genome.fa.s9462.2.7.7.80.10.50.1000.33.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  33  of  91  ( 10815 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)
7081595--7081627	17	2.0	17	88	5	50	15	24	12	48	1.78
7082491--7082535	24	1.9	24	86	4	65	62	2	2	33	1.20
7085031--7085088	3	19.3	3	100	0	116	67	0	0	32	0.91
7085461--7085510	23	2.2	23	92	0	82	42	10	8	40	1.68
7085467--7085518	23	2.2	23	82	3	59	48	13	5	32	1.66
7085671--7085699	14	2.0	15	93	6	51	27	17	0	55	1.42
7086346--7086394	24	2.0	24	100	0	98	28	16	22	32	1.95
7090576--7090649	23	3.3	23	80	1	96	37	13	10	37	1.80
7106791--7107007	91	2.3	91	78	6	220	32	16	25	26	1.96
7106954--7107010	22	2.7	21	89	7	89	29	14	31	24	1.94
7107334--7107722	59	6.6	59	89	1	566	32	13	20	33	1.91
7113028--7113059	2	16.0	2	100	0	64	50	0	0	50	1.00
7114083--7114121	2	19.5	2	100	0	78	51	0	0	48	1.00
7130603--7130857	138	1.8	138	85	5	354	41	16	14	28	1.87
7134913--7135000	42	2.2	42	85	6	119	46	7	7	37	1.63
7139596--7139707	2	56.0	2	100	0	224	50	0	0	50	1.00
7146967--7147009	17	2.5	18	85	7	54	18	9	4	67	1.36
7152628--7152692	34	1.9	34	90	3	105	21	9	7	61	1.51
7152822--7152971	25	6.0	25	88	1	167	30	22	18	29	1.97
7153691--7153729	17	2.3	17	86	8	53	41	2	0	56	1.13
7153699--7153734	17	2.1	18	89	5	56	36	8	0	55	1.30
7160529--7160636	35	3.1	35	75	2	117	27	16	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7164434--7164575	71	2.0	71	86	5	198	30	18	19	32	1.95
7172335--7172386	27	1.9	27	100	0	104	38	19	13	28	1.89
7173689--7173911	67	3.1	71	81	10	231	29	2	11	56	1.46
7174574--7174612	16	2.5	15	87	4	51	35	2	0	61	1.10
7181234--7181396	73	2.2	75	85	3	222	30	2	10	56	1.46
7181354--7181416	19	3.2	19	75	4	54	31	0	12	55	1.37
7181264--7181416	73	2.1	74	85	3	186	28	2	11	58	1.46
7182044--7182084	21	1.9	22	90	5	66	19	4	0	75	0.98
7183171--7183231	13	4.7	13	88	8	88	34	18	18	29	1.94
7183164--7183231	26	2.6	26	90	0	109	35	17	19	27	1.94
7183907--7183964	30	1.9	30	85	0	80	43	6	10	39	1.66
7184353--7184501	80	1.9	81	85	7	214	38	11	14	35	1.82
7185883--7185924	20	2.1	20	86	0	57	26	28	14	30	1.95
7186165--7186223	21	2.8	21	92	0	91	25	27	16	30	1.97
7186165--7186237	21	3.5	21	86	1	76	27	24	16	31	1.96
7187025--7187078	16	3.4	16	92	0	90	37	0	40	22	1.54
7187672--7187711	17	2.4	17	100	0	80	22	20	27	30	1.98
7196031--7196066	17	2.2	17	90	5	56	83	2	5	8	0.89
7196255--7196283	2	14.5	2	100	0	58	51	0	0	48	1.00
7197480--7197562	34	2.5	34	96	2	150	32	9	19	38	1.84
7197480--7197573	34	2.8	33	90	6	136	32	9	19	38	1.84
7197580--7197678	36	2.8	36	80	3	94	41	14	22	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7197702--7197758	30	1.9	30	82	13	73	36	12	14	36	1.83
7197746--7197828	36	2.3	36	82	0	94	40	13	20	25	1.88
7197999--7198120	65	1.9	65	83	6	158	39	12	18	29	1.87
7197901--7198205	167	1.9	159	87	6	441	40	12	18	27	1.87
7198175--7198419	72	3.4	71	81	8	271	42	13	17	27	1.86
7198717--7198742	12	2.2	12	100	0	52	26	0	23	50	1.50
7199574--7199939	195	1.9	195	93	0	633	30	19	19	29	1.97
7203956--7204024	30	2.4	30	77	20	76	65	2	5	26	1.29
7204056--7204120	23	2.7	24	79	11	71	58	0	9	32	1.30
7205864--7205951	44	2.0	44	88	0	131	37	20	19	22	1.94
7206762--7206802	17	2.4	18	76	12	50	70	9	14	4	1.30
7214349--7214375	4	6.8	4	100	0	54	22	0	0	77	0.76
7217075--7217142	5	14.0	5	82	11	88	20	0	2	76	0.92
7217076--7217155	10	8.2	9	78	10	70	17	1	3	77	0.98
7217086--7217152	24	2.8	24	84	6	82	17	1	4	76	1.04
7217077--7217142	19	3.4	19	89	6	89	19	0	3	77	0.90
7217489--7217516	13	2.2	13	100	0	56	42	0	21	35	1.53
7221490--7221545	20	2.7	20	78	10	60	44	21	8	25	1.81
7224652--7224685	15	2.3	15	89	0	50	38	2	8	50	1.49
7225180--7225275	36	2.8	34	79	6	102	32	19	20	27	1.97
7225264--7225390	35	3.7	34	79	6	123	35	23	11	29	1.89
7226773--7226811	14	2.7	15	80	8	53	20	0	28	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7232746--7232793	12	3.9	13	84	13	57	22	18	39	18	1.92
7232752--7232793	12	3.5	12	93	0	75	26	19	35	19	1.95
7232788--7232875	35	2.5	35	98	0	167	27	32	21	18	1.96
7232858--7232926	35	2.0	35	97	0	129	23	34	24	17	1.96
7232949--7233083	29	4.7	29	94	1	218	13	31	32	22	1.93
7233087--7233118	13	2.5	13	100	0	64	21	46	0	31	1.52
7233290--7233348	25	2.4	25	97	2	111	28	10	33	27	1.89
7234184--7234216	17	1.9	17	93	0	57	45	12	6	36	1.66
7234201--7234269	22	3.0	22	73	19	77	47	7	4	40	1.51
7234418--7235421	12	72.8	13	69	22	382	44	10	2	43	1.51
7234416--7235479	124	8.7	125	91	5	1171	44	10	2	42	1.51
7234418--7235026	210	2.8	207	88	8	818	44	10	2	42	1.50
7234695--7234764	26	2.9	23	76	19	63	44	4	2	48	1.37
7234530--7235125	86	6.6	86	75	16	383	44	10	2	42	1.51
7234790--7234845	19	3.1	18	77	15	62	50	14	0	35	1.43
7234500--7235479	372	2.7	372	93	5	1631	43	10	2	43	1.51
7235162--7235217	19	3.1	18	77	15	62	50	14	0	35	1.43
7234416--7235300	150	6.0	145	72	17	482	44	10	2	42	1.51
7235081--7235424	150	2.3	146	83	11	405	43	9	2	44	1.51
7234499--7235479	248	4.0	248	94	2	1650	44	10	2	43	1.51
7235345--7235424	26	3.1	26	94	3	135	42	10	3	43	1.56
7238303--7238361	26	2.3	24	78	16	64	40	3	8	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7239104--7239200	49	2.0	50	79	16	116	50	7	1	41	1.37
7239169--7239230	28	2.2	29	94	2	108	58	11	0	30	1.33
7239207--7239255	21	2.3	21	85	3	71	53	16	0	30	1.43
7239818--7239881	15	4.1	15	80	11	83	17	54	7	20	1.67
7239819--7239889	17	4.4	16	82	7	90	16	52	9	21	1.73
7239809--7239875	16	4.2	16	79	7	73	16	55	7	20	1.65
7239819--7239889	33	2.2	32	92	2	115	16	52	9	21	1.73
7239929--7239988	29	2.1	29	100	0	120	18	36	31	13	1.89
7240101--7240126	7	3.7	7	100	0	52	88	11	0	0	0.52
7240891--7240919	15	1.9	15	100	0	58	51	20	6	20	1.70
7244627--7244674	22	2.2	23	81	11	64	27	0	0	72	0.84
7244632--7244668	13	3.0	13	92	7	60	21	0	0	78	0.75
7244639--7244681	22	2.0	22	85	0	59	25	2	0	72	0.97
7246575--7246631	24	2.5	24	88	5	91	17	40	0	42	1.49
7254171--7254220	18	2.6	20	72	18	52	28	12	34	26	1.92
7254207--7254472	126	2.1	126	90	0	424	34	18	15	31	1.92
7261130--7261205	23	3.4	22	69	7	64	27	21	25	26	1.99
7264085--7264124	21	1.9	21	90	10	64	30	7	7	55	1.56
7265995--7266163	65	2.6	64	75	5	160	28	17	23	30	1.97
7270908--7271033	35	3.6	35	78	6	148	32	18	13	35	1.90
7270895--7271028	71	1.9	71	89	3	207	32	18	14	34	1.92
7273304--7273359	24	2.3	24	93	0	94	19	35	17	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7273308--7273366	24	2.8	19	73	22	55	18	32	20	28	1.96
7281370--7281429	23	2.7	24	82	12	74	41	20	11	26	1.86
7281370--7281455	44	2.0	44	85	0	118	38	23	11	26	1.89
7284126--7284221	36	2.7	35	85	4	122	30	18	18	32	1.95
7284135--7284221	35	2.4	36	88	1	122	31	18	19	31	1.96
7304571--7304607	14	2.6	14	91	4	56	51	21	21	5	1.68
7306734--7307016	140	2.0	140	97	0	530	27	12	15	44	1.82
7306987--7307240	20	13.6	20	70	16	170	34	20	18	25	1.96
7306995--7307195	54	3.6	54	83	8	226	34	20	18	25	1.96
7307353--7307407	29	1.9	28	85	3	74	47	14	0	38	1.45

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91