genome.fa.s2647.2.7.7.80.10.50.1000.13.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  13  of  26  ( 3011 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)
3023266--3023657	54	7.3	54	91	0	597	31	20	18	28	1.97
3023350--3023432	27	3.2	25	62	18	60	33	20	20	25	1.97
3024013--3024201	95	2.0	95	87	0	270	28	24	14	32	1.95
3025903--3025934	14	2.3	14	94	0	55	71	0	9	18	1.12
3028791--3028832	16	2.7	16	85	3	59	16	2	21	59	1.48
3029541--3029608	18	3.8	18	94	0	118	30	33	17	17	1.94
3029584--3029719	65	2.1	64	83	6	168	28	22	18	30	1.97
3031225--3031292	27	2.5	27	88	4	102	42	4	10	42	1.58
3054958--3055024	14	4.7	14	75	1	53	35	0	17	46	1.49
3054951--3055042	21	4.4	21	74	8	71	31	0	22	45	1.53
3069028--3069052	2	12.5	2	100	0	50	52	0	0	48	1.00
3069336--3069360	5	5.0	5	100	0	50	80	0	0	20	0.72
3070381--3070442	14	4.1	14	77	8	52	62	1	3	32	1.20
3070381--3070442	3	20.7	3	77	12	56	62	1	3	32	1.20
3070381--3070442	13	5.2	12	76	7	56	62	1	3	32	1.20
3071008--3071396	137	2.8	137	83	1	458	26	15	23	35	1.94
3074374--3074476	7	14.4	7	75	13	77	5	12	0	80	0.93
3074381--3074471	8	11.2	8	75	15	89	4	13	1	81	0.90
3074372--3074468	25	4.0	25	76	15	87	6	13	1	79	0.97
3074381--3074471	40	2.2	42	84	7	125	4	13	1	81	0.90
3080291--3080351	32	1.9	31	90	3	95	44	9	19	26	1.82
3081254--3081465	115	1.8	115	86	0	307	36	9	9	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082609--3082688	14	5.7	14	69	19	60	28	2	18	50	1.60
3082643--3082688	21	2.2	21	88	0	65	32	0	17	50	1.47
3083099--3083140	2	21.0	2	100	0	84	50	0	0	50	1.00
3083445--3083540	29	3.3	29	78	8	113	47	4	15	32	1.64
3086051--3086080	13	2.3	13	94	0	51	70	0	0	30	0.88
3086219--3086274	19	3.0	18	78	5	58	78	1	1	17	0.92
3086221--3086283	18	3.5	17	79	14	63	76	1	3	19	1.01
3086225--3086288	14	4.5	15	77	13	55	76	1	3	18	1.00
3092607--3092650	2	23.0	2	90	9	74	50	0	0	50	1.00
3092952--3092983	2	16.0	2	100	0	64	50	0	0	50	1.00
3093126--3093167	2	21.0	2	100	0	84	50	0	0	50	1.00
3093478--3093543	16	4.1	16	74	12	55	36	16	16	30	1.91
3093541--3093629	37	2.4	37	96	0	160	29	14	24	31	1.95
3098613--3098649	19	2.0	19	89	5	58	40	24	13	21	1.89
3099456--3099496	21	1.9	22	85	5	57	31	31	7	29	1.85
3099459--3099508	21	2.4	21	79	0	55	28	30	10	32	1.89
3105750--3105780	16	1.9	16	93	0	53	35	16	12	35	1.87
3109058--3109249	96	2.0	96	93	0	330	30	13	21	33	1.92
3109451--3109496	24	2.0	23	82	4	56	54	8	8	28	1.61
3112359--3112402	19	2.3	19	96	0	79	50	2	15	31	1.57
3118992--3119021	15	1.9	16	93	6	53	63	0	0	36	0.95
3119282--3119714	115	3.8	114	94	2	728	30	18	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3119282--3119714	229	1.9	229	92	3	730	30	18	22	27	1.98
3119629--3119737	48	2.3	48	93	0	182	30	20	23	25	1.98
3121125--3121166	17	2.5	17	84	0	57	30	14	11	42	1.81
3121173--3121231	17	3.5	17	68	13	50	30	13	8	47	1.73
3121222--3121267	18	2.6	18	89	0	74	32	4	13	50	1.61
3123254--3123305	24	2.2	24	82	0	59	48	21	11	19	1.80
3123270--3123352	12	6.8	13	68	15	52	37	22	18	21	1.94
3123270--3123357	24	3.7	23	87	6	122	36	21	19	22	1.95
3133397--3133426	11	2.7	11	100	0	60	46	0	26	26	1.53
3156392--3156704	80	3.9	80	92	1	511	33	24	19	22	1.97
3156521--3156644	38	3.2	38	65	20	101	34	25	20	20	1.96
3156544--3156670	38	3.1	41	65	20	113	28	25	20	25	1.99
3156559--3156686	42	3.1	42	63	20	99	32	22	21	24	1.98
3161115--3161161	13	3.6	13	85	0	67	21	38	21	19	1.94
3161184--3161325	29	4.9	28	75	11	110	31	8	20	39	1.82
3161218--3161326	57	1.9	58	88	9	170	36	7	16	39	1.77
3161213--3161365	29	5.3	29	76	8	127	33	7	19	39	1.79
3161981--3162130	29	5.4	28	77	8	128	30	6	22	40	1.79
3162905--3163125	118	1.9	118	92	1	372	18	14	33	33	1.91
3165572--3165792	118	1.9	118	92	0	370	18	14	33	33	1.91
3193154--3193202	20	2.5	20	93	0	80	32	14	24	28	1.94
3203657--3203696	21	1.9	21	89	0	62	25	15	27	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3204254--3204422	5	33.8	5	100	0	338	39	0	20	40	1.52
3204660--3204739	30	2.7	30	94	0	133	23	38	5	32	1.77
3206692--3206731	21	1.9	21	89	0	62	35	12	22	30	1.91
3213255--3213293	2	19.5	2	100	0	78	48	0	0	51	1.00
3232011--3232051	10	4.3	10	81	9	50	63	0	24	12	1.28
3234451--3234533	21	4.0	21	77	0	76	30	9	20	39	1.84
3234496--3234547	21	2.5	21	93	3	88	28	5	25	40	1.78
3238056--3238097	22	1.9	22	85	0	57	38	14	9	38	1.78
3238067--3238108	22	1.9	22	90	0	66	35	11	11	40	1.79
3238972--3239182	45	4.7	45	83	3	253	39	11	20	28	1.88
3238972--3239159	91	2.1	90	85	3	252	39	10	21	28	1.87
3238982--3239205	91	2.5	90	78	5	245	38	11	20	29	1.88
3248554--3248631	31	2.5	31	89	0	111	20	10	15	53	1.70
3249949--3250027	32	2.5	31	79	2	86	54	11	11	22	1.68
3250156--3250209	25	2.2	25	100	0	108	33	14	25	25	1.95
3251945--3251976	2	16.5	2	93	6	57	50	0	0	50	1.00
3252178--3252259	29	2.7	30	77	11	85	48	6	3	41	1.45
3253191--3253306	60	1.9	59	84	3	151	33	15	18	31	1.93
3255469--3255600	67	2.0	67	100	0	264	37	10	9	42	1.73
3259223--3259274	21	2.5	21	74	0	50	23	19	25	32	1.97
3259722--3259770	25	2.0	25	83	0	62	42	8	6	42	1.59
3263430--3263463	17	2.0	17	100	0	68	23	0	35	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3263476--3263592	24	4.9	24	77	1	110	20	17	17	43	1.88
3263577--3263640	24	2.7	24	95	0	119	29	18	14	37	1.90
3263633--3263932	160	1.9	160	100	0	600	22	18	20	39	1.93
3264033--3264109	17	4.5	17	78	0	82	57	7	14	20	1.62
3264033--3264112	34	2.4	34	87	4	108	56	7	15	21	1.63
3268102--3268442	41	8.2	41	81	3	326	25	19	19	35	1.96
3268102--3268444	127	2.8	124	82	4	359	25	19	19	34	1.96
3272369--3272584	85	2.5	84	84	3	279	25	22	19	32	1.97
3272369--3272584	43	5.1	42	84	1	252	25	22	19	32	1.97
3278868--3279062	37	5.3	36	87	4	248	40	18	18	22	1.91
3279110--3279866	55	13.8	54	79	5	577	31	17	22	28	1.97
3279091--3279849	110	6.9	110	80	4	717	31	17	22	28	1.97
3279091--3279867	165	4.7	164	79	5	699	31	17	22	28	1.97
3283394--3283476	22	3.8	22	69	10	53	22	21	30	25	1.99
3289188--3289635	44	10.3	44	84	6	572	33	22	6	37	1.79
3289796--3289964	60	2.8	59	83	3	203	32	18	13	35	1.89
3289929--3290337	59	6.9	58	79	7	288	30	21	11	36	1.89
3289909--3290337	118	3.6	118	84	5	442	30	21	11	36	1.89
3290001--3290345	59	5.8	59	85	4	464	31	21	11	35	1.89
3291623--3291660	20	1.9	20	88	0	58	31	34	13	21	1.91
3291753--3291804	19	2.7	19	100	0	104	34	26	21	17	1.95
3291688--3291849	84	1.9	83	82	6	202	31	22	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3296926--3297211	44	6.5	44	89	2	414	32	23	6	38	1.80
3297348--3297923	59	9.8	58	79	9	446	29	21	11	36	1.89
3297372--3297527	60	2.6	60	82	6	199	31	21	12	33	1.91
3297505--3297918	177	2.3	178	84	2	505	30	21	11	36	1.88
3297575--3297922	118	2.9	118	89	3	506	31	21	11	35	1.89
3297575--3297922	177	2.0	177	88	2	520	31	21	11	35	1.89
3303805--3303857	21	2.5	21	81	6	63	56	3	11	28	1.51
3309316--3309346	14	2.2	14	94	0	53	9	12	19	58	1.62
3311370--3311476	53	2.0	53	100	0	214	31	21	11	35	1.89
3316869--3316910	21	2.0	21	86	9	59	50	2	0	47	1.14

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