genome.fa.s190.2.7.7.80.10.50.1000.53.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  53  of  62  ( 7381 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)
12527053--12527266	107	2.0	107	97	0	401	28	24	18	28	1.98
12527177--12527342	85	2.0	84	82	9	203	30	22	17	29	1.97
12530008--12530053	24	2.0	23	86	4	65	60	6	4	28	1.40
12531684--12531727	21	2.0	21	86	4	61	25	31	25	18	1.97
12533590--12533632	22	1.9	23	86	13	63	25	30	27	16	1.97
12534474--12534522	21	2.3	21	96	0	89	32	24	16	26	1.96
12535354--12535384	13	2.5	12	90	10	53	48	0	6	45	1.28
12535416--12535505	44	2.0	44	100	0	180	40	2	16	41	1.61
12537452--12537501	26	2.0	24	85	11	66	26	24	22	28	1.99
12538354--12538402	13	3.5	13	88	8	62	59	2	0	38	1.09
12541123--12541171	13	3.5	13	88	8	62	59	2	0	38	1.09
12547115--12547181	22	3.0	22	100	0	134	26	26	26	19	1.99
12547399--12547458	30	2.0	31	90	3	95	33	23	6	36	1.81
12547473--12547544	29	2.5	29	93	0	117	38	12	9	38	1.76
12547844--12547995	66	2.3	65	85	5	189	17	26	26	29	1.98
12547975--12548017	21	2.0	21	86	0	59	16	25	27	30	1.97
12553430--12553752	161	2.0	161	100	0	646	28	24	16	30	1.97
12554020--12554086	22	3.0	22	100	0	134	26	26	26	19	1.99
12554306--12554365	30	2.0	31	90	3	95	33	23	6	36	1.81
12554380--12554451	29	2.5	29	93	0	117	38	12	9	38	1.76
12554753--12554906	69	2.2	68	87	1	209	17	27	26	28	1.98
12554886--12554928	21	2.0	21	86	0	59	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12556199--12556495	149	2.0	149	98	0	576	36	20	15	27	1.93
12556597--12556624	14	2.0	14	100	0	56	35	28	7	28	1.84
12557025--12557058	2	17.0	2	100	0	68	50	0	0	50	1.00
12558016--12558060	21	2.1	21	91	0	72	15	22	28	33	1.95
12575194--12575228	3	11.3	3	87	6	52	65	0	5	28	1.15
12579329--12579353	13	1.9	13	100	0	50	48	8	4	40	1.51
12580279--12580369	42	2.2	42	89	0	137	20	18	23	37	1.94
12580298--12580432	63	2.1	63	90	0	207	21	19	20	38	1.94
12580282--12580474	105	1.8	105	95	0	350	21	20	21	36	1.95
12580361--12580521	42	3.9	42	90	1	263	22	20	21	36	1.96
12580607--12580654	6	8.5	6	97	2	75	29	54	16	0	1.43
12583546--12583597	19	2.8	19	82	2	61	50	11	15	23	1.76
12587705--12588336	314	2.0	317	99	0	1243	28	25	12	33	1.92
12614404--12614542	59	2.3	59	82	12	153	50	0	1	47	1.15
12614504--12614541	11	3.5	11	82	10	51	47	0	0	52	1.00
12614536--12614580	23	2.0	23	86	0	63	53	2	2	42	1.25
12614894--12614932	20	2.0	20	84	0	51	33	17	7	41	1.79
12614906--12614957	15	3.5	15	86	5	70	36	17	7	38	1.78
12615117--12615244	64	2.0	64	96	0	238	35	8	24	32	1.86
12615181--12615799	187	3.3	185	81	6	680	37	10	20	31	1.87
12616874--12616919	20	2.3	20	96	0	83	34	19	17	28	1.94
12619355--12619412	28	2.1	28	90	0	89	22	12	22	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12625449--12625473	11	2.3	11	100	0	50	84	8	8	0	0.79
12627351--12627403	18	2.9	18	82	0	61	30	33	15	20	1.93
12628587--12630323	867	2.0	867	97	0	3287	31	22	9	36	1.85
12631256--12631352	24	4.0	24	75	10	83	46	16	15	21	1.84
12637699--12637751	18	2.9	18	91	0	88	26	30	22	20	1.98
12647968--12647994	2	13.5	2	100	0	54	51	0	0	48	1.00
12648650--12648745	31	3.1	31	75	3	95	28	15	21	34	1.94
12651380--12651440	22	3.4	17	78	22	70	13	21	45	19	1.84
12651392--12651434	12	3.8	12	75	12	54	9	20	48	20	1.77
12651391--12651433	22	2.0	22	100	0	86	9	18	51	20	1.74
12651466--12651504	10	4.1	9	83	9	51	25	30	28	15	1.96
12658465--12658502	17	2.2	17	100	0	76	10	23	47	18	1.79
12658502--12658566	9	6.9	9	81	10	67	27	29	27	15	1.96
12658509--12658565	29	2.0	29	92	0	96	26	29	28	15	1.96
12658502--12658563	19	3.3	19	76	14	74	25	30	27	16	1.96
12661300--12661460	64	2.5	63	84	7	182	34	17	21	27	1.95
12662629--12662737	31	3.5	31	77	3	96	24	17	22	34	1.96
12662683--12662778	30	3.2	30	82	2	104	17	18	28	35	1.94
12664555--12664678	36	3.4	37	92	2	180	30	20	14	34	1.92
12664701--12664778	36	2.2	36	83	4	95	30	15	14	39	1.87
12664617--12664848	102	2.3	101	75	8	222	30	16	12	39	1.87
12665959--12666007	16	3.1	16	80	16	57	14	0	14	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12666811--12666865	25	2.2	25	81	9	69	43	0	5	50	1.25
12667345--12667395	6	8.5	6	97	0	84	37	0	62	0	0.95
12672996--12673034	21	1.9	21	89	5	62	0	35	5	58	1.20
12674068--12674125	20	2.9	20	86	0	80	22	25	24	27	2.00
12674989--12675091	44	2.4	44	96	1	190	20	24	17	37	1.93
12689126--12689183	20	2.9	20	84	0	80	25	25	22	25	2.00
12702776--12702819	21	2.1	21	83	8	54	25	13	6	54	1.63
12702931--12702970	21	1.9	21	85	10	55	35	10	2	52	1.48
12708756--12708781	2	13.0	2	100	0	52	50	0	0	50	1.00
12712887--12712943	30	1.9	30	89	7	89	33	14	15	36	1.88
12717746--12717778	17	2.0	17	88	5	50	33	42	3	21	1.68
12720178--12720245	27	2.6	27	93	4	113	41	16	10	32	1.82
12723915--12723981	26	2.6	27	86	9	104	40	14	11	32	1.83
12730158--12730208	15	3.4	16	71	13	54	23	5	5	64	1.38
12730159--12730231	28	2.5	29	84	10	96	24	5	8	61	1.45
12732122--12732179	20	2.6	22	84	10	75	27	22	18	31	1.97
12732186--12732289	45	2.3	45	80	4	113	26	20	18	34	1.95
12735027--12735064	15	2.4	16	86	4	60	10	28	31	28	1.90
12735102--12735158	15	3.7	15	72	9	60	15	24	35	24	1.95
12735138--12735211	22	3.4	22	100	0	148	21	32	27	18	1.97
12736005--12736155	18	8.4	18	87	0	212	29	30	22	17	1.97
12743566--12743771	54	3.8	54	88	1	268	30	12	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12743566--12743828	108	2.4	108	82	4	276	31	11	18	38	1.87
12745284--12745522	118	2.0	117	86	4	329	36	14	22	26	1.93
12745676--12745716	17	2.4	17	100	0	82	51	4	24	19	1.66
12745692--12746101	117	3.5	117	83	2	525	37	13	20	27	1.91
12748677--12748737	22	2.8	22	85	5	79	34	18	22	24	1.96
12749563--12749615	22	2.4	22	93	0	88	18	18	16	45	1.86
12754405--12754439	3	12.0	3	87	6	54	71	0	0	28	0.86
12757456--12757506	5	9.8	5	76	16	50	17	3	1	76	1.03
12757454--12757504	21	2.5	20	81	15	59	17	3	1	76	1.03
12757523--12757569	23	2.0	23	87	0	67	19	21	8	51	1.73
12760086--12760165	39	2.1	39	95	0	142	18	23	23	33	1.97
12760808--12760899	18	5.6	18	68	19	76	58	7	21	11	1.58
12760746--12760933	63	3.1	62	89	6	287	56	7	22	12	1.62
12760746--12761217	51	8.6	51	73	16	299	56	7	21	14	1.62
12760925--12761008	15	5.6	15	68	20	59	57	7	21	14	1.61
12760724--12760933	57	3.5	59	87	8	293	56	9	21	13	1.64
12760746--12761212	111	4.2	112	80	11	535	56	7	21	14	1.63
12760940--12761038	30	3.2	30	72	13	101	56	7	20	16	1.63
12760872--12760993	48	2.5	48	81	0	154	57	7	21	13	1.61
12760971--12761285	75	4.1	75	74	18	308	57	6	21	13	1.59
12760920--12761072	63	2.4	63	79	4	182	57	6	22	13	1.59
12761057--12761241	24	7.5	24	66	16	99	57	7	21	14	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12761031--12761098	3	22.7	3	76	0	55	58	5	27	7	1.48
12760724--12761200	105	4.3	104	77	13	444	56	8	20	14	1.64
12761187--12761221	9	3.9	9	88	0	52	57	0	34	8	1.29
12761216--12761421	15	13.6	15	64	17	86	58	8	20	13	1.60
12761222--12761448	30	7.5	29	73	12	181	57	8	19	14	1.63
12761976--12762009	18	2.0	18	88	11	54	55	5	0	38	1.24
12761988--12762043	13	4.2	13	71	15	51	50	3	3	42	1.37
12762145--12762190	22	2.0	23	91	4	76	54	15	8	21	1.68
12762443--12762494	2	26.0	2	88	7	79	48	3	0	48	1.20
12765412--12765466	20	2.8	20	97	0	101	32	21	20	25	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62