genome.fa.s8488.2.7.7.80.10.50.1000.53.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  53  of  54  ( 6450 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)
12528461--12528559	42	2.4	41	86	6	128	23	33	19	24	1.97
12528479--12528653	20	8.9	20	72	11	85	24	30	20	25	1.98
12531886--12531945	29	2.0	30	87	6	86	36	6	13	43	1.70
12532025--12532123	21	4.7	21	77	5	110	23	33	19	24	1.97
12532056--12532080	13	1.9	13	100	0	50	24	32	20	24	1.98
12532025--12532123	42	2.4	41	86	6	128	23	33	19	24	1.97
12532043--12532217	20	8.9	20	72	11	85	24	29	20	25	1.99
12532144--12532226	41	2.0	41	90	4	132	19	27	26	26	1.99
12532321--12532360	20	1.9	22	90	10	66	37	40	10	12	1.77
12540837--12540877	21	1.9	22	95	5	75	39	19	19	21	1.93
12542498--12542611	27	4.3	27	70	15	78	47	0	3	48	1.25
12542598--12542680	23	3.5	23	77	14	71	45	1	0	53	1.08
12552219--12552259	21	1.9	22	95	5	75	39	19	19	21	1.93
12553874--12553987	27	4.3	27	70	15	78	47	0	3	48	1.25
12553974--12554056	23	3.5	23	77	14	71	45	1	0	53	1.08
12557457--12557488	16	2.0	16	100	0	64	37	6	37	18	1.76
12560194--12560263	36	1.9	35	83	11	88	51	5	8	34	1.56
12562912--12562963	23	2.3	23	86	0	68	46	1	0	51	1.12
12562951--12563025	19	3.8	20	73	16	68	46	1	2	49	1.24
12563128--12563174	22	2.1	23	88	4	69	53	0	2	44	1.12
12563136--12563179	22	2.0	22	82	8	54	54	0	2	43	1.12
12566739--12566773	3	11.3	3	93	6	61	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12566739--12566786	6	6.7	7	82	17	55	66	0	0	33	0.92
12566715--12566786	15	4.9	15	71	21	55	63	2	1	31	1.17
12566987--12567313	130	2.5	133	87	5	459	25	18	29	26	1.98
12567088--12567284	43	4.5	42	74	13	184	23	19	30	26	1.98
12567163--12567323	83	1.9	85	84	7	218	23	19	31	25	1.98
12567362--12567423	28	2.2	28	82	5	81	50	12	12	24	1.76
12567557--12567692	38	3.8	36	72	10	91	39	11	14	33	1.83
12567720--12567906	102	1.8	102	82	3	241	38	10	14	35	1.82
12567929--12567972	15	2.9	15	93	0	70	43	4	20	31	1.72
12567961--12568035	31	2.4	30	82	8	80	40	13	14	32	1.85
12568068--12568147	40	2.0	40	87	4	117	37	11	20	31	1.87
12568129--12568253	64	2.0	64	88	1	189	43	11	14	31	1.80
12568151--12568374	120	1.9	119	81	8	276	41	12	14	30	1.84
12568486--12568611	37	3.6	37	68	16	115	45	10	11	32	1.75
12568485--12568639	67	2.4	66	93	4	278	45	10	10	32	1.74
12568590--12568658	28	2.5	28	90	4	104	43	14	7	34	1.73
12568745--12569015	29	9.4	29	74	12	177	46	14	11	27	1.78
12568698--12569034	147	2.3	147	95	2	599	45	15	12	27	1.81
12569256--12569353	36	2.8	35	79	3	108	34	12	17	35	1.87
12570022--12570063	4	11.0	4	90	10	70	23	0	26	50	1.50
12571242--12571277	11	3.2	11	92	4	54	5	11	11	72	1.28
12571263--12571311	19	2.5	20	75	21	59	4	10	14	71	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12571888--12571981	46	2.1	45	83	2	116	36	9	27	26	1.88
12574408--12574469	32	2.0	32	93	3	108	61	9	12	16	1.56
12578104--12578141	3	12.3	3	94	5	67	68	0	0	31	0.90
12578104--12578154	6	7.7	7	91	8	65	66	0	0	33	0.92
12584267--12584331	18	3.5	18	81	8	85	29	29	21	20	1.98
12584559--12584616	24	2.5	21	75	25	55	32	22	5	39	1.76
12588361--12588437	38	2.0	40	89	5	122	27	29	19	23	1.98
12588360--12588437	20	3.9	20	78	10	88	26	29	19	24	1.98
12588361--12588437	22	3.8	21	75	13	81	27	29	19	23	1.98
12589135--12589205	19	3.7	19	94	0	124	22	30	16	29	1.96
12590364--12590388	9	2.8	9	100	0	50	80	0	0	20	0.72
12590447--12590489	16	2.7	16	89	7	61	48	0	2	48	1.14
12590458--12590490	17	1.9	17	93	0	57	51	0	0	48	1.00
12590793--12590869	31	2.4	31	74	8	75	37	24	18	19	1.94
12590898--12590964	16	4.2	16	90	0	98	19	25	11	43	1.85
12594449--12594647	102	2.0	102	96	0	371	51	19	9	20	1.73
12594910--12595041	6	22.5	6	70	7	83	9	0	43	46	1.42
12594913--12595040	48	2.7	46	82	12	154	10	0	44	44	1.43
12594962--12595055	12	7.9	12	78	14	72	12	0	40	46	1.42
12595013--12595064	6	8.7	6	83	8	70	15	0	36	48	1.45
12595025--12595078	24	2.3	24	90	3	83	20	1	35	42	1.63
12595753--12595880	14	8.7	15	73	19	76	50	1	0	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12595753--12595880	28	4.4	26	73	22	96	50	1	0	48	1.10
12595764--12595878	9	13.3	9	71	24	63	50	0	0	48	1.06
12595766--12595889	57	2.2	57	80	12	132	51	0	0	47	1.06
12595846--12595873	7	4.0	7	100	0	56	42	0	0	57	0.99
12595764--12595975	75	2.8	76	76	17	210	50	1	2	45	1.25
12595866--12596054	31	6.0	29	72	22	123	49	3	4	42	1.40
12595933--12595994	14	4.4	14	76	15	56	45	1	6	46	1.38
12595960--12596048	15	5.6	15	69	19	56	50	3	3	42	1.35
12596037--12596139	22	4.8	22	74	13	81	48	9	6	34	1.63
12596158--12596249	24	4.2	22	77	17	77	43	9	6	40	1.64
12596171--12596256	22	3.7	23	82	11	88	44	10	6	38	1.66
12596274--12596318	24	1.9	23	86	4	63	40	4	8	46	1.55
12596333--12596391	14	4.3	14	80	4	75	18	0	33	47	1.49
12596388--12596483	48	2.0	48	81	6	113	35	5	6	53	1.49
12596783--12596921	2	71.0	2	67	19	53	43	6	2	48	1.41
12596788--12596988	79	2.5	79	84	4	228	42	6	2	48	1.42
12596876--12597208	13	24.5	13	68	19	146	42	4	5	47	1.46
12596966--12597056	26	3.5	26	96	0	164	37	6	8	47	1.61
12596824--12596988	79	2.1	79	90	2	269	44	6	2	46	1.41
12597072--12597194	18	7.3	18	71	18	77	45	2	5	46	1.40
12597143--12597212	31	2.3	30	87	2	95	47	0	2	50	1.16
12598379--12598478	43	2.3	43	94	0	173	39	14	15	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12598518--12598560	23	2.0	21	86	9	59	53	0	9	37	1.33
12602467--12602508	20	2.1	20	95	0	75	59	14	11	14	1.61
12604567--12604603	18	2.1	18	100	0	74	45	0	10	43	1.39
12604725--12604751	2	13.5	2	100	0	54	51	0	0	48	1.00
12605023--12605075	14	3.9	14	85	9	65	54	1	1	41	1.22
12605035--12605093	15	3.9	15	84	4	66	55	0	1	42	1.09
12605459--12605495	2	19.0	2	94	5	67	48	0	0	51	1.00
12609413--12609455	22	2.0	22	90	0	68	48	9	11	30	1.71
12611976--12612205	45	5.1	45	86	1	289	40	10	21	27	1.85
12611949--12612205	90	2.8	91	85	3	322	39	10	22	27	1.87
12611986--12612248	90	2.9	88	77	9	278	42	8	19	29	1.81
12613230--12613267	14	2.7	14	100	0	76	28	23	7	39	1.83
12613988--12614021	10	3.5	10	96	4	61	50	38	0	11	1.39
12617641--12617665	12	2.1	12	100	0	50	52	24	8	16	1.70
12618761--12618796	13	2.8	13	95	0	63	44	16	0	38	1.48
12625648--12625848	45	4.5	45	89	1	298	41	7	21	29	1.80
12625648--12625873	90	2.5	90	89	2	321	41	6	20	31	1.78
12627440--12627477	2	19.0	2	100	0	76	50	0	0	50	1.00
12638213--12638274	30	2.1	30	84	6	81	29	1	17	51	1.55
12638662--12638764	45	2.3	46	84	1	127	37	20	17	24	1.93
12639326--12639386	22	2.9	21	87	4	95	26	26	24	22	2.00
12646955--12647016	21	3.0	21	87	0	88	24	25	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12650762--12650897	65	2.1	65	87	2	193	31	17	22	28	1.96
12660071--12660132	23	2.8	22	92	4	106	17	24	30	27	1.97
12666441--12666550	31	3.5	31	97	0	202	39	21	20	19	1.93
12670724--12670848	31	4.0	31	92	2	198	38	23	18	20	1.93
12672321--12672384	30	2.1	30	100	0	128	25	34	0	40	1.56
12672328--12672393	30	2.5	26	85	14	82	24	34	0	40	1.55
12674941--12675097	65	2.4	65	84	2	199	29	17	22	29	1.97
12677294--12677368	20	3.8	20	78	0	78	41	12	16	30	1.84
12694835--12694876	15	2.7	15	80	16	50	64	7	0	28	1.20
12695808--12695837	15	2.0	15	100	0	60	6	53	13	26	1.64

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