genome.fa.s9616.2.7.7.80.10.50.1000.3.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: VEPZ01009616.1 Hibiscus syriacus cultivar Beakdansim tig00117002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  692457

Tables:   1   2   3   4   

This is table  3  of  4  ( 415 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)
398320--398364	22	2.0	22	83	8	56	57	8	6	26	1.54
400352--400778	151	2.8	152	81	6	443	47	6	16	29	1.71
400468--400778	157	2.0	151	85	7	412	47	6	17	28	1.71
401846--401894	22	2.2	22	88	0	71	40	12	12	34	1.80
405248--405308	24	2.4	26	86	8	81	42	3	21	32	1.69
405236--405289	27	2.0	28	96	3	101	38	3	22	35	1.72
405462--405496	18	1.9	18	94	0	61	42	0	11	45	1.40
406758--406791	15	2.3	15	89	0	50	41	32	11	14	1.82
406878--406978	29	3.5	29	93	1	177	18	18	17	44	1.87
407381--407486	45	2.4	45	81	10	119	28	15	19	36	1.92
413819--413919	29	3.5	29	93	1	177	19	19	15	44	1.87
414302--414458	64	2.5	63	76	10	158	27	19	19	34	1.95
420558--420778	44	5.1	44	86	3	268	31	20	16	30	1.95
420763--420843	42	2.0	41	90	2	126	39	22	14	23	1.91
420807--420888	43	1.9	43	85	5	112	29	23	18	29	1.97
422455--422495	20	2.0	21	85	4	57	73	0	12	14	1.11
423366--423396	16	1.9	16	100	0	62	48	12	25	12	1.77
424038--424087	22	2.3	23	80	13	61	46	0	0	54	1.00
424924--424985	28	2.2	28	88	0	97	41	22	1	33	1.64
426013--426124	35	3.2	34	89	3	170	33	0	23	41	1.60
426395--426436	21	2.0	21	85	0	57	42	7	0	50	1.30
428985--429034	20	2.5	21	83	9	68	4	16	10	70	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428997--429041	20	2.2	20	88	4	63	6	17	6	68	1.33
429894--430010	58	2.0	58	93	0	198	41	15	10	33	1.81
433764--433962	21	9.8	20	69	6	96	37	24	17	20	1.94
433886--433981	20	4.8	20	75	5	95	39	25	18	16	1.91
433872--433956	41	2.1	41	97	0	161	35	22	18	23	1.96
433930--434137	20	10.6	20	77	10	205	34	25	19	20	1.96
433978--434010	15	2.2	15	100	0	66	24	30	21	24	1.99
434519--434587	33	2.2	32	86	5	95	11	23	17	47	1.80
434667--434771	20	5.6	20	70	16	82	44	19	25	10	1.82
434665--434742	20	3.8	20	81	6	95	44	16	26	11	1.82
434660--434775	41	3.1	38	77	17	127	45	17	26	10	1.80
434729--434782	14	3.5	14	73	22	54	42	24	25	7	1.80
434719--434798	33	2.5	33	89	2	117	45	22	25	7	1.78
434794--434891	19	5.7	19	68	22	72	10	23	22	43	1.83
434816--434905	14	5.7	14	74	23	81	8	24	23	43	1.82
434799--434913	33	3.5	33	92	0	203	9	23	20	46	1.80
436611--436990	184	2.1	184	96	1	717	22	12	18	45	1.83
436611--436988	93	4.1	93	97	1	717	22	12	18	45	1.83
437032--437160	19	7.3	19	75	17	125	45	28	17	8	1.77
437068--437160	33	2.8	32	91	4	150	46	27	18	7	1.76
437032--437160	52	2.5	52	74	14	140	45	28	17	8	1.77
437156--437271	19	6.6	19	74	19	117	12	20	22	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437178--437234	14	3.7	14	77	20	60	10	21	22	45	1.82
437161--437253	33	2.8	33	95	0	168	10	20	21	47	1.80
439195--439230	14	2.6	14	95	0	63	33	0	22	44	1.53
439337--439434	19	5.4	19	84	13	143	45	17	22	14	1.84
439337--439453	53	2.2	53	98	1	227	44	17	23	13	1.85
441769--441793	12	2.1	12	100	0	50	0	28	0	72	0.86
441968--442014	24	2.0	24	87	8	69	38	21	14	25	1.92
442696--442945	20	12.5	20	86	1	268	20	17	24	37	1.93
442932--443014	21	4.0	21	73	6	78	25	16	24	33	1.96
442912--443010	42	2.4	43	77	11	100	21	18	23	37	1.94
447646--447672	13	2.1	13	100	0	54	92	0	7	0	0.38
447654--447678	10	2.5	10	100	0	50	92	0	8	0	0.40
447651--447682	16	2.0	16	93	0	55	90	0	9	0	0.45
465335--465374	18	2.2	18	86	8	55	65	0	2	32	1.06
465588--465664	38	2.0	38	97	0	145	28	19	23	28	1.98
470457--470516	23	2.6	23	91	0	93	18	26	26	28	1.98
473754--473893	64	2.2	62	80	12	160	32	19	22	26	1.97
473772--473892	64	1.9	64	84	8	165	34	16	22	26	1.95
473901--473938	20	1.9	20	100	0	76	34	21	21	23	1.97
475834--475879	23	2.0	23	83	12	58	43	15	2	39	1.59
476159--476283	31	4.0	31	94	2	207	38	22	19	20	1.94
476936--477092	64	2.5	64	81	10	162	27	17	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481028--481152	31	4.0	31	89	2	180	40	22	16	20	1.91
487973--488010	2	19.0	2	94	0	67	0	47	0	52	1.00
493090--493176	24	3.7	24	76	3	95	56	18	13	11	1.67
493109--493222	10	11.0	10	68	20	56	57	16	12	13	1.64
493129--493174	23	2.0	23	91	0	74	60	19	10	8	1.55
494937--495399	229	2.0	229	98	0	899	37	13	16	32	1.88
502209--502254	17	2.7	17	90	6	67	32	8	30	28	1.87
502635--503198	263	2.2	265	89	5	855	41	19	11	27	1.86
504765--504799	2	17.5	2	100	0	70	0	51	0	48	1.00
510132--510192	21	2.9	21	77	2	59	55	24	9	9	1.63
514525--514585	22	2.8	22	82	5	70	27	18	26	27	1.98
514838--514927	39	2.4	36	86	12	137	44	1	15	38	1.54
514861--514928	18	3.6	18	69	18	57	45	0	14	39	1.45
514844--514923	39	2.1	39	100	0	160	45	0	15	40	1.46
516824--516862	12	3.2	12	96	0	69	30	5	7	56	1.49
516823--516868	12	3.8	12	88	2	65	28	4	6	60	1.40
529197--529224	6	4.7	6	100	0	56	0	0	50	50	1.00
529625--529692	28	2.5	27	81	6	75	51	7	5	35	1.54
529902--530000	21	4.8	20	75	6	81	37	22	19	21	1.94
529968--530216	20	12.4	20	82	5	261	36	25	18	19	1.94
530909--530955	24	2.0	24	87	8	69	25	14	21	38	1.92
531130--531154	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533418--533650	34	6.8	34	79	14	219	45	18	22	12	1.83
533451--533617	53	3.2	53	95	0	298	47	17	21	13	1.82
533418--533656	87	2.7	89	85	10	307	45	18	22	13	1.84
533757--533793	14	2.6	14	91	0	65	45	21	0	32	1.52
535712--535884	19	9.6	19	76	12	150	46	23	19	10	1.81
535787--535881	33	2.9	33	88	0	154	46	20	21	12	1.83
535746--535884	52	2.7	52	73	8	138	46	22	20	10	1.80
535880--535938	19	3.4	19	69	26	58	10	18	25	45	1.81
535896--535952	14	3.7	14	72	20	51	8	22	24	43	1.81
535880--535970	33	2.7	33	89	5	139	10	18	25	45	1.82
536068--536381	93	3.4	93	97	0	596	45	19	13	22	1.84
538100--538156	14	3.7	14	75	20	60	8	24	22	43	1.81
538085--538163	33	2.4	33	95	0	140	8	21	22	46	1.79
538144--538217	21	3.5	21	80	7	96	14	20	17	47	1.83
538299--538366	33	2.1	33	94	0	118	48	17	23	10	1.78
538744--538936	20	9.6	20	85	5	246	18	19	27	34	1.95
539145--539195	20	2.5	20	100	0	102	43	13	3	39	1.63
540250--540723	182	2.6	182	90	1	727	42	13	17	26	1.86
540644--540690	20	2.4	19	82	10	67	53	10	17	19	1.72
540655--540695	20	2.2	19	83	12	50	51	14	17	17	1.77
542893--542936	21	2.1	21	91	0	70	40	11	31	15	1.83
542970--543035	33	2.0	33	88	5	98	28	0	50	21	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544818--544866	19	2.6	19	96	0	89	32	2	10	55	1.45
545051--545093	20	2.2	20	86	0	59	30	13	20	34	1.92
545391--545464	18	4.1	18	92	0	130	17	43	21	17	1.88
549790--549832	20	2.2	20	86	0	59	30	13	20	34	1.92
550130--550221	18	5.1	18	83	0	130	19	40	20	19	1.92
550131--550221	36	2.5	36	96	0	164	19	39	20	19	1.93
551453--552188	200	3.7	200	90	2	1164	36	13	18	31	1.90
551453--552208	393	1.9	398	89	4	1197	35	13	18	31	1.90
554246--555013	183	4.2	183	95	0	1324	35	14	15	33	1.88
554895--555133	120	2.0	120	89	0	370	32	12	13	40	1.83

Tables:   1   2   3   4