genome.fa.s8620.2.7.7.80.10.50.1000.15.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   55   56   57   58   59   60   61   62   63   64   

This is table  15  of  64  ( 7674 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)
2898525--2898572	24	2.0	24	95	0	87	43	8	29	18	1.79
2900636--2901067	116	3.7	116	79	7	421	38	13	20	27	1.90
2911998--2912031	17	2.0	17	100	0	68	35	17	5	41	1.74
2912932--2912959	2	14.0	2	100	0	56	0	50	0	50	1.00
2927891--2927992	1	102.0	1	68	0	60	84	0	14	0	0.68
2927885--2927987	7	14.3	7	86	13	138	83	0	15	0	0.70
2928832--2928877	24	1.9	24	86	0	65	43	26	6	23	1.78
2929018--2929489	136	3.5	134	83	4	570	38	17	18	25	1.93
2930277--2930453	81	2.2	81	87	2	257	27	20	10	41	1.86
2930590--2931089	54	9.3	54	87	0	644	32	19	15	32	1.93
2936072--2936293	81	2.7	81	82	3	257	25	21	12	40	1.89
2936430--2936743	54	5.8	54	88	0	441	33	18	16	31	1.93
2942044--2942076	12	2.8	12	90	4	50	90	6	0	3	0.52
2942044--2942075	13	2.5	13	94	0	55	93	3	0	3	0.40
2956823--2956867	20	2.2	20	92	0	81	28	4	8	57	1.48
2956810--2956875	34	2.0	33	81	3	78	24	10	7	57	1.58
2960570--2960829	55	4.7	55	85	2	344	33	8	19	38	1.81
2960570--2960829	109	2.4	110	88	0	387	33	8	19	38	1.81
2966879--2966939	18	3.6	18	78	13	83	27	13	22	36	1.92
2966870--2966939	33	2.1	33	100	0	140	31	12	20	35	1.90
2966870--2966921	15	3.3	15	75	15	59	34	13	17	34	1.89
2966985--2967058	19	3.7	19	74	12	67	41	16	16	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2967444--2967687	55	4.4	54	90	2	371	34	9	19	36	1.85
2967862--2967901	18	2.2	18	86	13	55	25	10	22	42	1.84
2968252--2968285	15	2.2	16	89	5	52	14	11	14	58	1.63
2981487--2981621	52	2.6	52	93	0	234	25	16	29	28	1.97
2986035--2986061	14	1.9	14	100	0	54	66	3	7	22	1.33
2987036--2987142	42	2.5	42	75	1	106	29	17	19	32	1.95
2988857--2988914	2	29.0	2	100	0	116	50	0	0	50	1.00
2991210--2991387	50	3.6	50	84	1	205	25	14	17	41	1.88
2992684--2992718	18	1.9	18	94	0	61	28	17	25	28	1.97
2992726--2992800	20	3.8	20	98	0	141	34	14	20	30	1.92
2998618--2998680	20	3.0	22	81	6	85	22	14	15	47	1.81
2998688--2998768	35	2.3	35	91	0	126	28	20	18	32	1.97
3000436--3000515	19	4.2	19	90	0	115	30	25	23	21	1.99
3002889--3002956	35	1.9	35	90	0	109	33	10	17	38	1.84
3007031--3007086	26	2.2	26	87	3	78	25	1	0	73	0.93
3008260--3008422	59	2.7	59	92	2	265	30	14	26	28	1.95
3008435--3008632	74	2.7	74	91	4	305	38	13	16	31	1.87
3008429--3009241	36	21.9	35	65	18	124	38	13	17	31	1.88
3008429--3008646	73	3.0	72	87	8	300	38	12	16	33	1.86
3008653--3009245	75	7.9	74	82	4	717	38	13	17	30	1.88
3008653--3009227	149	3.9	148	87	4	798	38	13	17	30	1.88
3012036--3012370	29	11.6	29	87	1	449	43	20	6	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3012965--3013025	32	1.9	32	86	6	88	42	11	18	27	1.84
3019616--3019950	29	11.6	29	83	1	404	42	19	6	31	1.76
3019585--3020009	87	4.9	87	82	5	369	44	19	6	30	1.75
3020544--3020606	33	1.9	32	90	3	99	42	11	19	26	1.84
3027229--3027661	29	15.1	29	85	1	534	43	17	6	32	1.74
3032136--3032166	16	1.9	16	93	0	53	74	0	0	25	0.82
3032580--3032616	16	2.3	16	85	0	56	16	8	0	75	1.02
3034442--3034472	16	1.9	16	100	0	62	70	0	0	29	0.87
3034886--3034924	17	2.3	17	82	8	53	15	7	0	76	0.99
3037176--3037214	17	2.3	17	82	8	53	15	7	0	76	0.99
3039039--3039069	16	1.9	16	93	0	53	74	0	0	25	0.82
3041343--3041373	16	1.9	16	93	0	53	74	0	0	25	0.82
3041783--3041821	17	2.3	17	86	0	60	15	7	0	76	0.99
3044049--3044109	18	3.4	18	95	0	104	16	36	27	19	1.93
3046841--3046920	38	2.1	38	95	2	144	53	5	18	22	1.63
3047326--3047416	23	4.0	23	86	2	130	32	19	4	42	1.71
3050342--3050391	19	2.6	19	78	12	50	42	0	10	48	1.37
3052115--3052429	157	2.0	157	100	0	630	27	11	23	38	1.89
3062301--3062483	48	3.8	48	79	6	174	22	18	24	34	1.96
3062595--3062739	28	5.0	28	84	5	159	45	5	19	29	1.73
3066946--3066972	13	2.1	13	100	0	54	48	7	0	44	1.31
3073340--3073401	24	2.5	25	89	7	99	41	22	16	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3073340--3073415	24	3.1	24	88	3	98	42	23	17	17	1.89
3073655--3073771	31	3.8	31	81	2	137	44	10	3	41	1.55
3076893--3076960	29	2.4	27	79	13	75	38	1	4	55	1.29
3076967--3077003	18	2.0	20	89	10	60	43	2	2	51	1.30
3078289--3078346	29	2.0	29	90	6	91	51	3	8	36	1.49
3078377--3078432	28	2.0	28	89	0	85	46	5	8	39	1.58
3078384--3078452	28	2.5	28	80	2	77	50	10	7	31	1.63
3078604--3078663	22	2.7	22	92	0	93	28	18	38	15	1.91
3079887--3080195	131	2.4	131	91	1	485	40	15	13	31	1.85
3084384--3084423	22	1.9	21	85	10	55	32	10	5	52	1.56
3085123--3085154	2	16.0	2	100	0	64	50	0	0	50	1.00
3086303--3086344	17	2.5	17	100	0	84	23	28	11	35	1.91
3086929--3086958	3	9.7	3	92	7	51	66	3	0	30	1.07
3092116--3092301	92	2.0	93	98	1	365	25	15	27	31	1.95
3092334--3092411	3	25.3	3	81	5	84	58	1	0	39	1.06
3092568--3093101	76	7.0	76	94	1	921	34	21	21	22	1.97
3092568--3093101	153	3.5	152	94	1	930	34	21	21	22	1.97
3092568--3093101	229	2.3	226	94	1	935	34	21	21	22	1.97
3093760--3093807	22	2.2	22	92	0	78	37	14	12	35	1.84
3094170--3094319	51	2.9	52	82	6	189	22	22	16	38	1.92
3096441--3096725	94	3.1	91	87	2	399	36	21	13	29	1.91
3098885--3098928	2	22.0	2	100	0	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3103161--3103232	18	3.7	18	74	16	56	61	4	5	29	1.38
3103161--3103229	19	3.5	19	71	19	61	62	4	5	27	1.37
3103179--3103241	18	3.2	19	76	17	58	65	1	4	28	1.22
3105478--3105543	3	21.3	3	78	6	60	57	1	0	40	1.08
3106951--3106979	15	1.9	15	100	0	58	31	6	6	55	1.53
3110637--3110712	39	1.9	39	89	0	116	17	14	43	25	1.86
3110963--3111308	139	2.5	139	86	2	464	26	19	14	39	1.90
3111237--3111556	118	2.6	123	85	7	415	24	20	15	39	1.91
3111721--3112274	76	7.4	76	92	1	805	31	20	22	24	1.98
3112277--3112649	163	2.3	164	91	3	599	38	11	15	34	1.84
3115749--3115920	93	1.8	94	96	1	319	31	20	18	30	1.96
3115831--3116149	114	2.8	114	92	0	496	32	20	14	32	1.93
3116059--3116242	94	2.0	93	92	1	305	34	20	15	29	1.93
3120316--3120371	27	2.1	27	89	0	85	60	5	12	21	1.51
3120431--3120470	15	2.6	15	88	4	53	62	10	15	12	1.54
3123298--3123343	2	24.0	2	86	8	69	45	0	0	54	0.99
3123290--3123331	22	1.9	22	90	0	66	45	0	0	54	0.99
3123301--3123348	16	3.1	15	85	8	69	41	0	0	58	0.98
3123299--3123352	18	3.1	18	81	13	76	40	0	0	59	0.98
3123359--3123387	14	2.1	14	100	0	58	72	0	0	27	0.85
3124417--3124493	39	2.0	39	89	0	118	16	16	42	23	1.88
3125286--3125331	24	1.9	24	82	8	58	28	30	10	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3128046--3128152	23	4.7	23	82	2	110	23	16	25	34	1.95
3128241--3128276	18	1.9	19	88	5	56	58	2	2	36	1.27
3133372--3133426	19	2.9	19	74	15	60	65	1	9	23	1.31
3133507--3133655	26	5.7	26	70	18	78	65	1	3	30	1.17
3133521--3133570	11	4.2	12	80	12	59	70	0	2	28	0.99
3133508--3133568	12	4.6	14	72	22	51	68	0	3	27	1.05
3133525--3133588	24	2.7	24	75	18	62	64	0	4	31	1.14
3133525--3133593	22	3.0	22	81	12	77	65	0	4	30	1.12
3134283--3134384	37	2.8	37	89	0	141	30	14	14	40	1.86
3135137--3136412	106	12.0	106	91	0	1931	22	18	24	34	1.96

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   55   56   57   58   59   60   61   62   63   64