genome.fa.s8750.2.7.7.80.10.50.1000.16.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  16  of  18  ( 2144 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)
3103220--3103252	14	2.4	14	90	5	50	24	42	21	12	1.86
3103475--3103518	23	1.9	23	86	9	63	40	0	2	56	1.11
3105463--3105527	29	2.2	29	81	10	80	30	4	20	44	1.71
3109945--3109985	20	2.2	19	83	16	50	39	9	9	41	1.71
3117101--3117134	15	2.3	15	100	0	68	29	32	23	14	1.94
3118414--3118441	13	2.2	13	100	0	56	32	7	10	50	1.64
3120756--3121109	167	2.1	169	93	3	604	37	20	3	38	1.71
3121567--3121617	27	2.0	26	88	7	77	27	41	19	11	1.86
3122990--3123110	60	2.0	60	100	0	242	47	4	9	37	1.58
3129293--3129335	20	2.2	20	87	4	61	41	4	2	51	1.35
3131209--3131269	31	2.0	31	86	0	86	47	18	3	31	1.64
3131384--3131438	24	2.3	24	80	0	65	41	21	16	20	1.90
3131429--3131529	23	4.5	22	80	3	85	35	24	21	17	1.95
3131784--3131822	3	13.0	3	88	0	60	28	0	2	69	1.02
3133209--3133234	5	5.2	5	100	0	52	19	0	0	80	0.71
3138247--3138416	90	1.9	90	85	4	236	32	15	16	35	1.90
3140627--3140815	102	1.9	102	94	0	333	29	29	19	22	1.98
3150812--3150931	42	2.9	42	86	2	161	22	20	22	35	1.96
3151076--3151157	42	2.0	42	90	0	128	28	21	18	31	1.97
3151852--3152156	119	2.6	119	84	2	407	41	14	18	25	1.88
3152286--3152348	6	10.5	6	85	0	81	41	0	0	58	0.98
3152286--3152348	9	7.0	9	87	0	81	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3152286--3152339	12	4.5	12	92	0	90	40	0	0	59	0.98
3152323--3152364	18	2.3	18	84	8	50	47	0	2	50	1.14
3157621--3157665	23	2.0	23	86	0	63	33	6	26	33	1.83
3159217--3159277	2	30.5	2	100	0	122	50	0	0	49	1.00
3159873--3159939	34	1.9	35	90	3	109	29	0	25	44	1.54
3175729--3175999	131	2.1	132	97	0	517	24	16	19	39	1.92
3189295--3189416	59	2.1	59	82	0	145	32	22	15	28	1.95
3193898--3193943	19	2.4	19	100	0	92	39	0	30	30	1.57
3194675--3194783	56	1.9	57	88	5	166	24	13	24	36	1.92
3195843--3195962	58	2.1	59	84	4	154	38	19	15	26	1.92
3196834--3197137	154	2.0	149	96	3	563	24	11	17	46	1.81
3198277--3198313	17	2.1	18	85	14	51	21	5	0	72	1.04
3199160--3199230	23	3.1	22	80	13	74	32	2	8	56	1.44
3199814--3199871	30	1.9	31	96	3	109	25	13	27	32	1.94
3201740--3201803	3	21.3	3	80	6	76	40	1	0	57	1.08
3201740--3201803	12	5.3	12	85	7	85	40	1	0	57	1.08
3203286--3203330	22	2.0	22	86	8	63	42	0	0	57	0.98
3207238--3207274	15	2.5	15	90	0	56	29	21	5	43	1.75
3214591--3214649	9	6.9	8	80	16	57	84	0	15	0	0.62
3214590--3214650	14	4.3	13	80	15	68	85	0	14	0	0.60
3214591--3214644	12	3.7	15	80	16	69	85	0	14	0	0.61
3214587--3214650	28	2.3	29	89	8	105	84	0	15	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3214587--3214651	19	3.5	19	78	16	73	83	0	16	0	0.66
3215648--3216217	93	6.1	93	95	0	955	29	15	20	34	1.93
3215648--3216425	279	2.7	284	89	5	1106	30	15	20	34	1.93
3216121--3216332	115	1.8	115	97	0	406	33	13	21	32	1.92
3216032--3216540	208	2.4	208	98	0	973	32	14	21	32	1.93
3216236--3216425	93	2.0	93	97	0	362	30	13	21	34	1.92
3216329--3216643	115	2.7	115	97	1	580	34	13	21	30	1.92
3217343--3218219	112	7.7	112	86	5	979	38	12	18	29	1.89
3217819--3217875	19	2.9	20	70	15	55	45	10	22	21	1.82
3218032--3218322	124	2.4	121	83	6	349	41	15	18	24	1.89
3218461--3218520	3	20.0	3	79	6	68	40	1	0	58	1.08
3218461--3218520	12	5.0	12	84	8	77	40	1	0	58	1.08
3220009--3220053	22	2.0	22	86	8	63	42	0	0	57	0.98
3220103--3220152	23	2.0	26	85	11	70	46	2	0	52	1.12
3221348--3221410	22	2.9	22	87	0	81	14	20	30	34	1.92
3224356--3224387	14	2.3	14	100	0	64	53	0	6	40	1.26
3225113--3225925	372	2.2	359	84	4	1049	26	20	16	36	1.94
3231227--3231251	12	2.1	12	100	0	50	48	0	36	16	1.46
3232728--3232823	38	2.5	38	91	0	156	23	27	23	25	2.00
3232747--3232815	21	3.5	21	70	22	67	21	26	27	24	1.99
3232972--3233122	46	3.3	46	97	0	277	32	18	6	42	1.76
3233526--3233565	21	1.9	21	94	0	71	22	35	30	12	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3237092--3237137	21	2.2	21	96	0	83	21	23	30	23	1.99
3237513--3237580	29	2.3	29	97	0	127	27	19	11	41	1.86
3239653--3239748	38	2.5	38	89	0	147	25	28	18	28	1.98
3239897--3240001	46	2.3	46	93	1	176	32	17	6	43	1.75
3240405--3240443	20	2.0	20	94	0	69	23	33	30	12	1.92
3242363--3242467	51	2.1	51	100	0	210	57	5	9	27	1.53
3244232--3244417	34	5.4	33	68	10	122	41	10	18	29	1.83
3244302--3244345	17	2.5	19	75	20	51	47	9	18	25	1.77
3244233--3244462	71	3.3	70	83	6	274	39	10	19	31	1.84
3244293--3244495	37	5.6	37	71	8	143	37	10	21	30	1.87
3248936--3249010	3	24.0	3	89	8	114	36	0	0	64	0.94
3251496--3251520	9	2.8	9	100	0	50	48	0	0	52	1.00
3254290--3254321	15	2.1	15	94	0	55	25	18	9	46	1.79
3261600--3261650	10	5.1	10	83	7	68	86	0	13	0	0.58
3261602--3261648	4	12.8	4	82	17	50	85	0	14	0	0.61
3261602--3261648	14	3.2	14	91	8	76	85	0	14	0	0.61
3261600--3261650	26	2.0	24	92	7	84	86	0	13	0	0.58
3261598--3261660	10	6.8	10	75	15	64	82	0	17	0	0.67
3261598--3261660	26	2.4	25	82	10	81	82	0	17	0	0.67
3262944--3263124	92	2.0	92	91	2	292	27	13	23	35	1.93
3263430--3263626	95	2.1	94	95	0	349	39	15	13	31	1.86
3263964--3264832	113	7.7	113	90	3	1189	38	14	18	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3263964--3264828	347	2.5	340	86	5	1182	38	14	18	28	1.90
3264744--3264973	123	1.9	123	87	1	336	44	14	16	24	1.85
3265185--3265244	3	19.0	3	86	10	84	36	0	0	63	0.95
3267695--3267755	30	2.0	30	84	6	79	63	3	1	31	1.20
3268944--3268986	17	2.5	17	82	10	52	0	32	18	48	1.48
3269343--3269396	3	18.3	3	81	11	58	68	1	0	29	1.00
3269540--3270986	150	9.5	152	93	4	2412	36	22	20	21	1.96
3269540--3270851	76	17.5	76	95	2	2304	35	22	20	21	1.96
3269540--3270986	375	3.8	379	93	4	2401	36	22	20	21	1.96
3270836--3270867	16	2.0	16	100	0	64	43	37	6	12	1.68
3270762--3270942	91	2.0	90	98	1	353	37	26	17	18	1.93
3274105--3274425	114	2.8	114	91	2	497	31	20	15	32	1.94
3276462--3276514	9	6.0	9	79	20	67	0	13	0	86	0.56
3276463--3276514	15	3.5	15	85	12	72	0	13	0	86	0.57
3276462--3276511	10	4.8	10	85	7	64	0	12	0	88	0.53
3276473--3276522	20	2.4	21	86	10	75	0	16	0	84	0.63
3276813--3276847	2	17.5	2	100	0	70	51	0	0	48	1.00
3279056--3279095	13	2.9	13	82	13	53	60	7	17	15	1.57
3281037--3281101	25	2.8	24	73	17	64	70	3	1	24	1.10
3281568--3281825	128	2.0	125	80	10	283	47	6	7	37	1.59
3281776--3281837	30	2.1	28	82	11	72	58	1	1	38	1.18
3281812--3281904	43	2.2	43	79	7	102	55	3	0	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3281887--3281939	22	2.6	19	77	13	61	71	1	1	24	1.06
3281885--3281947	32	2.0	30	85	11	83	66	1	1	30	1.10
3283169--3283222	28	2.0	28	82	10	69	66	3	0	29	1.09
3284098--3284582	242	2.0	241	95	4	872	40	12	11	36	1.79
3286855--3287005	75	2.0	75	100	0	302	27	11	20	39	1.88
3287609--3287633	4	6.2	4	100	0	50	52	0	24	24	1.48
3288918--3288975	22	2.6	22	80	2	71	56	27	3	12	1.51
3289802--3289878	38	2.0	38	100	0	154	46	15	10	27	1.78
3291921--3291973	28	2.0	27	81	7	63	35	0	11	52	1.37
3297921--3297978	21	2.7	22	81	7	66	20	25	32	20	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18