genome.fa.s8094.2.7.7.80.10.50.1000.34.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  34  of  43  ( 5090 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)
7223449--7223596	44	3.4	43	78	15	123	34	8	2	54	1.43
7223471--7223778	20	15.2	21	70	18	126	38	7	2	51	1.43
7223497--7223596	22	4.6	22	81	6	107	34	9	1	56	1.38
7223657--7223781	2	64.0	2	74	16	111	43	4	1	51	1.30
7223699--7223765	15	4.7	15	71	25	56	38	7	1	52	1.39
7227145--7227197	27	2.0	27	81	7	63	60	5	9	24	1.49
7227532--7227751	2	110.5	2	68	19	104	45	3	3	47	1.38
7227530--7227701	61	2.8	61	88	3	249	44	3	2	48	1.34
7227723--7227766	20	2.2	20	91	0	70	45	9	4	40	1.56
7227651--7227785	71	1.9	70	82	7	166	43	6	6	42	1.57
7241968--7242192	2	113.0	2	69	18	123	47	3	3	45	1.37
7241971--7242029	31	1.9	31	86	6	84	45	6	3	44	1.47
7242018--7242189	61	2.8	61	86	6	226	48	2	3	44	1.34
7243022--7243096	23	3.3	23	92	0	123	24	25	24	26	2.00
7244322--7244364	21	2.2	19	83	8	50	27	25	2	44	1.66
7249189--7249226	20	1.9	20	94	0	67	68	23	0	7	1.16
7260916--7260979	23	2.8	23	97	0	119	29	28	23	18	1.98
7262189--7262231	21	2.2	19	83	8	50	27	25	2	44	1.66
7263036--7263071	17	2.1	17	94	0	63	44	8	11	36	1.70
7266172--7266215	22	2.2	20	84	15	56	40	9	15	34	1.79
7272084--7272126	21	2.2	19	83	8	50	27	25	2	44	1.66
7272931--7272966	17	2.1	17	94	0	63	44	8	11	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7276065--7276108	22	2.2	20	84	15	56	40	9	15	34	1.79
7281080--7281125	22	2.1	22	87	0	65	58	32	2	6	1.36
7282012--7282071	12	5.2	12	83	13	58	70	1	15	13	1.26
7282012--7282071	5	10.5	6	86	10	58	70	1	15	13	1.26
7284340--7284451	53	2.1	53	84	0	152	36	17	17	27	1.93
7290857--7290905	12	3.9	13	75	20	50	69	4	6	20	1.27
7290858--7290910	25	2.2	24	86	6	72	71	3	7	16	1.24
7291478--7291533	18	3.1	19	75	12	55	55	0	5	39	1.23
7291952--7292044	32	2.9	31	78	10	98	35	30	12	21	1.91
7301168--7301219	23	2.3	23	100	0	104	28	19	15	36	1.92
7303101--7303147	21	2.1	21	84	7	58	65	0	14	19	1.26
7311488--7311526	21	1.9	21	89	5	62	38	15	12	33	1.85
7315055--7315086	2	16.0	2	93	0	55	46	0	0	53	1.00
7316971--7317004	17	1.9	18	94	5	61	5	23	0	70	1.09
7320371--7320468	50	1.9	51	83	6	128	35	22	22	19	1.96
7320546--7320585	21	2.0	20	85	9	55	35	5	10	50	1.58
7324843--7324949	47	2.3	47	100	0	214	34	20	2	42	1.67
7325957--7326013	30	1.9	30	92	0	96	29	15	24	29	1.96
7325960--7326040	30	2.7	30	82	0	90	27	16	27	29	1.97
7348608--7348653	24	1.9	24	82	8	58	34	13	2	50	1.53
7348826--7348861	2	18.5	2	88	5	56	47	2	0	50	1.15
7349948--7349975	12	2.3	12	100	0	56	57	14	0	28	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7350164--7350206	14	3.0	15	80	13	54	53	0	9	37	1.33
7350158--7350201	22	2.0	22	86	8	63	52	0	11	36	1.38
7351379--7351544	90	1.9	89	92	1	278	45	6	12	36	1.66
7353158--7353200	19	2.2	20	83	8	52	23	4	13	58	1.55
7354421--7355140	162	4.6	156	80	7	753	45	4	19	29	1.71
7356644--7356700	26	2.2	26	93	0	96	12	29	38	19	1.88
7359024--7359110	24	3.7	24	79	3	104	28	17	18	35	1.93
7361131--7361193	17	3.8	17	82	2	74	34	17	7	39	1.79
7368591--7368634	2	22.0	2	100	0	88	0	0	50	50	1.00
7368996--7369040	22	2.1	21	88	12	65	46	33	0	20	1.51
7369961--7370008	15	3.0	16	81	9	62	41	2	4	52	1.32
7370621--7370663	18	2.4	18	92	0	68	6	4	11	76	1.13
7371446--7371510	20	3.3	20	84	2	87	35	9	20	35	1.84
7371561--7371601	20	2.0	20	85	0	55	31	19	14	34	1.92
7373506--7373535	2	15.0	2	100	0	60	50	0	0	50	1.00
7373917--7373980	30	2.1	31	97	2	121	29	0	3	67	1.06
7376178--7376204	14	1.9	14	100	0	54	70	0	0	29	0.88
7380221--7380252	2	16.0	2	100	0	64	50	0	0	50	1.00
7383286--7383314	3	10.0	3	92	7	51	68	0	0	31	0.89
7383859--7383903	3	15.3	3	95	4	83	33	0	0	66	0.92
7384470--7384546	31	2.5	32	78	6	95	33	11	9	45	1.72
7385949--7386863	81	11.3	81	86	2	1169	36	11	18	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7389975--7390004	10	3.0	10	95	0	51	50	16	10	23	1.75
7390823--7390857	6	5.5	6	87	12	52	17	17	14	51	1.77
7394687--7394788	44	2.4	42	80	8	118	32	12	21	33	1.91
7395917--7395990	36	2.1	36	89	0	112	31	12	10	45	1.76
7395967--7396127	36	4.3	39	84	4	127	28	22	16	32	1.95
7395981--7396109	36	3.5	36	88	5	152	26	21	15	36	1.93
7396099--7396137	15	2.6	15	91	0	60	20	33	17	28	1.96
7396063--7396163	51	2.0	51	92	0	166	25	26	16	30	1.97
7396031--7396214	87	2.1	87	87	0	260	26	23	15	34	1.95
7396118--7396573	39	11.8	39	87	2	568	27	18	16	36	1.93
7396118--7396573	157	3.0	156	87	4	588	27	18	16	36	1.93
7396595--7397116	43	11.6	43	77	13	498	29	12	27	29	1.93
7396862--7397164	55	6.0	55	72	20	228	30	13	27	29	1.94
7396818--7397119	98	3.1	98	94	0	523	31	12	26	30	1.93
7397057--7397164	54	2.0	55	90	1	173	27	14	28	28	1.96
7397159--7397389	90	2.6	90	92	2	383	26	18	20	35	1.95
7398901--7398972	26	2.7	26	87	10	94	29	5	5	59	1.43
7398898--7398960	26	2.4	26	94	0	117	30	6	6	57	1.49
7399925--7400239	81	3.9	81	85	0	369	35	10	21	32	1.88
7400234--7400331	46	2.1	46	86	3	135	47	9	20	22	1.78
7400272--7400386	46	2.5	46	81	0	131	46	9	20	23	1.79
7405267--7405321	3	18.3	3	100	0	110	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7405544--7405857	133	2.4	133	87	1	459	28	17	22	31	1.97
7407105--7407151	21	2.1	22	88	7	69	12	8	0	78	0.95
7407099--7407150	27	1.9	27	84	0	68	13	7	0	78	0.94
7407100--7407153	22	2.4	22	82	14	65	14	7	0	77	0.97
7416770--7417139	131	2.8	131	88	0	544	37	15	12	34	1.85
7427413--7427456	21	2.1	21	82	0	52	31	15	43	9	1.79
7434875--7435084	65	3.3	63	80	12	198	26	18	24	30	1.98
7437372--7437422	20	2.5	20	80	0	57	39	9	15	35	1.81
7437532--7437584	21	2.5	21	96	0	97	24	18	22	33	1.97
7438778--7438808	2	15.5	2	93	0	53	48	3	0	48	1.17
7445539--7446639	550	2.0	552	89	1	1701	31	13	20	34	1.91
7453721--7453869	44	3.4	44	85	1	192	26	17	16	39	1.90
7453864--7453910	20	2.3	20	92	0	76	40	23	12	23	1.89
7453872--7453911	20	2.0	20	100	0	80	40	25	15	20	1.90
7455082--7455165	34	2.5	34	84	3	107	28	14	13	44	1.82
7455154--7455226	17	4.2	17	83	3	83	38	13	6	41	1.72
7455120--7455223	53	2.0	53	84	3	138	34	13	8	43	1.75
7457756--7457835	14	6.2	13	71	25	62	63	1	0	35	1.02
7457913--7457943	2	15.5	2	100	0	62	51	0	0	48	1.00
7458461--7458502	20	2.1	20	91	8	68	40	9	4	45	1.58
7470026--7470090	14	4.9	14	68	21	59	56	15	12	15	1.67
7474606--7474681	22	3.5	22	90	0	116	34	26	10	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7477870--7477912	12	3.3	12	84	12	50	18	25	39	16	1.91
7477859--7477892	7	4.9	7	100	0	68	29	29	29	11	1.92
7477890--7477940	18	2.9	17	91	5	84	15	19	47	17	1.83
7477955--7477995	19	2.2	19	95	0	73	36	31	19	12	1.89
7477955--7477995	9	4.3	10	84	9	59	36	31	19	12	1.89
7485109--7485151	12	3.3	12	84	12	50	18	25	39	16	1.91
7485105--7485131	7	3.9	7	100	0	54	29	29	29	11	1.91
7485129--7485179	18	2.9	17	91	5	84	15	19	47	17	1.83
7485194--7485245	9	5.3	10	84	11	72	36	30	19	13	1.90
7492367--7492409	12	3.3	12	84	12	50	18	25	39	16	1.91

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