genome.fa.s8027.2.7.7.80.10.50.1000.14.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  14  of  38  ( 4505 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)
2967953--2968245	139	2.1	139	92	0	487	33	11	22	32	1.90
2970626--2970684	29	2.0	30	83	6	77	52	3	3	40	1.35
2971899--2971939	3	14.0	3	80	14	50	60	2	0	36	1.10
2971899--2971951	17	3.0	18	78	13	56	56	1	0	41	1.10
2971906--2971951	20	2.3	21	85	11	69	56	0	0	43	0.99
2976837--2976897	23	2.7	23	89	0	95	26	27	26	19	1.99
2976913--2977439	103	5.1	103	96	0	982	37	23	12	26	1.91
2978198--2978241	20	2.3	19	84	4	52	34	11	4	50	1.59
2978678--2978721	21	2.1	21	82	0	52	13	25	29	31	1.94
2981907--2981967	23	2.7	23	86	0	86	26	26	26	21	1.99
2981983--2982492	103	5.1	99	90	8	740	36	23	13	26	1.92
2987134--2987220	45	1.9	45	90	0	138	26	25	18	29	1.98
2987319--2987355	19	2.0	18	89	5	56	21	32	21	24	1.98
2994691--2994728	20	1.9	20	94	0	67	31	34	15	18	1.92
2994747--2994845	45	2.2	44	87	5	153	27	26	17	29	1.97
3003441--3003516	35	2.2	36	88	7	120	42	11	22	23	1.87
3004273--3004310	19	2.0	19	94	0	67	13	34	0	52	1.40
3004273--3004312	21	1.9	21	89	0	62	15	32	0	52	1.43
3017451--3017531	26	3.2	25	67	22	60	34	17	7	40	1.77
3017465--3017545	25	3.2	24	68	22	67	33	16	8	41	1.78
3017441--3017582	51	2.8	51	87	1	194	35	14	7	42	1.72
3018859--3018889	16	1.9	16	93	0	53	32	6	0	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3021697--3021754	22	2.5	23	81	16	66	48	0	5	46	1.24
3021692--3021754	25	2.7	23	80	12	65	46	0	4	49	1.23
3024108--3024161	3	18.0	3	88	7	83	68	1	0	29	1.00
3024538--3024667	48	2.6	51	79	10	162	26	16	33	24	1.96
3024440--3024770	181	1.8	182	85	1	468	25	17	31	25	1.97
3024866--3025212	62	5.5	62	80	7	349	44	14	12	28	1.81
3024870--3025212	129	2.7	125	86	6	467	44	14	12	28	1.82
3025282--3025351	32	2.2	32	94	0	122	30	25	17	27	1.97
3027002--3027062	20	3.0	20	90	0	86	37	9	21	31	1.86
3029205--3029244	21	1.9	21	85	10	55	47	5	5	42	1.47
3030128--3030526	202	2.0	202	100	0	798	52	13	14	19	1.73
3038752--3038941	86	2.2	87	88	3	278	24	19	24	31	1.98
3041537--3042240	168	4.2	169	76	7	502	35	17	18	28	1.94
3044410--3044461	23	2.3	23	89	0	77	17	28	21	32	1.96
3051484--3051598	57	2.0	57	94	0	203	34	13	13	37	1.85
3054347--3054373	2	13.5	2	100	0	54	51	0	0	48	1.00
3054637--3054697	7	8.7	7	100	0	122	29	14	55	0	1.40
3059338--3059387	25	2.0	25	88	7	75	32	8	18	42	1.79
3061369--3061422	25	2.2	25	90	6	83	38	0	0	61	0.96
3061412--3061452	20	2.0	21	90	9	68	19	4	29	46	1.71
3069285--3069430	68	2.1	68	89	0	220	42	24	4	28	1.75
3074096--3074132	2	18.5	2	89	10	58	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3074186--3074223	2	19.0	2	100	0	76	50	0	0	50	1.00
3074416--3074513	2	49.0	2	100	0	196	50	0	0	50	1.00
3074526--3074693	85	2.0	85	81	0	201	32	19	19	29	1.96
3074669--3074714	13	3.7	13	74	11	51	32	19	21	26	1.97
3075982--3076070	41	2.2	41	81	4	99	25	11	28	34	1.90
3088149--3088188	21	1.9	21	84	0	53	25	2	17	55	1.55
3091164--3091253	41	2.2	41	89	0	135	26	13	26	33	1.93
3096257--3096388	29	4.6	29	85	7	171	37	18	5	38	1.73
3096235--3096388	57	2.7	57	84	4	195	40	18	4	37	1.71
3096400--3096457	17	3.4	17	95	2	98	12	24	46	17	1.81
3096454--3096494	19	2.2	19	90	0	64	24	29	26	19	1.98
3097925--3098004	10	8.3	9	78	13	70	16	28	26	28	1.97
3097924--3097998	29	2.5	30	89	8	118	17	26	26	29	1.97
3098001--3098058	5	10.8	5	78	14	62	18	51	22	6	1.70
3098001--3098065	22	3.0	22	100	0	130	18	49	23	9	1.76
3104801--3104877	29	2.6	30	89	8	122	16	25	25	31	1.97
3104802--3104890	9	9.3	9	81	11	88	15	28	26	29	1.96
3104887--3104944	5	10.8	5	78	14	62	18	51	22	6	1.70
3104887--3104950	22	2.9	22	100	0	128	18	48	23	9	1.77
3104941--3104971	7	4.4	7	91	0	53	19	25	29	25	1.99
3112034--3112110	31	2.5	31	78	2	82	27	31	25	15	1.96
3112979--3113137	29	5.6	29	86	7	227	38	21	4	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3112979--3113137	58	2.8	58	89	7	254	38	21	4	35	1.74
3119639--3119978	41	8.3	41	66	6	150	31	16	20	32	1.94
3119616--3119955	82	4.2	82	82	3	362	32	17	19	31	1.94
3119625--3119945	163	2.0	164	83	3	414	32	15	19	32	1.93
3127348--3127397	2	25.0	2	100	0	100	50	0	0	50	1.00
3127504--3127541	2	19.0	2	100	0	76	50	0	0	50	1.00
3127240--3127541	156	1.9	156	99	0	595	39	14	12	32	1.84
3130588--3130628	16	2.6	16	100	0	82	21	21	7	48	1.74
3130715--3130764	24	2.1	24	88	0	73	24	18	26	32	1.97
3130726--3130802	24	3.2	24	84	0	91	28	18	20	32	1.96
3132442--3132474	16	2.1	15	94	5	57	30	30	6	33	1.82
3134786--3134862	21	3.5	22	81	14	72	58	1	1	38	1.15
3134790--3134858	3	23.3	3	78	19	56	57	1	1	39	1.16
3134790--3134862	22	3.4	21	85	9	94	57	1	1	39	1.16
3134793--3134858	29	2.3	29	89	5	98	57	1	1	39	1.17
3134801--3134862	8	8.1	8	77	13	60	58	1	0	40	1.08
3134862--3134889	3	9.3	3	100	0	56	67	32	0	0	0.91
3139309--3139446	2	74.0	2	69	21	77	55	2	2	39	1.27
3139309--3139446	7	19.6	7	74	11	104	55	2	2	39	1.27
3139309--3139434	37	3.3	39	71	20	115	56	2	3	38	1.28
3139821--3139859	2	19.5	2	100	0	78	48	0	0	51	1.00
3144486--3144517	13	2.3	15	89	10	50	65	3	21	9	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3147012--3147158	72	2.0	72	84	5	190	22	17	13	46	1.82
3150131--3150163	17	1.9	17	93	0	57	15	24	27	33	1.95
3152544--3152602	24	2.5	24	97	0	109	15	23	15	45	1.84
3153590--3153795	41	5.0	41	96	1	387	33	18	22	25	1.96
3153590--3153795	81	2.5	82	97	1	396	33	18	22	25	1.96
3153736--3153918	68	2.9	62	80	14	171	27	19	19	33	1.96
3153793--3153938	41	3.6	41	93	4	235	24	20	17	36	1.94
3153793--3153958	20	8.2	20	82	12	214	25	20	16	37	1.93
3153845--3153999	20	7.6	21	87	6	85	23	21	20	34	1.96
3154174--3154211	18	2.1	18	100	0	76	65	0	0	34	0.93
3155469--3155534	33	2.0	34	93	3	116	42	9	12	36	1.74
3155815--3155860	21	2.1	22	84	4	58	52	10	6	30	1.62
3155861--3155890	14	2.1	14	100	0	60	40	16	30	13	1.87
3159462--3159562	50	2.0	50	98	0	193	27	19	4	47	1.70
3159657--3159712	18	3.1	18	89	2	76	58	3	0	37	1.15
3159661--3159719	18	3.3	18	87	0	73	59	6	1	32	1.34
3160353--3160903	57	9.7	57	95	0	967	35	17	8	37	1.81
3166285--3166400	48	2.4	49	85	1	153	43	8	13	34	1.75
3167076--3167110	2	17.5	2	100	0	70	48	0	0	51	1.00
3168710--3168746	17	2.2	17	90	0	56	16	32	29	21	1.95
3171571--3171909	90	3.8	89	85	4	468	20	24	23	31	1.98
3176816--3177179	89	4.1	89	85	2	471	20	23	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3186804--3186828	11	2.3	11	100	0	50	24	8	0	68	1.16
3193189--3193232	20	2.2	20	87	4	61	15	13	0	70	1.17
3193176--3193237	26	2.4	26	86	10	83	16	14	0	69	1.19
3193196--3193250	26	2.1	27	82	3	67	18	16	0	65	1.27
3194621--3194669	21	2.3	21	96	0	89	18	16	10	55	1.69
3208003--3208034	2	16.0	2	100	0	64	50	0	0	50	1.00
3208288--3208330	22	1.9	23	90	4	70	48	2	4	44	1.36
3222000--3222039	18	2.2	18	100	0	80	25	20	20	35	1.96
3222935--3222968	8	4.2	8	100	0	68	35	0	11	52	1.38
3228687--3228730	16	2.8	15	83	10	52	59	0	0	40	0.98

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