genome.fa.s8527.2.7.7.80.10.50.1000.15.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  15  of  37  ( 4336 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)
3660239--3660305	31	2.1	31	83	8	82	52	5	1	40	1.35
3661915--3662340	111	3.8	111	89	2	633	26	17	24	30	1.97
3675426--3675452	2	13.5	2	100	0	54	48	0	0	51	1.00
3675571--3675641	2	37.5	2	70	16	53	47	2	0	49	1.16
3675594--3675655	31	1.9	31	83	6	79	51	6	1	40	1.37
3675589--3675663	33	2.4	30	80	6	78	49	5	2	42	1.39
3680798--3681285	254	1.9	255	98	0	951	33	12	14	40	1.83
3681855--3681914	23	2.6	23	86	0	84	40	6	16	36	1.75
3681837--3682001	87	1.9	87	89	2	260	41	10	14	32	1.81
3681864--3682066	110	1.8	110	96	0	379	40	11	15	32	1.82
3681942--3682014	23	3.2	23	90	3	103	36	10	17	34	1.85
3681951--3682024	23	3.2	23	90	3	105	36	9	20	33	1.85
3682074--3682129	21	2.7	21	94	0	94	39	10	8	41	1.71
3682551--3682597	20	2.3	21	77	3	60	48	8	6	36	1.59
3682564--3682820	111	2.3	112	91	1	417	45	11	10	32	1.73
3683266--3683513	111	2.2	112	89	3	383	44	10	11	33	1.74
3684171--3684244	18	3.7	22	69	20	63	70	1	8	20	1.20
3684257--3684331	32	2.3	33	78	14	77	56	1	9	33	1.40
3694360--3694398	20	2.0	20	84	0	51	12	35	35	15	1.86
3703413--3703447	3	11.7	3	87	0	52	0	40	0	60	0.97
3703413--3703448	18	2.0	18	94	0	63	0	41	0	58	0.98
3703555--3703588	12	2.8	12	100	0	68	0	41	23	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709815--3710033	29	7.6	29	81	6	239	48	11	2	36	1.54
3709815--3710033	58	3.8	58	85	3	271	48	11	2	36	1.54
3709841--3710033	87	2.2	86	87	1	269	49	11	3	35	1.55
3713781--3713814	14	2.3	15	95	5	61	58	5	11	23	1.55
3714919--3714966	2	23.0	2	80	16	53	45	4	4	45	1.41
3714926--3714973	25	2.0	25	84	11	66	45	6	2	45	1.40
3715097--3715137	15	2.7	16	77	14	50	34	0	4	60	1.18
3719243--3719318	9	9.2	8	72	18	50	60	0	0	39	0.97
3719231--3719314	34	2.5	34	96	1	152	59	0	0	40	0.97
3724260--3724293	3	11.3	3	100	0	68	32	0	0	67	0.91
3728872--3728980	6	18.2	6	100	0	218	33	49	16	0	1.46
3728977--3729018	5	8.6	5	97	2	77	38	21	40	0	1.53
3729623--3729675	22	2.4	22	100	0	106	35	28	18	16	1.93
3729667--3729780	20	5.6	20	72	4	102	39	22	19	18	1.92
3729664--3729807	41	3.5	41	88	3	227	37	22	18	20	1.94
3729642--3729801	21	7.7	21	69	10	89	37	23	18	20	1.94
3734153--3734194	2	21.0	2	100	0	84	50	0	0	50	1.00
3736054--3736087	10	3.4	10	95	0	59	14	0	5	79	0.91
3736035--3736087	20	2.7	19	82	5	61	16	1	5	75	1.08
3737554--3737631	22	3.5	22	84	6	104	32	29	25	12	1.93
3743745--3743805	31	2.0	31	90	6	97	34	0	9	55	1.33
3755876--3755900	13	1.9	13	100	0	50	24	16	16	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3764270--3764312	21	2.0	21	86	0	59	30	27	25	16	1.97
3764339--3764375	19	1.9	19	88	0	56	24	35	29	10	1.89
3764857--3765177	103	3.1	103	97	0	606	25	12	24	37	1.91
3765194--3765256	23	2.7	23	87	4	92	20	26	26	25	1.99
3772718--3772760	3	14.3	3	100	0	86	34	0	0	65	0.93
3775026--3775188	80	2.0	81	98	1	319	33	26	9	31	1.88
3776293--3776323	16	1.9	16	93	0	53	29	3	12	54	1.53
3778574--3778702	64	2.0	64	100	0	258	27	28	15	27	1.96
3780649--3780687	2	19.5	2	94	0	69	48	0	2	48	1.15
3785202--3785240	2	19.5	2	100	0	78	48	0	0	51	1.00
3785289--3785389	29	3.4	28	68	16	78	33	17	2	45	1.64
3785270--3785477	60	3.5	60	85	2	267	31	21	4	42	1.74
3789677--3789822	64	2.3	64	85	5	188	32	21	17	29	1.96
3790496--3790559	30	2.1	30	85	0	83	18	18	28	34	1.95
3793864--3794009	64	2.3	64	84	5	179	32	20	17	30	1.95
3794683--3794746	30	2.1	30	85	0	83	20	17	26	35	1.94
3798445--3798478	2	17.0	2	100	0	68	50	0	0	50	1.00
3800384--3800451	22	3.1	22	80	2	75	48	17	13	20	1.80
3803303--3803630	103	3.2	103	96	0	602	25	11	25	37	1.90
3803640--3803707	23	3.0	23	77	0	73	20	23	25	30	1.98
3810368--3810694	103	3.2	103	96	0	602	25	11	25	37	1.90
3810704--3810766	23	2.7	23	85	0	90	15	25	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3813400--3813446	14	3.3	15	77	19	55	44	0	4	51	1.21
3813400--3813446	15	3.3	14	81	18	53	44	0	4	51	1.21
3823118--3823143	9	2.9	9	100	0	52	65	0	23	11	1.25
3826166--3826203	16	2.3	17	81	9	51	71	5	7	15	1.28
3840163--3840219	27	2.1	27	90	0	87	28	10	45	15	1.79
3844153--3844183	11	2.7	11	95	5	53	0	9	3	87	0.66
3846422--3846471	23	2.2	23	100	0	100	32	20	22	26	1.98
3846422--3846478	23	2.5	23	94	0	87	35	19	19	26	1.95
3846428--3846495	23	3.0	23	86	0	73	39	16	16	27	1.89
3855458--3856839	399	3.5	396	77	5	1082	32	17	23	26	1.97
3856658--3857352	378	1.8	373	79	8	800	32	17	23	26	1.97
3861226--3861267	2	21.5	2	95	4	77	50	0	0	50	1.00
3863790--3863865	18	3.9	19	70	17	59	46	5	3	44	1.44
3863779--3863875	13	6.9	13	72	15	68	45	5	4	45	1.44
3864648--3864807	29	5.5	29	83	5	189	32	2	18	46	1.63
3866436--3866477	2	21.5	2	95	4	77	50	0	0	50	1.00
3866576--3866630	19	2.9	18	89	7	67	43	0	30	25	1.55
3866586--3866630	20	2.3	20	96	3	83	44	0	33	22	1.53
3866545--3866649	46	2.3	47	80	6	115	43	0	26	29	1.55
3866598--3866641	19	2.2	20	88	4	63	47	0	25	27	1.52
3866874--3866906	15	2.2	15	94	0	57	51	6	3	39	1.42
3867059--3867139	7	11.6	7	77	0	81	44	33	0	22	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3867060--3867139	21	3.8	21	81	0	106	45	32	0	22	1.53
3867803--3867844	21	2.0	21	85	0	57	57	0	23	19	1.41
3868263--3868304	14	3.0	14	89	0	66	52	26	0	21	1.47
3868739--3868804	16	4.1	16	86	0	69	40	12	22	24	1.88
3871234--3871306	34	2.1	34	100	0	146	23	6	16	53	1.67
3876518--3876549	16	1.9	17	93	6	57	40	0	0	59	0.97
3876926--3876998	31	2.4	31	90	4	112	52	9	6	31	1.60
3877465--3877521	17	3.3	18	65	22	50	21	14	21	43	1.87
3878536--3878580	21	2.1	21	87	0	63	31	28	24	15	1.96
3879357--3879510	31	5.0	31	94	1	256	20	20	22	37	1.95
3882543--3882587	21	2.1	21	87	0	63	31	28	24	15	1.96
3883362--3883515	31	5.0	31	94	1	256	20	20	22	37	1.95
3885453--3885477	2	12.5	2	100	0	50	52	0	0	48	1.00
3886308--3886351	19	2.3	19	81	14	54	61	2	0	36	1.09
3886576--3886650	37	2.0	37	100	0	150	42	0	36	21	1.53
3888525--3888550	2	13.0	2	100	0	52	50	0	0	50	1.00
3895497--3895521	12	2.1	12	100	0	50	68	0	0	32	0.90
3896256--3896304	21	2.2	21	82	10	53	32	4	12	51	1.58
3898961--3898988	2	14.0	2	100	0	56	50	0	0	50	1.00
3906331--3906392	19	3.3	19	70	18	58	48	0	1	50	1.10
3906684--3906850	84	2.0	83	86	1	235	40	8	14	35	1.77
3912155--3912201	22	2.0	22	84	12	58	53	12	2	31	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3914216--3914247	2	16.0	2	100	0	64	50	0	0	50	1.00
3914922--3914948	2	13.5	2	100	0	54	48	0	0	51	1.00
3916981--3917075	31	3.1	31	84	3	129	25	18	24	31	1.98
3920257--3920365	24	4.5	26	73	15	81	44	2	0	51	1.22
3920284--3920326	21	1.9	21	86	13	59	44	2	0	53	1.13
3920296--3920365	14	4.5	15	71	18	54	47	1	1	50	1.19
3920275--3920413	24	5.7	25	73	12	92	46	2	2	48	1.29
3920367--3920417	11	4.5	11	80	9	57	50	1	3	43	1.31
3920466--3920507	22	1.9	22	90	9	68	40	7	9	42	1.65
3920444--3920486	16	2.7	16	78	7	52	41	9	11	37	1.74

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