genome.fa.s8242.2.7.7.80.10.50.1000.14.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   
          65   66   67   68   69   70   71   72   73   

This is table  14  of  73  ( 8740 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)
2806683--2806729	18	2.6	18	93	0	76	19	25	17	38	1.92
2807037--2807197	77	2.1	79	83	4	202	45	6	8	39	1.60
2809474--2809514	20	2.0	20	85	0	55	70	4	9	14	1.30
2810555--2810612	29	2.0	29	86	6	82	29	24	13	32	1.94
2820375--2820405	5	6.4	5	92	7	55	80	0	19	0	0.71
2820375--2820405	14	2.1	15	94	5	55	80	0	19	0	0.71
2827757--2827791	16	2.3	15	90	9	54	60	0	5	34	1.21
2827965--2828003	17	2.3	17	86	0	51	53	2	0	43	1.14
2833215--2833244	10	3.0	10	100	0	60	20	40	30	10	1.85
2833226--2833267	17	2.5	17	88	0	57	28	30	26	14	1.95
2850011--2850064	21	2.6	21	96	0	99	29	11	35	24	1.90
2852707--2852835	5	25.8	5	99	0	249	20	18	20	41	1.91
2860778--2860839	21	2.8	22	76	18	58	38	29	16	16	1.90
2861141--2861252	5	22.4	5	98	0	125	19	9	19	50	1.75
2868297--2868458	2	82.0	2	90	2	256	1	1	45	50	1.23
2868590--2868699	4	27.5	4	71	7	53	40	20	7	30	1.80
2876099--2876131	17	2.0	17	88	5	50	33	12	21	33	1.90
2882454--2882521	17	3.9	17	80	3	73	42	7	13	36	1.72
2883008--2883079	17	4.2	17	82	3	81	41	6	9	41	1.65
2883011--2883078	34	2.0	35	88	2	102	42	7	7	42	1.60
2883011--2883113	52	2.0	52	80	0	116	41	7	11	38	1.70
2896686--2896820	33	4.1	33	96	0	234	37	11	15	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2898178--2898242	20	3.2	20	71	16	62	29	13	18	38	1.89
2899088--2899189	26	3.7	26	76	14	87	44	11	0	43	1.47
2899110--2899158	14	2.9	17	72	22	50	42	14	2	40	1.57
2899110--2899164	19	3.2	18	75	17	55	41	12	1	43	1.53
2899148--2899240	26	3.5	26	77	14	82	44	11	0	44	1.41
2899194--2899259	29	2.3	29	94	0	114	45	18	0	36	1.49
2899210--2899260	14	3.6	14	76	23	61	45	17	0	37	1.49
2899361--2899424	2	32.0	2	96	0	119	50	0	1	48	1.10
2902080--2902120	20	2.0	20	95	0	73	4	21	14	58	1.55
2905330--2905725	198	2.0	198	98	1	776	35	25	16	22	1.95
2911575--2911669	23	4.1	25	66	18	78	52	1	2	44	1.19
2912037--2912139	51	2.0	51	98	0	197	41	13	2	41	1.59
2912401--2912459	19	3.3	18	75	20	61	52	0	1	45	1.10
2912437--2912529	23	4.0	23	77	7	80	54	2	3	39	1.28
2912434--2912552	23	5.2	23	74	10	75	54	1	2	41	1.24
2913224--2913264	16	2.7	15	84	3	55	78	0	0	21	0.76
2913224--2913270	23	2.0	25	83	8	62	74	0	4	21	0.99
2914154--2914267	51	2.2	51	92	0	183	20	29	29	20	1.97
2918799--2918826	3	9.3	3	100	0	56	35	0	64	0	0.94
2923643--2924025	78	5.0	77	76	7	312	37	9	17	35	1.81
2924184--2924222	20	2.0	20	84	0	51	30	12	12	43	1.81
2924450--2924845	98	4.0	99	85	2	490	39	11	13	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2925435--2925910	263	1.8	263	81	5	602	34	15	10	40	1.81
2937303--2937762	212	2.2	211	90	2	701	41	8	18	31	1.80
2939593--2939898	151	2.0	151	99	0	603	31	20	20	27	1.97
2939970--2940080	3	37.0	3	100	0	222	33	0	66	0	0.92
2940084--2940263	90	2.0	90	98	0	351	43	11	21	23	1.85
2940902--2941068	56	3.0	56	83	2	210	40	14	15	29	1.87
2940908--2941091	56	3.3	55	82	3	197	42	13	14	29	1.84
2942126--2942174	14	3.5	14	97	0	89	18	8	24	48	1.75
2943442--2943492	15	3.4	15	86	0	66	5	15	64	13	1.46
2953845--2953925	27	3.0	27	98	0	153	18	38	3	39	1.69
2956374--2956422	20	2.5	19	77	6	62	57	10	16	16	1.65
2956120--2956681	223	2.5	224	92	1	923	46	13	15	25	1.82
2956120--2956681	111	5.0	112	93	0	914	46	13	15	25	1.82
2956554--2957007	182	2.5	182	91	0	703	43	13	15	27	1.85
2957628--2957675	23	2.1	23	92	0	78	37	18	8	35	1.81
2968755--2968812	29	2.0	29	100	0	116	31	17	24	27	1.97
2969755--2969836	42	2.0	42	90	0	128	28	21	17	32	1.96
2969849--2970015	80	2.1	80	93	0	280	31	18	20	28	1.97
2969970--2970055	42	2.1	40	86	4	118	25	16	23	34	1.95
2970426--2970544	53	2.2	53	89	5	188	30	22	26	20	1.98
2974830--2975067	54	4.4	54	82	3	275	33	16	18	30	1.94
2974832--2975067	108	2.2	108	82	1	303	33	16	18	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2992169--2992198	15	2.0	15	100	0	60	13	26	46	13	1.80
2994404--2994457	27	2.0	27	96	0	99	35	18	20	25	1.95
2994779--2994833	5	10.8	5	94	2	83	78	18	3	0	0.90
3003486--3003540	8	6.5	8	81	12	58	14	32	27	25	1.95
3003742--3003791	24	2.1	24	100	0	100	22	24	20	34	1.97
3006050--3006188	24	5.8	24	86	3	181	27	14	19	38	1.90
3006066--3006128	12	5.2	12	70	14	58	26	12	22	38	1.90
3006308--3006402	43	2.2	43	96	3	174	16	10	35	36	1.84
3007855--3007993	73	1.9	74	86	2	201	31	10	15	41	1.82
3008186--3008270	42	2.0	41	84	2	107	28	16	21	34	1.95
3008694--3008899	43	4.8	42	78	7	166	33	19	14	33	1.91
3008781--3008900	42	2.8	42	83	5	152	30	20	15	34	1.93
3014455--3014487	17	1.9	17	88	11	50	57	3	6	33	1.38
3014977--3015015	10	3.8	10	83	6	51	5	30	0	64	1.15
3015477--3015537	21	3.0	21	64	22	58	24	19	21	34	1.96
3017675--3017707	16	2.1	16	88	11	50	54	0	3	42	1.15
3019629--3019697	33	2.1	33	94	0	120	39	17	14	28	1.89
3024886--3024938	2	26.5	2	100	0	106	49	0	0	50	1.00
3025349--3025414	33	2.0	33	84	0	87	31	27	24	16	1.96
3025381--3025585	39	5.2	39	86	2	241	32	21	28	16	1.95
3034336--3034466	2	65.5	2	98	0	253	51	48	0	0	1.00
3034815--3034906	39	2.4	39	83	0	103	35	22	23	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3038831--3038902	24	3.0	24	77	2	74	51	15	11	22	1.74
3041365--3041399	7	4.7	7	89	10	52	25	28	31	14	1.95
3041356--3041399	15	2.8	15	89	6	61	25	29	31	13	1.94
3041412--3041448	13	2.8	13	87	0	56	16	21	45	16	1.84
3041379--3041448	31	2.2	33	87	5	99	20	22	41	15	1.90
3046303--3046356	18	3.0	18	80	0	63	29	16	27	25	1.97
3048832--3048898	21	3.2	21	82	0	80	29	26	7	35	1.84
3054757--3054832	22	3.6	21	75	18	70	26	18	30	25	1.98
3054753--3054812	22	2.8	22	78	14	72	26	20	28	25	1.99
3058064--3058096	16	2.0	17	94	5	59	30	3	0	66	1.06
3072381--3072435	20	2.8	19	76	13	58	1	14	5	78	1.02
3072392--3072440	14	3.5	14	94	5	82	0	16	4	79	0.88
3074210--3074248	15	2.8	15	81	18	57	7	5	25	61	1.44
3074210--3074242	13	2.4	14	90	10	50	6	6	24	63	1.40
3078656--3078779	62	2.0	62	95	0	221	43	6	13	36	1.70
3080352--3089190	4	2265.8	4	86	7	12567	49	25	1	24	1.57
3094520--3094563	17	2.5	17	81	3	52	38	0	2	59	1.10
3094505--3094550	24	1.9	23	82	8	56	36	0	2	60	1.09
3094977--3095055	31	2.5	31	83	0	104	21	10	16	51	1.73
3095857--3096394	268	2.0	271	98	1	1046	27	15	15	41	1.88
3096682--3096742	31	2.0	31	84	9	81	54	14	8	22	1.67
3096690--3096767	31	2.5	31	81	8	95	52	12	10	24	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3097527--3097563	2	18.5	2	94	0	65	51	0	2	45	1.15
3097856--3097905	17	3.1	17	68	26	54	20	6	22	52	1.68
3099053--3099583	264	2.0	262	94	5	940	36	12	8	42	1.73
3099721--3099745	11	2.3	11	100	0	50	16	0	0	84	0.63
3107357--3107418	25	2.6	23	82	12	72	45	0	1	53	1.10
3107461--3107532	32	2.2	32	81	11	85	48	2	1	47	1.25
3107611--3107640	15	2.0	15	100	0	60	60	0	0	40	0.97
3107507--3107641	60	2.2	59	80	10	148	50	2	2	43	1.32
3110770--3110847	21	3.7	21	91	0	129	14	42	17	25	1.87
3113065--3113135	21	3.2	21	80	8	79	63	19	1	15	1.38

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   
          65   66   67   68   69   70   71   72   73