genome.fa.s8523.2.7.7.80.10.50.1000.13.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  13  of  18  ( 2060 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)
3298200--3298243	21	2.0	24	82	13	58	29	11	2	56	1.46
3298767--3298848	29	2.8	29	94	1	137	32	14	9	42	1.79
3303533--3303614	29	2.8	29	94	1	137	32	14	9	42	1.79
3315244--3315282	18	2.2	18	85	0	51	28	2	5	64	1.28
3324854--3325013	43	3.8	42	82	1	178	23	10	25	40	1.87
3324854--3325010	84	1.8	84	87	2	233	24	10	24	40	1.86
3328998--3329155	21	7.8	20	72	7	86	38	25	17	18	1.92
3329122--3329351	20	11.5	20	81	5	232	36	24	18	19	1.94
3330242--3330266	12	2.1	12	100	0	50	72	0	28	0	0.86
3332526--3332707	33	5.3	33	75	16	147	46	19	20	13	1.84
3332540--3332704	19	9.4	19	75	19	180	46	18	20	14	1.84
3332568--3332707	52	2.7	52	95	1	253	46	17	21	14	1.84
3334444--3334653	33	6.2	33	78	14	230	45	19	21	14	1.85
3334458--3334653	19	11.3	19	73	21	189	45	18	20	14	1.85
3334486--3334653	52	3.2	52	94	0	300	45	17	22	14	1.85
3334632--3334745	52	2.2	52	87	0	156	18	23	19	38	1.93
3334650--3334765	52	2.2	52	96	0	214	12	24	18	43	1.85
3334669--3334765	19	5.4	19	84	12	141	14	22	17	45	1.85
3334870--3334906	14	2.6	14	91	0	65	45	21	0	32	1.52
3336824--3336927	19	5.4	19	84	1	118	46	25	17	11	1.81
3336952--3337043	33	2.8	33	93	3	150	7	17	28	46	1.75
3336952--3337080	19	7.3	19	75	17	125	8	16	28	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3337047--3337086	20	2.0	20	85	0	53	20	12	25	42	1.86
3337128--3337410	93	3.1	93	98	0	550	45	19	12	21	1.83
3339106--3339202	20	5.2	20	72	18	100	46	17	24	11	1.81
3339104--3339168	21	3.1	21	82	4	96	47	15	26	10	1.78
3339153--3339209	14	3.7	14	75	20	60	43	22	24	8	1.81
3339104--3339226	33	3.5	33	90	8	165	46	18	24	10	1.81
3339243--3339299	14	3.7	14	75	20	60	8	24	22	43	1.81
3339227--3339307	33	2.5	33	95	0	144	8	22	22	46	1.78
3339284--3339359	21	3.7	21	83	3	109	11	25	17	46	1.82
3339283--3339360	41	1.9	41	97	0	147	12	25	16	44	1.83
3339439--3339509	33	2.2	33	92	0	115	47	18	22	11	1.80
3339690--3339744	22	2.5	22	81	0	74	20	16	40	23	1.91
3339891--3340084	20	9.6	20	81	5	203	19	18	25	36	1.94
3339893--3340064	60	2.8	60	82	0	227	19	18	26	36	1.94
3339891--3340084	60	3.2	60	80	0	226	19	18	25	36	1.94
3340071--3340153	21	4.0	21	73	6	78	25	16	24	33	1.96
3340051--3340149	42	2.4	43	77	11	100	21	18	23	37	1.94
3341016--3341122	20	5.3	20	80	2	124	14	19	19	45	1.85
3341193--3341222	6	5.0	6	100	0	60	33	50	16	0	1.46
3341223--3341258	5	7.4	5	96	3	65	36	22	41	0	1.54
3341740--3341771	6	5.5	6	96	3	57	0	15	53	31	1.43
3341856--3341908	22	2.4	22	90	0	88	39	28	16	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3342486--3342565	40	2.0	40	100	0	160	50	2	20	27	1.61
3345455--3345498	23	1.9	23	90	0	70	50	13	11	25	1.75
3346805--3346925	64	1.9	63	86	8	174	11	10	36	41	1.76
3346635--3347120	270	1.8	270	84	6	664	27	13	19	39	1.89
3347596--3347742	72	2.0	72	85	3	197	32	10	14	42	1.79
3353989--3354033	21	2.0	22	83	16	56	24	8	0	66	1.20
3354453--3354490	15	2.4	16	86	4	51	71	0	2	26	1.00
3355974--3356035	21	3.0	21	79	4	65	25	22	19	32	1.97
3355981--3356035	19	2.8	20	80	5	58	25	21	20	32	1.97
3356600--3356735	19	6.7	19	71	15	85	34	22	19	24	1.96
3356601--3356721	19	5.9	19	73	14	98	33	23	19	23	1.97
3356601--3356721	61	2.0	61	91	0	197	33	23	19	23	1.97
3356608--3356735	61	2.1	61	86	0	175	35	22	18	22	1.95
3360390--3360441	20	2.6	20	96	0	95	38	26	13	21	1.90
3360431--3360529	21	4.8	20	72	6	72	36	23	19	21	1.95
3360496--3360689	20	9.6	20	81	5	221	35	25	19	19	1.95
3360496--3360689	60	3.2	60	83	0	253	35	25	19	19	1.95
3361071--3361141	33	2.2	33	92	0	115	11	22	18	47	1.80
3361261--3361315	14	3.6	14	73	21	56	40	23	27	9	1.85
3361261--3361331	33	2.2	33	92	0	115	42	25	23	8	1.82
3361327--3361444	14	7.1	18	70	23	89	10	25	21	43	1.84
3361332--3361444	32	3.5	32	93	3	199	9	24	21	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3363128--3363500	91	4.1	93	96	3	681	22	12	18	46	1.83
3363543--3363670	19	7.3	19	74	18	116	45	28	17	8	1.78
3363579--3363670	33	2.8	32	90	6	141	45	28	18	7	1.76
3363666--3363800	19	7.6	19	76	16	137	10	19	24	45	1.81
3363688--3363744	14	3.7	14	77	20	60	8	21	24	45	1.80
3363671--3363763	33	2.8	33	98	0	177	9	20	22	47	1.79
3364736--3364802	35	1.9	36	93	6	120	29	1	17	50	1.55
3364784--3364819	14	2.6	14	95	0	63	33	0	22	44	1.53
3364926--3365027	19	5.6	19	84	13	151	44	17	23	14	1.86
3365034--3365350	33	9.1	36	81	14	318	14	21	17	46	1.84
3365056--3365350	19	16.7	19	82	14	375	14	21	16	46	1.83
3365034--3365350	52	6.0	52	93	4	523	14	21	17	46	1.84
3367672--3367696	12	2.1	12	100	0	50	0	28	0	72	0.86
3367870--3367916	24	2.0	24	87	8	69	38	21	14	25	1.92
3368586--3368954	20	18.5	20	86	4	458	20	18	26	34	1.96
3377046--3377267	113	1.9	115	86	4	315	40	18	13	27	1.88
3384263--3384302	21	1.9	21	100	0	80	27	10	37	25	1.88
3384299--3384325	14	1.9	14	100	0	54	29	18	14	37	1.91
3384578--3384629	26	2.0	26	92	0	86	38	3	25	32	1.74
3384612--3384652	20	2.0	20	100	0	82	41	4	19	34	1.73
3386859--3386899	21	2.0	20	85	4	55	68	2	0	29	1.03
3386873--3386902	13	2.3	13	94	0	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3387149--3387206	17	3.6	17	70	25	54	46	0	0	53	1.00
3387165--3387214	14	3.6	14	77	0	55	44	0	0	56	0.99
3387419--3387500	29	2.8	30	70	18	73	47	1	1	50	1.16
3387447--3387493	21	2.4	20	86	10	62	38	2	2	57	1.23
3387988--3388232	121	2.0	120	95	1	438	33	20	9	37	1.85
3399520--3399561	21	2.0	21	85	0	57	35	4	35	23	1.76
3408318--3408359	2	21.0	2	100	0	84	50	0	0	50	1.00
3409945--3410017	37	2.0	36	82	10	87	47	4	1	46	1.30
3420247--3420351	52	2.0	52	94	0	183	47	15	17	20	1.82
3422127--3422223	6	15.2	6	77	12	86	72	2	6	19	1.16
3422155--3422215	14	4.6	14	73	19	58	68	3	6	21	1.27
3422131--3422223	39	2.4	39	92	1	161	70	2	6	20	1.19
3423331--3423377	21	2.4	19	83	13	60	53	8	14	23	1.69
3423340--3423379	21	1.9	21	100	0	80	55	10	10	25	1.64
3429298--3429346	22	2.2	23	82	10	57	63	6	10	20	1.47
3439714--3439753	19	2.1	19	100	0	80	47	22	10	20	1.79
3442665--3442690	2	13.0	2	100	0	52	50	0	0	50	1.00
3449136--3449195	20	3.0	20	95	0	102	56	21	13	8	1.63
3449182--3449208	14	1.9	14	100	0	54	59	29	11	0	1.32
3449136--3449204	20	3.5	20	92	4	95	57	23	11	7	1.58
3449135--3449194	10	6.0	10	86	0	84	58	21	11	8	1.59
3468429--3468463	18	2.0	17	88	5	52	34	8	31	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3468787--3468813	4	6.8	4	100	0	54	0	0	22	77	0.76
3471045--3471097	22	2.4	22	81	15	56	33	3	3	58	1.34
3471131--3471162	11	3.1	11	82	17	50	25	0	6	68	1.12
3471775--3471812	19	2.1	17	90	9	58	10	10	0	78	0.95
3496325--3496372	19	2.5	19	76	6	53	37	2	0	60	1.09
3496363--3496398	10	3.5	10	85	7	54	41	0	2	55	1.14
3498309--3498342	18	1.9	18	88	5	52	26	29	26	17	1.98
3505220--3505254	17	2.1	16	89	5	52	60	2	0	37	1.12
3505924--3505977	2	27.0	2	100	0	108	50	0	0	50	1.00
3506137--3506178	21	2.0	21	95	0	75	42	7	14	35	1.73

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