genome.fa.s8094.2.7.7.80.10.50.1000.18.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  18  of  43  ( 5090 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)
3537996--3538051	4	13.2	4	78	14	51	28	1	0	69	0.98
3538011--3538052	22	2.0	21	86	13	59	26	0	0	73	0.83
3542786--3542829	21	2.1	21	91	0	70	15	52	2	29	1.55
3542797--3543057	100	2.6	100	83	0	308	30	43	5	20	1.75
3550781--3550895	59	1.9	59	87	0	167	38	20	16	25	1.93
3551128--3551234	50	2.3	47	81	13	125	55	12	1	30	1.47
3552851--3552886	2	18.0	2	100	0	72	50	0	0	50	1.00
3552945--3552970	10	2.6	10	100	0	52	50	0	0	50	1.00
3566814--3566903	42	2.1	42	93	0	153	33	23	11	32	1.90
3572218--3572270	20	2.6	21	79	11	65	37	13	15	33	1.86
3581510--3581549	21	2.0	20	85	5	53	32	0	10	57	1.32
3585308--3585365	6	9.7	6	74	7	55	17	3	3	75	1.07
3585559--3585638	28	2.9	28	90	1	126	42	11	16	30	1.83
3585548--3585645	28	3.5	28	84	2	117	42	12	18	26	1.85
3585761--3585835	35	2.2	34	85	2	105	49	9	16	25	1.75
3586098--3586142	19	2.4	19	92	7	74	13	22	11	53	1.71
3588629--3588653	12	2.1	12	100	0	50	32	0	0	68	0.90
3602857--3602889	16	2.1	16	100	0	66	45	18	0	36	1.49
3604674--3604704	2	15.5	2	100	0	62	51	0	0	48	1.00
3605152--3605231	21	3.8	21	76	11	74	17	25	33	23	1.96
3616405--3616712	44	7.1	45	84	5	350	33	23	25	18	1.97
3616439--3616712	88	3.1	88	89	1	428	33	23	25	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3616439--3616712	132	2.1	130	91	2	442	33	23	25	17	1.96
3622260--3622390	65	2.0	65	96	0	244	53	3	13	29	1.57
3634293--3634342	20	2.5	20	80	6	57	38	16	14	32	1.88
3644996--3645046	21	2.4	21	93	0	84	27	17	15	39	1.90
3655607--3655823	45	4.8	45	86	0	281	29	19	10	40	1.85
3655611--3655860	90	2.8	90	79	4	193	30	20	10	38	1.86
3656343--3656420	22	3.8	20	82	14	88	25	32	14	28	1.94
3656341--3656433	19	4.7	18	80	13	78	27	32	11	27	1.92
3656461--3656515	22	2.6	21	80	11	67	29	29	10	30	1.91
3656511--3656569	29	2.0	29	100	0	118	33	15	16	33	1.91
3661969--3662035	3	23.0	3	76	11	68	41	0	0	58	0.98
3661971--3662015	15	2.9	16	93	6	76	44	0	0	55	0.99
3662793--3663494	351	2.0	351	94	0	1244	33	12	10	43	1.77
3663635--3663665	2	16.0	2	93	6	55	51	0	0	48	1.00
3664613--3664890	45	6.2	45	86	0	315	29	22	9	38	1.86
3665371--3665425	22	2.7	20	81	10	65	27	29	16	27	1.97
3665470--3665524	22	2.6	21	83	11	67	29	30	12	27	1.93
3665369--3665595	95	2.4	96	84	2	269	29	27	15	26	1.96
3666444--3666469	10	2.6	10	100	0	52	19	26	11	42	1.85
3667084--3667121	3	12.7	3	100	0	76	65	0	0	34	0.93
3671971--3672034	13	5.0	13	72	11	51	35	3	20	40	1.68
3673779--3673889	31	3.4	31	71	16	98	39	19	20	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3673777--3673903	67	1.9	67	91	0	209	38	21	20	19	1.94
3673799--3673904	31	3.3	31	71	17	97	39	22	19	17	1.92
3678157--3678211	21	2.4	23	82	11	69	45	0	0	54	0.99
3678144--3678198	3	18.7	3	81	10	51	40	1	0	58	1.09
3679910--3679958	23	2.0	25	84	7	66	44	0	0	55	0.99
3680240--3680278	12	3.2	12	78	7	51	38	10	0	51	1.36
3680425--3680491	24	2.6	26	72	15	68	34	4	0	61	1.16
3683786--3683817	15	2.1	15	94	0	55	25	18	9	46	1.79
3685659--3685725	33	2.0	33	100	0	134	37	14	17	29	1.91
3687628--3687659	9	3.6	9	100	0	64	21	25	0	53	1.46
3692693--3693237	114	4.8	113	93	1	839	39	15	17	27	1.90
3693097--3693374	134	2.1	136	94	1	488	43	12	18	25	1.85
3693208--3693261	23	2.3	23	96	0	99	59	3	22	14	1.51
3693231--3693595	113	3.2	112	88	1	523	40	12	18	28	1.87
3693966--3694023	24	2.4	24	88	5	82	43	0	0	56	0.99
3693950--3694010	3	20.7	3	83	9	72	37	1	0	60	1.07
3695560--3695769	111	1.9	110	81	5	253	35	9	9	45	1.68
3695731--3695779	23	2.0	25	84	7	66	44	2	0	53	1.12
3696424--3696621	20	9.8	20	81	4	191	17	20	22	39	1.92
3696447--3696538	21	4.4	21	79	2	114	22	17	26	33	1.96
3696427--3696581	62	2.5	61	87	3	213	18	20	23	38	1.94
3696468--3696601	41	3.3	41	88	1	189	17	20	22	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3696634--3696701	19	3.5	19	73	15	75	19	19	22	39	1.92
3696593--3696701	40	2.7	41	91	5	168	17	20	22	39	1.92
3696438--3696701	101	2.6	99	80	9	232	18	19	21	39	1.92
3696798--3696849	21	2.4	22	96	3	97	17	19	28	34	1.94
3696958--3696998	6	7.0	6	97	2	75	31	51	17	0	1.46
3697522--3697554	15	2.2	15	100	0	66	18	15	33	33	1.92
3697488--3697525	5	7.6	5	100	0	76	0	21	57	21	1.40
3702417--3702475	21	2.6	24	78	13	70	64	3	0	32	1.10
3702468--3702498	2	15.5	2	100	0	62	48	0	0	51	1.00
3705395--3705431	15	2.5	15	95	0	65	5	16	70	8	1.30
3705549--3705590	14	2.6	17	85	14	63	28	4	23	42	1.74
3706169--3706199	2	15.5	2	100	0	62	48	0	0	51	1.00
3706214--3706242	15	1.9	15	100	0	58	75	0	3	20	0.94
3706453--3706527	31	2.5	31	78	6	82	36	8	13	42	1.73
3706656--3706697	17	2.5	17	100	0	84	61	4	0	33	1.17
3706682--3706730	25	2.0	25	100	0	98	55	4	4	36	1.38
3706705--3706861	73	2.2	73	100	0	314	47	6	2	43	1.42
3706861--3706910	17	2.9	17	100	0	100	60	4	0	36	1.16
3706895--3706943	25	2.0	25	100	0	98	55	4	4	36	1.38
3707011--3707057	17	2.8	17	96	3	87	59	4	0	36	1.17
3706778--3707065	147	2.0	139	86	11	404	51	5	2	40	1.37
3725888--3726033	46	3.2	46	76	5	134	39	14	15	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3727804--3727874	29	2.4	31	83	4	92	38	5	2	53	1.39
3727749--3727978	122	1.8	122	81	6	282	40	6	0	51	1.34
3727927--3728050	57	2.2	57	82	7	153	35	3	2	58	1.27
3727909--3728050	29	4.9	28	73	15	103	35	3	2	59	1.27
3728040--3728120	29	2.8	30	81	5	94	53	0	4	41	1.22
3728083--3728132	25	2.0	24	92	3	82	54	0	2	44	1.11
3728475--3728550	35	2.2	35	90	4	118	43	23	0	32	1.54
3728475--3728570	35	2.7	35	83	3	104	41	28	1	29	1.63
3728731--3729018	148	2.0	142	89	6	443	36	6	9	47	1.61
3729517--3729593	35	2.2	36	97	2	147	35	0	22	42	1.54
3730943--3731005	6	10.5	6	89	0	81	17	11	47	23	1.79
3730943--3731005	18	3.5	18	91	0	90	17	11	47	23	1.79
3732014--3732040	4	6.8	4	100	0	54	25	0	0	74	0.83
3739534--3739635	42	2.5	41	79	3	123	29	21	23	25	1.99
3739296--3739835	212	2.5	212	89	1	805	32	20	16	31	1.94
3739743--3739834	42	2.2	41	82	1	103	30	18	20	30	1.96
3739837--3739907	37	2.0	35	81	15	83	22	18	23	35	1.96
3739779--3740244	116	4.1	116	76	10	453	23	18	23	33	1.97
3739955--3740453	34	13.9	34	74	13	303	21	19	22	36	1.95
3740174--3740453	36	8.0	34	82	8	269	20	19	22	37	1.94
3740179--3740456	106	2.6	106	86	6	361	21	19	21	37	1.95
3744438--3744558	9	12.7	9	85	10	143	0	13	2	83	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3744438--3744558	19	6.3	19	81	14	142	0	13	2	83	0.79
3744438--3744569	39	3.4	37	81	11	149	1	13	2	82	0.84
3744438--3744550	1	113.0	1	67	0	64	0	12	2	84	0.78
3757317--3757401	41	2.1	41	88	0	125	22	9	36	31	1.86
3757632--3757847	113	1.9	113	88	3	328	39	11	7	40	1.71
3760068--3760100	12	2.8	12	90	4	50	21	6	3	69	1.24
3763385--3763476	45	2.0	45	87	4	132	22	38	15	23	1.92
3764771--3764944	93	1.9	94	93	1	305	34	6	5	52	1.52
3764794--3764981	93	2.0	91	81	8	218	36	6	7	49	1.58
3768649--3768673	11	2.3	11	100	0	50	76	0	24	0	0.80

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