genome.fa.s8177.2.7.7.80.10.50.1000.3.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: VEPZ01008177.1 Hibiscus syriacus cultivar Beakdansim tig00110773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1003138

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 581 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)
379119--379508	187	2.1	182	88	5	586	44	8	3	43	1.51
395698--396270	288	2.0	287	92	0	957	39	16	20	23	1.92
398029--398127	38	2.6	38	93	0	171	25	20	24	30	1.99
398769--399065	86	3.5	86	81	9	304	26	18	6	48	1.71
398838--399071	42	5.5	43	77	7	235	26	20	6	47	1.75
420055--420079	2	12.5	2	100	0	50	48	0	0	52	1.00
425488--425558	31	2.3	31	87	0	97	35	9	28	26	1.88
426277--426331	23	2.3	24	81	12	69	41	7	0	50	1.30
426446--426515	10	7.1	10	73	12	56	71	4	0	24	1.04
426929--427099	72	2.3	72	78	9	177	28	11	7	52	1.65
433527--433559	17	2.0	17	88	5	50	33	42	3	21	1.68
447230--447268	15	2.5	16	84	16	55	74	5	0	20	1.01
448348--448386	10	3.9	10	86	10	53	20	23	46	10	1.81
448348--448394	20	2.4	21	83	16	66	19	23	46	10	1.80
448602--448649	3	16.0	3	91	0	78	62	0	0	37	0.95
448602--448649	15	3.2	15	96	0	87	62	0	0	37	0.95
448880--449559	112	6.0	113	90	4	793	29	17	14	38	1.90
450233--450420	94	2.0	92	89	2	286	32	21	15	29	1.95
451667--451734	6	11.3	6	77	22	72	0	19	0	80	0.70
451669--451731	20	3.2	20	82	10	69	0	17	0	82	0.67
451668--451737	12	5.7	12	90	8	97	0	18	0	81	0.69
451683--451730	4	11.8	4	84	2	60	0	16	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451668--451726	7	8.3	7	78	12	50	0	16	0	83	0.66
456427--456453	10	2.7	10	100	0	54	18	18	51	11	1.74
456669--456716	3	16.0	3	91	0	69	60	0	0	39	0.97
456947--457627	113	6.0	113	91	3	807	29	17	14	38	1.90
458305--458586	94	3.0	94	94	1	478	32	21	16	29	1.95
459834--459878	12	4.0	11	83	16	65	0	13	0	86	0.57
459835--459877	14	3.3	13	87	9	61	0	13	0	86	0.58
469140--469171	15	2.1	15	94	0	55	46	6	18	28	1.73
474589--474676	3	30.0	3	90	4	135	62	0	0	37	0.95
476081--476112	16	2.0	16	100	0	64	31	25	12	31	1.92
486108--486146	20	2.0	20	94	0	69	51	17	12	17	1.76
487179--487277	21	4.7	21	78	13	114	25	16	33	25	1.96
487359--487416	30	2.0	29	90	10	91	44	17	5	32	1.70
487359--487418	29	2.0	30	93	6	104	43	16	6	33	1.74
490617--490850	8	31.8	8	65	24	65	26	16	32	24	1.96
490616--490711	41	2.4	40	87	5	131	29	16	31	22	1.96
490636--490810	95	1.8	97	85	7	250	26	16	29	26	1.97
490734--490801	13	5.0	13	72	19	50	25	16	30	27	1.96
490731--490850	21	5.7	21	84	10	156	25	16	35	23	1.95
490932--490991	30	2.0	30	90	6	95	45	15	6	33	1.72
492113--492298	93	2.0	93	98	0	363	26	38	10	24	1.88
492367--492466	42	2.4	41	75	8	112	18	14	37	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492367--492528	21	7.7	22	69	8	97	19	13	33	32	1.91
492408--492529	63	1.9	63	83	6	158	20	13	33	32	1.91
492826--492896	21	3.4	21	80	0	88	22	35	21	21	1.96
496963--497016	24	2.2	24	90	0	81	44	18	16	20	1.87
497758--497795	16	2.5	15	84	12	51	65	0	5	28	1.14
497808--497856	22	2.2	22	100	0	98	26	8	36	28	1.85
497886--497947	27	2.3	27	100	0	124	25	3	30	40	1.72
498000--498089	20	4.4	21	76	10	64	35	12	21	31	1.90
498001--498091	40	2.2	40	84	5	112	35	12	20	31	1.90
498034--498210	20	8.9	20	73	11	85	27	14	25	32	1.95
503246--503299	27	1.9	29	85	7	76	40	27	7	24	1.81
503339--503439	2	51.0	2	96	2	186	50	0	0	48	1.07
505041--505113	12	6.1	12	75	10	69	78	0	6	15	0.96
505066--505112	4	11.8	4	80	8	51	78	0	4	17	0.90
505052--505154	31	3.5	31	75	9	88	70	0	6	22	1.10
505185--505252	29	2.3	30	73	14	70	70	8	0	20	1.13
505395--505443	19	2.5	20	78	18	57	65	0	4	30	1.11
505972--506073	37	2.8	36	75	10	98	33	11	12	42	1.80
508453--508587	70	1.9	70	92	0	225	42	10	20	26	1.84
508550--508658	57	1.9	57	96	0	200	45	16	20	17	1.85
508590--508728	72	2.0	72	91	2	228	48	20	15	16	1.81
516111--516161	3	17.3	3	91	4	86	33	1	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526350--526428	22	3.6	22	87	3	88	37	13	10	37	1.79
527086--527610	42	12.3	42	86	5	689	28	23	19	28	1.98
527086--527610	86	6.2	85	89	3	718	28	23	19	28	1.98
527092--527619	128	4.1	128	88	3	717	28	23	19	28	1.98
527933--527992	3	20.3	3	86	3	86	33	5	0	61	1.17
530921--530958	15	2.5	15	83	16	51	50	5	15	28	1.66
534511--534560	25	2.0	25	84	7	66	42	0	26	32	1.56
535359--535403	19	2.4	18	77	3	54	37	0	15	46	1.46
536422--536566	73	2.0	72	90	1	227	29	24	21	24	1.99
536425--536587	73	2.2	73	85	2	220	29	23	21	25	1.99
538969--539012	21	2.3	18	82	17	54	27	27	4	40	1.75
543898--543985	3	30.0	3	78	11	85	30	1	0	68	0.97
543908--543981	14	4.9	14	82	14	85	29	1	0	68	0.97
543898--543984	32	2.6	35	80	14	103	29	1	0	68	0.96
545035--545081	2	23.5	2	100	0	94	48	0	0	51	1.00
545220--545295	39	2.0	37	82	10	91	28	9	2	59	1.42
545308--545352	22	2.1	22	88	12	67	28	0	4	66	1.11
545730--545765	2	19.0	2	88	11	58	50	0	0	50	1.00
549569--549600	15	2.1	15	94	0	55	25	18	9	46	1.79
557342--557391	18	2.8	18	96	0	91	36	12	4	48	1.59
558000--558050	22	2.3	22	93	0	84	35	13	13	37	1.85
558381--558444	20	3.2	20	63	20	53	42	9	23	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558360--558689	122	2.7	122	91	3	506	40	15	18	26	1.90
558249--558689	243	1.8	235	82	9	552	39	15	18	26	1.90
559051--559128	3	27.3	3	81	14	94	32	1	0	66	1.00
559051--559128	17	4.6	17	78	15	90	32	1	0	66	1.00
559883--559914	2	17.0	2	87	12	50	50	0	0	50	1.00
560551--560599	2	26.0	2	88	12	77	51	0	0	48	1.00
565944--565986	23	1.9	22	90	4	68	20	30	20	27	1.98
567941--567965	13	1.9	13	100	0	50	40	0	16	44	1.47
570386--570419	17	2.1	16	88	5	50	14	8	0	76	1.01
570798--570834	19	2.0	19	89	5	58	10	0	8	81	0.89
576754--576796	20	2.1	21	87	8	63	18	13	0	67	1.23
576753--576802	20	2.5	20	75	15	59	18	18	0	64	1.30
580584--580617	17	2.1	16	88	5	50	14	8	0	76	1.01
584368--584401	13	2.6	13	86	13	52	47	8	5	38	1.59
584685--584850	73	2.3	72	82	4	190	30	23	19	26	1.98
590552--590606	24	2.3	24	100	0	110	38	16	5	40	1.72
596765--596795	11	2.8	11	100	0	62	25	38	0	35	1.56
600400--600597	99	2.0	99	100	0	396	25	15	21	38	1.92
603064--603114	4	12.8	4	91	0	84	1	23	0	74	0.92
607721--607827	53	2.0	53	98	0	205	26	26	11	36	1.90
610736--610961	109	2.0	115	84	7	304	52	12	4	30	1.60
610951--611527	4	144.8	4	99	0	1140	49	24	0	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613409--613482	12	6.2	12	75	6	78	58	2	1	37	1.21
627587--627663	30	2.6	30	93	4	131	32	11	10	45	1.75
628183--628251	36	1.9	36	93	0	120	27	17	31	23	1.97
628803--629120	164	2.0	160	87	6	464	38	11	18	31	1.86
629487--629606	60	2.0	60	98	0	231	31	25	13	29	1.94
630931--630992	25	2.5	25	97	0	115	11	19	38	30	1.87
631095--631236	32	4.5	31	77	4	113	23	14	26	35	1.93
633345--633412	24	2.8	25	84	8	86	30	25	25	19	1.98
634629--634688	22	2.7	23	76	7	70	40	18	1	40	1.60
635114--635172	21	2.8	21	92	2	100	16	28	23	30	1.97

Tables:   1   2   3   4   5