genome.fa.s1465.2.7.7.80.10.50.1000.15.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  15  of  55  ( 6520 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)
2934806--2934865	19	2.9	20	85	9	68	16	26	35	21	1.95
2938665--2938704	21	1.9	21	85	10	55	35	10	2	52	1.48
2946955--2946988	15	2.3	15	100	0	68	29	32	23	14	1.94
2948589--2948650	22	2.7	22	85	9	72	43	1	1	53	1.20
2949291--2949631	131	2.6	130	87	2	513	40	17	9	31	1.83
2951181--2951256	38	2.1	38	85	9	104	56	7	5	30	1.50
2951458--2951494	2	18.5	2	100	0	74	51	0	0	48	1.00
2951673--2951705	2	17.5	2	87	12	52	54	0	0	45	0.99
2951755--2951797	18	2.5	17	85	7	61	67	2	4	25	1.22
2953086--2953616	106	5.0	106	93	0	855	21	18	24	35	1.96
2954477--2954553	36	2.1	38	87	4	113	35	14	23	27	1.93
2955039--2955074	18	2.0	18	88	0	54	44	30	8	16	1.77
2956137--2956197	10	5.8	10	78	21	63	0	14	8	77	0.99
2956137--2956194	20	2.8	21	85	15	93	0	15	6	77	0.97
2959650--2959681	9	3.4	10	87	12	50	81	0	0	18	0.70
2960733--2960812	40	2.0	40	86	9	112	56	7	5	31	1.49
2961024--2961052	2	14.5	2	100	0	58	51	0	0	48	1.00
2962727--2962991	44	6.0	44	90	0	395	39	11	22	26	1.88
2962802--2962876	25	3.2	25	62	27	65	40	13	20	26	1.89
2964989--2965041	27	1.9	28	85	11	74	47	5	0	47	1.26
2964983--2965056	27	2.8	26	76	13	73	51	4	0	44	1.20
2965087--2965134	16	2.9	17	75	15	55	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)
2965089--2965140	24	2.1	24	85	7	68	53	0	0	46	1.00
2965096--2965177	11	7.1	11	68	20	51	48	0	3	47	1.19
2965671--2965728	29	2.1	28	87	6	82	29	8	13	48	1.73
2965995--2966061	30	2.3	27	80	10	80	44	1	1	52	1.19
2966117--2966192	25	2.9	26	78	9	75	47	1	1	50	1.18
2966146--2966204	28	2.0	31	87	9	88	45	1	0	52	1.10
2968668--2968737	21	3.4	20	71	15	54	25	21	21	31	1.98
2969770--2969822	15	3.3	15	72	23	54	45	26	1	26	1.64
2975777--2976690	217	4.3	216	92	2	1448	50	8	12	29	1.68
2976773--2977064	2	147.0	2	64	19	87	44	4	4	45	1.44
2976894--2976962	31	2.2	31	84	0	84	43	7	5	43	1.56
2976958--2977062	17	6.3	17	73	10	65	44	0	3	50	1.26
2976958--2977062	9	11.6	9	69	19	67	44	0	3	50	1.26
2977067--2977130	7	9.1	7	88	6	58	20	0	31	48	1.50
2977156--2977228	20	3.4	20	77	17	74	39	5	1	53	1.33
2977169--2977215	25	2.0	24	87	8	69	38	6	2	53	1.39
2977294--2977366	2	34.0	2	74	17	58	43	5	2	47	1.40
2977294--2977343	20	2.4	22	80	19	70	42	4	2	52	1.31
2977173--2977753	18	31.8	18	66	19	138	43	7	4	43	1.55
2977187--2977350	33	4.6	37	73	20	129	41	7	4	45	1.55
2977450--2977784	51	6.4	52	77	10	324	44	7	5	42	1.56
2977448--2977598	71	2.2	69	86	2	203	46	6	4	42	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2977619--2977740	58	2.1	58	89	3	192	43	7	6	42	1.58
2977574--2977785	109	1.9	110	89	2	329	44	7	6	41	1.57
2977845--2977985	60	2.3	61	85	4	178	48	5	9	36	1.59
2978180--2978206	11	2.5	11	100	0	54	7	18	11	62	1.50
2978191--2978511	112	2.9	112	87	4	450	30	27	5	36	1.81
2978751--2978823	17	4.1	17	78	10	67	47	39	1	10	1.47
2978794--2978883	7	13.4	7	78	8	98	46	38	0	14	1.45
2978794--2978883	20	4.5	21	80	6	107	46	38	0	14	1.45
2978783--2978887	27	4.0	27	76	12	105	46	38	0	15	1.46
2979113--2979146	2	17.0	2	100	0	68	50	0	0	50	1.00
2979148--2979485	31	11.0	31	86	0	410	24	4	21	49	1.68
2980203--2980258	21	2.7	21	97	0	103	17	19	41	21	1.91
2980484--2980522	21	1.9	21	89	5	62	48	10	7	33	1.66
2983573--2983627	20	2.8	20	91	0	92	29	20	34	16	1.94
2983689--2983748	21	2.9	21	100	0	120	18	20	41	20	1.90
2983892--2984314	31	13.7	31	84	2	519	24	3	21	50	1.64
2983888--2984302	93	4.5	93	87	1	582	24	3	21	50	1.64
2986523--2986568	20	2.3	20	96	0	83	28	0	4	67	1.10
2986658--2986718	20	3.0	20	85	0	77	11	16	16	55	1.68
2987441--2987472	16	2.0	17	88	11	50	56	3	0	40	1.15
2987539--2987572	17	2.1	17	94	5	61	50	5	0	44	1.26
2990453--2990495	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2991422--2991454	14	2.4	14	94	0	57	33	6	30	30	1.82
2993201--2993239	20	1.9	21	89	5	62	17	15	28	38	1.91
2995667--2995704	2	19.5	2	94	5	69	50	0	0	50	1.00
2997464--2997499	16	2.2	17	90	5	56	58	5	0	36	1.22
3001378--3001441	22	2.9	22	85	0	92	34	18	21	25	1.96
3009298--3009327	10	2.8	11	90	10	53	20	20	6	53	1.67
3013448--3013685	103	2.3	101	82	6	284	31	18	10	39	1.84
3013804--3013904	37	2.8	34	77	8	94	26	17	14	40	1.89
3013900--3013930	16	1.9	16	93	0	53	80	19	0	0	0.71
3013949--3014027	22	3.2	22	69	24	68	27	18	13	39	1.89
3013927--3014027	52	1.9	52	97	0	193	28	17	13	39	1.88
3013968--3014282	67	4.7	67	95	1	549	29	18	13	38	1.89
3014285--3014682	134	3.0	133	84	4	514	27	29	16	26	1.97
3014984--3015021	18	2.1	18	100	0	76	28	5	34	31	1.80
3019176--3019242	20	3.3	20	83	8	75	28	28	14	28	1.96
3030540--3030652	37	3.1	37	88	0	163	42	11	7	38	1.70
3030970--3031090	64	1.9	64	93	1	208	33	8	0	57	1.28
3031091--3031134	19	2.4	18	81	7	52	22	0	4	72	1.02
3030970--3031090	63	1.9	63	91	5	192	33	8	0	57	1.28
3031434--3031627	20	9.5	20	79	5	183	31	29	15	23	1.95
3031447--3031627	41	4.4	41	87	2	265	32	29	15	23	1.95
3031647--3031695	20	2.5	20	96	0	89	16	12	24	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3031686--3031735	20	2.5	20	90	0	82	24	18	22	36	1.95
3031884--3031913	8	3.8	8	100	0	60	50	10	0	40	1.36
3031872--3031913	12	3.5	12	86	0	57	50	9	0	40	1.35
3037302--3037339	20	1.9	20	88	0	58	13	26	39	21	1.89
3043957--3044009	13	3.9	13	85	7	70	77	5	15	1	1.04
3045058--3045119	32	1.9	32	86	0	88	29	16	22	32	1.95
3046457--3046568	37	3.0	37	94	0	188	40	13	13	33	1.83
3046990--3047028	20	2.0	20	85	10	53	33	2	0	64	1.08
3047119--3047187	3	23.0	3	100	0	138	33	0	0	66	0.92
3047318--3047365	3	16.7	3	91	8	82	31	0	0	68	0.90
3047555--3047614	26	2.3	26	82	8	68	10	13	5	71	1.28
3047600--3047639	18	2.2	18	86	8	55	17	7	0	75	1.03
3049751--3049796	16	2.8	17	83	6	58	32	0	2	65	1.05
3058524--3058557	17	2.0	17	94	0	59	2	0	26	70	1.01
3062282--3062848	112	5.1	113	89	5	836	46	13	14	25	1.81
3062720--3063174	182	2.5	182	93	0	748	43	13	16	27	1.85
3064197--3064265	26	2.8	24	81	18	72	33	0	0	66	0.92
3064198--3064265	3	22.3	3	80	16	54	32	0	0	67	0.91
3064733--3064831	32	3.1	32	76	15	87	29	3	1	66	1.13
3068526--3069511	110	9.0	110	91	0	1496	33	23	18	25	1.96
3069618--3070385	84	9.3	83	78	4	701	31	25	19	24	1.98
3069613--3070385	249	3.1	249	88	1	1097	31	25	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3069627--3070404	165	4.7	164	80	5	760	30	25	19	24	1.98
3070735--3070807	2	38.5	2	89	10	118	47	0	0	52	1.00
3071274--3071310	2	18.5	2	100	0	74	48	0	0	51	1.00
3071297--3071354	24	2.3	24	82	11	64	36	1	0	62	1.06
3073029--3073094	20	3.3	20	75	8	71	37	25	15	21	1.92
3073650--3073743	20	5.1	20	69	20	69	12	15	20	51	1.76
3073720--3073758	20	2.0	20	84	0	51	20	10	17	51	1.74
3075902--3076020	21	5.7	21	77	5	107	22	33	19	24	1.97
3075898--3076020	42	2.9	42	84	2	149	21	34	19	24	1.97
3077400--3077506	50	2.1	50	92	0	178	28	1	15	53	1.53

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