genome.fa.s8717.2.7.7.80.10.50.1000.2.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  2  of  16  ( 1896 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)
343133--343162	15	2.0	15	93	0	51	40	13	10	36	1.78
343330--343365	18	2.0	18	100	0	72	44	27	5	22	1.75
351296--351345	26	1.9	26	87	0	73	26	4	6	64	1.35
352350--352391	2	21.0	2	100	0	84	50	0	0	50	1.00
360778--360857	30	2.7	30	96	0	142	57	3	17	21	1.55
362147--362201	20	2.8	20	97	0	101	32	14	18	34	1.91
362596--362633	20	2.0	20	84	5	51	47	0	23	28	1.52
366066--366091	3	8.7	3	100	0	52	0	34	0	65	0.93
366547--366588	21	2.0	21	90	0	66	30	28	23	16	1.96
367272--367316	23	2.0	23	86	0	63	17	28	26	26	1.98
372876--372901	3	8.7	3	100	0	52	0	34	0	65	0.93
373357--373398	21	2.0	21	85	0	57	28	30	23	16	1.96
374083--374127	23	2.0	23	86	0	63	17	28	26	26	1.98
374752--374791	21	1.9	21	90	10	64	57	7	5	30	1.48
379889--379917	3	9.7	3	100	0	58	0	34	0	65	0.93
380373--380414	21	2.0	21	90	0	66	30	28	23	16	1.96
381097--381141	23	2.0	23	86	0	63	17	28	26	26	1.98
381766--381805	21	1.9	21	94	0	71	60	5	5	30	1.40
391302--391351	22	2.3	21	83	10	57	28	16	32	24	1.96
392146--392206	28	2.3	26	86	10	81	16	18	26	39	1.91
396987--397026	3	14.0	3	89	10	66	30	0	0	70	0.88
398465--398554	45	2.0	45	97	0	171	36	25	6	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399876--399916	15	2.7	15	92	0	64	46	2	46	4	1.37
409050--409078	13	2.2	13	100	0	58	27	0	41	31	1.56
413679--413755	24	3.1	25	83	9	95	25	46	14	12	1.80
415173--415204	2	16.0	2	100	0	64	50	0	0	50	1.00
415200--415258	23	2.7	21	80	17	66	28	0	3	67	1.06
416835--416873	18	2.1	19	90	4	62	69	0	2	28	1.02
417923--417983	32	1.9	32	93	0	104	49	11	11	27	1.73
418444--419113	105	6.4	105	96	0	1243	23	17	25	33	1.96
419859--419897	8	5.4	7	85	14	53	0	17	2	79	0.84
419852--419897	21	2.2	21	88	3	67	0	19	2	78	0.86
419859--419897	14	2.8	13	85	14	51	0	17	2	79	0.84
419871--419990	60	2.0	63	86	5	174	11	23	12	52	1.71
430125--430186	31	2.1	29	82	11	72	70	0	12	16	1.16
430383--430422	21	1.9	21	89	0	62	70	0	2	27	1.01
430382--430421	19	2.1	20	90	9	66	70	0	2	27	1.01
431467--431527	32	1.9	32	93	0	104	49	11	11	27	1.73
432435--432548	56	2.0	56	93	3	194	39	8	25	26	1.85
433870--433895	10	2.6	10	100	0	52	7	15	46	30	1.74
434751--434794	22	2.0	22	95	0	79	56	4	13	25	1.56
440717--440743	13	2.1	13	100	0	54	44	0	40	14	1.46
441503--441624	33	3.7	33	85	2	138	27	12	15	45	1.82
442299--442368	23	2.8	26	75	20	69	41	4	1	52	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442310--442368	23	2.4	25	83	13	79	40	5	0	54	1.23
442314--442408	27	3.6	27	80	12	99	44	3	0	52	1.17
442435--442651	30	7.3	30	71	13	92	54	1	4	38	1.32
442435--442635	31	6.8	30	70	14	125	54	1	4	39	1.30
442574--442631	27	2.1	27	87	0	80	58	0	0	41	0.98
442617--442675	25	2.3	25	85	8	75	49	3	5	42	1.41
443014--443077	31	2.1	31	90	0	101	54	14	6	25	1.62
444410--444455	2	23.0	2	100	0	92	50	0	0	50	1.00
445069--445173	2	52.5	2	100	0	210	50	0	0	49	1.00
447005--447098	46	2.0	48	83	8	122	31	10	23	34	1.89
453964--454065	42	2.5	41	85	1	141	23	22	22	31	1.98
454211--454332	37	3.5	36	75	17	130	38	22	16	22	1.93
454236--454652	32	11.8	32	68	21	157	37	20	19	22	1.94
454211--454347	68	2.0	70	89	2	215	39	21	18	21	1.93
454281--454564	111	2.6	109	86	4	364	36	20	19	23	1.95
454557--454652	36	2.6	37	85	11	126	38	22	17	20	1.93
454685--454896	115	1.8	115	88	0	325	29	24	16	29	1.96
459292--459348	27	2.1	27	80	9	62	56	7	1	35	1.37
464239--464380	60	2.3	60	79	5	153	30	17	16	34	1.93
467901--467943	18	2.3	19	88	4	61	67	2	0	30	1.03
469430--469623	91	2.1	90	85	6	268	37	19	14	28	1.91
470302--470334	4	8.5	4	93	6	59	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474742--474800	31	1.9	31	96	0	109	44	5	6	44	1.52
474824--475584	22	34.6	22	93	1	1258	48	11	0	38	1.46
475571--475610	12	3.6	12	77	16	50	52	0	2	45	1.14
478606--478678	37	2.0	37	83	0	92	16	32	16	34	1.91
481569--481622	22	2.6	20	80	11	63	27	14	29	27	1.95
481478--481693	95	2.3	95	89	3	330	33	15	25	25	1.95
481497--481719	95	2.3	95	88	1	295	34	15	24	26	1.95
482042--482313	55	4.9	55	91	0	411	32	18	19	28	1.96
482525--482585	29	2.1	29	96	0	113	42	11	24	21	1.86
482724--482788	2	32.5	2	100	0	130	50	0	0	49	1.00
486613--486737	20	6.5	20	66	22	72	32	16	26	25	1.96
486684--486737	22	2.6	20	83	11	72	29	14	27	27	1.95
486593--486798	95	2.2	95	91	1	326	34	15	23	25	1.94
486611--486834	95	2.4	95	88	3	317	34	14	24	27	1.94
487155--487607	55	8.2	55	89	1	649	33	18	20	27	1.96
487804--487862	29	2.0	29	90	0	91	44	10	23	22	1.83
494009--494106	23	4.3	23	79	7	94	27	18	24	29	1.98
494009--494098	46	2.0	46	84	4	119	27	20	23	28	1.99
500617--500689	23	3.3	22	85	12	80	24	17	27	30	1.97
503562--503604	20	2.2	20	87	8	61	34	11	23	30	1.90
512267--512580	130	2.4	130	85	3	391	30	19	18	31	1.96
520337--520394	24	2.4	24	88	0	89	25	17	17	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520792--520958	31	5.4	31	80	0	181	32	29	23	14	1.94
522614--522678	28	2.3	28	100	0	130	16	23	18	41	1.90
532032--532071	4	9.8	4	83	5	53	75	2	2	20	1.04
532335--532582	130	1.9	130	88	0	370	29	20	20	30	1.97
532482--532681	44	4.5	43	73	6	159	34	20	19	26	1.96
532367--532648	130	2.1	131	80	5	302	32	18	21	27	1.96
532497--532681	45	4.2	44	74	6	149	35	18	20	25	1.95
532482--532689	45	4.7	44	73	3	148	33	20	19	26	1.96
532482--532681	89	2.2	89	85	3	278	34	20	19	26	1.96
534091--534146	7	7.6	7	88	11	85	0	16	0	83	0.64
534091--534146	15	3.7	15	92	4	87	0	16	0	83	0.64
540267--540304	12	3.2	12	88	0	58	23	15	18	42	1.89
540267--540313	24	2.0	24	86	0	67	23	14	19	42	1.88
550909--550965	25	2.3	24	80	14	64	50	1	3	43	1.29
552675--552700	2	13.0	2	100	0	52	50	0	0	50	1.00
558039--558109	35	2.0	35	100	0	142	43	8	14	33	1.75
558808--558935	64	2.0	64	100	0	256	50	7	18	23	1.73
560386--560429	23	1.9	23	95	0	79	9	22	18	50	1.75
563173--563230	3	18.7	3	78	7	62	32	0	0	67	0.91
563685--563725	18	2.2	20	86	8	59	70	4	21	2	1.18
564013--564324	156	2.0	156	100	0	624	39	10	14	35	1.80
566293--566888	82	7.3	82	87	2	804	24	18	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566297--566888	163	3.6	163	87	1	853	24	18	22	34	1.96
566297--566888	245	2.4	247	86	1	814	24	18	22	34	1.96
566980--567382	36	11.1	36	92	1	662	23	18	17	39	1.92
566981--567378	218	1.8	218	93	0	688	23	18	17	39	1.92
567387--567693	89	3.4	89	85	0	398	28	17	23	31	1.97
567747--568145	62	6.4	62	86	0	503	33	16	22	26	1.95
567734--568145	186	2.2	186	86	0	565	34	16	22	27	1.95
576814--576859	17	2.7	17	82	0	56	6	19	45	28	1.75
578442--578612	23	7.6	23	75	6	143	50	2	26	20	1.60
578446--578640	45	4.3	47	76	12	176	49	2	25	22	1.62

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