genome.fa.s7978.2.7.7.80.10.50.1000.3.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: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479011

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 755 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)
510110--510163	24	2.2	24	96	0	99	1	18	33	46	1.60
514750--514779	11	2.7	11	94	0	51	30	0	0	70	0.88
518103--518136	3	11.7	3	87	6	52	32	0	0	67	0.91
518269--518305	19	1.9	19	100	0	74	21	29	32	16	1.95
520040--520120	31	2.6	31	79	13	85	41	1	3	53	1.27
520074--520123	20	2.5	20	78	12	59	40	2	2	56	1.22
520060--520127	31	2.2	31	86	7	93	41	1	2	54	1.24
542843--542896	28	1.9	28	85	7	74	51	1	5	40	1.36
544512--544600	23	3.9	23	80	5	90	25	23	20	30	1.98
544966--545003	15	2.7	15	84	15	55	34	10	0	55	1.34
553327--553476	29	5.1	29	82	9	171	32	6	20	40	1.77
553327--553475	59	2.5	57	78	8	158	32	6	20	40	1.77
553327--553501	29	6.1	28	83	9	124	34	5	19	40	1.74
554230--554262	15	2.2	15	89	10	50	24	18	9	48	1.76
554736--554783	18	2.6	18	83	3	51	37	0	8	54	1.31
556703--556986	142	2.0	142	96	1	525	25	11	27	35	1.91
560262--560289	14	2.0	14	100	0	56	42	28	21	7	1.79
560706--560882	29	6.1	29	81	6	171	32	5	22	40	1.77
561618--561650	15	2.2	16	89	10	52	21	18	12	48	1.80
561886--561928	13	3.2	13	86	3	50	34	2	11	51	1.51
562812--562886	23	3.2	23	79	9	80	14	9	17	58	1.62
562972--563004	16	2.1	16	100	0	66	6	12	24	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565720--565751	16	2.0	16	100	0	64	68	12	12	6	1.37
566272--566365	3	31.3	3	88	6	129	35	3	0	61	1.12
569919--570002	41	2.0	42	97	2	161	21	14	11	52	1.73
571711--573477	106	16.7	106	95	0	2996	33	25	17	22	1.96
573524--573784	84	3.1	83	82	3	326	29	24	20	25	1.99
574014--574082	3	23.3	3	81	8	79	37	2	0	59	1.12
575979--576041	2	32.0	2	96	3	119	50	0	0	49	1.00
575979--576062	12	6.7	13	88	4	104	51	0	0	48	1.00
579620--579655	15	2.4	15	85	0	54	47	5	19	27	1.72
579855--579894	20	2.0	20	85	5	53	30	2	2	65	1.19
580262--580322	27	2.2	28	85	2	79	42	29	6	21	1.78
593245--593306	25	2.5	26	76	7	65	41	0	1	56	1.09
598681--598742	22	2.9	22	83	9	74	20	30	16	32	1.95
598691--598739	21	2.2	21	82	7	62	24	32	16	26	1.96
607701--607807	41	2.6	39	85	11	110	20	22	18	38	1.94
607714--607807	21	4.6	20	80	10	109	19	22	19	39	1.93
607797--607870	20	3.7	20	82	10	105	37	18	21	21	1.94
608095--608152	27	2.1	27	84	6	73	43	27	10	18	1.83
610221--610597	94	4.1	93	88	3	537	21	11	18	48	1.79
610221--610597	189	2.0	183	88	4	549	21	11	18	48	1.79
610710--610765	20	2.8	20	88	0	94	48	26	16	8	1.75
610771--610920	19	8.6	19	70	21	105	12	24	19	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610774--610900	33	3.8	33	96	0	227	12	24	18	44	1.84
610795--610882	14	5.6	14	69	23	50	12	25	18	44	1.84
613428--613481	24	2.2	24	93	0	90	40	20	18	20	1.91
613428--613495	24	2.8	24	84	0	64	38	20	17	23	1.93
614261--614400	21	6.7	21	89	3	203	39	17	21	22	1.92
614251--614400	62	2.4	63	87	7	218	38	17	21	23	1.93
628089--628120	16	2.0	16	93	0	55	25	6	3	65	1.31
629417--629450	16	2.1	16	88	0	50	50	0	2	47	1.16
629987--630234	130	1.9	130	91	0	406	35	12	14	37	1.85
630631--630706	35	2.2	35	92	0	125	35	1	23	39	1.63
634589--634664	2	38.0	2	100	0	152	50	0	0	50	1.00
637259--637286	6	4.7	6	100	0	56	17	0	14	67	1.22
639298--639407	35	3.1	35	74	10	107	37	16	21	24	1.93
648326--648490	81	2.0	82	94	1	287	47	15	4	32	1.66
650143--650367	113	2.0	112	95	0	405	38	20	19	22	1.94
652151--652193	21	2.1	20	87	12	61	34	2	0	62	1.08
652962--653012	24	2.1	24	82	7	59	45	5	21	27	1.75
656097--656146	18	2.8	19	79	11	61	40	0	0	60	0.97
658536--658586	25	2.0	25	84	0	66	41	11	7	39	1.71
660371--660503	20	6.5	20	71	14	83	36	22	19	21	1.95
660434--660725	20	14.5	20	83	5	257	38	23	18	19	1.94
660495--660728	60	3.9	60	87	1	297	38	23	19	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661584--661637	24	2.2	24	90	0	81	22	18	18	40	1.91
664188--664302	53	2.2	52	87	1	167	43	18	22	15	1.87
664188--664339	19	8.7	19	68	21	109	44	18	23	14	1.86
664242--664335	33	2.8	33	93	0	161	44	18	23	13	1.85
664148--664337	86	2.2	87	82	2	240	41	19	23	15	1.90
664335--664380	19	2.4	19	92	0	74	13	17	23	45	1.83
664350--664443	33	2.8	33	81	0	107	14	17	21	46	1.83
664559--664585	14	1.9	14	100	0	54	37	22	0	40	1.54
665901--665967	21	3.2	20	70	4	53	20	20	34	23	1.97
667978--668073	20	5.2	20	72	21	91	45	18	23	11	1.82
667976--668097	33	3.5	33	85	7	145	46	18	22	11	1.81
668098--668190	33	2.8	33	90	1	132	10	21	24	43	1.84
668128--668232	20	5.6	19	73	16	85	11	20	20	47	1.80
668154--668232	40	2.0	40	84	0	104	12	20	17	49	1.79
668798--668988	20	9.5	20	77	7	154	18	18	23	39	1.92
668796--668988	40	4.8	40	82	5	210	18	18	23	38	1.93
668819--668969	60	2.5	60	83	4	171	19	18	23	37	1.94
668877--669050	60	2.8	60	80	6	154	21	19	22	36	1.95
669038--669091	20	2.7	19	73	18	56	16	16	31	35	1.92
671298--671348	9	5.6	9	75	11	50	68	0	1	29	1.00
671569--671601	16	2.1	16	100	0	66	57	24	12	6	1.57
671667--671741	10	7.7	10	69	21	61	57	21	12	9	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671671--671735	16	4.1	16	95	0	121	56	23	12	7	1.61
672486--672541	14	4.3	14	76	17	66	53	23	12	10	1.69
672466--672540	24	3.1	24	86	3	98	56	20	10	13	1.66
672712--672871	61	2.6	58	81	16	157	45	6	3	45	1.44
678379--678447	29	2.3	30	78	14	72	52	2	1	43	1.25
678431--678471	21	2.0	20	85	4	55	58	0	2	39	1.11
683808--683848	22	1.9	22	85	14	59	31	7	56	4	1.48
688946--688998	22	2.4	21	76	14	54	41	0	3	54	1.18
689191--689246	23	2.3	23	84	6	67	48	1	1	48	1.22
689687--689888	51	4.0	51	94	0	334	37	16	27	18	1.93
692193--692239	24	1.9	25	86	4	69	46	0	8	44	1.33
693650--693696	23	2.1	23	84	7	62	51	0	0	48	1.00
693650--693712	23	2.8	22	76	9	56	46	0	3	50	1.17
693846--693902	26	2.2	26	84	12	73	43	1	7	47	1.40
693885--693921	14	2.6	14	91	0	56	37	0	2	59	1.12
693886--693921	17	2.1	17	89	0	54	36	0	2	61	1.11
693919--693965	22	2.1	22	84	4	58	51	2	2	44	1.25
694580--694658	38	2.2	36	90	6	124	41	10	11	36	1.75
701151--701196	21	2.2	21	88	0	65	17	28	17	36	1.92
701202--701286	20	4.2	20	80	3	107	40	18	20	21	1.92
701481--701542	22	3.0	22	71	26	71	29	38	14	17	1.89
701914--701964	20	2.5	20	87	0	84	11	13	23	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702104--702149	21	2.2	21	100	0	92	17	8	4	69	1.31
708384--708448	2	32.5	2	100	0	130	49	0	0	50	1.00
710670--710707	20	1.9	20	88	0	58	39	15	21	23	1.92
714421--715144	364	2.0	364	99	0	1430	22	18	20	38	1.94
725671--725724	23	2.4	23	87	3	83	22	35	24	18	1.96
729336--729360	12	2.1	12	100	0	50	44	32	8	16	1.76
738819--738872	20	2.7	20	77	11	74	27	31	14	25	1.95
739006--739048	22	2.0	22	95	0	77	32	30	9	27	1.88
739651--739684	12	2.8	12	90	0	50	55	29	0	14	1.40
742115--742150	18	2.0	18	88	0	54	55	22	2	19	1.56

Tables:   1   2   3   4   5   6   7