genome.fa.s8620.2.7.7.80.10.50.1000.18.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  18  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)
3508161--3508202	2	21.0	2	100	0	84	50	0	0	50	1.00
3511078--3511252	43	4.1	41	75	12	140	49	5	16	28	1.68
3514094--3514123	13	2.3	13	94	0	51	83	0	16	0	0.65
3521895--3521950	21	2.7	21	88	0	76	39	10	32	17	1.84
3521982--3522044	31	2.0	33	87	6	94	30	0	46	23	1.53
3525863--3525906	6	7.3	6	92	0	52	34	15	34	15	1.90
3525858--3525909	9	5.8	9	88	0	59	34	15	32	17	1.91
3527180--3527653	252	1.9	250	85	3	648	37	13	15	33	1.87
3530308--3531033	200	3.6	196	81	6	705	39	13	16	30	1.87
3531034--3531196	87	1.9	87	98	0	317	32	15	12	39	1.84
3531118--3531162	23	2.0	23	95	0	81	37	20	8	33	1.83
3533565--3533659	43	2.3	43	82	10	108	24	10	6	58	1.54
3533589--3533704	43	2.7	43	80	10	130	25	11	6	56	1.57
3534287--3534995	210	3.3	211	90	3	1052	50	8	12	28	1.69
3535077--3535362	20	14.4	20	70	17	120	45	5	5	43	1.48
3535100--3535163	29	2.2	29	85	0	83	45	3	6	45	1.44
3535276--3535329	17	3.1	17	83	2	72	48	0	1	50	1.11
3535233--3535314	22	3.9	21	72	13	71	48	2	1	47	1.22
3535383--3535419	14	2.6	15	79	12	51	24	0	24	51	1.49
3535541--3535779	18	12.7	20	70	19	151	41	9	6	43	1.63
3535501--3535729	18	12.8	18	67	21	99	41	8	6	42	1.61
3535501--3535724	73	3.1	73	73	17	202	41	8	6	42	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535678--3535974	2	144.0	2	65	19	94	43	6	4	45	1.49
3535537--3535740	37	5.6	38	74	17	166	41	8	6	43	1.61
3535676--3535759	39	2.2	39	79	10	93	41	8	4	45	1.55
3535537--3535737	35	5.4	39	75	18	151	42	8	5	42	1.60
3535683--3535834	53	2.8	53	87	8	189	41	7	4	46	1.54
3535855--3535892	11	3.5	11	88	0	58	50	2	2	44	1.30
3535994--3536124	6	21.8	6	84	6	142	32	2	12	51	1.53
3536097--3536141	6	7.5	6	85	9	65	22	0	13	64	1.28
3536066--3536137	24	3.0	24	90	8	103	26	0	13	59	1.35
3536138--3536236	6	16.7	6	92	2	164	18	30	15	36	1.91
3536313--3536389	28	2.9	27	79	11	79	48	0	1	50	1.09
3545429--3545477	17	2.9	16	78	6	53	67	0	0	32	0.91
3545429--3545473	16	2.8	16	82	3	54	66	0	0	33	0.92
3545426--3545497	29	2.5	29	80	17	87	68	2	0	29	1.04
3545517--3545558	20	2.1	20	86	0	57	35	2	33	28	1.70
3546291--3546751	135	3.3	134	83	10	537	42	12	13	31	1.82
3546417--3546747	158	2.1	158	91	0	536	41	12	14	31	1.82
3546815--3547060	72	3.4	73	90	2	388	38	16	13	31	1.88
3547196--3547250	20	2.8	20	97	0	101	38	18	16	27	1.92
3547338--3547370	16	2.1	16	94	0	57	60	24	9	6	1.49
3547440--3547508	16	4.3	16	81	0	84	56	21	11	10	1.64
3548105--3548205	40	2.4	40	80	11	114	38	16	11	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3548263--3548834	112	5.2	112	89	4	840	44	12	12	30	1.79
3548267--3548834	216	2.6	219	89	4	854	44	12	12	30	1.79
3553535--3553640	25	4.0	26	81	12	103	53	2	0	42	1.22
3553538--3553644	54	2.0	52	87	3	151	54	2	0	42	1.21
3559443--3559467	12	2.1	12	100	0	50	16	16	16	52	1.76
3568978--3569030	18	2.9	18	91	0	88	28	32	20	18	1.97
3571001--3571078	30	2.6	30	89	2	113	32	42	1	24	1.63
3577629--3577738	55	2.0	55	96	0	202	43	19	20	16	1.88
3578048--3578133	39	2.3	38	82	11	99	27	18	17	36	1.94
3578101--3578219	36	3.1	38	75	8	116	34	15	13	36	1.86
3578105--3578280	76	2.4	74	81	9	209	31	14	14	40	1.85
3578252--3578850	39	16.0	39	84	6	636	26	19	16	37	1.93
3578549--3578608	30	2.0	30	93	0	102	28	21	15	35	1.93
3578510--3578647	69	2.0	69	92	0	231	28	20	15	36	1.93
3578471--3578683	108	2.0	105	86	4	293	27	19	15	37	1.92
3578599--3578850	36	6.9	36	86	3	317	23	19	16	40	1.91
3579264--3579730	44	10.6	44	68	8	223	29	19	20	29	1.98
3579257--3579804	134	4.1	132	88	3	782	29	20	20	30	1.97
3579399--3579804	89	4.6	88	68	7	230	30	20	19	29	1.97
3580104--3580182	30	2.7	30	90	2	115	31	40	0	27	1.57
3585977--3586394	88	4.8	88	89	0	595	25	16	22	35	1.95
3586149--3586303	44	3.5	44	70	1	132	23	18	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3585977--3586394	175	2.4	176	90	0	640	25	16	22	35	1.95
3586508--3586582	20	3.7	20	72	13	71	32	22	22	22	1.98
3586438--3586570	42	3.2	41	80	5	160	28	22	23	25	1.99
3586438--3586587	42	3.6	42	80	2	133	30	22	21	26	1.98
3586673--3587157	39	12.2	39	87	4	621	39	15	15	29	1.88
3587047--3587140	47	2.0	47	93	0	161	44	13	12	28	1.81
3587171--3587415	76	3.2	75	88	5	334	39	12	15	32	1.85
3593623--3593675	23	2.4	23	78	6	65	32	15	16	35	1.90
3596346--3596381	19	1.9	18	88	5	54	30	22	22	25	1.99
3597092--3597208	36	3.1	36	77	9	144	41	14	17	26	1.87
3597074--3597192	36	3.1	39	76	11	131	38	14	17	29	1.89
3597069--3597271	76	2.7	75	87	3	300	38	14	17	30	1.89
3597362--3597425	32	2.0	32	93	0	110	35	28	12	23	1.91
3598454--3598495	16	2.5	18	81	14	54	2	7	2	88	0.69
3598454--3598495	11	3.8	11	84	9	59	2	7	2	88	0.69
3608047--3608071	2	12.5	2	100	0	50	52	0	0	48	1.00
3611755--3612072	159	2.0	159	92	1	530	36	10	11	41	1.75
3612698--3612756	20	2.7	23	79	15	79	25	1	13	59	1.44
3612707--3612754	20	2.4	20	100	0	96	29	0	12	58	1.35
3613516--3613604	45	2.0	45	86	2	126	58	3	3	34	1.31
3615594--3615944	132	2.7	132	86	0	479	41	17	10	31	1.83
3616744--3616938	107	1.8	107	80	0	237	43	15	16	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617989--3618033	3	15.3	3	86	4	65	64	2	0	33	1.06
3617993--3618027	17	2.1	17	94	0	61	62	0	0	37	0.95
3617990--3618028	20	2.0	20	94	0	69	64	0	0	35	0.94
3617989--3618033	23	2.0	23	90	0	72	64	2	0	33	1.06
3621660--3621708	11	4.4	11	85	12	64	8	12	0	79	0.93
3621663--3621708	24	2.0	24	83	12	60	8	13	0	78	0.97
3640160--3640774	306	2.0	307	99	0	1214	31	17	20	31	1.95
3640887--3640950	32	2.0	32	96	0	119	29	18	7	43	1.78
3647817--3647859	18	2.4	17	84	7	50	23	27	4	44	1.73
3647835--3647874	16	2.4	17	88	12	57	22	32	2	42	1.67
3647903--3647990	43	2.0	43	100	0	176	40	15	6	36	1.74
3654090--3654450	131	2.8	131	85	0	472	39	15	11	32	1.83
3660572--3660677	44	2.4	44	79	0	104	30	20	16	33	1.94
3660593--3660692	44	2.3	44	76	0	101	36	20	17	27	1.94
3660876--3661059	99	1.9	99	89	0	287	40	13	16	29	1.86
3664587--3664634	18	2.7	18	96	0	87	41	4	0	54	1.20
3665382--3665446	29	2.3	26	80	19	78	53	3	13	29	1.55
3666208--3666306	51	2.0	49	85	12	134	46	0	1	52	1.07
3666218--3666330	17	6.8	18	72	27	92	46	0	0	53	1.06
3666208--3666336	65	2.0	65	68	25	53	46	0	0	52	1.05
3667577--3667625	2	24.5	2	100	0	98	51	0	0	48	1.00
3667725--3667761	7	5.4	7	93	6	67	86	0	13	0	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669033--3669092	27	2.2	27	87	0	84	13	30	11	45	1.79
3669589--3669768	86	2.1	87	93	1	308	45	10	15	29	1.78
3670739--3670882	62	2.3	62	85	0	180	31	31	22	14	1.94
3670769--3670905	31	4.4	30	80	7	141	31	31	24	12	1.92
3673504--3673553	13	3.7	13	74	10	55	10	22	52	16	1.73
3683055--3683079	2	12.5	2	100	0	50	48	0	0	52	1.00
3683814--3683838	12	2.1	12	100	0	50	32	16	16	36	1.90
3684493--3684525	2	16.5	2	100	0	66	48	0	0	51	1.00
3684845--3684888	18	2.4	19	76	7	54	50	9	2	38	1.47
3685496--3685845	139	2.5	139	88	5	496	42	13	14	30	1.83

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