genome.fa.s8747.2.7.7.80.10.50.1000.13.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  13  of  51  ( 6054 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)
3094406--3094464	24	2.4	25	78	13	70	59	1	3	35	1.24
3095590--3095675	32	2.7	31	89	3	127	10	10	26	52	1.68
3095588--3095641	16	3.4	16	71	2	56	12	9	27	50	1.71
3095604--3095698	31	2.7	38	68	21	96	12	12	24	50	1.75
3097364--3097438	18	4.2	19	84	6	68	20	40	18	21	1.92
3104506--3104553	18	2.6	19	87	9	73	10	27	31	31	1.90
3104560--3104613	18	3.1	18	72	5	65	22	40	16	20	1.91
3105292--3105333	7	6.0	7	100	0	84	42	14	14	28	1.84
3110367--3110544	90	2.0	90	89	0	275	36	10	7	44	1.68
3110506--3110574	22	3.2	21	69	16	61	47	1	5	44	1.35
3112173--3112248	25	3.0	25	92	3	116	22	15	15	46	1.84
3113165--3113214	14	3.6	14	91	0	82	22	20	34	24	1.97
3118313--3118360	19	2.5	19	86	0	78	18	16	43	20	1.88
3118355--3118418	23	2.8	23	97	0	119	35	18	15	29	1.92
3122130--3122169	20	2.0	21	90	5	64	25	15	10	50	1.74
3129047--3129094	24	2.0	23	88	11	71	37	4	0	58	1.18
3130481--3130546	31	2.1	31	94	0	114	53	16	10	19	1.72
3133501--3133525	12	2.1	12	100	0	50	24	52	16	8	1.70
3135757--3136507	5	149.6	5	98	0	1277	57	19	2	20	1.54
3136584--3136744	2	83.5	2	67	18	74	50	5	0	43	1.25
3136654--3136688	13	2.8	12	91	8	52	57	0	0	42	0.99
3136718--3136766	7	6.4	7	78	17	53	59	4	0	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3136711--3136761	18	3.2	18	76	23	60	56	7	0	35	1.28
3137603--3137711	56	1.9	56	92	0	182	33	11	20	34	1.89
3152102--3152132	12	2.6	12	100	0	62	32	29	12	25	1.93
3157738--3157771	2	17.0	2	100	0	68	50	0	0	50	1.00
3159102--3159888	106	7.4	106	84	2	936	23	18	23	35	1.96
3159099--3159888	212	3.7	211	88	1	1060	23	18	23	35	1.96
3159099--3159885	318	2.5	316	85	2	1038	23	18	23	35	1.96
3160244--3160322	37	2.1	37	81	4	88	41	15	16	26	1.88
3160432--3160500	35	2.0	35	94	0	120	27	8	17	46	1.77
3161052--3161087	18	2.0	18	94	0	63	41	33	8	16	1.78
3161478--3161532	22	2.5	22	96	0	101	23	10	27	38	1.88
3162142--3162183	17	2.5	17	81	11	52	2	11	4	80	0.95
3167371--3167951	106	5.5	106	86	0	732	23	18	22	35	1.96
3168495--3168561	34	2.0	34	93	0	116	29	8	16	44	1.78
3169115--3169150	18	2.0	18	94	0	63	41	33	8	16	1.78
3169541--3169595	22	2.5	22	96	0	101	23	10	27	38	1.88
3175063--3175697	106	6.0	106	85	1	817	22	18	23	35	1.96
3175616--3175757	63	2.3	63	83	2	178	26	18	23	32	1.97
3176162--3176246	37	2.3	37	81	4	91	43	15	16	24	1.86
3176356--3176422	34	2.0	34	90	0	107	28	8	16	46	1.77
3178682--3178733	2	26.0	2	100	0	104	50	0	0	50	1.00
3190443--3190498	22	2.9	18	86	10	67	26	30	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3190460--3190506	22	2.1	22	96	0	85	27	23	21	27	1.99
3193636--3193683	20	2.5	20	89	3	71	37	0	25	37	1.56
3194837--3194879	22	2.0	21	86	4	59	39	4	13	41	1.66
3195097--3195159	27	2.3	27	97	0	117	49	11	17	22	1.78
3195097--3195167	27	2.6	27	93	0	106	49	11	16	22	1.78
3196090--3196156	31	2.2	30	82	12	84	35	7	20	35	1.81
3197652--3197685	17	1.9	18	88	5	52	52	0	0	47	1.00
3199274--3199313	15	2.7	15	88	0	62	70	10	0	20	1.16
3205598--3205636	21	1.9	21	89	5	62	71	15	0	12	1.14
3205845--3205932	26	3.3	26	83	1	122	13	39	20	26	1.90
3206960--3207004	22	2.0	22	100	0	90	28	8	13	48	1.72
3208588--3208660	37	2.0	37	83	0	92	32	16	20	30	1.95
3209133--3209171	20	1.9	21	84	5	53	23	2	25	48	1.63
3218134--3218166	17	1.9	17	93	0	57	45	15	0	39	1.46
3221413--3221456	21	2.1	21	82	0	52	34	18	22	25	1.96
3225750--3226854	551	2.0	552	92	0	1845	33	21	14	30	1.94
3238520--3238601	35	2.3	36	93	2	139	35	25	2	36	1.70
3240893--3240950	23	2.8	21	84	12	75	18	25	34	20	1.96
3248752--3248812	28	2.2	27	85	2	77	16	26	1	55	1.50
3255363--3255415	24	2.2	24	96	0	97	41	9	24	24	1.84
3259268--3259319	24	2.2	24	96	0	95	42	7	25	25	1.81
3264531--3264566	5	7.2	5	87	0	54	55	0	2	41	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3264554--3264600	16	2.9	16	84	12	60	55	0	0	44	0.99
3264531--3264633	18	6.0	19	69	25	61	52	0	2	43	1.22
3264575--3264613	16	2.4	16	86	0	51	48	2	2	46	1.29
3264531--3264859	10	30.7	11	66	20	78	49	3	3	43	1.37
3264717--3264849	2	69.0	2	70	18	86	51	3	1	42	1.28
3264821--3264869	25	1.9	26	83	4	64	59	6	0	34	1.22
3270417--3270441	2	12.5	2	100	0	50	48	0	0	52	1.00
3273991--3274027	17	2.2	17	95	0	65	29	13	10	45	1.77
3281183--3281221	19	2.0	20	90	5	62	33	7	10	48	1.66
3290114--3290178	27	2.4	27	94	2	114	35	26	4	33	1.77
3295671--3295770	48	2.1	48	90	0	155	28	30	12	30	1.92
3306857--3307057	67	3.0	67	87	0	303	37	20	20	20	1.94
3306856--3307050	31	6.0	31	68	19	121	37	20	19	22	1.94
3337972--3338010	21	1.9	20	84	5	51	66	10	15	7	1.43
3338307--3338340	17	2.0	17	88	11	52	61	5	2	29	1.34
3340676--3340722	20	2.4	20	89	3	69	38	0	25	36	1.56
3341954--3341996	22	2.0	21	86	4	59	37	6	13	41	1.72
3344099--3344177	21	3.7	21	75	18	83	24	11	24	40	1.87
3344095--3344180	43	2.0	44	90	6	140	25	10	24	39	1.87
3349765--3349819	22	2.5	22	90	0	92	23	30	20	25	1.98
3352173--3352216	15	2.9	15	93	0	79	77	4	18	0	0.94
3352172--3352262	6	15.3	6	72	14	64	75	3	18	2	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352173--3352231	15	3.8	16	82	12	70	77	3	16	1	0.98
3352224--3352268	17	2.6	18	86	10	67	73	2	20	4	1.11
3352190--3352270	29	2.8	28	77	17	69	75	2	18	3	1.07
3359981--3360089	18	6.1	18	82	0	146	20	39	20	20	1.93
3359982--3360088	36	3.0	36	90	0	169	20	38	20	20	1.94
3364373--3364415	20	2.2	20	83	8	52	30	11	20	37	1.89
3364713--3364819	18	5.9	18	88	0	169	18	39	22	19	1.93
3364714--3364823	36	3.1	36	94	1	195	20	39	21	19	1.93
3368233--3368271	21	1.9	20	89	5	60	66	20	0	12	1.24
3369250--3369310	30	2.0	30	90	6	97	29	16	26	27	1.97
3371679--3371717	20	1.9	21	84	5	53	23	2	25	48	1.63
3372198--3372232	17	2.1	17	88	0	52	11	34	20	34	1.88
3372926--3372960	17	2.1	17	88	0	52	45	2	2	48	1.32
3396608--3396663	27	2.0	28	83	10	71	16	25	1	57	1.49
3401236--3401397	2	88.5	2	73	21	133	50	2	1	45	1.25
3401492--3401541	25	1.9	27	88	8	77	54	10	4	32	1.52
3410314--3410357	21	2.2	20	84	12	54	25	13	0	61	1.32
3415078--3415117	21	1.9	21	85	10	55	55	12	5	27	1.58
3415244--3415282	18	2.2	18	86	9	53	46	2	15	35	1.60
3415243--3415286	20	2.3	18	80	7	52	50	2	15	31	1.57
3420085--3420134	23	2.2	23	92	0	82	42	22	16	20	1.89
3422676--3422719	22	2.0	22	91	8	72	29	15	9	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3422717--3422755	18	2.0	20	85	9	55	35	48	12	2	1.55
3429504--3429554	23	2.2	23	82	6	59	45	21	11	21	1.84
3442356--3442408	25	2.1	26	82	10	65	58	0	0	41	0.98
3452150--3452198	26	2.0	25	85	14	68	53	2	4	40	1.32
3469436--3469687	131	1.9	131	85	1	344	42	17	8	30	1.79
3470889--3470931	18	2.5	17	88	3	59	67	0	0	32	0.91
3471330--3472076	243	3.1	241	83	4	932	32	16	15	35	1.90
3471949--3472050	40	2.5	41	79	9	102	27	20	21	30	1.98
3478213--3478260	24	2.0	24	100	0	96	29	16	12	41	1.85
3479429--3479457	14	2.0	15	93	6	51	44	6	0	48	1.29

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   40   41   42   43   44   45   46   47   48   
          49   50   51