genome.fa.s9592.2.7.7.80.10.50.1000.16.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   31   32   
          33   34   35   36   37   38   39   

This is table  16  of  39  ( 4673 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)
3253068--3253164	44	2.2	42	82	8	106	25	18	19	36	1.95
3256086--3256126	21	2.0	21	100	0	82	29	9	26	34	1.88
3256501--3256654	21	7.6	20	71	7	78	38	24	16	19	1.92
3256626--3256695	20	3.5	20	80	7	63	41	27	17	14	1.87
3256626--3256815	40	4.7	40	83	4	197	35	26	17	19	1.94
3256664--3256818	20	7.7	20	88	4	231	32	27	19	21	1.97
3256626--3256818	60	3.2	60	81	5	237	35	26	18	19	1.95
3257198--3257266	33	2.1	33	94	0	120	10	23	17	49	1.77
3257348--3257453	21	5.6	20	75	16	109	46	18	21	13	1.83
3257408--3257464	14	3.7	14	75	20	60	43	22	24	8	1.81
3257392--3257468	33	2.3	33	95	2	136	46	20	24	7	1.77
3257497--3257553	14	3.7	14	75	20	60	8	24	22	43	1.81
3257480--3257602	33	3.5	33	88	10	165	10	24	18	46	1.81
3257538--3257602	21	3.1	21	82	4	96	10	26	15	47	1.78
3259276--3259591	93	3.4	93	98	0	596	22	13	18	45	1.85
3259707--3259763	14	3.7	14	72	20	51	43	24	22	8	1.81
3259721--3259812	19	5.4	18	72	24	65	46	28	17	7	1.75
3259689--3259812	33	3.7	33	91	1	185	45	27	17	8	1.78
3259738--3259796	14	3.9	14	76	20	64	47	28	16	6	1.72
3259808--3259980	19	9.6	19	75	12	150	10	19	23	46	1.81
3259808--3259980	33	4.8	38	79	8	159	10	19	23	46	1.81
3261903--3261937	14	2.6	14	90	4	54	31	0	22	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262044--3262123	20	4.4	19	80	16	98	45	17	23	13	1.84
3262132--3262353	53	4.2	52	85	8	258	15	22	17	45	1.85
3262140--3262367	86	2.7	89	90	8	350	14	22	17	45	1.84
3262156--3262367	33	6.2	33	74	17	202	14	22	17	45	1.84
3264650--3264674	12	2.1	12	100	0	50	0	28	0	72	0.86
3264849--3264895	24	2.0	24	87	8	69	38	21	14	25	1.92
3265588--3265756	20	8.4	20	83	5	171	18	17	26	36	1.94
3265724--3265821	21	4.8	20	75	10	81	21	19	21	37	1.94
3265724--3265822	42	2.4	43	77	11	100	21	19	22	37	1.94
3266184--3266239	24	2.3	25	87	3	78	58	3	10	26	1.48
3270615--3270672	27	2.1	27	84	6	73	25	12	17	44	1.83
3275474--3275580	57	1.9	56	84	1	142	29	26	14	28	1.95
3277785--3277842	27	2.1	27	84	6	73	24	10	18	46	1.80
3282644--3282685	18	2.4	18	92	4	68	54	19	2	23	1.55
3282745--3283413	36	18.6	36	89	1	921	21	24	22	31	1.98
3289638--3289913	130	2.1	130	93	0	473	38	8	17	36	1.79
3296648--3296689	22	1.9	22	100	0	84	28	4	9	57	1.51
3296648--3296694	22	2.3	20	89	10	69	29	6	8	55	1.55
3300078--3300125	3	17.0	3	79	12	57	62	0	2	35	1.07
3300055--3300126	14	5.0	14	69	12	56	59	0	1	38	1.06
3300339--3300571	123	1.9	123	83	8	307	26	16	15	42	1.87
3300482--3300786	112	2.7	113	89	4	465	27	19	13	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300721--3300817	36	2.5	39	88	11	164	19	22	10	47	1.79
3300743--3300805	19	3.4	19	70	26	62	15	23	11	49	1.77
3300758--3300813	17	3.2	16	69	26	51	21	19	12	46	1.83
3300609--3300931	149	2.1	150	89	6	503	25	21	13	39	1.90
3300761--3301121	113	3.2	113	88	5	547	28	20	14	36	1.91
3300858--3301430	309	1.9	309	88	3	877	29	19	14	36	1.91
3301167--3301591	112	3.8	113	88	4	635	28	19	14	38	1.90
3301167--3301592	226	1.9	226	90	3	689	27	19	14	38	1.90
3301624--3301785	76	2.1	76	88	0	243	35	19	18	26	1.95
3302463--3302539	22	3.5	22	96	0	145	40	14	11	33	1.82
3304961--3305260	115	2.6	115	96	1	548	33	18	15	32	1.93
3304919--3305260	115	3.0	113	92	3	535	31	18	15	34	1.92
3307519--3307565	16	2.9	16	87	0	67	2	14	2	80	0.89
3307519--3307569	19	2.8	19	80	13	54	1	15	1	80	0.89
3307867--3307908	2	21.0	2	100	0	84	50	0	0	50	1.00
3310072--3310122	26	2.0	26	88	0	75	54	11	13	19	1.69
3312340--3312393	22	2.4	21	81	9	54	55	0	1	42	1.10
3313658--3313705	3	17.0	3	79	12	57	62	0	2	35	1.07
3313667--3313706	14	2.9	14	85	3	55	65	0	0	35	0.93
3323457--3323505	13	3.8	13	86	2	64	16	16	51	16	1.78
3327484--3327538	28	2.0	28	85	0	74	29	18	20	32	1.96
3327815--3327857	21	2.1	22	87	12	65	44	9	0	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328192--3328282	44	2.1	44	83	8	114	28	15	26	29	1.96
3331982--3332278	40	7.2	40	83	7	319	34	17	20	27	1.95
3331982--3332240	41	6.3	42	82	7	255	35	16	21	26	1.95
3331984--3332219	83	2.8	83	86	1	310	34	16	22	27	1.95
3331982--3332278	124	2.4	123	81	8	334	34	17	20	27	1.95
3332987--3333015	15	1.9	15	100	0	58	58	0	0	41	0.98
3334079--3334443	130	2.8	131	88	3	538	40	17	9	31	1.83
3334901--3334950	24	2.1	23	85	10	66	68	12	6	14	1.39
3336465--3336519	3	18.0	3	89	10	85	67	0	0	32	0.91
3338119--3338219	7	14.4	7	84	8	134	3	13	0	82	0.81
3338119--3338237	21	5.6	21	83	6	134	5	14	0	80	0.87
3338118--3338190	1	73.0	1	72	0	56	1	12	0	86	0.64
3349374--3349406	11	2.8	12	86	9	50	54	0	0	45	0.99
3349633--3349699	22	3.4	22	62	33	60	52	4	11	31	1.58
3349637--3349716	37	2.2	36	91	6	133	53	3	8	33	1.50
3350982--3351023	3	14.0	3	85	9	59	61	0	0	38	0.96
3351265--3351323	17	3.4	17	68	25	50	15	25	11	47	1.79
3351367--3352036	113	5.9	113	86	4	915	28	18	15	37	1.92
3351367--3352041	226	3.0	226	91	1	1036	28	18	15	37	1.91
3352729--3353180	114	4.0	114	94	1	771	31	19	16	32	1.94
3353474--3353522	16	2.8	17	78	12	55	46	6	10	36	1.63
3353877--3353933	7	7.9	7	81	14	53	7	7	0	85	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3353876--3353947	18	4.1	17	79	13	74	6	8	0	84	0.77
3364947--3364979	11	2.8	12	86	9	50	54	0	0	45	0.99
3366579--3366634	3	19.0	3	92	3	87	64	0	0	35	0.94
3377288--3377648	131	2.8	131	87	2	503	41	16	11	31	1.83
3378106--3378155	24	2.1	24	85	7	66	66	12	6	16	1.43
3380073--3380250	21	8.6	21	81	8	213	30	21	23	24	1.99
3380093--3380269	41	4.3	42	81	11	206	32	20	22	24	1.98
3380198--3380323	41	3.1	41	83	8	125	30	19	22	27	1.98
3380093--3380250	62	2.5	62	88	4	264	31	20	22	24	1.98
3380259--3380378	21	5.6	21	72	18	86	25	20	22	31	1.98
3380073--3380276	103	2.0	103	92	2	338	31	21	23	24	1.98
3380309--3380359	25	2.0	25	88	0	75	29	15	23	31	1.95
3380525--3380556	5	6.4	5	100	0	64	37	21	40	0	1.54
3380663--3380698	10	3.3	11	92	7	56	27	55	16	0	1.42
3380667--3380701	5	6.6	5	96	3	52	25	54	20	0	1.45
3380699--3380730	5	6.4	5	100	0	64	37	21	40	0	1.54
3380699--3380740	15	2.8	15	89	7	50	38	21	40	0	1.53
3388831--3388912	30	2.7	30	77	15	89	42	6	4	46	1.50
3406599--3406652	25	2.2	24	90	3	81	46	1	1	50	1.23
3408116--3408158	12	3.2	14	81	18	56	76	0	4	18	0.95
3409429--3409496	17	4.1	15	78	21	57	72	0	4	23	1.03
3409441--3409493	24	2.3	23	81	12	63	71	0	3	24	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409536--3409632	43	2.2	45	82	10	112	44	8	2	45	1.45
3409591--3409626	14	2.5	15	90	4	56	44	8	2	44	1.48
3409588--3409887	38	8.3	37	74	17	249	45	7	3	43	1.50
3409540--3409694	81	1.9	83	83	2	206	43	9	3	43	1.54
3409590--3409733	68	2.1	69	89	2	229	44	8	4	43	1.53
3409659--3409687	14	2.1	14	100	0	58	44	6	6	41	1.58
3409588--3409853	106	2.5	106	91	4	414	46	8	4	41	1.53
3409733--3409799	31	2.2	31	88	0	98	49	8	2	38	1.50
3409696--3409836	68	2.1	68	88	7	207	47	9	3	39	1.53
3409765--3409800	14	2.5	14	90	4	54	44	8	2	44	1.48

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   31   32   
          33   34   35   36   37   38   39