genome.fa.s9344.2.7.7.80.10.50.1000.18.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  18  of  24  ( 2784 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)
3103878--3103972	48	2.0	47	95	4	174	29	21	18	30	1.97
3104479--3104524	23	2.0	23	95	0	83	26	13	19	41	1.88
3106663--3106692	14	2.1	14	93	0	51	26	20	10	43	1.83
3107032--3107091	31	1.9	31	83	6	77	30	28	10	31	1.89
3112212--3112803	303	2.0	294	96	3	1087	34	15	21	28	1.94
3114133--3114205	9	8.4	9	79	10	55	82	0	17	0	0.68
3114125--3114205	21	4.1	19	77	16	83	80	0	19	0	0.72
3114131--3114205	20	3.7	20	77	13	82	82	0	17	0	0.67
3114767--3114812	21	2.1	22	96	4	85	17	13	19	50	1.78
3115512--3115692	92	2.0	92	92	2	301	27	13	23	35	1.93
3116399--3117419	113	9.0	113	90	0	1461	38	14	18	28	1.91
3117243--3117287	24	1.9	23	82	13	56	51	11	24	13	1.73
3117769--3117863	3	31.0	3	87	4	136	37	0	0	62	0.96
3119187--3119234	22	2.1	23	88	3	71	39	4	0	56	1.19
3121129--3121188	22	2.7	22	89	0	93	16	25	30	28	1.97
3123435--3123547	60	1.9	59	81	13	135	24	14	6	54	1.62
3123437--3123560	30	4.2	30	75	10	96	24	12	6	56	1.60
3123541--3123606	29	2.2	30	89	2	98	15	10	12	62	1.55
3129950--3129988	16	2.5	16	91	4	62	30	20	10	38	1.86
3132434--3132478	23	2.0	23	86	0	63	31	20	28	20	1.97
3139963--3140022	23	2.6	23	81	0	75	21	26	25	26	2.00
3146938--3146997	23	2.6	23	91	0	93	20	28	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3147700--3147804	39	2.7	38	76	8	113	44	1	16	37	1.58
3147824--3147865	2	22.5	2	86	13	63	54	0	0	45	0.99
3148203--3148263	31	2.0	31	87	6	88	55	6	8	29	1.54
3150802--3150830	12	2.3	13	94	5	51	51	20	0	27	1.47
3151946--3151991	2	23.0	2	100	0	92	50	0	0	50	1.00
3154763--3154827	20	3.3	19	71	23	53	44	0	1	53	1.09
3154739--3154826	31	2.8	31	84	5	106	42	0	3	54	1.17
3154899--3154958	27	2.3	26	82	8	68	55	8	1	35	1.40
3160018--3160089	33	2.2	33	100	0	144	34	25	11	29	1.90
3160199--3160258	30	2.0	30	93	6	104	33	6	16	43	1.74
3160348--3160427	21	4.0	21	75	21	91	23	36	27	12	1.91
3160375--3160405	15	2.0	16	93	6	55	29	32	25	12	1.93
3160519--3160561	21	2.0	21	100	0	86	23	18	27	30	1.98
3160589--3160628	20	1.9	22	90	10	66	37	40	10	12	1.77
3160844--3160913	34	2.1	32	86	5	95	32	14	31	21	1.93
3163728--3163787	30	2.0	30	93	6	104	33	6	16	43	1.74
3163877--3163955	21	4.0	21	76	18	89	24	35	27	12	1.92
3163904--3163934	15	2.0	16	93	6	55	29	32	25	12	1.93
3163989--3164032	21	2.1	21	100	0	88	13	45	27	13	1.81
3164068--3164131	21	3.0	21	97	0	119	23	20	28	28	1.99
3164413--3164482	34	2.1	32	86	5	95	32	14	31	21	1.93
3165070--3165406	166	2.0	164	94	2	586	35	14	11	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3167249--3167294	21	2.2	21	96	0	83	54	10	2	32	1.47
3171711--3171755	2	22.5	2	100	0	90	48	0	0	51	1.00
3174389--3174440	26	2.0	26	88	0	77	48	13	13	25	1.79
3176302--3176330	13	2.2	13	100	0	58	41	27	6	24	1.80
3180916--3180944	13	2.2	13	100	0	58	41	27	6	24	1.80
3181351--3181425	39	1.9	39	97	0	141	40	22	10	26	1.87
3183521--3183889	20	18.5	20	85	4	458	34	26	18	20	1.96
3184784--3184808	12	2.1	12	100	0	50	72	0	28	0	0.86
3187113--3187438	19	18.4	19	80	15	396	47	17	20	14	1.82
3187113--3187438	33	9.2	34	82	13	312	47	17	20	14	1.82
3187141--3187460	161	2.0	157	93	3	543	47	16	21	14	1.83
3187141--3187460	52	6.0	52	92	4	541	47	16	21	14	1.83
3187467--3187568	19	5.6	19	85	12	151	14	23	17	44	1.86
3187675--3187711	14	2.6	14	91	0	65	45	21	0	32	1.52
3187706--3187778	12	6.0	12	67	20	53	57	16	1	24	1.47
3187692--3187764	38	1.9	38	97	0	137	53	16	1	28	1.51
3189582--3189716	19	7.6	19	76	16	137	45	24	19	10	1.81
3189638--3189694	14	3.7	14	77	20	60	45	24	21	8	1.80
3189619--3189711	33	2.8	33	98	0	177	47	22	20	9	1.79
3189582--3189716	52	2.5	54	75	18	131	45	24	19	10	1.81
3189712--3189840	19	7.3	19	75	17	125	8	17	28	45	1.77
3189712--3189803	33	2.8	33	93	3	150	7	18	28	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3189884--3190263	93	4.1	93	98	0	744	46	18	12	22	1.83
3189884--3190263	185	2.0	186	98	0	744	46	18	12	22	1.83
3191968--3192057	14	5.7	14	74	23	81	42	23	25	8	1.83
3191960--3192074	33	3.5	33	95	0	212	45	20	24	9	1.81
3191967--3192079	19	6.8	18	72	23	88	43	22	24	9	1.83
3192091--3192145	14	3.6	14	73	21	56	9	27	23	40	1.85
3192266--3192336	33	2.2	33	92	0	115	47	18	22	11	1.80
3192518--3192572	22	2.5	22	81	0	74	20	16	40	23	1.91
3192718--3192911	20	9.6	20	82	5	221	19	19	25	35	1.95
3192718--3192911	60	3.2	60	83	0	253	19	19	25	35	1.95
3192904--3192980	21	3.7	20	70	13	57	27	16	23	32	1.96
3192966--3193017	20	2.6	20	96	0	95	21	13	26	38	1.90
3193210--3193244	9	3.9	9	88	0	52	25	0	0	74	0.82
3193836--3193873	18	2.1	19	90	5	60	60	0	0	39	0.97
3193890--3193921	2	16.0	2	100	0	64	50	0	0	50	1.00
3195726--3195817	36	2.6	36	94	0	157	18	15	20	45	1.85
3196121--3196169	24	2.1	23	92	3	80	10	6	20	63	1.47
3196075--3196169	37	2.5	39	72	19	94	11	9	18	60	1.58
3209708--3209757	2	25.0	2	100	0	100	50	0	0	50	1.00
3209844--3209873	2	15.0	2	100	0	60	50	0	0	50	1.00
3210642--3210705	27	2.4	27	94	0	119	29	7	9	53	1.61
3210728--3211041	81	3.8	82	93	1	531	29	6	13	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3221710--3221769	13	4.8	13	80	15	72	10	10	20	60	1.57
3224424--3224515	24	3.8	24	69	12	62	27	23	20	28	1.99
3225056--3225104	21	2.3	21	89	0	71	26	22	24	26	2.00
3225078--3225221	55	2.6	55	94	0	243	27	19	19	33	1.96
3225260--3225868	305	2.0	305	98	0	1182	32	12	17	37	1.88
3226562--3226587	2	13.0	2	100	0	52	50	0	0	50	1.00
3229567--3229632	33	2.0	33	93	0	114	50	19	18	12	1.78
3235632--3235678	25	1.9	25	91	4	78	42	2	0	55	1.12
3235701--3235743	18	2.4	18	88	3	61	48	4	6	39	1.51
3235746--3235830	21	3.9	22	73	14	70	57	1	0	41	1.06
3235795--3235845	15	3.3	15	75	24	52	56	0	0	43	0.99
3235702--3235975	143	2.0	137	88	7	412	52	2	3	41	1.30
3235942--3235997	24	2.2	24	81	12	60	58	1	3	35	1.26
3236153--3236245	29	3.2	29	89	1	116	43	6	15	35	1.72
3238719--3238779	31	2.0	31	93	0	104	24	13	9	52	1.70
3240466--3240545	39	2.1	39	100	0	160	27	17	17	37	1.92
3247908--3247953	23	2.0	23	91	0	74	30	21	26	21	1.99
3247916--3247963	23	2.1	23	84	0	60	31	18	22	27	1.97
3251441--3251475	2	17.5	2	100	0	70	51	0	0	48	1.00
3254044--3254076	2	16.5	2	100	0	66	0	48	0	51	1.00
3255284--3255405	61	2.0	61	90	3	192	28	16	8	46	1.75
3256793--3256883	32	2.9	32	85	6	123	37	18	16	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3256793--3256883	31	2.9	32	86	6	123	37	18	16	27	1.92
3261042--3261077	18	2.1	18	89	5	56	13	0	11	75	1.06
3263910--3263962	23	2.3	23	100	0	106	30	26	7	35	1.84
3269140--3269173	17	2.0	17	88	0	50	35	17	20	26	1.95
3270333--3270376	22	2.1	21	91	8	72	25	13	29	31	1.94
3271606--3271659	17	3.3	17	76	10	58	33	3	12	50	1.59
3273750--3273816	33	2.0	33	91	5	109	44	0	14	40	1.46
3279969--3280054	38	2.3	38	85	0	109	23	24	20	31	1.98
3284593--3284627	18	1.9	18	88	11	54	54	5	17	22	1.64
3284684--3284727	22	2.0	22	86	4	63	45	0	22	31	1.53

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