	493	25	18	21	34	1.96
3863308--3863352	23	2.0	23	86	0	63	24	26	24	24	2.00
3869334--3869376	21	2.0	21	81	0	50	30	30	25	13	1.94
3869898--3870206	150	2.1	142	89	5	458	26	17	21	34	1.95
3878999--3879052	21	2.5	22	82	5	58	53	3	5	37	1.42
3879395--3879436	22	1.9	22	95	0	75	33	11	2	52	1.51
3883953--3884003	27	1.9	27	84	4	68	27	1	7	62	1.33
3884676--3884739	24	2.7	23	76	11	58	59	1	3	35	1.23
3889772--3889814	20	2.3	19	84	11	54	39	13	16	30	1.87
3892051--3892167	2	61.0	2	80	8	109	52	0	4	42	1.27
3892572--3892640	20	3.5	20	87	0	102	39	7	17	36	1.77
3898245--3898297	25	2.1	26	92	3	90	18	15	13	52	1.74
3911109--3911153	18	2.6	18	89	6	67	28	28	6	35	1.83
3911913--3911983	23	3.2	23	86	8	101	40	21	4	33	1.72
3911520--3912887	482	2.8	483	94	2	2346	41	10	7	41	1.67
3912395--3912467	23	3.2	23	92	0	119	38	21	5	34	1.77
3924749--3924816	2	34.0	2	82	11	77	47	1	4	47	1.31
3929172--3929228	30	1.9	30	85	0	78	43	5	15	35	1.70
3930780--3930840	21	2.9	21	90	0	86	26	13	21	39	1.90
3936991--3937104	60	1.9	59	82	5	140	41	14	10	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3939443--3939469	3	9.0	3	100	0	54	33	0	0	66	0.92
3940093--3940170	28	3.0	25	75	12	68	76	0	6	16	0.98
3940106--3940180	8	9.1	8	78	11	62	78	1	4	16	0.96
3940093--3940273	16	11.2	16	68	18	83	72	2	4	20	1.14
3942362--3942843	110	4.5	110	84	6	635	23	18	23	34	1.96
3942362--3942837	212	2.2	216	87	4	685	23	17	23	34	1.96
3946446--3946484	6	6.3	6	96	3	69	84	0	0	15	0.62
3946446--3946567	21	5.8	19	71	21	77	74	0	4	20	1.03
3946446--3946536	4	22.8	4	75	20	66	76	0	4	18	0.94
3947559--3947645	28	3.1	28	98	0	165	21	14	24	39	1.91
3949353--3949394	21	2.0	22	85	4	59	45	0	2	52	1.13
3949362--3949419	21	2.6	22	81	8	55	46	0	3	50	1.18
3949505--3949612	29	3.7	28	74	12	76	50	0	1	46	1.18
3949570--3949608	20	2.0	20	89	0	60	53	0	2	43	1.14
3949543--3949595	23	2.3	23	78	15	56	49	0	1	49	1.12
3951345--3951370	5	5.2	5	100	0	52	23	57	19	0	1.40
3951518--3951626	33	3.2	33	85	10	155	42	37	8	11	1.72
3951518--3951615	37	2.8	35	89	6	146	44	34	7	13	1.71
3952131--3952161	14	2.2	14	94	0	53	58	25	12	3	1.50
3952458--3952487	10	3.0	10	95	0	51	63	10	6	20	1.47
3952444--3952473	14	2.1	14	93	0	51	66	6	3	23	1.30
3952439--3952492	24	2.2	24	80	0	72	61	11	9	18	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3957084--3957160	37	2.1	37	90	0	118	25	18	23	32	1.97
3964061--3964107	15	3.1	15	93	0	76	6	27	12	53	1.63
3965824--3965858	18	1.9	18	94	0	61	40	14	2	42	1.60
3971602--3971692	29	3.2	28	75	19	100	41	3	13	41	1.60
3971624--3971672	25	2.0	24	88	4	71	48	4	16	30	1.64
3971604--3971683	24	3.1	24	73	12	70	43	3	15	37	1.64
3972168--3972283	21	5.6	21	69	10	60	32	27	18	21	1.96
3972271--3972499	20	11.4	20	81	5	230	37	25	17	19	1.94
3973413--3973437	12	2.1	12	100	0	50	72	0	28	0	0.86
3975700--3975747	20	2.4	20	100	0	96	43	27	14	14	1.84

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62