genome.fa.s8105.2.7.7.80.10.50.1000.16.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  16  of  30  ( 3521 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)
2953380--2953430	21	2.4	22	80	6	70	35	17	27	19	1.94
2953465--2953510	19	2.3	20	81	7	58	26	17	28	28	1.98
2953742--2953786	20	2.6	16	80	19	54	46	11	20	22	1.81
2957502--2957533	13	2.5	13	100	0	64	12	18	28	40	1.87
2962409--2962692	136	2.1	136	88	1	417	35	16	9	39	1.80
2963462--2963532	33	2.2	33	92	2	117	43	16	8	30	1.78
2963527--2963568	21	2.0	21	95	0	75	47	7	14	30	1.71
2966028--2966088	26	2.3	26	88	0	95	36	1	16	45	1.57
2968517--2968714	97	2.0	97	97	0	369	30	13	16	39	1.87
2968859--2968888	15	1.9	16	93	6	53	50	3	0	46	1.18
2969236--2969294	16	3.8	16	80	8	68	47	27	11	13	1.78
2969252--2969302	16	3.1	17	75	16	54	49	19	15	15	1.80
2969372--2969413	22	1.9	22	85	0	57	35	9	0	54	1.33
2976868--2976909	17	2.3	19	88	8	61	47	11	0	40	1.40
2977966--2978055	21	4.3	21	66	5	56	38	23	11	26	1.88
2986408--2986438	14	2.2	14	94	0	53	45	22	3	29	1.68
2989804--2989828	10	2.5	10	100	0	50	52	0	0	48	1.00
2992152--2992361	65	3.2	64	79	9	239	30	23	19	26	1.98
2992333--2992381	19	2.6	19	84	9	57	24	28	20	26	1.99
2998586--2998795	65	3.3	63	81	11	237	30	24	19	25	1.98
3000695--3000813	20	5.8	20	85	10	141	22	21	33	22	1.97
3000696--3000813	42	2.8	41	80	16	134	22	21	33	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3000893--3000950	30	2.0	29	90	10	91	44	17	5	32	1.70
3000893--3000952	29	2.0	30	93	6	104	43	16	6	33	1.74
3002227--3002274	19	2.5	20	82	3	62	29	12	6	52	1.63
3003134--3003198	34	2.0	32	84	6	85	26	27	16	29	1.97
3003417--3003456	21	2.0	21	90	5	64	12	10	42	35	1.76
3003575--3003642	20	3.3	21	80	11	88	30	23	26	19	1.98
3003560--3003642	41	2.0	41	86	9	116	28	24	26	20	1.99
3003663--3003782	21	5.8	20	85	10	152	22	19	35	22	1.96
3003862--3003923	29	2.0	31	90	9	101	43	16	6	33	1.73
3003979--3004036	21	2.8	20	84	2	80	29	24	27	18	1.98
3004057--3004197	21	6.8	20	88	8	185	22	19	36	21	1.95
3004058--3004166	13	8.9	13	67	27	53	22	19	35	22	1.96
3004277--3004338	29	2.0	31	90	9	101	43	16	6	33	1.73
3004777--3004986	21	9.9	21	79	5	208	25	14	24	35	1.93
3004796--3004965	86	2.0	86	87	4	245	25	14	23	36	1.93
3004786--3004994	107	2.0	107	86	1	294	26	14	23	35	1.93
3005187--3005248	21	2.9	21	90	2	97	32	8	22	37	1.83
3010289--3010340	23	2.4	22	81	9	63	13	17	15	53	1.72
3011651--3011715	28	2.4	28	89	5	98	47	3	6	43	1.43
3011796--3011845	11	4.6	11	76	11	50	24	4	0	72	1.02
3020306--3020387	32	2.6	32	82	0	83	34	18	10	36	1.86
3023089--3023180	49	1.9	48	80	12	109	20	6	3	69	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023337--3023394	2	29.0	2	100	0	116	50	0	0	50	1.00
3034094--3034137	20	2.1	21	87	4	63	79	2	18	0	0.83
3034888--3035618	105	7.0	105	97	0	1327	33	24	18	23	1.97
3037354--3037398	13	3.2	13	87	9	54	40	0	0	60	0.97
3037365--3037400	2	19.5	2	83	16	51	44	0	0	55	0.99
3037540--3037575	2	18.0	2	100	0	72	50	0	0	50	1.00
3041005--3041043	21	1.9	21	94	5	71	56	0	2	41	1.13
3043226--3043264	20	2.1	19	86	13	55	41	0	15	43	1.46
3044230--3044269	18	2.2	18	90	0	62	47	5	25	22	1.71
3045788--3045839	27	1.9	27	88	7	79	69	5	7	17	1.33
3049280--3049315	18	2.0	18	88	0	54	30	13	27	27	1.94
3049916--3049958	20	2.0	21	86	8	61	53	6	6	32	1.55
3050549--3050603	12	4.6	12	79	0	56	52	18	12	16	1.74
3050561--3050643	24	3.5	24	72	9	71	45	15	16	21	1.85
3053063--3053137	18	4.2	18	78	0	78	14	18	44	22	1.86
3054089--3054139	18	2.9	17	81	16	68	56	5	0	37	1.23
3054178--3054236	27	2.2	27	93	0	100	57	8	15	18	1.63
3057694--3057808	4	27.8	4	70	13	63	64	3	2	29	1.23
3057694--3057750	22	2.6	22	91	0	87	64	3	1	29	1.20
3057718--3057801	34	2.4	34	84	7	98	60	3	3	32	1.31
3057696--3057806	56	2.0	56	83	0	141	63	3	2	30	1.26
3057698--3057803	18	5.8	18	75	8	90	63	3	2	30	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060504--3060561	28	2.0	29	93	3	100	31	22	15	31	1.95
3070308--3070363	24	2.3	24	96	0	103	28	7	8	55	1.57
3077335--3077383	10	4.5	10	81	18	62	57	22	10	10	1.62
3080909--3080940	16	2.0	16	93	0	55	53	6	0	40	1.26
3081356--3081403	23	2.1	23	88	0	69	35	12	18	33	1.89
3081781--3081851	22	3.2	22	86	6	81	39	19	5	35	1.76
3082208--3082279	23	3.2	22	88	4	90	38	19	5	36	1.75
3081515--3082376	428	2.0	423	97	2	1647	38	13	8	39	1.75
3084834--3085504	184	3.7	184	98	0	1281	34	15	14	35	1.89
3085586--3086019	200	2.2	199	96	0	787	34	15	14	36	1.88
3086085--3086160	38	2.0	38	82	2	91	55	10	2	31	1.48
3086101--3086160	19	3.2	19	95	0	102	56	10	3	30	1.48
3087956--3088021	33	2.0	33	87	0	96	24	45	1	28	1.62
3090133--3090185	24	2.2	24	83	6	63	26	7	13	52	1.66
3090330--3090376	20	2.4	19	79	10	58	19	17	8	55	1.67
3090493--3090542	20	2.5	20	81	12	75	22	16	10	52	1.73
3091510--3091550	14	2.8	15	85	10	50	73	0	0	26	0.84
3092154--3092205	17	3.2	17	75	10	54	32	1	13	51	1.52
3092569--3092697	5	25.8	5	95	0	204	41	3	19	35	1.70
3094611--3094682	36	2.0	37	84	13	96	43	13	12	30	1.82
3095186--3095299	25	4.6	25	69	18	69	34	7	1	56	1.39
3095214--3095321	49	2.2	50	96	1	200	28	11	2	57	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095446--3095479	16	2.1	16	88	0	50	32	5	0	61	1.20
3098817--3098886	8	8.5	8	74	12	52	80	5	12	1	0.96
3098833--3098888	20	2.7	21	83	8	69	75	7	16	1	1.11
3100384--3100488	37	2.9	36	90	2	156	24	22	13	39	1.90
3100402--3100793	102	3.9	102	93	0	660	29	20	12	37	1.89
3100606--3100692	37	2.4	37	86	5	115	25	21	13	39	1.90
3100402--3100860	204	2.2	203	89	1	684	29	21	12	36	1.90
3100707--3100776	36	1.9	36	91	0	113	25	20	12	41	1.88
3100707--3100793	36	2.4	36	86	0	102	27	20	11	40	1.87
3100735--3100893	67	2.4	67	87	4	223	32	22	10	34	1.88
3101472--3101942	109	4.4	109	86	2	603	32	26	19	21	1.97
3101472--3102093	109	5.8	108	83	5	569	32	25	19	22	1.97
3102562--3102662	37	2.8	36	84	6	123	38	14	15	30	1.88
3103373--3103423	21	2.4	22	80	3	59	27	3	1	66	1.20
3116375--3116409	2	18.0	2	94	5	63	51	0	0	48	1.00
3119171--3119269	2	49.5	2	100	0	198	49	0	0	50	1.00
3121397--3121474	21	3.7	21	91	0	111	20	23	34	21	1.97
3124741--3124784	17	2.6	17	100	0	88	6	18	0	75	1.02
3127640--3127761	5	23.8	5	71	14	70	70	4	4	20	1.23
3127696--3127756	16	3.9	16	87	6	81	77	1	4	16	1.03
3127696--3127761	21	3.2	21	86	2	89	77	3	4	15	1.06
3139390--3140007	309	2.0	309	98	0	1182	33	19	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3140279--3140306	12	2.3	12	100	0	56	46	14	0	39	1.44
3143974--3144137	85	1.9	85	91	2	267	37	21	11	28	1.89
3145645--3145694	5	9.6	5	78	8	55	6	20	52	22	1.68
3145637--3145670	17	2.0	17	88	0	50	14	20	44	20	1.87
3152940--3152987	22	2.2	22	100	0	96	8	22	50	18	1.74
3152947--3152996	5	9.8	5	83	12	66	4	22	54	20	1.61
3152998--3153065	9	7.1	9	82	9	73	30	29	25	14	1.95
3153029--3153068	21	1.9	21	89	0	62	35	25	22	17	1.95
3153742--3153984	127	1.9	126	84	0	324	28	18	18	34	1.94
3155640--3155699	31	1.9	31	93	0	102	28	25	11	35	1.91

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