genome.fa.s6678.2.7.7.80.10.50.1000.3.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: VEPZ01006678.1 Hibiscus syriacus cultivar Beakdansim tig00016563_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1086949

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 488 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)
429991--430159	21	8.0	22	76	13	151	20	20	23	36	1.95
429997--430110	42	2.7	42	89	5	167	19	19	23	37	1.94
430016--430152	65	2.1	63	94	2	238	18	18	24	37	1.94
430887--430927	21	2.0	21	100	0	82	29	21	24	24	1.99
430911--431031	41	3.0	41	87	7	140	28	21	19	29	1.98
430942--431070	21	6.3	19	77	10	73	24	24	20	30	1.99
430957--431029	20	3.6	20	75	10	85	24	23	17	34	1.96
430942--431050	41	2.7	41	91	2	166	24	23	20	31	1.98
432695--432727	14	2.4	14	94	0	57	33	6	30	30	1.82
436081--436303	113	2.0	112	91	2	367	31	10	29	28	1.91
443214--443298	39	2.2	39	83	8	102	47	2	16	34	1.60
450582--450666	28	3.0	28	98	0	161	45	9	7	37	1.64
451644--451692	24	2.0	24	96	0	89	16	10	46	26	1.78
453567--453658	30	3.0	31	83	13	111	43	13	7	35	1.72
460786--460812	14	1.9	14	100	0	54	37	0	3	59	1.15
461810--461950	48	2.9	48	79	2	165	48	15	9	26	1.75
465101--465177	35	2.2	35	92	2	136	41	10	20	27	1.85
465657--465707	23	2.6	18	71	28	50	25	3	0	70	1.04
465753--465819	27	2.4	27	79	16	75	25	2	0	71	1.00
465840--465874	2	17.5	2	100	0	70	48	0	0	51	1.00
466005--466043	18	2.3	17	86	8	53	10	5	2	82	0.93
474099--474192	48	2.0	48	91	0	152	43	22	12	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474676--474719	21	2.1	21	95	0	79	31	25	9	34	1.87
475681--475715	5	7.4	5	93	6	56	37	0	0	62	0.95
475681--475735	15	3.8	14	79	20	60	34	0	1	63	1.05
476243--476304	4	15.2	4	73	9	54	29	1	0	69	0.98
480865--480940	3	26.0	3	79	10	86	59	0	0	40	0.98
482752--483527	387	2.0	388	98	1	1502	28	7	12	51	1.66
484998--485098	46	2.1	49	89	5	154	27	10	19	41	1.85
494633--494691	27	2.2	27	79	8	68	72	0	20	6	1.06
494703--494745	21	2.0	21	82	8	52	76	2	13	6	1.08
496063--496320	51	4.9	51	87	4	284	28	15	27	28	1.96
496073--496427	55	6.6	56	85	5	301	29	16	24	30	1.96
496064--496377	111	2.9	107	83	6	354	28	15	25	29	1.96
496175--496456	111	2.5	111	82	7	308	28	15	23	32	1.95
504979--505009	16	1.9	16	93	0	53	38	9	6	45	1.63
508762--508801	21	1.9	21	89	0	62	32	25	27	15	1.95
511252--511327	36	2.1	36	100	0	152	31	10	15	42	1.81
520548--520598	24	2.3	22	83	10	59	58	9	5	25	1.52
520946--521010	24	2.8	24	79	13	64	38	3	6	52	1.42
521046--521155	28	3.5	32	75	17	99	50	0	1	48	1.11
521072--521123	14	3.5	15	71	12	54	46	0	0	53	1.00
521084--521165	33	2.5	33	73	13	78	52	0	1	46	1.08
521142--521202	19	3.2	19	74	17	63	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521112--521214	40	2.7	40	76	13	108	55	0	0	43	1.06
521108--521173	11	6.3	11	69	20	52	53	0	1	45	1.09
521162--521201	14	2.9	14	88	0	62	62	0	0	37	0.95
521286--521348	29	2.1	30	88	8	94	53	0	0	46	1.00
521308--521372	8	7.9	8	72	13	51	53	3	1	41	1.25
524531--524663	36	3.7	36	93	0	221	27	15	15	41	1.87
527629--527664	2	18.0	2	88	0	54	44	0	5	50	1.25
528044--528104	23	2.7	23	78	0	77	36	24	22	16	1.94
531050--531443	197	2.0	197	98	0	761	24	19	28	27	1.99
534365--534418	23	2.2	23	83	9	63	33	3	3	59	1.33
534394--534446	19	2.9	19	69	30	53	39	1	0	58	1.09
535044--535096	26	2.0	26	81	0	61	28	7	20	43	1.79
557095--557152	30	2.0	30	83	10	75	58	10	8	22	1.58
557996--558052	17	3.1	17	72	18	60	52	0	0	47	1.00
560287--560341	15	3.6	15	76	13	58	67	1	21	9	1.28
560286--560363	31	2.9	25	71	23	68	67	2	23	6	1.26
561331--561374	20	2.2	20	84	4	63	59	0	0	40	0.98
561333--561400	31	2.2	30	92	2	109	54	1	0	44	1.09
561333--561385	11	5.0	11	81	9	65	56	1	0	41	1.10
561710--561767	22	2.6	23	83	8	66	27	3	24	44	1.69
568392--568451	6	10.0	6	90	0	84	20	3	60	16	1.50
568393--568451	18	3.3	18	92	0	100	20	3	59	16	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574545--574586	19	2.2	19	87	8	59	4	7	16	71	1.26
580014--580058	20	2.2	20	88	7	65	28	22	15	33	1.95
581229--581297	31	2.3	31	80	9	81	52	1	2	43	1.25
581445--581723	139	2.0	139	100	0	558	40	17	10	32	1.82
582013--582054	17	2.5	17	88	0	57	52	2	0	45	1.13
582818--582875	28	2.0	29	83	6	73	34	5	12	48	1.63
591315--591345	16	1.9	16	100	0	62	38	0	16	45	1.47
597389--599045	552	3.0	552	99	0	3260	26	15	22	35	1.94
609006--609143	69	2.0	69	100	0	276	26	26	10	37	1.88
613988--614042	3	19.3	3	78	10	62	65	1	0	32	1.03
633695--633863	36	4.7	36	85	0	221	34	23	21	20	1.97
653194--653219	2	13.0	2	100	0	52	50	0	0	50	1.00
653282--653323	2	21.5	2	95	4	77	50	0	0	50	1.00
653910--653945	15	2.4	15	90	0	54	8	69	13	8	1.36
654842--654901	10	6.3	9	79	11	66	16	28	30	25	1.97
654841--654895	20	2.8	19	89	10	85	18	25	30	25	1.98
654896--654924	14	2.1	14	100	0	58	20	51	20	6	1.70
661177--661235	20	3.0	20	82	9	59	18	25	23	32	1.97
668361--668421	31	2.0	31	96	0	113	29	8	8	54	1.59
682849--682893	18	2.6	17	82	3	54	24	22	13	40	1.90
686753--686797	24	1.9	23	86	4	63	42	2	4	51	1.34
689983--690010	12	2.3	12	100	0	56	0	50	7	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692507--692564	29	2.0	29	96	0	107	27	17	8	46	1.77
695095--695121	4	6.8	4	100	0	54	22	0	0	77	0.76
700488--700682	102	1.9	98	89	4	300	29	24	10	34	1.89
704195--704434	77	3.1	78	75	8	224	37	9	17	35	1.82
704426--704462	18	2.1	18	94	0	65	64	5	5	24	1.36
704970--705261	77	3.8	77	82	1	291	37	15	7	39	1.76
709059--709107	23	2.1	23	96	0	89	10	8	20	61	1.53
709097--709131	17	2.1	17	100	0	70	14	11	22	51	1.74
729188--729241	21	2.6	21	81	0	63	9	31	38	20	1.84
729935--729995	24	2.5	25	78	7	72	62	6	0	31	1.21
730352--730409	23	2.4	23	78	16	64	34	17	10	37	1.84
737622--737693	36	2.0	37	91	2	119	29	12	23	34	1.92
739274--739334	14	4.1	14	76	17	61	37	4	1	55	1.31
743391--743489	52	1.9	52	87	4	146	63	5	2	29	1.27
743985--744049	2	35.5	2	79	17	70	47	0	0	52	1.00
743985--744051	15	4.8	15	75	15	72	46	0	0	53	1.00
743985--744047	26	2.4	27	82	10	87	47	0	0	52	1.00
748807--748867	30	2.0	30	90	0	95	18	19	42	19	1.89
766914--766956	22	2.0	22	81	9	52	18	16	6	58	1.60
771546--771604	21	2.8	21	89	0	82	23	33	27	15	1.95
771576--771642	21	3.2	20	87	8	89	23	38	28	8	1.85
772156--772235	38	2.1	39	85	2	108	53	6	22	17	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
775629--775683	19	2.9	19	84	10	69	49	1	1	47	1.23
775804--775917	39	3.0	38	78	13	94	48	0	1	50	1.11
782297--782321	2	12.5	2	100	0	50	52	0	0	48	1.00
784586--784659	29	2.6	28	93	6	132	63	6	4	25	1.37
788544--788583	17	2.4	17	86	0	53	62	2	2	32	1.22
798056--798129	10	7.8	9	71	15	51	33	1	1	63	1.11
798061--798128	30	2.2	31	84	7	86	33	1	1	63	1.13
798097--798131	18	1.9	18	94	0	61	34	0	0	65	0.93
804727--804787	32	1.9	32	83	3	79	45	4	6	42	1.51
805291--805315	6	4.2	6	100	0	50	20	16	64	0	1.30

Tables:   1   2   3   4   5