genome.fa.s8488.2.7.7.80.10.50.1000.14.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  14  of  54  ( 6450 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)
3344089--3344299	29	7.3	29	80	10	193	34	3	18	44	1.66
3344088--3344270	56	3.2	54	79	11	174	33	3	19	42	1.69
3344176--3344284	57	1.9	57	83	3	139	34	6	14	44	1.71
3351463--3351640	29	6.2	29	79	10	168	35	3	16	44	1.65
3351458--3351640	56	3.2	57	82	6	208	35	3	17	43	1.65
3354937--3355433	81	6.1	81	87	1	676	37	12	20	29	1.89
3356373--3357324	252	3.7	258	83	5	1145	32	15	17	35	1.91
3357461--3357547	3	27.7	3	73	13	68	32	1	1	65	1.07
3357462--3357545	13	6.9	12	80	9	82	33	1	1	64	1.09
3357474--3357547	16	4.6	16	76	6	69	33	1	0	64	1.02
3357460--3357551	19	4.9	18	75	16	73	31	1	1	66	1.06
3357468--3357547	32	2.5	32	86	6	101	33	1	0	65	1.01
3363068--3363112	19	2.4	19	96	0	81	22	13	26	37	1.91
3365705--3365750	18	2.5	18	85	3	56	60	0	4	34	1.16
3365710--3365750	18	2.2	19	86	4	57	65	0	4	29	1.13
3365870--3365929	30	2.0	30	86	0	84	58	3	0	38	1.15
3365898--3365943	22	2.1	22	88	4	67	56	0	2	41	1.11
3367504--3367606	29	3.5	28	88	7	152	35	0	12	51	1.40
3367529--3367664	29	4.7	29	80	9	91	41	1	8	47	1.43
3367504--3367626	58	2.1	58	85	8	162	36	0	12	50	1.46
3367587--3367658	28	2.6	28	84	8	85	44	2	5	47	1.41
3367601--3367658	28	2.1	29	87	9	86	48	3	5	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367685--3367714	15	2.0	15	93	0	51	26	0	3	70	1.03
3370784--3370828	19	2.3	20	85	11	67	73	0	6	20	1.05
3370847--3370889	6	7.5	6	82	10	54	74	2	11	11	1.17
3370838--3370889	11	4.7	11	86	6	61	75	3	9	11	1.18
3376561--3376615	7	7.6	7	82	13	60	78	0	1	20	0.85
3376561--3376612	17	3.2	16	84	12	63	78	0	1	19	0.84
3376572--3376615	17	2.6	17	92	0	70	77	0	2	20	0.88
3377147--3377202	24	2.4	24	82	8	71	71	3	7	17	1.23
3388987--3389016	14	2.1	14	93	0	51	36	0	23	40	1.55
3389060--3389145	45	1.9	45	92	0	145	23	18	23	34	1.96
3391784--3391820	17	2.2	16	90	4	56	24	8	0	67	1.17
3409274--3409490	46	4.8	46	93	1	359	31	22	6	39	1.80
3413668--3413733	13	5.2	12	74	13	51	3	16	1	78	0.95
3418999--3419212	46	4.8	46	90	4	332	31	22	7	39	1.81
3418999--3419212	90	2.4	90	92	3	351	31	22	7	39	1.81
3423321--3423384	13	4.6	13	75	19	58	1	17	1	79	0.89
3423321--3423371	14	3.7	13	82	10	57	1	13	1	82	0.85
3423323--3423391	20	3.3	20	71	15	59	1	17	2	78	0.95
3431260--3431476	46	4.8	46	92	1	350	31	22	6	39	1.80
3431556--3431661	40	2.7	40	87	0	158	27	22	23	26	2.00
3431556--3431676	40	3.0	40	85	0	152	26	23	23	26	2.00
3431907--3431952	21	2.2	21	84	7	58	45	10	6	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3435700--3435774	22	3.3	21	80	10	69	1	17	2	78	0.93
3435700--3435775	6	13.3	6	74	13	63	1	17	2	78	0.93
3435717--3435761	15	3.1	15	81	9	58	0	17	2	80	0.82
3435698--3435763	34	2.0	32	85	14	89	1	16	1	80	0.87
3435698--3435766	16	4.1	17	77	18	74	1	15	1	81	0.84
3435701--3435775	16	4.4	17	78	18	68	1	17	2	78	0.93
3435905--3435942	20	1.9	19	94	5	67	47	15	21	15	1.82
3438941--3439000	11	5.7	11	79	16	56	3	16	0	80	0.85
3438946--3439000	17	3.2	16	78	19	58	1	14	0	83	0.73
3438957--3439021	6	11.3	6	73	15	57	3	16	1	78	0.96
3438949--3439021	18	4.1	18	80	16	64	2	17	1	78	0.95
3441701--3441802	50	2.0	50	100	0	204	32	25	13	28	1.94
3444596--3444651	24	2.3	24	100	0	112	28	17	16	37	1.91
3444876--3444941	30	2.2	30	86	0	87	10	33	24	31	1.89
3445454--3445506	2	26.5	2	100	0	106	50	0	0	49	1.00
3447780--3447842	29	2.1	31	77	16	71	44	4	4	46	1.45
3447808--3448198	36	11.2	35	73	15	294	44	6	4	44	1.50
3447791--3448115	100	3.2	100	89	3	440	44	6	4	44	1.48
3447981--3448080	29	3.2	29	82	12	119	45	6	3	46	1.43
3448010--3448197	75	2.6	72	85	5	245	45	6	4	43	1.50
3448191--3448247	2	28.5	2	92	0	96	47	0	3	49	1.18
3447869--3448200	35	9.6	35	74	13	260	45	6	4	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3448834--3449546	84	8.6	83	78	6	669	24	20	24	29	1.99
3448790--3449527	249	3.0	245	81	4	823	24	21	23	30	1.99
3453545--3453574	16	1.9	16	93	6	53	73	6	13	6	1.24
3454801--3454852	21	2.3	23	71	21	56	75	1	1	21	1.00
3456088--3456216	66	2.0	64	86	3	177	46	6	4	41	1.51
3456027--3456351	100	3.2	100	89	4	449	45	6	4	44	1.48
3456041--3456415	36	10.7	36	74	13	295	44	6	4	44	1.50
3456181--3456317	65	2.1	63	86	7	188	45	6	2	45	1.44
3456217--3456316	29	3.2	29	82	12	119	45	6	3	46	1.43
3456246--3456433	75	2.6	72	84	5	236	44	7	4	43	1.51
3456938--3457295	172	2.1	175	97	2	686	41	13	18	27	1.88
3460156--3460204	24	2.0	24	100	0	98	16	40	34	8	1.78
3475140--3475168	13	2.2	13	100	0	58	17	37	0	44	1.49
3476666--3476726	26	2.3	26	82	5	68	44	34	6	14	1.72
3476762--3476822	19	3.2	19	72	25	56	55	1	0	42	1.09
3476762--3476831	20	3.5	20	78	18	76	55	1	0	42	1.08
3479115--3479177	20	3.2	20	95	0	108	34	19	15	30	1.93
3480788--3481052	131	2.0	131	97	1	496	42	8	3	45	1.52
3486328--3486604	138	2.0	138	100	0	554	29	7	23	38	1.83
3489478--3489511	16	2.1	16	100	0	68	26	11	26	35	1.91
3490577--3490793	109	2.0	108	99	0	425	35	11	20	33	1.88
3494164--3494197	17	2.1	17	88	5	52	52	0	8	38	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3494376--3494432	21	2.7	21	80	0	69	19	8	35	36	1.83
3494751--3494800	25	2.1	24	85	10	68	44	34	4	18	1.68
3496245--3496638	194	2.0	198	96	3	726	34	25	13	26	1.93
3497714--3497770	26	2.2	26	96	0	105	28	10	3	57	1.48
3499251--3499298	20	2.4	20	100	0	96	20	27	33	18	1.96
3501908--3501954	21	2.3	22	75	14	55	23	23	34	19	1.97
3509463--3509500	20	1.9	20	94	0	67	21	21	18	39	1.93
3512850--3512961	31	3.5	31	67	17	84	20	20	20	38	1.94
3515193--3515260	28	2.5	28	83	7	86	47	25	8	19	1.78
3516327--3516371	19	2.4	19	100	0	90	20	28	31	20	1.97
3516327--3516381	19	2.9	19	91	5	76	18	29	30	21	1.97
3516395--3516522	67	1.9	67	84	4	170	17	17	25	39	1.91
3517357--3517443	17	5.4	16	71	19	65	78	0	14	6	0.95
3517357--3517443	32	2.7	31	78	18	99	78	0	14	6	0.95
3517367--3517413	23	2.1	22	88	4	67	80	0	14	4	0.85
3517367--3517443	34	2.3	34	86	4	102	79	0	14	6	0.92
3519496--3519702	53	3.9	53	87	3	301	31	9	19	39	1.84
3519496--3519702	106	2.0	106	91	3	337	31	9	19	39	1.84
3519496--3519760	53	4.9	53	84	6	293	32	9	19	38	1.84
3519764--3519870	42	2.6	42	75	10	103	27	17	19	35	1.94
3519848--3520211	145	2.5	145	88	1	507	26	24	17	31	1.97
3520476--3520559	36	2.3	36	78	11	91	34	23	9	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520832--3521616	139	5.7	139	85	3	973	35	17	20	26	1.94
3522193--3522231	19	2.1	19	85	9	53	33	15	7	43	1.75
3523348--3523386	14	2.7	15	88	4	53	30	5	5	58	1.41
3525156--3525208	18	2.8	19	75	13	56	24	24	16	33	1.96
3526456--3526501	22	2.0	23	83	4	58	32	8	13	45	1.73
3526464--3526506	22	2.0	22	90	9	70	32	2	16	48	1.58
3526512--3526583	37	1.9	37	100	0	144	41	5	19	33	1.75
3528072--3528139	33	2.1	33	88	0	100	39	8	5	45	1.60
3528084--3528141	16	3.7	15	73	13	53	41	8	6	43	1.62
3543620--3543665	24	1.9	24	86	0	65	19	10	8	60	1.55

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