genome.fa.s8061.2.7.7.80.10.50.1000.19.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  19  of  26  ( 3118 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)
3755444--3755656	42	5.2	42	88	7	316	23	17	23	36	1.95
3755444--3755656	82	2.6	81	87	8	299	23	17	23	36	1.95
3755444--3755624	21	9.1	19	69	16	107	22	18	24	35	1.96
3756376--3756448	21	3.6	21	76	10	80	34	26	20	19	1.96
3756351--3756464	39	2.8	39	89	6	156	35	22	19	21	1.96
3756463--3756505	21	2.2	20	87	8	61	20	16	32	30	1.95
3756827--3756896	29	2.3	30	95	4	124	62	0	0	37	0.95
3760512--3760550	18	2.3	17	86	8	53	56	0	0	43	0.99
3761935--3761979	17	2.6	17	75	0	54	42	0	0	57	0.98
3763008--3763048	19	2.2	19	86	4	57	51	17	2	29	1.58
3763269--3763302	2	17.5	2	93	6	61	50	0	0	50	1.00
3770643--3770696	21	2.6	20	85	8	65	64	1	1	31	1.14
3773528--3773655	64	2.0	67	90	7	210	34	19	19	26	1.96
3773925--3773991	29	2.3	29	94	0	116	34	19	17	28	1.95
3774133--3774343	103	2.0	103	96	0	386	26	12	24	36	1.92
3774367--3774429	23	2.7	23	87	4	92	20	26	26	25	1.99
3780534--3780676	64	2.2	64	84	8	175	35	16	20	27	1.94
3780958--3781024	29	2.3	29	100	0	134	32	22	17	26	1.96
3781170--3781366	103	1.9	103	96	0	367	25	13	23	37	1.92
3781383--3781445	23	2.7	22	85	4	81	20	25	26	26	1.99
3784457--3784508	27	2.0	27	85	14	74	46	0	0	53	1.00
3784575--3784607	13	2.5	13	95	0	57	27	0	3	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3785180--3785205	9	2.9	9	100	0	52	0	34	11	53	1.37
3788163--3788231	23	3.0	23	82	0	84	28	24	27	18	1.98
3789729--3789780	20	2.6	20	96	0	95	25	19	23	32	1.97
3791196--3791577	40	9.4	39	70	13	193	28	18	18	34	1.95
3791233--3791654	42	10.2	41	71	10	243	29	19	17	33	1.95
3791179--3791650	164	2.9	164	86	3	657	30	19	17	32	1.95
3791399--3791621	122	1.8	123	79	7	265	28	19	17	34	1.95
3793087--3793153	31	2.3	29	85	10	84	46	8	16	28	1.77
3793738--3793780	19	2.1	20	83	12	52	27	11	4	55	1.55
3794901--3795248	43	8.1	43	92	1	538	25	26	20	27	1.99
3794901--3795252	128	2.7	128	91	2	555	25	26	20	28	1.99
3797402--3797470	23	3.0	23	82	0	84	28	23	27	20	1.99
3801012--3801047	18	2.0	18	94	0	63	25	11	30	33	1.90
3802130--3802198	22	3.1	22	100	0	138	21	23	28	26	1.99
3804018--3804074	30	1.9	30	86	13	82	63	3	3	29	1.28
3805310--3805341	14	2.3	14	94	0	55	15	15	18	50	1.79
3805317--3805386	24	2.9	24	78	0	77	12	10	17	60	1.59
3806038--3806095	10	5.6	10	73	15	55	10	10	20	58	1.60
3806043--3806091	16	3.1	16	93	0	89	8	12	22	57	1.61
3806161--3806201	16	2.7	16	85	7	59	12	9	17	60	1.57
3806310--3806352	19	2.3	19	88	4	61	44	9	23	23	1.82
3809730--3809767	20	1.9	19	89	5	58	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3809809--3809881	31	2.5	30	84	6	87	53	5	4	36	1.43
3813034--3813081	14	3.3	15	82	8	55	66	6	0	27	1.15
3819536--3819563	2	14.0	2	100	0	56	50	0	0	50	1.00
3820834--3820929	46	2.1	46	90	0	147	35	3	10	51	1.52
3823116--3823188	36	2.0	36	91	0	119	31	15	5	47	1.67
3831198--3831272	31	2.4	31	90	0	123	46	9	13	30	1.74
3831989--3832288	146	2.1	147	98	1	586	24	16	28	30	1.97
3832755--3832796	18	2.3	18	80	8	50	66	19	2	11	1.34
3870138--3870181	23	1.9	23	90	0	70	68	11	2	18	1.30
3874343--3874384	2	21.0	2	100	0	84	50	0	0	50	1.00
3874462--3874489	2	14.0	2	100	0	56	50	0	0	50	1.00
3874831--3874859	14	2.1	14	100	0	58	72	6	0	20	1.07
3876182--3876231	13	4.1	12	82	12	66	62	0	0	38	0.96
3876182--3876229	3	15.7	3	83	12	62	64	0	0	35	0.94
3876424--3876836	129	3.2	128	77	8	293	29	18	26	26	1.98
3876991--3877164	91	1.9	91	85	1	242	25	19	14	40	1.90
3877532--3878308	91	8.6	90	92	1	1178	33	20	19	26	1.96
3878364--3878483	43	2.8	43	84	5	154	28	30	13	28	1.94
3878526--3878632	40	2.7	40	85	1	142	40	13	14	32	1.84
3878676--3878820	75	1.9	76	83	9	190	40	13	14	31	1.85
3878672--3878833	75	2.1	76	81	7	188	39	13	16	30	1.87
3880128--3880185	28	2.1	28	87	6	82	24	29	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3881762--3881869	9	12.9	9	82	14	94	1	17	0	80	0.80
3881791--3881866	7	10.7	7	80	18	54	0	18	0	81	0.69
3881755--3881872	50	2.4	49	77	12	116	2	16	0	80	0.82
3881805--3881868	10	6.4	10	82	12	78	0	15	0	84	0.63
3881764--3881868	41	2.6	41	82	8	108	1	17	0	80	0.79
3886837--3886868	2	16.0	2	100	0	64	50	0	0	50	1.00
3887309--3887337	14	2.1	14	100	0	58	72	6	0	20	1.07
3888658--3888709	3	17.7	3	84	11	72	65	0	0	34	0.93
3888658--3888709	17	2.9	18	86	11	72	65	0	0	34	0.93
3888658--3888711	20	2.7	20	88	2	81	62	0	0	37	0.95
3892555--3893012	43	10.6	44	80	4	463	32	17	24	25	1.97
3892580--3892999	86	4.9	86	90	2	571	31	17	25	25	1.97
3893859--3893912	26	2.1	26	100	0	108	51	11	18	18	1.74
3894909--3894951	20	2.1	21	95	4	79	13	25	13	46	1.81
3895710--3895740	15	2.1	15	93	0	53	58	25	9	6	1.54
3896039--3896097	30	2.0	30	93	6	102	35	3	16	44	1.65
3896296--3896335	21	1.9	21	94	0	71	30	30	20	20	1.97
3897248--3897292	23	2.0	23	82	8	56	53	0	0	46	1.00
3899834--3899894	26	2.2	29	88	8	92	31	0	8	60	1.26
3900158--3900207	26	1.9	26	83	0	64	54	2	2	42	1.23
3916120--3916169	26	1.9	26	84	8	66	48	0	2	50	1.12
3915901--3916531	340	1.9	340	87	2	944	45	6	5	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3922408--3922459	15	3.5	15	89	0	68	28	7	1	61	1.34
3922433--3922503	3	23.7	3	94	0	124	33	0	1	64	1.02
3922417--3922513	15	6.4	15	90	1	113	34	2	1	62	1.13
3922960--3922984	6	4.2	6	100	0	50	52	16	32	0	1.44
3935202--3935233	16	2.0	16	93	0	55	84	0	15	0	0.63
3935568--3935604	19	1.9	19	94	0	65	29	5	13	51	1.63
3936267--3936615	52	6.7	52	99	0	680	22	15	24	37	1.93
3936527--3936824	130	2.3	130	98	0	569	27	13	22	36	1.91
3936657--3936762	52	2.1	48	88	11	153	25	15	23	35	1.94
3937420--3938282	112	7.7	112	96	0	1253	37	13	20	29	1.90
3938563--3938614	15	3.5	15	89	0	68	28	7	1	61	1.34
3938588--3938652	3	21.7	3	93	0	112	33	0	1	64	1.03
3938572--3938652	15	5.4	15	92	0	99	33	2	1	62	1.16
3939110--3939140	6	5.2	6	100	0	62	51	16	32	0	1.44
3940048--3940096	24	2.1	22	81	7	53	38	2	2	57	1.22
3944510--3944594	36	2.4	36	93	0	143	29	34	4	31	1.78
3945539--3945591	3	17.7	3	92	0	88	32	1	0	66	1.03
3945591--3945629	15	2.5	16	95	4	71	64	0	0	35	0.94
3946044--3946081	18	2.2	16	90	9	58	71	7	21	0	1.11
3946038--3946109	28	2.6	28	84	0	90	70	8	20	0	1.12
3958736--3958781	19	2.6	17	81	15	58	30	6	13	50	1.66
3959528--3960258	82	8.9	82	91	3	1066	27	13	22	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961058--3961752	117	6.2	114	74	13	514	37	14	18	29	1.90
3961175--3961349	94	1.9	94	85	2	244	34	18	16	30	1.93
3961327--3961753	117	3.7	116	87	3	558	38	12	19	29	1.88
3961323--3961753	233	1.8	233	85	5	604	38	12	19	28	1.88
3961988--3962023	3	12.0	3	93	0	63	33	2	0	63	1.08
3962022--3962056	12	2.8	13	87	12	56	62	0	0	37	0.95
3962466--3962504	18	2.2	17	90	4	60	71	7	20	0	1.10
3962460--3962532	29	2.6	29	82	2	85	71	8	20	0	1.11
3966100--3966133	14	2.3	15	90	10	52	73	0	0	26	0.83
3971089--3971164	31	2.5	31	88	0	107	48	11	10	28	1.73

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