genome.fa.s7935.2.7.7.80.10.50.1000.3.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: VEPZ01007935.1 Hibiscus syriacus cultivar Beakdansim tig00110345_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1073174

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 616 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)
497205--497258	19	2.9	19	86	2	74	18	11	31	38	1.86
497288--497328	21	1.9	22	85	5	57	24	17	17	41	1.89
497536--497605	20	3.5	20	92	0	113	31	22	22	22	1.98
498048--498103	20	2.6	21	83	11	69	25	0	3	71	1.02
498029--498113	21	4.1	21	77	14	79	28	0	4	67	1.11
498109--498151	21	2.0	22	86	9	61	44	2	0	53	1.13
499597--499636	20	2.0	20	85	9	55	45	0	5	50	1.23
507652--507702	24	2.2	23	82	10	59	39	0	1	58	1.09
508096--508136	20	2.0	20	90	0	64	31	4	17	46	1.69
508649--508689	21	2.0	21	85	9	57	70	2	14	12	1.26
508643--508694	27	1.9	27	84	7	70	71	1	13	13	1.24
517773--517949	90	2.0	89	93	1	300	36	11	6	45	1.68
523841--523871	2	15.5	2	100	0	62	51	0	0	48	1.00
524476--524639	90	1.8	89	93	1	283	37	12	4	45	1.64
530810--530899	45	2.0	45	89	4	137	35	14	21	28	1.92
538921--538959	21	1.9	20	84	5	51	28	15	20	35	1.93
548636--548673	16	2.5	15	87	8	58	39	0	0	60	0.97
554842--555156	55	5.7	55	90	0	477	33	15	12	38	1.85
555516--555570	19	2.7	21	79	20	71	27	20	16	36	1.93
560323--560420	51	1.9	51	85	0	133	32	25	11	30	1.91
560667--561050	55	7.0	54	89	2	579	34	18	11	36	1.87
560669--561050	165	2.3	165	92	0	649	33	18	11	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564350--564527	92	1.9	92	94	0	311	32	12	15	39	1.85
569031--569092	23	2.7	22	80	11	56	67	3	1	27	1.15
572908--572952	21	2.1	21	87	0	63	31	28	24	15	1.96
573304--573337	16	2.1	16	88	0	50	32	0	17	50	1.47
574410--574867	149	3.1	149	94	2	813	28	16	20	34	1.94
575767--575817	21	2.6	20	87	9	70	45	9	5	39	1.62
575747--575850	52	2.0	53	88	5	158	44	10	4	40	1.60
575836--575864	14	2.1	14	93	6	51	44	3	6	44	1.47
575830--575917	41	2.1	41	81	10	99	42	4	2	51	1.35
575895--575952	24	2.4	24	86	11	75	44	6	1	46	1.40
575850--576001	60	2.4	63	82	6	177	43	5	1	48	1.38
575920--575988	36	1.9	36	82	11	88	46	7	1	44	1.40
575957--575999	22	2.0	22	85	0	59	41	4	2	51	1.35
580184--580239	27	2.1	27	90	3	87	17	23	10	48	1.79
584746--584789	20	2.1	21	87	4	63	47	0	2	50	1.13
585143--585187	2	22.5	2	100	0	90	51	0	0	48	1.00
589049--589106	20	3.0	20	84	2	73	29	12	31	27	1.92
590035--590071	2	18.5	2	94	0	65	45	0	0	54	1.00
591351--591378	10	2.8	10	100	0	56	60	28	10	0	1.30
592271--592337	11	5.6	11	73	16	53	59	8	1	29	1.37
592282--592449	3	56.3	3	69	16	91	58	6	3	31	1.41
594458--594490	16	1.9	18	88	11	52	12	12	18	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594787--594944	21	7.8	20	72	7	86	38	25	17	18	1.92
594911--595103	20	9.6	20	81	5	219	35	25	19	19	1.95
594911--595103	60	3.2	60	83	0	251	35	25	19	19	1.95
596163--596198	14	2.6	14	90	0	54	30	0	22	47	1.52
596305--596400	19	5.4	18	84	13	128	44	17	22	14	1.85
596305--596418	52	2.2	51	95	4	203	42	18	24	14	1.87
596447--596612	19	9.4	19	74	20	173	14	20	18	46	1.83
596425--596584	53	3.0	52	95	2	293	14	22	16	46	1.83
596425--596626	33	5.9	33	74	14	203	13	21	18	46	1.84
598905--598929	12	2.1	12	100	0	50	0	28	0	72	0.86
599101--599147	24	2.0	24	87	8	69	38	21	14	25	1.92
599826--599937	20	5.6	20	90	0	134	21	16	25	36	1.94
600792--600867	14	5.8	13	77	10	66	77	0	6	15	0.96
600807--600867	5	12.8	5	78	13	58	80	0	4	14	0.87
600807--600864	9	6.2	9	79	4	62	81	0	5	13	0.86
600912--600990	40	2.0	40	85	9	110	56	7	5	30	1.49
601006--601082	41	1.9	39	84	5	100	50	5	27	16	1.66
601203--601233	2	15.5	2	100	0	62	51	0	0	48	1.00
601390--601451	2	31.5	2	96	3	117	51	0	0	48	1.00
601496--601538	18	2.5	17	85	7	61	67	2	4	25	1.22
602828--603583	106	7.0	106	90	1	1050	23	18	23	34	1.96
612776--612819	19	2.3	19	84	7	54	81	0	4	13	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612863--612962	38	2.6	37	79	16	114	58	6	6	30	1.46
612978--613054	41	1.9	39	81	5	91	46	6	27	19	1.74
613157--613209	2	26.5	2	100	0	106	50	0	0	49	1.00
613430--613504	2	37.5	2	100	0	150	50	0	0	49	1.00
613508--613543	18	2.1	18	89	5	56	66	2	5	25	1.27
626921--627029	31	3.3	31	70	18	103	23	11	12	51	1.73
626952--627076	37	3.5	36	70	18	118	26	12	13	48	1.77
626903--627168	68	4.0	68	85	6	391	27	12	11	48	1.76
626903--627168	131	2.0	135	88	5	398	27	12	11	48	1.76
628766--628800	18	1.9	18	88	11	54	37	0	20	42	1.52
629572--629613	20	2.1	20	90	0	66	30	26	28	14	1.95
631705--631753	23	2.1	23	88	7	73	28	2	12	57	1.46
633069--633114	24	1.9	24	90	0	74	23	34	17	23	1.96
638210--638264	28	2.0	28	85	7	76	27	12	23	36	1.91
649539--649574	18	2.0	18	88	0	54	22	16	33	27	1.95
650523--650995	54	8.8	54	84	3	567	31	17	15	35	1.91
650523--650995	215	2.2	215	86	4	632	31	17	15	35	1.91
657503--657938	54	8.1	55	84	5	516	30	15	17	37	1.90
657995--658026	15	2.1	15	100	0	64	50	18	6	25	1.70
659455--659506	17	3.1	16	73	13	50	57	5	3	32	1.40
659722--659792	3	23.7	3	76	0	61	36	35	4	23	1.75
661209--661277	26	2.7	26	75	8	70	66	1	0	31	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661711--661821	30	3.6	30	75	9	123	55	3	5	35	1.40
661745--661879	4	31.8	4	69	14	56	60	3	5	30	1.36
661701--661856	64	2.4	64	88	2	224	58	4	5	32	1.40
661715--661856	34	4.3	34	76	9	123	59	4	4	31	1.38
661828--661874	18	2.6	18	90	6	69	57	4	6	31	1.43
663714--663782	30	2.3	29	85	7	93	37	5	24	31	1.79
667564--667634	23	3.1	23	76	11	74	29	23	19	26	1.98
667770--667806	15	2.5	15	90	0	56	32	18	8	40	1.80
667788--667834	16	3.0	16	75	12	53	27	17	8	46	1.76
667912--668019	57	1.9	57	80	0	126	34	19	3	42	1.69
668023--668076	27	2.0	26	86	10	74	44	12	0	42	1.43
671090--671138	21	2.4	21	89	3	73	20	28	30	20	1.98
671101--671145	21	2.1	21	100	0	90	13	37	26	22	1.91
672206--672251	18	2.5	18	89	3	65	0	30	23	45	1.53
672216--672266	18	2.8	19	85	5	52	1	27	25	45	1.64
673818--673922	22	4.8	22	82	8	133	20	25	29	23	1.99
682548--682592	22	2.0	22	87	8	65	60	13	0	26	1.34
682918--682992	23	3.2	23	85	9	107	26	24	29	20	1.99
682892--682993	47	2.2	47	84	10	129	28	23	26	21	1.99
682892--682993	23	4.3	24	80	8	104	28	23	26	21	1.99
683126--683178	15	3.4	16	84	5	65	30	20	5	43	1.75
683141--683187	16	3.0	16	81	12	62	27	19	8	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683124--683199	31	2.5	31	79	14	79	32	21	6	39	1.79
683411--683438	2	14.0	2	100	0	56	50	0	0	50	1.00
683376--683430	27	2.0	28	83	16	71	45	10	0	43	1.39
685684--685723	15	2.7	15	81	14	55	35	20	12	32	1.90
688635--689129	58	8.5	59	75	7	438	36	9	21	31	1.87
688636--689330	59	11.8	58	71	10	416	36	10	21	31	1.87
688636--689131	117	4.2	117	95	0	866	36	10	21	31	1.87
688636--689237	117	5.1	117	91	1	850	36	10	21	31	1.87
689365--689405	20	2.1	20	86	4	57	31	9	17	41	1.82
689425--690392	44	22.0	38	89	5	293	38	7	22	31	1.81

Tables:   1   2   3   4   5   6