genome.fa.s1465.2.7.7.80.10.50.1000.4.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  4  of  55  ( 6520 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)
566632--566704	25	3.0	24	75	9	69	47	2	0	49	1.15
567942--568003	11	5.7	11	78	17	67	30	1	1	66	1.11
567942--568003	23	2.9	22	77	17	67	30	1	1	66	1.11
573198--573250	12	4.6	12	71	23	51	28	1	1	67	1.11
573205--573255	21	2.5	20	84	9	66	29	0	1	68	1.00
573281--573351	37	1.9	38	81	13	87	25	4	2	67	1.22
573338--573413	26	3.2	26	71	19	67	31	3	1	63	1.21
573361--573418	30	1.9	30	86	6	82	27	1	1	68	1.08
573365--573415	13	4.1	12	80	12	50	29	1	1	66	1.13
583891--583996	55	1.9	54	81	5	124	50	13	23	13	1.76
583982--584026	8	5.5	8	86	5	54	80	4	15	0	0.87
583980--584032	7	7.6	7	81	10	56	81	3	15	0	0.83
583980--584026	16	3.1	15	80	19	62	80	4	14	0	0.85
585141--585397	110	2.4	110	85	3	335	33	23	18	24	1.97
587426--587481	22	2.5	22	83	11	62	25	0	1	73	0.93
587431--587478	13	3.5	14	88	11	64	27	0	2	70	0.98
589973--590011	20	2.0	20	89	0	60	33	28	28	10	1.90
600120--600173	26	2.1	26	96	3	101	24	25	16	33	1.96
605162--605287	46	2.8	45	91	3	200	29	24	7	38	1.84
607240--607272	14	2.4	14	100	0	66	27	15	15	42	1.86
617856--618142	124	2.3	126	89	3	420	46	1	4	47	1.31
617938--618152	61	3.5	60	78	10	247	46	1	4	47	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622632--622677	20	2.2	21	84	3	58	28	26	15	30	1.96
625719--625803	38	2.2	38	100	0	170	35	16	18	29	1.93
627370--627400	13	2.4	13	94	0	53	58	0	16	25	1.38
627437--627484	17	2.9	16	84	12	62	79	0	2	18	0.84
627434--627484	11	4.6	11	77	22	54	78	0	1	19	0.85
627454--627495	19	2.2	19	87	8	59	78	4	0	16	0.91
628911--629232	77	4.2	78	81	8	331	43	7	3	45	1.46
628911--629242	39	8.7	38	80	10	320	44	7	3	45	1.46
629076--629139	13	5.0	13	72	14	53	48	7	1	42	1.41
635104--635187	25	3.4	25	73	18	86	46	7	0	46	1.30
636118--636144	2	13.5	2	100	0	54	48	0	0	51	1.00
637645--637742	49	2.0	49	93	0	169	39	14	24	21	1.90
642223--642321	49	2.0	49	94	0	171	38	14	26	21	1.91
643008--643117	51	2.2	51	83	3	132	44	20	6	28	1.76
644449--644500	20	2.5	20	84	6	68	38	21	17	23	1.93
646437--646481	23	2.0	23	86	0	63	26	26	26	20	1.99
646449--646763	149	2.1	149	96	2	580	35	20	15	27	1.94
647219--647375	64	2.4	63	80	10	158	28	18	20	33	1.96
653483--653527	23	2.0	23	86	0	63	26	26	26	20	1.99
653495--653811	151	2.1	149	96	2	582	35	21	15	27	1.94
654267--654423	64	2.4	63	80	10	158	28	18	20	33	1.96
664474--664553	32	2.5	32	85	0	97	28	20	15	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670975--671102	32	3.9	32	78	5	130	37	16	17	28	1.91
673136--673293	21	7.6	21	69	12	101	21	18	25	34	1.96
673181--673420	41	5.8	41	77	9	206	19	19	22	39	1.93
673160--673354	104	1.9	104	97	0	372	20	19	23	36	1.95
673326--673414	19	4.5	19	80	8	115	19	19	20	41	1.91
673222--673414	60	3.2	60	86	5	280	19	19	21	39	1.93
673421--673476	27	2.1	26	81	18	62	39	1	1	57	1.20
673509--673553	10	4.6	10	77	22	51	35	0	0	64	0.94
673504--673542	12	3.5	11	83	13	53	35	2	0	61	1.10
673504--673545	21	2.0	21	86	9	59	33	2	0	64	1.07
674059--674088	3	10.0	3	100	0	60	33	0	0	66	0.92
674479--674564	28	3.0	28	80	8	100	39	3	18	38	1.68
676344--676446	13	8.3	13	69	22	53	65	1	1	31	1.15
676802--676906	37	2.8	37	85	0	138	29	14	14	41	1.85
677449--678079	105	6.0	105	89	3	889	22	17	25	33	1.96
678283--678353	36	2.0	36	88	0	106	36	15	23	23	1.94
678254--678570	103	3.1	104	90	3	473	36	11	20	30	1.89
678473--678547	39	1.9	39	83	5	98	38	13	21	26	1.90
678687--678798	36	3.1	36	71	2	100	43	12	16	26	1.84
678641--678816	72	2.4	74	83	7	198	42	11	18	27	1.85
679957--680493	183	2.9	183	96	0	986	30	21	20	27	1.98
684572--684607	2	18.0	2	94	0	63	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684616--684669	23	2.5	22	75	6	56	74	0	3	22	0.98
684616--684674	15	4.0	15	71	16	52	72	0	3	23	0.99
684855--684967	18	6.9	17	65	24	55	64	1	2	30	1.17
684927--684965	14	2.8	13	88	11	51	71	2	2	23	1.10
684855--684967	13	8.4	12	68	25	50	64	1	2	30	1.17
685319--685422	37	2.8	37	81	5	120	30	14	12	42	1.83
690271--690303	17	1.9	17	88	11	50	33	3	0	63	1.10
692197--692232	17	2.1	17	100	0	72	27	5	41	25	1.77
711127--711152	13	2.0	13	100	0	52	23	0	15	61	1.33
719189--719352	90	1.8	88	93	2	283	43	6	11	39	1.66
719958--720059	32	3.2	32	60	2	80	35	29	7	27	1.85
719952--720076	63	2.0	63	98	0	241	37	28	8	26	1.84
720452--720525	2	37.0	2	100	0	148	50	0	0	50	1.00
720458--720544	20	4.8	16	93	6	59	48	0	0	51	1.00
723085--723116	2	16.0	2	100	0	64	50	0	0	50	1.00
730147--730188	19	2.2	19	91	0	66	30	11	28	28	1.92
730969--731066	50	2.0	50	89	0	151	17	33	29	19	1.95
731212--731249	12	3.3	12	78	14	53	10	52	5	31	1.58
735295--735332	18	2.1	18	100	0	76	21	23	28	26	1.99
736842--737174	111	3.0	111	97	0	621	44	11	8	36	1.70
737453--737562	50	2.2	50	86	0	157	20	27	34	17	1.95
737752--737830	3	26.7	3	97	2	151	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739342--739400	27	2.2	28	79	14	70	42	1	1	54	1.20
743352--743395	19	2.4	19	85	7	56	59	6	0	34	1.24
744150--744219	2	34.0	2	86	11	97	48	4	0	47	1.21
746393--746444	2	26.0	2	100	0	104	50	0	0	50	1.00
759807--760309	250	2.0	250	97	0	945	28	17	26	26	1.98
763474--763529	3	19.0	3	85	3	78	62	1	3	32	1.23
763683--764106	43	9.8	42	74	12	306	24	20	29	25	1.99
763815--764137	40	7.6	40	70	14	209	24	20	30	25	1.98
763725--764134	129	3.2	129	95	0	703	24	20	29	25	1.99
764163--764216	28	1.9	28	85	7	74	50	16	12	20	1.78
764550--764593	15	2.9	15	93	0	70	43	4	20	31	1.72
764750--764956	64	3.2	64	84	4	272	43	11	12	32	1.77
764770--764962	67	3.0	65	83	6	264	45	11	11	32	1.76
764907--764975	28	2.5	28	90	4	104	43	14	7	34	1.73
765063--765270	29	7.5	25	89	6	101	49	11	10	29	1.72
765078--765261	29	6.5	29	94	2	295	47	12	9	29	1.73
765911--765954	4	11.2	4	85	4	63	25	0	22	52	1.48
773656--773691	3	12.0	3	93	0	63	63	0	2	33	1.08
776416--776544	64	2.0	64	81	3	152	28	17	24	28	1.98
776609--776643	16	2.2	16	100	0	70	17	5	34	42	1.73
780044--780082	20	2.0	20	84	0	51	23	7	23	46	1.78
780238--780299	20	3.0	20	83	7	70	19	25	32	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
784547--784577	6	5.2	6	100	0	62	16	32	16	35	1.91
786896--787008	17	6.8	17	69	27	57	47	2	3	46	1.33
786926--787043	15	7.9	15	73	14	68	47	5	4	43	1.45
786899--786957	18	3.3	17	82	15	66	47	3	1	47	1.29
786928--786968	18	2.3	18	87	8	57	48	4	2	43	1.37
786971--787043	13	5.3	13	82	9	83	47	5	4	42	1.45
786971--787043	28	2.7	26	85	8	83	47	5	4	42	1.45
787168--787243	19	3.9	20	81	5	84	46	1	27	25	1.61
787436--787477	12	3.5	12	93	0	75	33	2	14	50	1.56
787778--787861	7	12.0	7	79	0	78	46	30	0	22	1.52

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