genome.fa.s7838.2.7.7.80.10.50.1000.2.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

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

This is table  2  of  13  ( 1485 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)
406965--407209	70	3.5	70	86	5	368	31	18	16	32	1.94
417581--417660	40	2.0	40	100	0	160	35	12	12	40	1.81
425787--425832	24	2.0	22	83	8	56	60	4	30	4	1.35
425949--426123	61	2.9	60	78	9	178	34	18	4	42	1.71
430659--430709	16	3.1	17	77	5	52	31	0	5	62	1.19
439525--439670	21	7.1	21	81	3	136	18	19	24	37	1.94
439575--439667	20	4.6	20	83	2	132	13	22	22	40	1.89
439529--439695	41	4.0	41	78	6	169	18	20	23	37	1.94
439659--439730	22	3.4	22	69	11	78	18	19	23	38	1.93
439641--439750	41	2.7	41	90	4	168	18	19	20	41	1.90
439680--439745	19	3.3	19	68	12	60	18	19	19	42	1.90
439829--439904	6	13.5	6	98	1	117	28	53	17	0	1.43
440073--440133	6	10.5	6	94	1	90	3	16	49	31	1.62
440239--440311	20	3.6	20	74	3	74	39	26	20	13	1.90
440236--440336	41	2.5	41	96	0	184	37	25	18	17	1.93
440236--440340	21	5.1	21	68	4	88	38	26	18	17	1.92
440369--440480	43	2.7	41	89	6	172	35	25	19	18	1.95
440236--440509	144	1.9	142	92	3	460	34	24	21	20	1.97
440376--440484	20	5.2	21	66	8	78	37	27	18	16	1.92
441783--441842	23	2.6	24	78	17	65	23	5	0	71	1.05
441785--441844	26	2.5	23	75	17	59	23	5	0	71	1.05
441904--441995	39	2.4	38	85	3	121	32	3	0	64	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441904--442014	39	2.9	37	84	8	107	29	3	0	66	1.08
442009--442037	10	2.9	10	100	0	58	6	10	0	82	0.83
445337--445396	13	4.8	13	77	20	65	78	3	15	3	1.01
447049--447119	37	1.9	37	88	0	106	23	22	14	39	1.91
447136--447361	36	6.4	36	75	11	193	28	18	11	41	1.86
447049--447327	101	2.8	100	83	4	317	29	18	11	40	1.86
447157--447415	138	1.9	138	86	0	374	27	19	11	41	1.86
447319--447476	65	2.4	67	88	3	221	32	22	8	36	1.84
448155--448412	110	2.4	110	80	5	285	33	23	17	24	1.96
449511--449575	23	2.8	23	78	0	76	27	23	26	23	2.00
450442--450666	64	3.5	64	82	7	244	27	19	20	33	1.96
452422--452545	20	6.5	19	73	14	87	33	5	0	60	1.20
452426--452541	16	7.6	15	70	21	64	32	6	0	61	1.21
452517--452550	2	17.0	2	93	0	59	47	0	2	50	1.16
452580--452690	39	2.8	38	82	5	114	25	4	1	68	1.18
452580--452671	39	2.4	38	88	3	130	27	4	2	66	1.22
452582--452692	19	5.7	18	70	22	66	24	5	1	68	1.20
453786--453823	2	19.5	2	94	5	69	52	0	0	47	1.00
453871--453906	18	2.0	18	100	0	72	44	16	0	38	1.48
456357--456392	18	2.0	18	88	0	54	25	2	25	47	1.65
457995--458054	30	2.0	30	83	0	75	33	8	21	36	1.84
458110--458196	2	43.5	2	97	0	165	1	48	0	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458196--458244	2	25.5	2	91	8	84	51	0	0	48	1.00
463703--463731	5	5.8	5	100	0	58	82	0	17	0	0.66
463745--463787	20	2.2	19	91	8	68	79	0	2	18	0.85
464185--464214	15	2.0	15	93	0	51	33	23	0	43	1.54
465764--465841	4	19.2	4	91	1	102	43	25	5	25	1.75
467299--467333	17	2.0	17	94	5	61	34	0	0	65	0.93
467299--467333	6	6.0	6	93	6	63	34	0	0	65	0.93
467403--467427	10	2.5	10	100	0	50	24	0	16	60	1.36
474084--474370	152	1.9	152	86	0	412	33	15	16	35	1.90
478240--478313	27	3.1	25	69	23	77	51	1	6	40	1.37
478211--478297	28	3.1	28	68	14	81	51	3	5	39	1.43
481923--481972	21	2.4	20	77	9	55	58	4	2	36	1.29
483710--483735	2	13.0	2	100	0	52	50	0	0	50	1.00
490955--491005	20	2.5	20	100	0	102	37	29	15	17	1.91
490996--491093	21	4.7	21	66	15	60	38	20	20	20	1.93
491061--491336	20	13.6	20	75	10	177	38	25	18	18	1.93
491061--491336	81	3.4	81	82	5	317	38	25	18	18	1.93
491122--491333	41	5.2	41	93	1	347	37	25	18	18	1.93
491715--491789	20	3.8	20	90	0	123	34	24	22	18	1.96
491761--491856	33	2.8	33	87	3	129	40	20	23	14	1.90
491794--491862	20	3.8	19	73	21	76	43	18	21	15	1.88
491871--491955	33	2.5	33	92	1	134	14	23	18	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492068--492104	14	2.6	14	86	0	56	48	21	0	29	1.50
493475--493567	42	2.2	42	80	3	107	22	17	39	20	1.92
493951--494143	95	2.1	94	89	2	289	48	18	10	22	1.78
495833--495944	33	3.0	39	78	12	110	43	19	23	13	1.86
495842--495908	20	3.4	19	83	6	80	40	22	22	14	1.90
495833--495945	19	6.1	19	76	13	101	44	19	23	13	1.85
495972--496043	20	3.5	20	81	5	83	12	15	19	52	1.74
496877--497069	20	9.6	20	78	6	192	19	18	23	37	1.94
496879--497069	40	4.7	40	91	1	292	19	18	23	38	1.93
496879--497069	61	3.1	61	80	7	226	19	18	23	38	1.93
496879--497069	81	2.4	79	89	5	283	19	18	23	38	1.93
496879--497092	81	2.7	80	86	5	245	20	18	23	37	1.94
496879--497110	121	1.9	121	85	5	317	19	18	24	37	1.93
497076--497171	42	2.3	42	76	5	97	22	19	22	34	1.97
497160--497213	20	2.7	19	75	8	63	18	18	29	33	1.95
498701--498729	2	15.0	2	92	7	51	51	0	0	48	1.00
520347--520377	16	1.9	16	93	0	53	54	19	12	12	1.70
520438--520493	16	3.5	16	90	0	94	57	21	12	8	1.62
528057--528101	20	2.3	20	88	3	65	8	26	6	57	1.54
528271--528315	20	2.3	19	88	3	63	60	6	24	8	1.51
533447--533583	73	1.9	73	93	0	238	27	12	20	40	1.88
533944--534006	31	2.2	28	78	15	67	30	23	23	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548081--548302	112	2.0	111	85	4	304	35	20	22	21	1.96
556494--556574	30	2.7	30	90	3	119	51	0	3	44	1.19
559277--559316	19	2.1	19	90	0	62	35	25	15	25	1.94
559346--559393	20	2.4	22	76	20	59	22	18	14	43	1.87
559379--559440	20	3.0	20	73	2	61	33	17	12	35	1.88
559859--559947	19	4.3	20	73	18	83	31	26	4	37	1.77
566551--566638	35	2.5	35	83	7	97	46	0	1	52	1.08
571895--572424	265	2.0	261	95	1	961	39	16	14	28	1.89
572350--572710	181	2.0	180	98	1	697	38	22	11	27	1.88
574883--575097	74	2.9	74	95	0	378	33	7	6	53	1.54
576847--576882	5	7.0	5	90	3	54	16	19	63	0	1.30
579752--579850	51	1.9	51	95	0	180	39	18	18	24	1.92
584812--584909	14	7.3	14	68	18	57	57	2	0	40	1.10
584835--584913	25	3.1	26	80	12	85	55	1	0	43	1.07
584782--584913	64	2.2	58	85	12	167	57	3	0	39	1.14
586597--586740	77	1.9	77	95	0	261	25	20	12	41	1.87
587442--587480	3	13.0	3	84	10	53	0	33	0	66	0.92
593337--593361	3	8.3	3	100	0	50	32	0	0	68	0.90
596453--596548	47	2.0	47	97	0	183	36	17	15	30	1.91
599483--599535	26	2.0	26	82	7	63	39	3	1	54	1.29
605815--605848	17	2.0	17	100	0	68	41	11	23	23	1.87
609393--609445	14	3.7	14	73	14	54	26	3	0	69	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625151--625223	29	2.5	28	74	23	71	60	2	4	32	1.30
625199--625245	25	2.0	24	87	8	69	68	2	4	25	1.19
626747--626810	31	2.1	31	100	0	128	32	3	39	25	1.71
628349--628414	33	2.0	34	93	3	116	22	12	24	40	1.88
635931--636004	35	2.1	35	94	0	130	48	18	12	20	1.80
638456--638483	2	14.0	2	100	0	56	50	0	0	50	1.00
642235--642289	24	2.1	28	87	12	82	41	3	0	54	1.18
651111--651137	6	4.5	6	100	0	54	85	0	0	14	0.61
666612--666639	2	14.0	2	100	0	56	50	0	0	50	1.00
668725--668765	19	2.2	20	86	8	59	56	21	4	17	1.60

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