genome.fa.s8826.2.7.7.80.10.50.1000.15.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

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

This is table  15  of  18  ( 2089 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)
3229455--3229533	21	3.8	21	72	3	70	27	17	18	35	1.94
3236457--3236486	15	1.9	15	93	6	51	63	0	0	36	0.95
3236456--3236493	16	2.4	16	82	8	51	60	0	0	39	0.97
3239005--3239063	21	2.7	21	76	10	57	23	23	5	47	1.71
3239627--3239676	19	2.5	21	75	21	54	70	4	6	20	1.25
3239627--3239669	18	2.4	18	84	7	52	67	4	6	20	1.33
3244232--3244273	6	6.7	6	89	10	66	78	0	4	16	0.91
3244234--3244271	13	2.9	13	100	0	76	78	0	5	15	0.91
3244232--3244273	19	2.2	19	91	8	68	78	0	4	16	0.91
3244232--3244284	19	2.8	20	85	5	56	75	1	7	15	1.11
3249752--3249794	18	2.4	18	84	7	52	65	2	9	23	1.34
3252032--3252061	14	2.1	15	93	6	53	0	6	20	73	1.05
3253222--3253258	20	1.9	19	89	10	58	45	10	24	18	1.81
3254462--3254504	20	2.3	19	88	11	70	23	30	9	37	1.86
3254467--3254504	20	1.9	20	100	0	76	23	28	10	36	1.88
3254899--3255382	245	2.0	243	87	4	697	37	11	4	46	1.61
3256016--3256473	153	3.0	153	97	0	862	25	17	23	33	1.96
3257044--3257213	4	42.5	4	98	0	331	25	0	24	50	1.50
3257214--3257847	4	162.5	4	89	4	895	49	26	1	22	1.57
3257419--3257461	2	21.5	2	85	0	59	51	41	0	6	1.29
3257855--3261209	4	841.2	4	86	5	4195	24	2	25	47	1.64
3260609--3260654	6	8.0	6	76	9	51	13	0	36	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3266844--3266944	19	5.3	19	79	0	103	46	6	14	31	1.71
3267321--3267351	15	2.1	15	100	0	62	48	12	12	25	1.77
3275398--3275458	20	3.1	19	84	13	79	55	11	14	18	1.68
3275200--3275672	181	2.6	182	88	1	671	42	13	16	27	1.86
3275602--3275644	20	2.3	19	88	11	63	51	11	16	20	1.75
3277858--3277922	21	3.1	21	90	0	94	43	10	29	16	1.82
3277956--3278021	33	2.0	33	90	0	105	28	0	48	22	1.51
3279959--3280902	200	4.8	200	88	6	1457	36	14	18	30	1.91
3280402--3280773	179	2.1	180	93	0	638	35	14	19	30	1.91
3282396--3282471	6	12.7	6	91	0	89	40	3	32	22	1.72
3282396--3282471	18	4.2	18	91	0	98	40	3	32	22	1.72
3283685--3285539	183	10.1	183	96	0	3417	34	14	17	33	1.90
3288000--3288064	25	2.6	25	97	0	121	40	10	13	35	1.80
3288348--3288391	22	2.0	21	83	12	54	40	11	9	38	1.73
3288409--3288481	23	3.2	23	92	0	119	34	5	21	38	1.77
3288898--3288970	23	3.2	23	88	0	110	34	5	20	39	1.76
3288898--3288995	46	2.1	45	81	7	108	34	6	17	41	1.74
3288064--3291327	491	6.7	489	97	1	6044	41	7	11	40	1.69
3289385--3289457	23	3.2	23	90	0	110	35	5	20	38	1.76
3289876--3289948	23	3.2	23	90	0	110	35	5	20	38	1.76
3288064--3291327	976	3.3	978	97	0	6076	41	7	11	40	1.69
3290361--3290433	23	3.2	23	90	0	110	35	5	20	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3290852--3290924	23	3.2	23	86	0	101	35	5	19	39	1.75
3313425--3313496	22	3.6	19	75	12	72	29	20	31	18	1.96
3316894--3316918	13	1.9	13	100	0	50	56	0	0	44	0.99
3320753--3320802	24	2.1	24	85	7	66	22	2	16	60	1.46
3327659--3327701	20	2.1	21	87	8	63	13	16	0	69	1.19
3330156--3330205	24	2.1	24	85	7	66	22	2	16	60	1.46
3335387--3335429	22	2.0	23	86	9	63	46	20	13	18	1.83
3335939--3335981	22	2.0	23	86	9	63	46	20	13	18	1.83
3334964--3336072	552	2.0	553	99	0	2193	33	14	17	35	1.90
3336320--3336345	13	2.0	13	100	0	52	23	23	15	38	1.92
3345545--3345593	19	2.6	19	83	6	55	44	22	2	30	1.64
3354395--3354450	14	4.3	14	76	17	66	10	12	23	53	1.69
3354402--3354471	24	2.9	24	87	4	97	12	10	18	58	1.62
3355195--3355269	10	7.7	10	69	21	61	10	12	20	57	1.64
3355201--3355265	16	4.1	16	91	0	112	9	12	21	56	1.63
3355197--3355273	26	3.2	24	76	23	90	11	10	18	59	1.59
3355335--3355367	16	2.1	16	100	0	66	6	12	24	57	1.57
3355557--3355954	41	10.4	39	79	15	301	46	2	5	45	1.39
3355769--3355793	11	2.3	11	100	0	50	40	8	8	44	1.63
3355563--3355954	116	3.4	113	84	8	438	45	2	5	46	1.39
3355861--3355907	24	2.0	24	83	8	60	46	0	6	46	1.28
3355879--3355946	12	5.5	12	71	23	52	45	0	5	48	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3355515--3355970	78	6.0	75	76	16	293	44	3	5	46	1.43
3355985--3356024	20	1.9	22	85	10	57	32	2	0	65	1.06
3357779--3357823	3	14.7	3	86	13	65	28	0	2	68	1.01
3357739--3357862	57	2.2	58	78	11	130	19	8	4	67	1.34
3361423--3361620	95	2.1	96	90	1	317	33	17	17	31	1.93
3362761--3363563	84	9.6	83	82	3	772	30	24	19	25	1.98
3362755--3363533	249	3.1	249	87	1	1035	30	24	19	25	1.98
3362761--3363566	333	2.4	329	84	2	995	30	24	19	25	1.98
3363991--3364191	106	1.9	106	95	0	366	25	17	15	40	1.90
3364357--3364417	11	5.3	11	72	18	52	44	8	4	42	1.55
3364398--3364516	41	2.9	41	87	1	177	43	5	5	46	1.47
3364404--3364630	108	2.1	104	89	5	339	43	3	5	47	1.44
3364486--3364555	27	2.5	28	84	9	90	42	2	5	48	1.41
3364445--3364583	67	2.1	68	91	4	228	44	3	5	46	1.42
3364513--3364693	35	4.9	40	81	12	160	45	1	6	46	1.39
3365672--3365705	2	17.0	2	100	0	68	50	0	0	50	1.00
3366152--3366199	18	3.0	15	78	21	53	25	6	0	68	1.12
3366211--3366235	2	12.5	2	100	0	50	48	0	0	52	1.00
3366466--3366546	42	1.9	42	84	0	108	14	12	3	69	1.32
3366488--3366616	42	2.9	43	79	18	117	17	10	4	68	1.35
3368525--3368575	23	2.2	23	89	0	75	33	17	11	37	1.86
3368702--3368957	119	2.2	118	84	2	318	30	16	15	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3372460--3372491	16	2.0	16	93	0	55	21	0	0	78	0.76
3373059--3373124	32	2.0	33	94	2	116	42	21	22	13	1.88
3373427--3373492	32	2.0	33	88	2	98	16	22	19	40	1.91
3374611--3374680	2	35.0	2	100	0	140	50	0	0	50	1.00
3376456--3376495	20	2.0	21	90	5	64	27	25	27	20	1.99
3382378--3382410	2	16.5	2	100	0	66	48	0	0	51	1.00
3383707--3383759	20	2.7	18	78	18	61	33	18	26	20	1.96
3383782--3383824	19	2.3	19	100	0	86	30	16	25	27	1.97
3383789--3383841	19	2.8	19	88	0	70	37	16	16	28	1.91
3384194--3384303	55	2.0	55	87	0	157	32	14	21	30	1.93
3384506--3384993	81	5.9	81	86	5	670	33	11	26	29	1.90
3384774--3384959	93	2.0	93	90	0	291	32	10	27	29	1.90
3386137--3386489	81	4.4	81	91	0	519	36	11	24	27	1.90
3386141--3386538	162	2.5	161	83	7	461	36	10	24	28	1.89
3387918--3387943	3	8.7	3	100	0	52	0	34	0	65	0.93
3388505--3388558	20	2.7	21	74	8	58	33	18	25	22	1.97
3388595--3388634	22	1.9	21	94	5	64	37	15	17	30	1.90
3388974--3389175	55	3.7	55	81	2	237	34	12	21	30	1.91
3389341--3389830	81	6.1	81	87	2	668	36	11	23	27	1.89
3389704--3389969	142	1.9	141	82	7	342	38	10	22	28	1.87
3392575--3392923	162	2.2	162	91	2	558	36	11	24	28	1.90
3392575--3392923	81	4.3	81	88	3	506	36	11	24	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3395376--3395593	55	4.0	55	79	2	224	34	12	20	31	1.91
3395743--3396217	81	5.9	81	88	0	646	37	10	24	27	1.89
3397395--3397648	81	3.1	81	90	1	393	37	11	23	27	1.89
3398688--3398768	34	2.4	34	82	10	96	53	2	3	40	1.32
3398810--3398847	8	4.9	8	83	6	51	47	2	0	50	1.15
3408879--3408954	31	2.5	31	93	0	125	42	19	17	21	1.90
3409275--3409322	23	2.2	21	82	14	53	56	6	16	20	1.62
3409406--3409447	22	2.0	21	90	4	66	50	28	19	2	1.60
3413568--3413699	28	4.7	28	94	0	219	40	25	6	28	1.79
3413701--3413741	18	2.3	18	87	4	57	19	21	41	17	1.90

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