genome.fa.s7850.2.7.7.80.10.50.1000.4.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1055 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)
541023--541062	20	2.0	20	90	0	62	17	12	17	52	1.74
541026--541070	20	2.2	20	80	0	54	20	11	17	51	1.75
541397--541450	22	2.5	22	87	0	81	20	14	40	24	1.90
541566--541607	19	2.2	19	91	0	66	38	19	19	23	1.93
541629--541666	20	1.9	20	88	0	58	26	21	18	34	1.96
554136--554184	2	24.5	2	95	0	89	48	0	2	48	1.12
555958--556023	3	22.0	3	81	6	62	62	0	0	37	0.96
556376--556819	113	3.9	112	81	7	409	28	18	13	38	1.90
556477--556819	113	3.1	113	85	4	455	29	18	14	37	1.91
559441--559789	175	2.0	175	100	0	698	26	24	11	37	1.90
566572--566603	15	2.1	15	100	0	64	50	6	18	25	1.70
566864--566897	12	2.8	12	90	0	59	8	23	0	67	1.18
573354--573436	23	3.7	23	75	4	89	22	31	25	20	1.98
575008--575048	18	2.3	18	86	0	55	48	19	31	0	1.49
579246--579302	28	2.0	28	83	6	71	61	0	5	33	1.18
579810--579838	2	14.5	2	100	0	58	51	0	0	48	1.00
581446--581548	3	34.0	3	86	9	120	59	0	0	40	0.98
581452--581538	19	4.6	19	85	8	106	58	0	0	41	0.98
581446--581547	34	3.0	33	83	12	127	58	0	0	41	0.98
582810--582948	3	47.0	3	69	19	62	28	2	0	69	1.05
582838--582886	22	2.3	20	83	10	62	32	0	2	65	1.04
582810--582910	23	4.6	22	75	11	84	29	0	0	68	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582966--583000	2	18.0	2	94	5	63	48	0	0	51	1.00
583145--583179	4	8.8	4	100	0	70	22	0	0	77	0.78
583252--583325	8	8.8	8	70	14	51	10	6	4	78	1.07
583250--583325	28	2.7	26	77	16	73	11	6	3	77	1.09
584276--584313	18	2.1	18	85	9	51	13	21	0	65	1.26
584155--584475	161	2.0	160	99	0	633	28	23	12	35	1.91
584437--584473	18	2.1	18	85	14	51	13	21	0	64	1.27
589937--589996	23	2.6	23	91	0	93	20	30	26	23	1.98
596287--596327	10	4.0	10	87	3	55	85	2	9	2	0.78
596288--596328	15	2.9	15	85	7	50	87	2	7	2	0.70
597215--597293	41	1.9	41	86	0	113	29	31	17	21	1.96
598150--598189	2	20.5	2	94	5	73	50	0	0	50	1.00
599336--599390	14	3.6	16	75	20	64	16	3	1	78	0.98
599338--599373	17	2.2	16	95	5	63	16	2	0	80	0.83
599679--599747	9	7.8	8	76	17	57	13	5	2	78	1.05
606306--606357	20	2.6	20	96	0	95	19	28	28	23	1.98
606363--606400	20	1.9	20	88	0	58	13	26	34	26	1.93
606300--606398	43	2.4	39	77	15	103	18	25	33	23	1.97
610212--610251	21	1.9	21	85	10	55	35	10	2	52	1.48
612595--612630	16	2.2	17	90	5	56	47	0	2	50	1.15
614406--614450	20	2.3	20	80	3	56	48	2	2	46	1.26
616346--616390	23	2.0	23	90	0	72	62	6	6	24	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620798--620906	44	2.4	45	80	7	123	40	8	12	38	1.74
623967--624000	18	1.9	17	88	5	50	64	5	0	29	1.17
627578--627861	51	5.6	51	91	2	410	46	17	12	24	1.82
627948--627973	2	13.0	2	100	0	52	50	0	0	50	1.00
634967--635018	18	2.6	21	79	17	65	65	3	7	23	1.35
634964--635010	18	2.6	19	86	10	71	61	4	6	27	1.39
644887--644933	18	2.6	19	86	10	71	61	4	6	27	1.39
644890--644938	18	2.5	20	77	19	57	65	4	6	24	1.33
652668--652720	18	2.9	18	80	0	70	22	18	28	30	1.98
658838--658891	23	2.5	21	82	11	65	29	16	18	35	1.93
663078--663128	21	2.5	22	81	9	63	27	27	9	35	1.88
666212--666257	18	2.6	18	100	0	92	19	28	28	23	1.98
670996--671047	22	2.5	21	87	9	72	30	13	26	28	1.94
671091--671143	20	2.5	20	80	17	63	22	20	30	26	1.98
671829--671885	21	2.7	21	83	5	71	19	19	28	33	1.96
673142--673679	283	1.9	281	90	3	868	42	10	12	34	1.76
673669--673761	20	4.4	22	81	10	77	32	12	24	30	1.93
673705--673822	42	2.9	41	82	3	141	29	11	21	37	1.89
673712--673786	20	3.7	20	84	7	96	30	9	22	37	1.86
674556--674810	85	3.0	85	100	0	510	37	15	25	21	1.92
678623--678721	33	3.0	33	94	1	164	45	14	7	33	1.71
678716--678757	21	2.0	21	90	0	66	45	7	16	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681069--681125	27	2.1	27	84	9	73	22	17	14	45	1.84
681379--681429	17	3.5	13	78	21	57	50	29	13	5	1.65
681537--681563	5	5.4	5	100	0	54	44	37	18	0	1.50
682445--682477	6	5.5	6	86	13	50	69	0	0	30	0.88
682439--682472	13	2.5	13	95	4	59	70	0	0	29	0.87
682518--682608	39	2.3	40	79	9	98	46	2	14	37	1.57
682640--682673	17	1.9	17	88	5	50	73	0	5	20	1.04
683831--683868	19	2.0	20	84	5	51	36	15	26	21	1.93
688896--688928	14	2.5	13	95	5	57	24	0	0	75	0.80
691057--691134	21	3.6	22	76	15	74	37	28	20	14	1.91
691057--691140	23	3.8	24	74	16	83	38	26	21	14	1.91
691282--691379	44	2.2	46	81	7	112	31	20	11	36	1.88
691357--691388	17	1.9	17	93	6	57	50	18	6	25	1.70
696666--696775	23	4.8	23	74	8	73	36	24	21	17	1.94
696850--696979	44	3.0	44	89	6	194	29	20	11	38	1.88
699645--699716	20	3.3	22	74	16	62	30	23	20	25	1.99
700365--700442	20	3.8	20	75	18	70	24	25	19	30	1.98
703829--703885	23	2.7	21	86	8	71	29	29	19	21	1.97
704538--704592	20	2.8	20	91	0	92	25	18	21	34	1.96
705952--706406	57	8.0	57	94	0	754	32	10	21	34	1.88
720729--720837	53	2.1	53	82	0	128	34	11	18	35	1.86
723325--723356	12	2.7	12	100	0	64	18	6	46	28	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726314--726352	3	13.0	3	94	0	69	2	30	0	66	1.05
728022--728054	11	2.9	12	86	13	52	66	9	0	24	1.20
730592--730621	14	2.1	14	100	0	60	33	6	20	40	1.78
731427--731735	151	2.0	151	96	3	548	26	25	10	36	1.88
734045--734116	34	2.1	35	94	2	128	41	15	11	31	1.82
735256--735318	18	3.3	18	79	16	81	22	33	22	22	1.97
736813--736969	64	2.5	62	80	10	156	28	17	19	33	1.95
740189--740251	18	3.3	18	77	16	72	22	33	20	23	1.97
741761--741922	64	2.5	63	80	9	159	29	18	19	33	1.95
746901--746981	28	2.8	29	83	7	94	46	1	2	49	1.23
746935--747000	8	8.9	8	80	9	61	42	0	0	57	0.98
747097--747132	15	2.5	15	90	4	56	66	0	2	30	1.06
747097--747139	15	2.8	16	82	10	54	65	0	2	32	1.06
750081--750116	16	2.2	16	90	0	54	27	0	0	72	0.85
750314--750369	24	2.2	25	81	6	69	39	8	0	51	1.33
750321--750368	26	1.9	25	87	8	71	39	8	0	52	1.32
750304--750370	24	2.7	25	75	15	68	40	7	0	52	1.30
750343--750475	29	4.5	29	79	6	142	40	7	0	51	1.36
750340--750475	59	2.3	59	82	2	166	39	7	0	52	1.35
750507--750582	30	2.5	30	86	2	107	51	1	9	38	1.42
750572--750634	30	2.1	30	91	5	101	55	0	11	33	1.35
750639--750695	25	2.3	25	87	6	80	50	0	5	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750712--750802	32	3.0	29	82	14	121	54	0	6	38	1.26
750703--750797	33	3.1	30	77	15	113	54	0	6	38	1.26
751105--751135	16	1.9	16	100	0	62	25	19	16	38	1.92
751257--751323	33	2.1	32	85	2	89	37	8	16	37	1.80
763762--763811	21	2.4	21	76	6	57	24	26	16	34	1.95
763820--763947	20	6.3	20	82	8	143	29	27	18	24	1.98
763820--763947	40	3.2	40	86	5	161	29	27	18	24	1.98
764108--764141	12	2.9	12	86	4	52	17	41	5	35	1.74
764694--764747	24	2.2	24	90	0	81	22	16	20	40	1.91
767223--767318	20	4.8	20	89	5	140	38	23	22	14	1.92

Tables:   1   2   3   4   5   6   7   8   9