genome.fa.s8319.2.7.7.80.10.50.1000.15.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  15  of  21  ( 2487 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)
3186698--3186747	19	2.5	20	83	6	66	70	0	8	22	1.13
3186798--3186839	17	2.4	18	92	4	68	71	0	7	21	1.09
3187455--3187670	76	2.9	75	86	4	274	57	12	1	28	1.46
3191041--3191070	2	15.0	2	100	0	60	50	0	0	50	1.00
3197193--3197276	33	2.6	32	84	5	107	13	21	30	34	1.91
3197364--3197429	35	2.0	32	88	8	96	43	9	30	16	1.79
3200361--3200422	30	2.1	30	84	3	81	29	22	8	40	1.82
3200936--3201080	64	2.3	64	83	5	177	25	24	19	30	1.98
3204209--3204270	30	2.1	30	84	3	81	29	20	9	40	1.84
3204849--3204900	19	2.7	19	87	0	77	25	28	17	28	1.97
3204808--3204965	83	1.9	83	84	3	212	24	25	17	31	1.97
3206296--3206352	14	4.1	14	77	8	71	47	7	5	40	1.53
3208787--3208834	15	3.2	15	93	0	78	8	16	66	8	1.42
3210118--3210158	18	2.3	18	91	8	66	34	24	0	41	1.55
3212486--3212567	24	3.6	23	90	6	116	34	19	19	26	1.96
3213363--3213445	18	4.6	18	85	5	123	19	20	31	28	1.97
3214497--3214541	23	2.0	23	82	8	56	28	28	22	20	1.98
3214520--3214823	149	2.0	149	96	0	563	36	20	15	27	1.93
3215302--3215453	67	2.2	68	88	1	216	16	26	26	30	1.97
3215934--3215970	19	1.9	20	88	5	58	62	0	35	2	1.10
3221514--3221558	23	2.0	23	86	0	63	26	28	24	20	1.99
3221537--3221840	149	2.0	149	98	0	581	35	20	16	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3222317--3222354	20	1.9	20	94	0	67	7	31	36	23	1.84
3222318--3222490	67	2.6	67	87	4	224	16	26	26	31	1.96
3222949--3222985	19	1.9	20	88	5	58	62	0	35	2	1.10
3226102--3226242	64	2.2	63	80	7	151	33	18	22	25	1.97
3226250--3226287	20	1.9	20	94	0	67	31	18	23	26	1.97
3226636--3226712	2	38.5	2	97	0	145	49	0	1	49	1.09
3227119--3227242	18	6.9	18	83	0	140	23	20	29	25	1.99
3227500--3227529	2	15.0	2	100	0	60	50	0	0	50	1.00
3231975--3232025	26	2.0	25	85	7	68	58	3	7	29	1.44
3232932--3233034	30	3.4	30	93	0	170	44	11	14	29	1.80
3234786--3234818	15	2.3	14	94	5	57	45	27	0	27	1.54
3240229--3240323	50	1.9	50	88	0	145	36	9	13	40	1.77
3246884--3246909	2	13.0	2	100	0	52	50	0	0	50	1.00
3249356--3249411	23	2.4	23	96	0	103	37	5	17	39	1.73
3251228--3251332	19	5.2	19	82	13	120	34	5	28	31	1.81
3251649--3251687	19	2.1	19	85	0	51	25	15	20	38	1.92
3251963--3252024	29	2.1	29	82	5	72	45	20	8	25	1.79
3262675--3262712	17	2.4	16	86	8	51	57	0	2	39	1.12
3263409--3263454	25	2.0	25	87	12	71	50	2	2	45	1.26
3268609--3268817	74	2.8	74	95	0	373	34	11	14	39	1.83
3272243--3272298	21	2.7	21	97	0	103	39	19	26	14	1.90
3272287--3272400	20	5.7	20	83	6	113	31	25	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3272284--3272400	61	1.9	61	85	0	162	33	24	17	23	1.97
3272914--3272961	20	2.5	19	86	6	69	50	25	14	10	1.74
3272957--3273065	19	5.7	19	89	2	155	13	19	19	47	1.82
3272957--3273098	77	1.9	71	83	11	178	13	19	21	45	1.85
3273048--3273135	33	2.6	33	90	1	131	12	25	23	38	1.90
3273103--3273160	20	2.9	20	80	10	64	13	24	18	43	1.87
3275162--3275284	42	2.9	42	80	2	122	22	36	17	22	1.95
3275218--3275284	21	3.2	21	66	6	55	23	35	20	19	1.95
3276646--3276681	14	2.6	14	95	0	63	30	0	25	44	1.54
3276808--3276866	19	3.4	19	73	22	74	13	22	18	45	1.84
3276789--3276865	33	2.3	34	84	6	104	18	22	20	38	1.93
3279142--3279166	12	2.1	12	100	0	50	0	28	0	72	0.86
3279357--3279408	24	2.2	24	82	0	59	36	21	15	26	1.93
3280456--3280513	20	2.9	20	94	0	98	37	22	22	17	1.93
3280536--3280608	14	4.5	15	74	22	60	13	20	19	46	1.83
3280551--3280598	18	2.6	19	93	6	89	14	20	16	47	1.82
3280715--3280751	14	2.6	14	86	0	56	48	21	0	29	1.50
3282619--3282684	19	3.4	19	81	4	78	36	22	24	16	1.94
3282619--3282673	20	2.8	19	83	5	83	34	21	25	18	1.96
3282710--3282805	19	5.6	17	72	21	78	11	19	22	45	1.82
3282732--3282789	14	3.9	14	79	16	71	8	17	25	48	1.75
3282715--3282805	32	2.8	33	94	3	166	10	18	23	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282778--3282833	20	2.9	19	76	12	60	16	21	21	41	1.90
3283326--3283370	18	2.5	18	92	0	81	13	13	44	28	1.81
3284690--3284727	20	1.9	20	88	0	58	50	21	15	13	1.78
3284991--3285034	22	2.0	22	95	0	79	18	15	45	20	1.85
3285222--3285315	20	4.7	20	80	2	89	23	18	24	34	1.96
3285202--3285316	20	5.7	20	78	5	88	23	17	23	35	1.95
3285305--3285397	20	4.5	21	78	4	100	17	24	18	39	1.91
3285244--3285378	41	3.3	41	82	4	139	19	21	20	38	1.94
3285305--3285397	41	2.3	41	100	0	186	17	24	18	39	1.91
3286341--3286401	26	2.3	26	80	5	70	14	11	32	40	1.82
3286719--3286766	21	2.4	18	80	16	51	37	4	2	56	1.30
3287156--3287219	18	3.6	18	91	2	85	31	25	7	35	1.84
3289282--3289377	29	3.2	29	68	21	72	32	16	3	47	1.62
3289253--3289379	60	2.1	60	86	2	175	34	14	2	48	1.58
3289267--3289396	60	2.2	60	85	0	170	33	14	3	49	1.59
3289284--3289411	60	2.1	60	82	0	148	32	17	4	45	1.70
3298517--3298549	2	16.5	2	93	0	57	48	3	0	48	1.17
3298652--3298715	23	2.8	23	76	21	71	26	3	1	68	1.13
3298666--3298718	20	2.7	18	76	18	52	30	1	1	66	1.13
3298917--3298965	19	2.6	18	77	6	53	20	4	4	71	1.19
3309447--3309543	50	1.9	50	87	0	140	48	14	22	14	1.80
3310284--3310952	314	2.1	315	98	0	1277	33	24	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310284--3310952	105	6.4	105	97	0	1277	33	24	18	23	1.97
3312671--3312711	2	20.5	2	94	0	73	48	2	0	48	1.14
3312814--3312877	23	2.8	23	76	21	71	26	3	1	68	1.13
3312828--3312880	20	2.7	18	76	18	52	30	1	1	66	1.13
3312950--3312983	2	17.0	2	100	0	68	50	0	0	50	1.00
3317158--3317206	18	2.7	18	90	6	73	30	30	20	18	1.96
3317745--3317907	64	2.6	65	85	5	208	25	19	21	34	1.96
3323814--3323877	18	3.6	18	91	0	110	31	31	20	17	1.95
3324451--3324614	64	2.6	65	82	5	192	25	18	21	34	1.96
3326384--3326419	18	2.0	18	100	0	72	61	5	27	5	1.41
3327338--3327437	18	5.6	18	76	4	78	34	13	25	28	1.93
3332302--3332339	2	19.0	2	100	0	76	50	0	0	50	1.00
3332521--3332558	20	1.9	20	89	10	60	50	10	2	36	1.51
3333372--3333468	31	3.1	31	96	0	176	25	13	10	50	1.73
3333944--3334005	31	2.0	31	93	0	106	25	6	11	56	1.58
3334485--3334538	14	3.9	14	74	13	58	61	3	0	35	1.14
3335086--3335147	28	2.2	27	83	11	72	29	12	6	51	1.65
3345914--3345999	35	2.5	35	84	0	100	40	20	1	37	1.61
3345968--3346010	21	2.0	21	100	0	86	46	13	0	39	1.44
3346133--3346166	16	2.0	18	88	11	54	26	2	5	64	1.30
3346641--3346888	130	1.9	130	93	0	424	36	13	14	35	1.85
3351999--3352400	90	4.5	90	75	10	432	33	23	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352179--3352286	42	2.6	42	79	4	121	30	22	20	26	1.98
3351804--3352400	263	2.3	262	92	1	973	33	22	18	25	1.97
3353569--3353631	28	2.2	28	91	0	99	20	6	34	38	1.78
3357458--3357496	20	2.0	20	89	0	60	51	12	17	17	1.76
3360666--3360735	31	2.2	32	87	2	97	51	2	7	38	1.44
3361888--3361962	31	2.4	31	82	12	91	46	2	9	41	1.50
3362442--3362494	27	1.9	28	84	3	72	49	5	0	45	1.26
3363557--3363587	16	1.9	16	100	0	62	32	0	12	54	1.38
3368482--3368506	13	1.9	13	100	0	50	40	0	4	56	1.18
3375968--3376081	29	3.3	35	63	24	87	28	1	27	42	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21