genome.fa.s9585.2.7.7.80.10.50.1000.14.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  14  of  35  ( 4106 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)
2908542--2908630	27	3.4	27	83	10	107	43	6	4	44	1.50
2908593--2908694	33	2.8	36	81	17	113	43	4	2	49	1.39
2908680--2908710	2	15.5	2	100	0	62	48	0	0	51	1.00
2908684--2908790	47	2.3	46	93	6	182	50	7	0	42	1.30
2908739--2908866	39	3.3	39	71	14	113	46	7	0	44	1.37
2909869--2909935	19	3.8	19	75	16	72	44	0	0	55	0.99
2914466--2914560	35	2.7	35	81	3	111	45	24	1	29	1.60
2915105--2915179	35	2.1	35	85	0	96	34	1	20	44	1.60
2916287--2916366	20	4.0	20	90	0	124	38	20	17	23	1.93
2916277--2916366	40	2.2	40	90	0	135	38	18	16	25	1.92
2916360--2916425	20	3.3	20	95	0	114	46	24	13	15	1.81
2916573--2916645	22	3.3	22	84	0	101	17	45	17	19	1.86
2918494--2918592	42	2.4	42	81	6	121	31	35	16	17	1.92
2918706--2918755	21	2.4	21	86	0	73	22	14	28	36	1.92
2919154--2919251	21	4.6	22	78	8	105	23	34	18	23	1.96
2920624--2920659	16	2.2	16	90	0	54	19	0	13	66	1.24
2920988--2921028	18	2.3	18	91	0	64	19	2	24	53	1.57
2923255--2923308	24	2.2	25	80	9	67	40	16	14	27	1.88
2923271--2923322	24	2.2	24	82	0	59	36	21	15	26	1.93
2924253--2924349	20	4.8	20	75	9	65	36	12	23	27	1.91
2924322--2924406	20	4.2	19	78	11	71	29	12	27	30	1.93
2924332--2924392	21	3.0	21	83	9	72	29	13	24	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2924322--2924447	40	3.1	40	74	6	121	30	11	27	30	1.92
2924274--2924479	101	2.0	101	79	9	215	31	10	26	31	1.90
2924435--2924478	20	2.2	20	91	0	70	34	9	27	29	1.87
2926534--2926606	28	2.5	28	82	10	76	39	15	6	38	1.74
2927174--2927238	29	2.2	29	86	2	85	26	12	24	36	1.91
2927356--2927396	20	2.0	20	85	0	55	63	7	0	29	1.21
2927858--2927949	20	4.6	20	78	8	80	38	28	9	23	1.87
2927919--2927979	21	3.0	21	83	9	72	32	24	13	29	1.93
2927870--2928258	40	9.7	39	74	10	191	30	23	12	33	1.91
2928101--2928140	20	2.0	21	85	5	55	25	25	15	35	1.94
2928171--2928230	20	3.1	19	79	9	59	28	23	11	36	1.90
2928183--2928271	20	4.4	21	78	10	89	30	22	12	34	1.91
2927876--2928215	161	2.1	161	84	4	445	31	23	12	32	1.91
2929197--2929243	24	2.0	24	91	0	76	25	21	19	34	1.96
2929202--2929255	24	2.2	24	93	0	90	20	18	20	40	1.91
2931799--2931866	20	3.4	20	77	0	64	38	25	10	26	1.88
2931839--2931895	20	2.8	20	72	0	60	49	21	10	19	1.78
2933496--2933545	21	2.4	21	80	6	57	32	14	30	24	1.94
2934007--2934141	42	3.2	42	84	4	173	20	15	38	25	1.92
2934007--2934159	42	3.6	42	81	6	148	21	15	37	26	1.92
2935710--2935748	20	2.0	20	94	0	69	17	12	17	51	1.76
2935712--2935755	20	2.2	20	87	0	61	18	13	18	50	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2936081--2936129	22	2.2	22	88	0	80	18	18	42	20	1.89
2936281--2936331	20	2.5	20	90	0	84	33	11	19	35	1.88
2936278--2936370	20	4.6	20	75	10	80	29	12	24	33	1.93
2944914--2945001	15	5.9	15	81	2	97	39	6	18	35	1.77
2944915--2945001	30	3.0	30	88	3	115	40	6	17	35	1.76
2944984--2945035	20	2.5	21	93	6	88	40	11	15	32	1.83
2945323--2945416	29	3.2	29	80	16	106	53	2	0	44	1.12
2945442--2945496	16	3.3	16	75	14	58	54	0	0	45	0.99
2945443--2945521	24	3.3	24	80	7	81	53	0	0	46	1.00
2945469--2945521	12	4.7	12	73	20	51	50	0	0	49	1.00
2945410--2945521	24	4.4	26	74	18	76	49	0	0	50	1.06
2945695--2945812	42	2.9	41	87	2	173	49	16	15	18	1.80
2953862--2953920	25	2.3	26	82	8	68	38	0	1	59	1.08
2955062--2955097	17	2.1	17	90	10	56	41	0	5	52	1.24
2955648--2955796	42	3.5	42	84	1	174	24	36	17	22	1.95
2955681--2955748	21	3.2	21	66	15	59	25	32	17	25	1.97
2955774--2955825	21	2.5	21	90	0	86	21	36	25	17	1.94
2956549--2956589	21	2.0	21	95	0	73	53	0	0	46	1.00
2956712--2957473	138	5.6	137	85	1	813	34	22	18	24	1.96
2969853--2969906	23	2.4	23	87	3	74	24	11	20	44	1.83
2977041--2977088	19	2.5	20	82	6	62	56	2	8	33	1.41
2978536--2978575	20	2.0	21	95	5	73	32	20	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2980325--2980349	10	2.5	10	100	0	50	20	8	20	52	1.71
2992838--2992882	21	2.1	21	87	0	63	31	28	24	15	1.96
2992909--2992951	21	2.0	21	86	4	59	32	34	23	9	1.87
2994162--2994293	31	4.2	31	79	9	142	25	20	21	32	1.97
2994275--2994374	30	3.3	30	91	2	148	21	22	26	31	1.98
2997461--2997505	21	2.1	21	87	0	63	31	28	24	15	1.96
2998789--2998921	31	4.3	31	80	9	153	26	19	21	33	1.97
2998903--2999002	30	3.3	30	91	2	148	21	22	26	31	1.98
3002386--3002427	21	2.0	21	90	4	66	21	35	21	21	1.96
3003148--3003241	46	2.0	47	82	10	113	32	22	22	22	1.98
3008687--3008719	12	2.8	12	100	0	66	6	24	9	60	1.49
3012599--3012623	6	4.2	6	100	0	50	16	48	0	36	1.46
3022610--3022636	2	13.5	2	100	0	54	48	0	0	51	1.00
3023786--3023839	27	2.0	27	92	0	90	27	12	25	33	1.93
3024809--3024852	2	22.0	2	100	0	88	50	0	0	50	1.00
3027015--3027057	19	2.3	18	88	11	61	72	4	4	18	1.20
3027024--3027063	19	2.1	19	95	0	71	77	5	2	15	1.04
3028535--3028569	3	12.3	3	88	11	56	68	0	0	31	0.90
3028739--3028845	36	3.1	34	84	6	128	46	7	3	42	1.50
3028739--3028845	34	3.1	33	82	6	124	46	7	3	42	1.50
3028932--3028960	2	14.5	2	100	0	58	51	0	0	48	1.00
3029597--3029644	20	2.4	20	85	0	60	22	18	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3032887--3032931	15	3.1	15	83	3	56	40	4	13	42	1.64
3032893--3032936	14	3.1	14	83	3	52	38	6	11	43	1.67
3032921--3033094	36	4.7	35	75	19	120	47	4	9	39	1.56
3032994--3033048	19	2.9	19	94	0	92	43	5	9	41	1.59
3032902--3033173	38	7.1	38	75	15	206	45	5	9	39	1.58
3033161--3033191	2	15.5	2	100	0	62	51	0	0	48	1.00
3033247--3033315	30	2.3	29	83	11	79	40	2	2	53	1.31
3035643--3035694	16	3.2	17	72	22	58	42	0	17	40	1.49
3037433--3037469	4	9.0	4	88	5	56	27	0	48	24	1.51
3038870--3038918	19	2.7	17	87	9	62	28	20	26	24	1.99
3038870--3039049	65	2.8	62	80	14	195	27	19	23	28	1.98
3038890--3039099	65	3.3	63	79	12	221	26	19	24	30	1.98
3047185--3047233	19	2.7	17	84	9	53	26	20	28	24	1.99
3047205--3047414	65	3.3	63	78	12	196	25	17	25	31	1.97
3048105--3048151	24	2.0	24	83	8	60	48	4	4	42	1.42
3054586--3054731	71	2.0	73	96	4	269	38	17	7	36	1.78
3057971--3058019	19	2.6	19	77	6	55	36	2	2	59	1.21
3058013--3058051	17	2.2	18	86	4	53	51	0	0	48	1.00
3058050--3058101	17	3.1	16	81	8	59	50	1	3	44	1.31
3064073--3064144	35	2.1	35	91	0	117	30	12	37	19	1.89
3064065--3064146	35	2.6	30	71	17	74	32	12	35	19	1.89
3064161--3064197	12	3.0	12	92	4	56	16	54	18	10	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3064216--3064303	2	47.0	2	71	13	71	53	0	0	46	1.00
3064786--3064851	29	2.3	29	91	0	105	39	21	12	27	1.88
3065188--3065304	59	2.0	60	84	1	155	34	20	17	27	1.95
3066217--3066248	2	16.0	2	100	0	64	50	0	0	50	1.00
3067487--3067573	45	1.9	45	90	4	140	26	25	19	28	1.99
3073411--3073474	21	2.9	22	74	9	67	26	25	23	25	2.00
3073403--3073482	23	3.6	22	76	6	81	27	25	22	25	2.00
3074900--3074934	18	1.9	18	88	0	52	28	42	2	25	1.69
3076161--3076247	45	1.9	45	88	4	131	25	25	19	29	1.98
3077854--3077894	14	3.2	13	80	12	50	78	0	12	9	0.98

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