genome.fa.s8620.2.7.7.80.10.50.1000.35.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  35  of  64  ( 7674 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)
6982402--6982521	61	2.0	61	86	3	170	42	6	5	45	1.52
6982353--6982542	100	1.9	100	85	5	267	42	6	5	45	1.53
6982466--6982555	38	2.4	39	84	3	112	42	11	6	40	1.67
6982544--6982572	15	2.0	15	93	6	51	37	13	6	41	1.72
6992713--6992770	14	4.3	14	78	8	50	3	12	1	82	0.86
6995865--6996447	292	2.0	290	99	0	1148	24	19	15	39	1.91
7004719--7004885	85	2.0	85	83	4	212	31	19	20	28	1.97
7005033--7005072	21	2.0	20	95	5	71	55	0	0	45	0.99
7005041--7005089	16	3.2	15	82	11	64	55	2	2	40	1.23
7005037--7005087	21	2.5	20	87	6	66	54	1	1	41	1.22
7005041--7005093	7	7.3	7	76	23	56	54	1	1	41	1.22
7005002--7005087	5	17.2	5	71	17	54	60	2	2	34	1.22
7005040--7005112	37	2.0	37	86	5	103	52	4	4	39	1.40
7005148--7005243	38	2.6	37	82	9	106	44	4	3	47	1.37
7008594--7008664	2	36.5	2	94	5	128	49	0	0	50	1.00
7027610--7027652	3	15.0	3	80	9	54	67	2	2	27	1.15
7027611--7027654	8	5.2	8	86	2	52	70	2	2	25	1.10
7031562--7031606	21	2.1	21	100	0	90	31	8	15	44	1.77
7035250--7035400	33	4.7	33	77	10	143	43	13	11	31	1.81
7035250--7035373	33	3.8	33	83	2	151	44	14	12	29	1.81
7035407--7035485	31	2.6	30	82	4	104	45	16	16	21	1.85
7038441--7038469	14	2.1	14	100	0	58	24	34	0	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7038455--7039167	134	5.3	133	83	3	876	31	22	15	30	1.95
7038473--7039161	267	2.6	266	84	2	898	31	21	16	30	1.95
7043980--7044049	35	2.0	35	83	2	88	57	1	0	41	1.08
7044150--7044353	100	2.1	100	93	3	351	49	4	3	42	1.41
7044168--7044385	100	2.2	99	83	9	264	50	4	4	41	1.41
7052416--7052820	73	5.6	73	93	0	688	26	21	20	31	1.97
7052764--7053080	45	7.0	45	90	0	463	25	22	18	34	1.96
7053210--7053240	3	10.0	3	93	6	53	35	0	0	64	0.94
7054708--7054803	2	49.0	2	83	4	106	43	0	2	54	1.12
7054869--7055087	121	1.8	121	92	2	377	36	8	8	46	1.64
7062270--7062337	29	2.3	29	80	11	77	36	5	23	33	1.79
7063025--7063161	59	2.3	59	83	2	195	27	18	25	28	1.98
7067848--7067886	20	2.0	19	90	5	60	38	2	0	58	1.12
7068964--7069050	27	3.3	27	75	3	88	35	4	6	52	1.49
7083671--7083802	60	2.2	60	83	0	165	31	25	5	38	1.78
7083930--7084068	60	2.3	60	86	4	183	36	4	27	31	1.76
7083930--7084098	60	2.8	57	80	8	176	39	4	24	31	1.75
7083930--7084117	60	3.1	57	77	11	171	38	4	24	32	1.76
7084302--7084343	17	2.3	18	88	8	59	52	0	2	45	1.13
7086778--7086820	21	2.0	23	86	13	65	58	6	0	34	1.25
7088504--7088900	186	2.1	189	81	7	450	25	22	14	37	1.92
7088952--7089050	20	4.9	19	81	2	72	39	22	13	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7088983--7089050	20	3.4	20	85	0	91	41	20	10	27	1.85
7097235--7097299	26	2.6	25	78	7	60	18	20	21	40	1.92
7103181--7103256	39	1.9	39	89	0	116	22	38	19	19	1.94
7105403--7105460	28	2.1	27	84	6	73	32	5	1	60	1.29
7107040--7107068	13	2.3	13	94	5	51	24	13	6	55	1.63
7107895--7107928	13	2.6	13	100	0	68	52	23	5	17	1.66
7110900--7111203	151	2.0	152	99	0	601	36	19	17	26	1.94
7114436--7114742	73	4.2	73	87	3	402	27	19	20	31	1.97
7114907--7115231	123	2.6	123	85	4	424	39	14	20	26	1.90
7115160--7115478	139	2.3	139	86	2	419	40	14	18	26	1.89
7115736--7115812	39	2.0	39	86	0	109	23	41	16	18	1.90
7117842--7117893	16	3.2	15	79	15	50	75	3	1	19	1.06
7118517--7118722	45	4.6	45	88	3	274	32	20	10	37	1.86
7119143--7119213	22	3.5	21	78	12	69	29	19	18	32	1.96
7119143--7119213	19	3.5	20	76	12	65	29	19	18	32	1.96
7119238--7119288	20	2.5	21	84	9	70	19	35	13	31	1.91
7125185--7125526	45	7.6	45	88	0	468	30	19	10	39	1.85
7125955--7125998	22	2.0	22	86	0	61	31	27	15	25	1.96
7126040--7126090	20	2.5	21	84	9	70	23	35	11	29	1.90
7128288--7128847	39	14.4	39	84	2	671	36	16	16	30	1.92
7133614--7133662	19	2.5	20	83	9	66	79	0	2	18	0.83
7133929--7133966	16	2.4	16	95	0	67	13	5	0	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7134018--7134065	22	2.2	22	84	0	60	6	29	37	27	1.81
7141939--7141998	21	2.8	21	82	7	68	26	18	26	28	1.98
7144165--7144210	22	2.0	22	83	12	56	52	13	2	32	1.52
7146076--7146136	6	10.2	6	80	7	61	73	1	16	8	1.14
7146080--7146136	24	2.4	23	82	8	78	73	1	15	8	1.16
7151378--7151548	88	1.9	89	89	5	267	46	6	8	38	1.61
7158214--7158391	90	2.0	90	93	2	304	44	7	11	36	1.69
7159876--7159909	2	17.0	2	93	0	59	52	0	0	47	1.00
7160870--7160904	18	1.9	18	88	0	52	20	20	31	28	1.97
7161211--7163611	4	604.5	4	98	1	4683	24	0	25	49	1.50
7165413--7165480	27	2.5	27	95	0	118	36	1	4	57	1.28
7169195--7169862	117	5.6	117	87	6	880	22	24	20	32	1.98
7169187--7169862	233	2.8	232	87	6	908	22	24	20	32	1.98
7170006--7170266	63	4.0	63	76	10	274	38	2	22	36	1.68
7170068--7170111	23	2.0	22	86	4	61	45	0	15	38	1.47
7170104--7170334	70	3.4	70	71	12	237	36	4	23	35	1.76
7170042--7170334	133	2.2	133	92	0	478	37	4	23	35	1.74
7170332--7170362	14	2.2	14	100	0	62	25	0	16	58	1.38
7170470--7170542	34	2.1	34	89	0	110	36	5	6	50	1.52
7171052--7171124	21	3.5	21	87	7	94	26	23	32	17	1.97
7171085--7171130	21	2.1	21	88	4	65	34	15	30	19	1.93
7171102--7171184	42	2.0	42	82	0	103	30	18	30	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7172923--7172990	30	2.2	33	81	7	79	52	1	0	45	1.09
7173568--7173594	11	2.5	11	100	0	54	18	18	29	33	1.95
7174624--7174695	30	2.4	31	81	6	85	29	27	4	38	1.75
7174801--7174839	19	2.0	20	85	5	53	30	12	2	53	1.52
7175178--7175366	60	3.2	60	76	7	195	37	4	24	33	1.77
7175476--7175547	29	2.5	29	97	0	135	23	6	23	45	1.77
7180066--7180131	31	2.1	31	97	0	123	25	9	12	53	1.67
7180463--7180499	17	2.1	17	90	5	56	37	0	0	62	0.96
7180474--7180529	21	2.9	19	87	10	71	33	1	0	64	1.04
7180492--7180537	21	2.2	21	84	0	56	36	4	0	58	1.18
7194402--7194470	30	2.3	30	100	0	138	23	18	13	44	1.84
7201046--7201545	54	9.3	53	80	6	540	26	19	21	32	1.97
7201046--7201545	108	4.6	108	88	2	691	26	19	21	32	1.97
7205495--7205560	30	2.2	30	83	0	78	12	30	22	34	1.91
7211662--7211707	17	2.8	17	80	9	51	50	4	0	45	1.21
7211702--7211726	11	2.3	11	100	0	50	36	0	0	64	0.94
7212249--7212323	36	2.1	36	100	0	150	45	13	2	38	1.57
7215778--7215828	3	17.0	3	100	0	102	33	0	0	66	0.92
7217344--7217395	26	2.0	26	92	0	86	40	13	21	25	1.89
7217356--7217395	13	3.1	13	77	0	53	35	15	22	27	1.94
7218069--7218171	39	2.6	40	93	1	172	33	28	17	21	1.96
7222933--7223133	85	2.4	85	85	0	269	23	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7224273--7224531	95	2.7	95	87	3	340	32	15	18	33	1.92
7227049--7227103	24	2.3	24	84	12	69	74	5	1	18	1.10
7227034--7227143	9	12.3	9	70	18	54	73	4	2	19	1.13
7227170--7227243	29	2.6	28	77	10	87	54	8	10	27	1.63
7228728--7228823	48	2.0	48	100	0	192	35	12	8	43	1.73
7229494--7229544	22	2.3	22	96	0	93	27	27	17	27	1.98
7229587--7229629	21	2.0	23	90	9	72	25	30	13	30	1.94
7229589--7229635	21	2.2	21	85	11	60	27	29	10	31	1.90
7234368--7234411	18	2.4	18	100	0	88	36	4	11	47	1.60
7243061--7243119	24	2.4	25	78	13	68	40	5	3	50	1.41

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