genome.fa.s7999.2.7.7.80.10.50.1000.12.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  12  of  50  ( 5918 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)
2970381--2970423	19	2.4	19	84	7	54	23	27	20	27	1.99
2977795--2977841	22	2.1	22	84	7	60	57	12	2	27	1.47
2983883--2984016	56	2.4	54	88	3	196	35	20	10	33	1.87
2984273--2984325	22	2.6	21	80	19	67	28	16	16	37	1.91
2984390--2984457	21	3.4	21	80	15	81	35	14	14	35	1.87
2986010--2986040	15	2.1	15	93	0	53	41	0	0	58	0.98
2995917--2995949	9	3.3	10	87	12	50	87	0	9	3	0.63
3011285--3011380	29	3.2	29	82	5	120	38	10	12	38	1.78
3011477--3011554	28	2.6	31	82	11	92	33	10	14	42	1.79
3011682--3011729	15	3.3	14	82	14	53	58	2	2	37	1.22
3013542--3013585	16	2.8	16	82	3	54	43	4	0	52	1.22
3014208--3014257	25	1.9	25	84	8	64	26	20	10	44	1.82
3021553--3021892	114	2.9	114	87	6	477	33	19	13	34	1.90
3021553--3021901	119	3.0	119	88	6	525	32	18	13	34	1.90
3027462--3027513	24	2.2	24	85	0	68	32	15	23	28	1.95
3033257--3033295	20	2.0	20	90	5	62	25	12	25	35	1.92
3033223--3033320	44	2.2	44	85	0	133	29	14	21	34	1.93
3033809--3033842	18	1.9	18	94	5	61	50	5	5	38	1.51
3036271--3036320	20	2.4	21	83	3	66	30	18	18	34	1.94
3042136--3042191	24	2.2	24	78	9	58	37	12	17	32	1.88
3042236--3042289	21	2.6	21	93	0	90	24	18	24	33	1.97
3042404--3042689	142	2.0	143	93	0	484	38	6	13	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049290--3049322	16	2.0	17	88	5	50	21	9	30	39	1.84
3049821--3049858	18	2.1	18	85	9	51	26	5	21	47	1.71
3050955--3051189	42	5.5	41	71	14	147	49	5	20	23	1.71
3052588--3052629	22	1.9	22	95	0	75	26	33	11	28	1.92
3055779--3056364	190	3.1	191	86	5	782	39	4	9	45	1.58
3059381--3059418	15	2.5	15	100	0	76	21	5	26	47	1.71
3077386--3077432	18	2.6	18	70	12	51	48	2	2	46	1.25
3077463--3077525	11	5.9	11	69	14	51	39	1	3	55	1.25
3079976--3080122	78	1.9	79	85	2	206	36	12	14	35	1.85
3079976--3080135	80	2.0	78	84	2	203	37	12	15	34	1.85
3080206--3080237	7	4.6	7	100	0	64	15	0	12	71	1.14
3095624--3095705	2	42.5	2	76	11	73	48	2	1	47	1.22
3096720--3096854	60	2.3	58	81	10	141	33	27	21	17	1.96
3104016--3104105	46	2.0	46	88	4	137	22	23	11	43	1.85
3104327--3105863	55	28.0	55	91	0	2398	35	17	11	36	1.86
3106710--3106772	28	2.2	28	97	0	117	22	23	3	50	1.63
3108166--3108274	2	57.5	2	68	20	65	41	0	4	53	1.28
3108166--3108237	30	2.3	29	84	11	90	40	1	2	55	1.23
3108162--3108269	21	5.1	21	76	10	96	39	0	4	54	1.27
3108302--3108366	16	4.1	17	70	18	59	32	0	1	66	1.01
3110018--3110923	449	2.0	452	88	4	1337	35	19	8	36	1.82
3114122--3114158	13	2.6	15	91	8	60	45	2	0	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3115381--3115432	26	2.1	25	82	13	63	55	0	5	38	1.24
3117268--3117326	29	2.0	29	100	0	118	61	13	0	25	1.33
3119353--3119426	37	2.0	37	97	0	139	27	12	13	47	1.78
3139858--3139883	10	2.6	10	100	0	52	23	7	0	69	1.14
3140840--3140898	17	3.4	17	81	6	66	37	8	15	38	1.78
3140998--3141036	20	2.0	20	89	0	60	41	20	7	30	1.80
3147685--3147723	20	2.0	20	89	0	60	33	23	10	33	1.88
3158212--3158240	11	2.6	11	100	0	58	13	6	0	79	0.93
3159200--3159258	17	3.4	17	81	6	66	37	8	15	38	1.78
3160205--3160243	20	2.0	20	89	0	60	33	23	10	33	1.88
3170804--3170863	30	2.0	30	83	0	75	23	13	25	38	1.91
3178381--3178494	23	5.3	23	73	15	93	24	15	28	31	1.96
3178392--3178431	19	2.1	19	100	0	80	30	12	30	27	1.93
3185966--3186009	21	2.0	22	86	4	63	25	20	29	25	1.99
3186477--3186591	44	2.6	44	97	0	221	28	21	8	40	1.83
3186666--3186745	40	2.0	40	87	0	115	22	26	25	26	2.00
3193495--3193534	2	20.0	2	100	0	80	50	0	0	50	1.00
3198155--3198231	23	3.3	23	75	7	75	25	19	22	32	1.97
3209359--3209460	29	3.6	29	84	6	111	41	22	3	32	1.72
3209497--3209521	13	1.9	13	100	0	50	12	24	48	16	1.79
3209469--3209520	18	2.9	18	94	2	88	13	23	46	17	1.83
3211680--3211718	19	2.1	19	86	13	55	58	5	5	30	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212127--3212170	20	2.1	21	83	8	54	52	13	2	31	1.53
3213007--3213161	29	5.4	29	81	8	147	40	24	3	30	1.73
3213027--3213162	29	4.7	29	86	0	182	39	25	4	30	1.75
3213162--3213266	18	6.1	17	84	7	131	15	22	43	18	1.87
3215457--3215495	19	2.1	19	86	13	55	58	5	5	30	1.41
3216812--3216992	29	6.4	30	78	10	132	38	22	4	33	1.76
3216853--3216992	54	2.5	55	84	4	174	37	22	5	34	1.76
3219944--3219989	20	2.3	20	96	3	85	21	30	26	21	1.99
3220120--3220183	17	4.1	17	75	19	75	6	32	32	28	1.82
3220120--3220180	29	2.1	29	96	0	113	6	31	32	29	1.83
3220908--3220955	24	2.0	23	84	4	60	43	2	0	54	1.12
3224960--3224993	10	3.5	10	84	8	52	20	29	29	20	1.98
3224999--3225026	14	2.0	14	100	0	56	21	57	21	0	1.41
3235111--3235144	16	2.1	16	94	0	59	47	23	11	17	1.81
3235266--3235292	13	2.1	13	100	0	54	44	0	0	55	0.99
3236308--3236345	17	2.2	17	90	0	58	23	31	28	15	1.96
3237573--3237625	3	17.3	3	96	3	97	67	0	32	0	0.91
3240456--3240628	4	42.0	4	71	12	82	28	1	5	64	1.24
3240427--3240508	30	2.8	30	82	10	89	25	0	6	68	1.13
3240486--3240597	19	5.8	19	76	14	104	31	2	4	61	1.30
3241465--3241533	6	11.7	6	75	3	50	30	20	1	47	1.59
3241694--3241777	23	3.7	23	76	6	82	38	28	14	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3241692--3241859	21	7.8	21	70	9	106	35	26	15	22	1.94
3241692--3241780	44	2.0	44	88	0	133	37	26	14	21	1.92
3242170--3242207	15	2.4	16	86	4	60	44	10	7	36	1.68
3242803--3242854	21	2.5	21	75	12	54	28	23	13	34	1.92
3246157--3246205	23	2.1	23	84	0	62	44	22	12	20	1.84
3246455--3246530	31	2.5	30	77	8	73	28	18	10	42	1.83
3247673--3247710	2	19.0	2	100	0	76	50	0	0	50	1.00
3249573--3249615	19	2.3	19	91	0	68	27	18	23	30	1.98
3255118--3255157	21	2.0	20	90	5	62	37	17	15	30	1.90
3269805--3269848	23	1.9	23	95	0	79	29	11	11	47	1.74
3278060--3278096	20	1.9	19	89	10	58	45	10	24	18	1.81
3282388--3283498	279	4.0	279	90	2	1744	40	10	7	41	1.66
3288011--3288050	20	2.1	18	86	13	53	30	7	15	47	1.72
3298159--3300593	84	29.2	84	75	6	1634	34	16	18	30	1.93
3297988--3301353	252	13.5	252	73	8	1946	34	16	19	30	1.94
3298206--3301353	168	18.8	168	74	8	1858	34	16	19	30	1.94
3300604--3300917	84	3.8	84	82	3	323	33	15	21	29	1.94
3300908--3300947	18	2.2	18	100	0	80	22	32	0	45	1.53
3300740--3301091	186	1.9	186	79	0	398	31	14	20	32	1.93
3300926--3301353	84	5.1	83	76	6	322	30	13	23	32	1.93
3302373--3302540	89	1.9	90	92	3	286	46	5	10	37	1.62
3303165--3303704	84	6.5	84	78	7	458	32	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3302909--3303402	267	1.9	263	81	3	605	32	17	19	30	1.95
3303165--3303704	249	2.2	251	79	6	578	32	16	20	30	1.95
3304586--3304640	24	2.3	23	84	9	67	45	18	18	18	1.86
3304597--3304645	24	2.0	26	88	8	75	42	16	20	20	1.89
3306816--3307437	83	7.7	83	76	12	266	32	14	22	30	1.93
3306967--3307180	76	2.9	73	79	11	204	34	13	21	30	1.92
3307104--3307586	166	2.9	166	78	8	389	33	14	20	30	1.93
3307760--3308235	83	5.7	80	74	9	357	32	15	22	29	1.94
3307787--3308235	170	2.7	167	82	5	507	32	15	21	30	1.94
3309656--3309752	29	3.3	29	68	11	70	44	7	17	30	1.76

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