genome.fa.s7979.2.7.7.80.10.50.1000.3.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: VEPZ01007979.1 Hibiscus syriacus cultivar Beakdansim tig00110418_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2767453

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1516 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)
416677--416717	22	1.9	22	85	5	57	14	14	41	29	1.86
419431--419479	22	2.3	22	92	3	82	26	34	10	28	1.89
420933--420989	30	1.9	30	85	7	80	36	21	15	26	1.93
422005--422168	31	5.2	30	75	13	152	31	17	17	33	1.94
422045--422168	32	3.9	31	77	12	126	30	19	18	31	1.96
421983--422167	63	3.0	63	90	2	275	30	19	17	32	1.95
422328--422420	29	3.1	30	80	12	109	30	21	6	41	1.78
429005--429067	21	2.9	21	83	4	63	20	38	25	15	1.92
429049--429088	21	1.9	21	89	0	62	25	40	25	10	1.86
431345--431392	25	1.9	25	100	0	96	47	0	20	31	1.50
433096--433169	20	3.7	20	92	0	112	29	21	28	20	1.98
433230--433328	21	4.8	20	82	13	110	23	20	34	22	1.97
433397--433459	29	2.1	30	85	2	83	52	14	6	26	1.65
433408--433467	29	2.0	30	93	6	104	43	15	6	35	1.72
433790--434021	32	7.2	32	88	0	347	34	22	17	25	1.95
436640--436684	17	2.6	17	85	0	54	46	2	2	48	1.26
436785--436816	2	16.0	2	100	0	64	50	0	0	50	1.00
438935--438967	16	2.0	17	88	5	50	33	0	9	57	1.30
440224--440257	2	17.0	2	100	0	68	50	0	0	50	1.00
444068--444117	2	25.0	2	100	0	100	50	0	0	50	1.00
454130--454157	2	14.0	2	100	0	56	50	0	0	50	1.00
454624--454785	64	2.5	63	82	5	191	24	24	19	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456377--456486	29	3.8	29	97	2	204	17	21	16	44	1.86
456863--457019	64	2.5	63	78	10	176	26	17	20	35	1.95
463332--463470	29	4.8	29	93	1	235	17	20	16	45	1.86
463847--464000	64	2.4	63	81	10	179	26	18	19	35	1.95
468310--468471	64	2.5	63	82	5	191	24	24	18	32	1.97
471544--471603	2	30.0	2	81	0	57	38	5	51	5	1.45
471536--471602	10	6.7	10	77	0	53	38	4	50	5	1.47
471544--471603	14	4.3	14	93	0	93	38	5	51	5	1.45
472528--472602	38	2.0	38	100	0	150	40	13	16	30	1.86
473030--473408	186	2.0	186	95	1	688	46	7	3	41	1.50
476983--477042	27	2.2	27	88	5	86	36	31	13	18	1.89
479867--480753	228	3.9	227	78	2	828	29	25	24	20	1.99
479866--480753	456	1.9	456	84	0	1168	29	25	24	20	1.99
481984--482029	24	2.0	24	83	12	60	41	6	4	47	1.49
482465--482543	30	2.6	30	86	6	97	29	25	11	34	1.91
486064--486129	19	3.4	19	77	10	62	28	0	3	68	1.05
486871--486926	6	9.7	6	74	14	55	78	0	1	19	0.84
487193--487278	19	4.2	19	76	16	82	36	5	27	30	1.80
487573--487597	6	4.2	6	100	0	50	0	16	48	36	1.46
487691--487739	19	2.5	20	76	6	55	38	22	20	18	1.93
487755--487828	20	3.7	20	73	10	78	22	18	25	32	1.97
487733--487830	41	2.4	41	94	0	169	22	17	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487734--487800	21	3.2	21	73	12	75	20	17	22	38	1.93
487941--487991	21	2.4	21	96	0	93	29	27	23	19	1.98
487589--488050	247	1.9	245	88	4	696	27	20	21	29	1.98
488005--488098	46	2.0	46	91	0	152	23	18	23	35	1.96
488069--488140	20	3.6	20	76	0	81	29	20	22	27	1.99
489879--490247	20	18.5	20	85	4	458	34	26	18	20	1.96
490911--490957	24	2.0	24	87	8	69	25	14	21	38	1.92
493421--493725	19	17.4	19	78	16	331	46	18	20	15	1.84
493421--493747	33	9.5	33	77	16	237	46	18	20	15	1.84
493449--493725	52	5.2	53	86	8	347	46	17	20	15	1.84
493488--493725	71	3.4	70	82	11	333	46	17	20	15	1.84
493754--493855	19	5.6	19	85	12	151	14	23	17	44	1.86
493961--493997	14	2.6	14	91	0	65	45	21	0	32	1.52
493978--494049	38	1.9	38	94	2	128	52	16	1	29	1.52
495789--495845	14	3.7	14	77	20	60	45	22	21	10	1.82
495770--495862	33	2.8	33	95	0	168	47	21	20	10	1.80
495733--495867	19	7.6	19	76	16	128	45	23	19	11	1.82
495863--495991	19	7.3	19	75	17	125	8	17	28	45	1.77
495863--495954	33	2.8	33	93	3	150	7	18	28	45	1.76
496035--496320	92	3.1	93	98	1	558	46	18	12	22	1.83
498019--498108	14	5.7	14	74	23	81	42	23	25	8	1.83
498011--498125	33	3.5	33	95	0	212	45	20	24	9	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498018--498130	19	6.8	18	72	23	88	43	22	24	9	1.83
498142--498196	14	3.6	14	73	21	56	9	27	23	40	1.85
498317--498387	33	2.2	33	94	0	124	47	16	23	11	1.79
498568--498622	22	2.5	22	81	0	74	20	16	40	23	1.91
498768--498961	20	9.6	20	82	5	221	19	19	25	35	1.95
498768--498961	60	3.2	60	83	0	253	19	19	25	35	1.95
498954--499030	21	3.7	20	70	13	57	27	16	23	32	1.96
499016--499067	20	2.6	20	96	0	95	21	13	26	38	1.90
499388--499423	11	3.3	11	88	0	54	16	0	2	80	0.83
499612--499658	2	23.5	2	82	0	58	40	0	59	0	0.97
513047--513189	30	4.6	30	76	6	133	30	14	25	28	1.95
514055--514092	17	2.2	17	100	0	76	42	10	0	47	1.38
520065--520159	48	2.0	48	85	0	127	16	12	29	41	1.86
520174--520263	30	3.0	30	76	12	94	26	12	21	40	1.88
520181--520263	31	2.7	30	77	14	89	28	12	16	42	1.84
524363--524399	20	1.9	19	89	10	58	45	10	24	18	1.81
524546--524613	35	1.9	36	88	8	104	47	2	0	50	1.16
528054--528110	2	28.5	2	100	0	114	50	0	0	49	1.00
528471--528505	16	2.2	16	89	0	52	45	20	11	22	1.82
530106--530137	2	16.0	2	100	0	64	50	0	0	50	1.00
529973--530339	138	2.8	129	81	14	433	50	7	4	38	1.50
529973--530372	131	3.0	137	86	10	533	50	6	4	39	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531083--531142	31	1.9	30	83	6	75	21	5	5	68	1.29
532313--532381	31	2.3	31	84	2	86	27	24	13	34	1.92
534168--534219	20	2.7	20	96	3	97	51	9	25	13	1.71
536830--536880	20	2.5	20	83	6	57	31	17	13	37	1.89
537365--537436	22	3.3	21	69	9	63	23	22	22	31	1.98
554518--554578	22	2.8	22	87	5	79	31	16	24	27	1.96
555677--555721	21	2.1	21	88	8	65	42	11	2	44	1.52
560510--560563	12	4.6	12	81	4	65	12	16	46	24	1.82
560561--560642	23	3.6	23	77	9	87	46	0	0	53	1.00
560614--560651	2	19.5	2	94	5	69	50	0	0	50	1.00
568231--568278	23	2.1	23	84	7	62	45	0	12	41	1.42
570942--570980	19	2.1	19	85	9	53	43	0	0	56	0.99
571463--571546	24	3.5	24	96	0	150	33	23	14	28	1.94
573819--574109	30	9.7	29	74	7	127	25	7	40	26	1.83
573861--574099	60	4.0	60	82	1	210	24	7	41	26	1.81
573836--574109	90	3.0	90	84	1	343	25	7	41	25	1.82
574181--574345	78	2.1	78	92	1	269	24	10	38	26	1.88
577059--577100	16	2.6	16	88	3	57	47	2	0	50	1.14
579072--579107	17	2.1	17	100	0	72	30	11	30	27	1.91
579192--579373	88	2.1	89	96	1	339	34	12	20	32	1.90
584514--584556	22	2.0	22	95	0	77	9	25	48	16	1.75
584566--584623	19	2.9	21	82	7	68	29	25	25	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584555--584623	9	7.1	10	80	9	72	30	26	24	18	1.98
591804--591871	5	12.8	5	79	11	73	7	22	51	19	1.71
591797--591888	22	4.0	22	82	13	121	10	22	47	18	1.79
591804--591871	27	2.5	27	97	0	127	7	22	51	19	1.71
591805--591888	27	3.3	27	82	16	124	9	22	48	19	1.77
591885--591964	9	8.3	9	80	10	70	28	26	28	16	1.97
591891--591965	29	2.5	31	89	8	120	29	26	26	17	1.97
593360--593398	6	6.3	6	90	3	60	17	2	0	79	0.84
593355--593398	18	2.3	19	84	11	63	20	2	0	77	0.88
602794--602863	30	2.4	28	79	15	70	47	1	4	47	1.31

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13