genome.fa.s7782.2.7.7.80.10.50.1000.15.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  15  of  19  ( 2174 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)
3102271--3102643	177	2.1	178	96	1	694	45	10	21	23	1.82
3108651--3108677	2	13.5	2	100	0	54	48	0	0	51	1.00
3110149--3110237	20	4.0	22	72	25	64	30	3	4	61	1.32
3110574--3110606	18	1.9	18	88	11	52	48	0	0	51	1.00
3112735--3112767	16	2.1	16	94	5	59	18	9	6	66	1.40
3114143--3114192	15	3.3	15	73	15	50	28	6	0	66	1.15
3114590--3114622	18	1.9	18	88	11	52	48	0	0	51	1.00
3117425--3117648	114	2.0	114	91	0	367	34	16	19	30	1.93
3120197--3120251	22	2.5	22	90	0	92	34	9	14	41	1.77
3120924--3121684	76	10.0	76	96	0	1285	23	19	20	35	1.96
3120924--3121684	227	3.3	227	94	2	1303	23	19	20	35	1.96
3120924--3121684	303	2.5	303	93	2	1285	23	19	20	35	1.96
3123318--3123367	15	3.3	15	73	15	50	28	6	0	66	1.15
3123457--3123489	4	8.0	4	96	3	57	24	3	0	72	0.98
3123776--3123808	18	1.9	18	88	11	52	48	0	0	51	1.00
3125589--3125618	2	15.5	2	93	6	53	50	0	0	50	1.00
3125560--3125615	30	1.9	28	82	13	69	46	0	1	51	1.11
3128881--3128920	21	1.9	21	89	0	62	10	25	40	25	1.86
3128901--3128952	23	2.3	23	80	6	72	17	21	40	21	1.91
3139746--3139801	22	2.7	21	83	10	62	30	23	17	28	1.97
3141328--3141371	21	2.1	21	86	0	61	9	36	15	38	1.80
3142401--3142439	19	2.1	19	95	0	69	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142338--3142546	65	3.2	63	81	7	197	30	25	16	27	1.97
3145281--3145324	18	2.5	17	85	7	52	25	2	2	70	1.10
3149609--3149793	95	2.0	94	88	3	273	31	17	17	32	1.94
3151175--3151511	36	9.4	36	74	13	286	28	18	10	42	1.84
3151235--3151397	80	2.0	80	95	0	290	28	19	11	41	1.85
3151271--3151397	44	3.1	43	72	17	142	28	18	11	40	1.86
3151338--3151564	65	3.4	63	73	14	224	25	19	11	42	1.85
3151341--3151712	135	2.7	134	90	3	541	26	19	10	43	1.84
3151524--3151606	36	2.3	36	87	0	121	25	18	10	45	1.81
3152217--3152262	2	23.5	2	95	4	85	50	0	0	50	1.00
3153489--3153546	13	4.5	13	76	8	55	15	12	0	72	1.12
3153466--3153516	18	2.8	17	80	19	59	17	7	1	72	1.18
3153671--3153709	9	4.4	9	87	6	62	20	2	0	76	0.90
3153672--3153722	26	2.0	26	88	7	77	17	7	0	74	1.05
3153671--3153709	17	2.2	18	90	4	62	20	2	0	76	0.90
3156234--3156353	53	2.3	53	89	0	177	23	20	14	42	1.88
3157675--3157705	14	2.2	14	100	0	62	32	0	38	29	1.57
3160149--3160249	23	4.3	23	80	10	125	22	18	25	32	1.97
3160168--3160271	46	2.2	45	79	12	113	25	19	24	31	1.98
3163700--3164007	45	6.9	44	77	8	277	31	23	22	23	1.99
3163699--3164001	90	3.4	90	83	6	382	31	23	22	23	1.99
3164229--3164289	9	7.2	8	83	9	54	39	0	3	57	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3164231--3164288	21	2.8	20	84	7	80	41	0	3	55	1.17
3164238--3164292	9	6.2	9	80	19	71	41	0	3	54	1.18
3164230--3164286	7	8.1	7	78	21	66	40	0	3	56	1.17
3164335--3164385	21	2.5	21	84	6	61	43	0	0	56	0.99
3164351--3164381	14	2.2	14	94	0	53	38	0	0	61	0.96
3165773--3165812	17	2.4	17	91	0	62	20	2	0	77	0.88
3165774--3165812	13	3.1	13	85	3	53	20	2	0	76	0.90
3174532--3174639	54	2.0	54	96	0	198	37	11	12	39	1.78
3180350--3180418	21	3.2	21	66	18	61	43	10	10	36	1.72
3180355--3180439	43	2.0	43	100	0	170	44	9	10	35	1.71
3181440--3181602	88	1.8	90	93	3	287	44	6	9	38	1.64
3187875--3187918	2	22.0	2	95	0	79	47	0	2	50	1.13
3192444--3192728	143	2.0	142	95	0	507	34	9	26	29	1.89
3197110--3197404	147	2.0	147	90	2	468	35	9	8	46	1.67
3199243--3199285	19	2.3	18	80	11	50	34	2	4	58	1.32
3202192--3202342	60	2.5	59	84	7	180	37	4	2	54	1.35
3202194--3202347	30	5.1	30	76	6	125	37	4	3	54	1.37
3203801--3203840	20	2.0	20	90	0	62	42	7	25	25	1.80
3212403--3212435	16	1.9	17	88	11	50	33	6	27	33	1.81
3213484--3213537	22	2.5	22	93	0	90	53	0	9	37	1.33
3226874--3226923	20	2.6	20	84	15	70	30	20	18	32	1.96
3226960--3227012	20	2.7	19	77	8	61	28	24	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231564--3231588	2	12.5	2	100	0	50	52	48	0	0	1.00
3233004--3233097	47	2.0	47	85	2	127	44	6	4	44	1.49
3233945--3234047	43	2.4	43	80	8	120	74	2	9	12	1.17
3234218--3234267	17	2.8	20	74	22	56	66	0	2	32	1.03
3234211--3234273	21	2.9	22	70	18	60	65	0	1	33	1.03
3234204--3234303	40	2.5	39	81	14	105	63	2	3	32	1.21
3235289--3235446	84	1.9	85	85	1	219	27	18	22	31	1.97
3235454--3235538	36	2.5	34	92	5	136	31	9	18	40	1.83
3235664--3235722	30	2.0	30	83	12	77	33	11	16	37	1.86
3235708--3235788	34	2.3	35	82	4	92	39	14	20	24	1.91
3235700--3235880	89	2.0	90	87	5	262	35	13	21	29	1.92
3235965--3236086	65	1.9	65	86	6	176	39	12	18	30	1.87
3236113--3236162	21	2.4	21	96	0	91	42	10	22	26	1.84
3236135--3236314	73	2.5	72	84	4	211	41	15	17	25	1.88
3241839--3241910	9	8.1	9	74	10	60	72	5	4	18	1.21
3241827--3241910	30	2.9	29	77	13	82	73	4	5	15	1.19
3243224--3243298	32	2.2	34	90	6	118	76	4	2	17	1.06
3243221--3243304	27	3.0	27	81	10	82	76	4	2	16	1.07
3243229--3243289	15	3.6	17	77	18	65	75	4	3	16	1.11
3243388--3243422	17	2.0	18	88	5	54	80	2	11	5	1.00
3243700--3243732	2	16.5	2	100	0	66	51	0	0	48	1.00
3243907--3243968	21	3.1	21	72	13	58	62	0	8	29	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243840--3243956	35	3.3	35	67	21	84	61	2	5	29	1.33
3244105--3244148	21	2.1	21	91	0	70	18	25	18	38	1.92
3244164--3244212	20	2.5	20	93	0	80	46	22	12	18	1.82
3244182--3244335	41	3.8	40	75	8	123	36	21	12	29	1.91
3244224--3244315	21	4.5	20	70	14	62	34	20	14	30	1.92
3247589--3247624	18	2.0	18	94	0	63	55	25	2	16	1.55
3249448--3249518	21	3.4	21	84	0	97	19	18	38	23	1.93
3249448--3249539	42	2.2	40	86	7	123	21	18	36	22	1.95
3249825--3249875	21	2.4	21	87	6	68	35	27	15	21	1.94
3250115--3250210	41	2.3	42	89	1	140	19	16	33	30	1.94
3251670--3251723	20	2.7	19	83	8	72	46	20	16	16	1.84
3251720--3251782	20	3.2	20	100	0	126	14	20	15	49	1.80
3252135--3252182	22	2.2	22	96	0	87	20	8	43	27	1.80
3252147--3252194	22	2.2	22	84	0	60	22	10	41	25	1.85
3252338--3252407	20	3.5	19	75	12	70	25	11	21	41	1.86
3252396--3252483	21	4.2	20	81	7	104	42	18	19	20	1.90
3252396--3252483	42	2.1	41	87	2	122	42	18	19	20	1.90
3252630--3252654	2	12.5	2	100	0	50	52	0	0	48	1.00
3253819--3253861	7	6.4	7	89	5	54	46	6	2	44	1.43
3254498--3255059	84	6.8	83	77	6	476	24	19	24	30	1.98
3254424--3254801	165	2.3	169	82	7	441	25	19	23	32	1.98
3254477--3255059	249	2.3	249	90	0	882	24	19	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254935--3255190	129	2.0	130	99	0	505	23	19	24	32	1.98
3255063--3255268	84	2.5	84	86	1	288	25	18	23	32	1.97
3255427--3255629	100	2.0	105	86	5	290	22	19	23	34	1.96
3256417--3256615	95	2.1	96	83	6	262	33	18	15	33	1.91
3256908--3257088	90	2.0	91	96	1	337	33	13	19	33	1.91
3260703--3260830	46	2.7	47	78	14	115	71	0	2	25	1.02
3260731--3260830	26	3.7	27	73	17	75	71	1	2	26	1.04
3260709--3260870	28	5.8	28	71	17	81	70	1	3	24	1.08
3260753--3260906	35	4.4	34	76	14	118	68	1	1	27	1.11
3260787--3260906	37	3.2	38	72	22	103	67	1	1	29	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19