genome.fa.s8302.2.7.7.80.10.50.1000.3.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

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

This is table  3  of  17  ( 1926 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)
352088--352181	33	2.8	33	91	0	152	15	19	18	46	1.84
352166--352209	20	2.2	20	88	4	63	18	25	20	36	1.95
352175--352220	20	2.3	20	84	0	56	17	21	23	36	1.94
352699--352743	18	2.5	18	85	0	63	15	15	42	26	1.87
354377--354425	22	2.3	21	80	10	55	24	14	40	20	1.89
354384--354427	22	2.0	22	90	0	70	20	15	43	20	1.88
354592--354726	20	6.7	20	80	7	121	24	17	24	33	1.96
354592--354729	61	2.3	61	85	0	195	23	17	23	34	1.96
354592--354747	61	2.6	61	82	2	161	23	19	23	33	1.97
355145--355219	21	3.6	21	75	7	64	24	24	17	34	1.96
355228--355294	20	3.3	20	89	0	98	31	23	19	25	1.98
356140--356187	25	2.0	24	91	4	78	20	20	16	41	1.90
358613--358718	20	5.3	20	86	2	133	33	24	23	17	1.96
358591--358725	20	7.1	20	75	18	126	34	22	23	18	1.96
358710--358784	33	2.2	34	90	2	116	48	18	20	13	1.81
358800--358895	33	2.8	33	82	3	120	13	20	18	46	1.83
359001--359037	14	2.6	14	86	0	56	48	21	0	29	1.50
360426--360527	42	2.4	42	74	8	109	23	20	33	22	1.97
361007--361055	20	2.5	20	93	0	80	34	26	20	18	1.95
361100--361146	20	2.3	20	92	0	76	23	19	21	36	1.95
361062--361179	53	2.2	53	83	5	141	17	19	20	42	1.90
361120--361213	33	2.8	34	83	3	127	13	19	22	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361068--361233	87	1.9	87	94	0	296	16	19	21	42	1.89
361185--361236	20	2.6	20	96	0	95	17	19	25	38	1.93
363103--363172	20	3.5	20	90	0	86	41	25	17	15	1.89
363102--363215	33	3.2	33	73	17	95	43	24	18	13	1.85
363539--363604	22	3.0	22	86	4	89	21	15	39	24	1.91
363800--363938	20	6.9	20	98	0	269	19	20	20	40	1.92
364372--364438	34	2.0	35	85	5	93	50	4	1	43	1.31
369278--369315	6	6.3	6	100	0	76	18	18	47	15	1.83
371629--371688	31	1.9	31	89	0	93	31	5	13	50	1.63
371630--371701	31	2.3	31	83	4	83	31	6	12	48	1.67
374622--374694	35	2.2	33	83	9	94	64	6	5	23	1.39
383110--383151	13	3.2	13	100	0	84	38	0	33	28	1.58
409162--409252	22	4.1	21	81	8	83	20	27	28	23	1.99
415767--415800	17	2.1	16	88	5	50	5	23	38	32	1.79
423833--424086	103	2.5	103	89	2	377	28	9	20	40	1.84
441043--441134	20	5.0	20	68	20	65	36	5	14	43	1.68
441026--441138	52	2.2	51	90	1	181	32	5	13	48	1.64
443878--443969	20	5.0	20	68	20	74	33	4	17	44	1.68
443862--443976	52	2.2	51	95	1	203	29	5	16	48	1.68
446255--446288	17	2.0	17	100	0	68	11	29	0	58	1.33
454260--454528	134	2.0	134	100	0	538	33	21	25	19	1.97
455420--455455	3	12.3	3	94	5	65	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459368--459431	26	2.5	26	85	5	78	56	10	6	26	1.57
459532--459619	48	1.9	44	92	4	115	28	17	6	47	1.72
459689--459728	13	2.8	15	81	14	57	30	0	2	67	1.04
461135--461159	13	1.9	13	100	0	50	28	0	0	72	0.86
462137--462259	64	1.9	63	83	9	160	30	23	17	29	1.97
467895--467974	24	3.5	24	69	20	73	22	25	22	30	1.99
473736--473799	31	2.1	30	88	2	92	62	7	4	25	1.42
473777--473875	49	2.0	50	81	9	116	60	8	4	27	1.43
479110--479195	44	2.0	44	84	6	115	40	15	18	25	1.89
484015--484059	20	2.3	19	85	11	63	55	11	13	20	1.68
483816--484250	168	2.5	176	82	8	502	42	14	17	26	1.87
486379--486436	21	2.8	21	89	0	80	44	10	27	17	1.81
486470--486536	34	2.0	34	91	2	109	28	0	49	22	1.50
488281--488328	18	2.6	19	93	3	80	33	2	10	54	1.46
488281--488340	18	3.3	18	88	2	66	35	1	11	51	1.48
488453--489220	200	3.9	199	94	2	1305	35	14	18	31	1.91
488453--489220	396	1.9	397	93	1	1328	35	14	18	31	1.91
490733--490784	6	8.7	6	86	0	50	38	5	32	23	1.78
490733--490784	12	4.3	12	87	0	59	38	5	32	23	1.78
490750--490788	3	13.0	3	88	0	60	35	2	33	28	1.71
491969--492715	183	4.1	183	91	3	1203	35	13	16	34	1.88
491969--492715	360	2.1	362	93	3	1265	35	13	16	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495146--495210	25	2.6	25	97	0	121	38	9	13	38	1.77
495488--495530	21	2.0	21	82	8	52	39	11	9	39	1.74
495470--495638	84	2.0	85	97	1	322	46	10	10	32	1.73
495572--495614	21	2.0	21	82	8	52	39	11	9	39	1.74
495631--495691	23	2.8	21	87	7	79	37	4	22	34	1.76
495631--495691	20	2.8	22	87	7	81	37	4	22	34	1.76
496116--496186	21	3.3	21	84	7	97	33	5	22	38	1.78
496116--496181	23	3.0	22	88	4	89	33	6	22	37	1.79
500092--500143	21	2.5	21	83	0	68	21	26	19	32	1.97
500133--500230	21	4.8	21	84	3	101	36	20	21	21	1.95
500150--500207	21	2.8	21	97	0	107	39	18	22	18	1.92
500785--500832	19	2.5	20	86	3	71	35	25	20	18	1.95
500885--500921	18	2.0	18	89	5	56	10	16	24	48	1.77
502778--502921	20	7.5	20	86	9	201	38	22	20	19	1.94
502946--503000	20	2.8	20	88	2	76	25	18	21	34	1.96
502974--503055	33	2.5	33	81	2	101	13	18	21	46	1.83
504993--505026	14	2.4	14	90	0	50	32	0	20	47	1.51
505161--505256	33	2.8	33	87	3	129	13	22	20	42	1.87
505228--505335	20	5.7	20	72	16	113	17	20	25	37	1.94
507582--507631	23	2.2	23	81	0	55	38	20	18	24	1.93
508237--508357	60	2.0	60	100	0	242	23	9	42	23	1.84
508511--508767	20	12.8	20	84	4	194	23	19	19	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508521--508767	40	6.2	40	92	1	370	23	19	19	38	1.94
508521--508767	60	4.1	60	88	1	343	23	19	19	38	1.94
508764--508809	21	2.2	21	88	0	65	36	17	28	17	1.92
510328--510382	20	2.8	20	100	0	110	23	16	34	25	1.95
511116--511217	31	3.3	31	94	0	177	21	17	20	40	1.92
511116--511240	62	2.0	62	88	0	187	20	16	22	40	1.92
511116--511240	31	4.0	31	90	0	169	20	16	22	40	1.92
511876--511916	21	2.0	21	100	0	82	26	24	24	24	2.00
511916--511968	22	2.4	22	100	0	106	18	20	16	43	1.88
514512--515137	315	2.0	310	97	2	1175	29	12	19	39	1.88
523469--523501	17	2.0	17	88	5	50	21	3	42	33	1.68
528294--528372	41	1.9	41	97	0	149	17	15	29	37	1.90
532646--532711	31	2.1	32	94	2	116	36	13	30	19	1.91
535038--535063	2	13.0	2	100	0	52	50	0	0	50	1.00
543604--543705	50	2.0	50	90	0	159	43	19	12	24	1.86
545138--545166	3	9.7	3	100	0	58	34	0	0	65	0.93
545722--545773	24	2.1	25	82	10	63	57	21	19	1	1.50
556830--557369	112	4.8	113	89	2	781	36	14	19	29	1.91
557656--557703	3	16.7	3	87	8	73	33	0	2	64	1.05
559491--559525	17	2.0	18	88	5	54	42	0	2	54	1.15
559635--559674	11	3.3	13	80	13	50	50	2	0	47	1.14
559866--560020	77	2.0	77	96	0	283	33	14	11	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562920--563051	33	4.0	33	89	1	210	23	15	24	36	1.94
563415--563481	23	3.0	22	84	6	82	25	22	19	32	1.97
563415--563481	11	5.8	12	74	13	52	25	22	19	32	1.97
569783--569878	33	2.9	33	90	1	147	26	14	22	36	1.93
573044--573108	3	21.3	3	81	9	78	36	1	0	61	1.05
575084--575134	20	2.6	21	76	17	56	27	7	0	64	1.21
579774--579824	23	2.3	23	87	9	72	82	0	15	1	0.76
583131--583220	45	2.0	45	97	0	171	30	11	21	37	1.88
583248--583861	75	8.2	75	98	0	1149	31	15	20	31	1.94
583854--584016	74	2.2	74	83	5	195	33	17	21	28	1.96

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