genome.fa.s9344.2.7.7.80.10.50.1000.19.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: 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  19  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)
3285516--3285819	149	2.0	149	98	0	581	27	17	20	34	1.95
3285798--3285842	23	2.0	23	86	0	63	20	24	28	26	1.99
3289071--3289105	18	1.9	18	88	11	54	54	5	17	22	1.64
3289162--3289205	22	2.0	22	86	4	63	45	0	22	31	1.53
3289988--3290291	149	2.0	149	98	0	590	27	17	20	34	1.95
3290270--3290314	23	2.0	23	86	0	63	20	24	28	26	1.99
3293025--3293086	21	2.6	25	73	21	71	29	8	0	62	1.23
3293025--3293070	24	1.9	25	86	8	69	28	8	0	63	1.24
3298920--3298969	18	2.8	18	100	0	100	50	16	4	30	1.63
3299382--3299428	21	2.2	22	85	11	62	31	4	0	63	1.13
3299365--3299427	22	2.6	25	77	20	64	31	6	0	61	1.21
3317719--3317775	23	2.5	23	100	0	114	26	29	14	29	1.95
3322248--3322294	20	2.3	20	96	0	85	36	17	23	23	1.95
3322244--3322296	20	2.8	18	81	10	61	39	15	24	20	1.91
3325598--3325628	6	5.2	6	100	0	62	35	48	16	0	1.46
3325626--3325650	5	5.0	5	100	0	50	20	40	40	0	1.52
3328023--3328071	18	2.7	18	96	0	89	16	48	20	14	1.80
3335261--3335312	26	2.0	26	85	7	70	17	40	21	21	1.91
3335282--3335328	18	2.6	18	96	0	85	17	46	21	14	1.83
3335293--3335317	13	1.9	13	100	0	50	16	48	24	12	1.79
3335336--3335411	29	2.6	29	85	0	89	25	7	23	43	1.80
3335365--3335430	29	2.4	28	84	5	80	28	6	22	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3338719--3338769	22	2.3	22	100	0	102	9	23	11	54	1.66
3340409--3340476	33	2.1	33	97	0	127	25	14	22	38	1.92
3340420--3340493	33	2.2	33	92	2	121	27	17	20	35	1.95
3343941--3343986	3	15.3	3	100	0	92	67	0	0	32	0.91
3344197--3344265	23	3.0	23	84	0	75	28	26	24	20	1.99
3344205--3344265	23	2.7	23	86	0	86	27	26	26	19	1.99
3344487--3344545	31	1.9	30	83	10	75	35	23	3	37	1.72
3347343--3347375	16	2.1	16	94	0	57	39	6	27	27	1.80
3347379--3347468	33	2.7	34	89	3	146	23	15	23	37	1.93
3349050--3349178	16	8.1	16	73	3	107	44	31	12	11	1.78
3349050--3349133	32	2.6	32	90	3	125	48	32	10	8	1.68
3349060--3349165	48	2.2	48	83	3	124	45	33	12	9	1.74
3349082--3349174	48	1.9	48	91	0	150	43	30	12	13	1.82
3349130--3349195	32	2.2	31	84	12	86	43	30	12	13	1.80
3351622--3351674	20	2.7	19	91	2	79	20	18	28	32	1.97
3354366--3354462	44	2.2	44	85	7	126	25	20	27	25	1.99
3357531--3357561	14	2.2	14	100	0	62	38	19	0	41	1.51
3364000--3364031	12	2.7	12	90	0	55	62	0	12	25	1.30
3369190--3369232	15	2.9	15	92	0	68	44	2	0	53	1.13
3370331--3370509	93	1.9	93	94	0	313	45	10	26	18	1.81
3371263--3371336	37	2.0	37	100	0	148	21	8	18	51	1.72
3382178--3382357	45	3.8	45	79	13	193	44	0	3	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3382178--3382357	15	11.5	15	79	12	175	44	0	3	51	1.24
3382319--3382375	18	3.4	18	69	18	59	33	0	12	54	1.38
3382305--3382676	32	12.4	32	71	22	215	34	0	12	52	1.39
3382328--3382993	54	12.3	54	77	9	515	34	0	13	52	1.42
3382440--3382558	22	5.0	22	73	18	103	36	0	11	52	1.38
3382570--3382612	22	2.0	22	100	0	86	34	0	13	51	1.42
3382305--3383088	296	2.6	300	95	2	1386	34	0	13	52	1.41
3382656--3382854	22	8.0	22	65	23	83	34	0	13	51	1.45
3382703--3382810	32	3.7	32	75	23	137	35	0	12	51	1.40
3382843--3382896	14	3.6	14	72	18	54	37	0	5	57	1.22
3382838--3382976	32	4.5	32	82	13	184	33	0	12	53	1.39
3382857--3382914	18	3.4	18	70	18	61	34	0	10	55	1.34
3382895--3383019	26	4.7	26	72	20	107	28	0	17	53	1.44
3382947--3382994	22	2.4	18	73	23	51	33	0	14	52	1.42
3382902--3383073	80	2.2	80	100	0	344	30	0	16	52	1.44
3383036--3383078	22	2.0	22	100	0	86	34	0	13	51	1.42
3382410--3383088	54	12.5	54	73	13	359	34	0	13	52	1.42
3383102--3383161	31	1.9	31	90	6	95	43	8	6	41	1.61
3383179--3383221	16	2.7	16	92	0	68	23	6	6	62	1.45
3383851--3383916	29	2.5	25	80	19	89	6	36	33	24	1.80
3383863--3383933	29	2.4	29	100	0	142	8	33	36	21	1.83
3383863--3383963	29	3.5	29	90	0	112	12	29	37	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385871--3385911	16	2.6	16	88	3	57	34	7	21	36	1.82
3387346--3387413	35	1.9	36	88	8	104	44	2	1	51	1.25
3387352--3387504	83	1.8	83	85	2	218	39	3	11	45	1.56
3388529--3388568	17	2.4	17	95	0	71	0	47	0	52	1.00
3389701--3389752	21	2.4	21	87	3	68	26	23	26	23	2.00
3390716--3390759	23	1.9	23	90	0	70	18	27	27	27	1.98
3390888--3390933	24	1.9	24	90	0	74	17	26	26	30	1.97
3395937--3395977	20	1.9	23	85	14	61	26	17	17	39	1.91
3401480--3401515	15	2.4	15	90	0	54	38	0	2	58	1.13
3403294--3403363	27	2.6	27	80	19	92	31	1	8	58	1.37
3403298--3403354	25	2.3	25	88	11	82	29	1	10	57	1.42
3405218--3405289	32	2.3	32	83	9	87	41	13	12	31	1.82
3412327--3412386	27	2.3	25	78	16	68	28	1	6	63	1.29
3423185--3423212	4	7.0	4	100	0	56	25	0	0	75	0.81
3424652--3424701	26	2.0	24	84	11	64	68	0	4	28	1.08
3425932--3425965	17	2.1	17	88	5	52	14	0	2	82	0.79
3430250--3430326	34	2.3	33	86	4	109	35	2	3	58	1.30
3430853--3430934	21	3.9	21	85	6	121	21	21	36	19	1.95
3430847--3430938	42	2.2	42	92	0	157	21	25	33	19	1.97
3430944--3430991	21	2.3	21	88	0	69	20	12	41	25	1.87
3432084--3432586	254	2.0	248	97	2	952	28	26	17	27	1.98
3434204--3434260	9	5.7	10	76	12	55	12	28	22	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3434527--3434623	35	2.8	33	89	4	115	52	2	15	29	1.54
3434544--3434623	35	2.3	35	95	0	142	51	1	16	31	1.52
3434642--3434702	10	6.1	10	96	0	113	19	39	9	31	1.84
3438051--3438106	27	2.1	27	82	0	67	53	16	3	26	1.59
3439325--3439360	15	2.4	15	95	0	63	41	0	41	16	1.48
3440037--3440159	44	2.8	44	77	18	114	27	20	24	27	1.99
3441311--3441353	19	2.4	18	88	7	61	23	23	18	34	1.96
3447119--3447198	21	3.7	21	71	17	65	30	22	18	28	1.98
3447119--3447213	45	2.1	44	87	12	133	28	23	18	29	1.98
3447134--3447219	23	3.8	22	80	7	93	27	22	19	30	1.98
3449853--3449890	20	1.9	20	94	0	67	26	28	21	23	1.99
3455541--3455591	21	2.4	21	96	0	93	19	19	35	25	1.95
3459396--3459458	31	2.1	30	93	3	108	30	14	30	25	1.95
3467798--3467827	11	2.7	11	100	0	60	10	36	16	36	1.82
3468716--3468766	19	2.6	20	90	3	77	43	23	17	15	1.88
3468753--3468806	20	2.7	20	94	0	90	51	18	18	11	1.74
3468841--3469008	20	8.4	20	93	0	255	35	17	26	21	1.95
3469001--3469040	20	2.0	20	90	0	62	52	17	17	12	1.74
3468901--3469028	40	3.2	39	77	12	116	39	17	25	17	1.92
3468836--3469028	60	3.2	60	84	0	233	38	16	24	20	1.93
3469118--3469203	6	14.5	6	98	1	165	32	51	16	0	1.45
3469894--3469931	6	6.5	6	96	3	69	0	15	52	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3470009--3470048	20	2.0	20	95	0	71	10	20	17	52	1.72
3470041--3470211	20	8.4	20	85	3	216	21	25	16	35	1.95
3470054--3470232	83	2.2	83	89	0	268	22	25	17	35	1.95
3470039--3470336	20	14.6	20	76	7	134	19	23	19	38	1.93
3470286--3470336	19	2.6	20	90	3	77	15	17	23	43	1.88
3470627--3470736	51	2.2	50	85	6	143	17	31	30	20	1.96
3470879--3470908	10	3.0	10	95	0	51	33	30	0	36	1.58
3470951--3470989	18	2.2	18	90	4	62	30	2	2	64	1.21
3473154--3473227	25	3.0	24	68	20	62	25	6	4	63	1.37
3476908--3477037	51	2.5	50	80	7	147	22	28	32	16	1.96

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