genome.fa.s8459.2.7.7.80.10.50.1000.3.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: VEPZ01008459.1 Hibiscus syriacus cultivar Beakdansim tig00111272_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  632685

Tables:   1   2   3   4   

This is table  3  of  4  ( 389 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)
357733--357803	25	2.8	25	80	14	67	21	5	2	70	1.21
357763--357821	25	2.3	25	82	8	66	18	5	3	72	1.17
369460--369499	18	2.2	18	90	0	62	67	2	0	30	1.04
371219--371251	6	5.5	6	100	0	66	48	0	0	51	1.00
371244--371276	10	3.7	9	88	12	50	54	0	0	45	0.99
371222--371280	18	3.3	18	80	20	54	52	0	0	47	1.00
371763--372104	169	2.0	172	98	1	663	38	14	9	37	1.79
373943--374132	57	3.3	57	93	0	335	42	12	13	31	1.82
379427--379474	13	3.5	13	77	8	51	4	2	16	77	1.03
379464--379506	19	2.3	18	84	4	50	11	4	6	76	1.13
381848--381895	14	3.4	14	79	0	51	18	6	14	60	1.55
382116--382168	24	2.2	24	82	0	70	13	13	13	60	1.60
382583--382650	34	2.0	34	100	0	136	38	17	23	20	1.93
391431--391529	32	3.1	32	100	0	198	34	9	18	38	1.82
393587--393789	103	2.0	103	94	0	352	39	12	16	31	1.86
395870--395914	17	2.7	17	96	3	83	42	6	8	42	1.62
403714--403749	2	18.0	2	100	0	72	50	0	0	50	1.00
407860--407906	16	3.0	16	84	3	60	29	19	12	38	1.89
407962--408000	19	2.0	20	85	10	53	46	10	2	41	1.51
408153--408188	18	1.9	18	88	5	54	63	5	2	27	1.30
408674--408725	15	3.5	15	76	7	52	53	0	1	44	1.11
411224--411277	20	2.8	20	77	8	58	38	12	16	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412840--412876	3	12.7	3	94	5	67	0	32	0	67	0.91
412836--412873	17	2.3	16	91	8	67	0	31	0	68	0.90
415186--415210	2	12.5	2	100	0	50	52	0	48	0	1.00
415869--415901	16	2.1	16	88	11	50	60	3	0	36	1.12
418477--418554	21	3.7	21	75	0	66	26	14	17	41	1.88
418560--418603	21	2.1	21	91	0	70	22	11	27	38	1.88
420385--420762	189	2.0	189	100	0	756	23	20	25	29	1.99
421022--421046	12	2.1	12	100	0	50	40	16	16	28	1.89
425223--425247	12	2.1	12	100	0	50	40	24	16	20	1.91
428946--428984	21	1.9	19	85	10	51	0	5	23	71	1.05
438223--438253	2	15.5	2	100	0	62	48	0	0	51	1.00
449015--449067	21	2.5	22	84	9	74	32	28	24	15	1.95
449127--449216	44	2.0	44	80	4	101	37	21	7	33	1.82
449223--449255	16	2.0	17	94	5	59	36	18	12	33	1.88
453278--453332	26	2.1	27	80	12	62	63	3	7	25	1.37
453357--453397	20	2.0	21	85	4	57	75	0	2	21	0.92
453944--453982	19	2.1	19	95	0	69	20	38	15	25	1.92
453881--454089	65	3.2	63	82	9	210	29	25	17	27	1.97
453930--454090	65	2.5	66	85	5	213	30	25	16	27	1.96
453930--454110	64	2.8	64	83	2	220	29	25	17	27	1.97
457854--458256	30	13.4	30	98	0	779	33	23	19	23	1.97
458242--458334	31	3.0	31	79	3	98	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462575--462857	30	9.4	30	98	0	539	32	23	19	24	1.97
462843--462935	31	3.0	31	77	3	89	35	20	17	26	1.94
463286--463338	2	27.0	2	96	3	99	50	0	0	49	1.00
464444--464485	2	21.0	2	100	0	84	50	0	0	50	1.00
468902--468945	21	2.1	21	86	0	61	9	36	15	38	1.80
469962--470013	19	2.8	19	80	8	63	26	34	13	25	1.93
469912--470121	65	3.3	63	78	7	226	30	24	16	28	1.96
469912--470141	64	3.6	64	80	5	223	30	24	17	27	1.97
472451--472862	85	4.8	83	77	7	373	28	18	19	33	1.95
472494--472862	84	4.3	87	79	7	362	28	18	19	33	1.95
472451--472862	172	2.4	168	81	5	441	28	18	19	33	1.95
474171--474211	21	2.0	21	95	0	73	26	29	19	24	1.98
479195--479221	2	13.5	2	100	0	54	51	0	0	48	1.00
479149--479244	49	2.0	49	100	0	192	40	8	8	42	1.65
479527--479600	18	3.9	18	84	12	96	25	33	21	18	1.96
486942--487005	23	2.6	24	73	9	67	68	4	9	17	1.34
494640--494680	2	21.0	2	90	5	66	51	0	0	48	1.00
497988--498045	29	2.0	29	100	0	116	34	3	27	34	1.74
502070--502112	22	2.0	22	86	9	61	60	6	2	30	1.35
512742--512783	22	1.9	22	90	0	66	28	2	7	61	1.35
514848--514895	24	2.0	24	95	0	87	27	16	4	52	1.62
515962--516050	29	3.1	29	98	0	169	10	32	31	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516098--516149	27	1.9	27	96	0	95	7	48	19	25	1.75
516542--516583	22	1.9	22	90	0	66	23	0	21	54	1.44
516601--516685	45	1.9	45	83	11	113	35	2	12	49	1.54
516868--516914	16	3.0	16	84	9	53	29	0	10	59	1.31
520240--520309	14	5.3	13	72	19	56	41	11	5	41	1.65
520286--520330	21	2.1	22	84	12	58	51	8	2	37	1.46
520301--520358	24	2.6	23	86	8	75	53	6	0	39	1.28
520351--520449	26	4.0	26	84	10	118	43	10	2	44	1.49
520249--520533	11	23.6	11	67	19	108	44	10	2	42	1.52
520455--520546	24	3.5	26	71	18	75	46	9	1	42	1.44
520467--520533	24	2.7	25	86	4	100	43	11	1	43	1.50
520495--520524	14	2.1	14	93	0	51	43	10	0	46	1.37
520784--520946	11	13.4	11	68	24	80	44	9	1	44	1.43
520774--520910	38	3.7	35	75	12	98	45	8	0	45	1.39
520824--520879	21	2.7	20	81	13	60	51	7	0	41	1.29
520844--520895	24	2.2	25	82	10	72	51	5	0	42	1.25
520846--520947	37	2.7	39	84	11	117	46	6	1	45	1.41
520784--520947	14	12.1	14	69	18	80	44	9	1	45	1.43
521111--521185	14	5.6	14	72	15	52	42	16	2	38	1.62
521168--521277	46	2.4	46	89	7	170	44	10	0	43	1.45
521136--521419	106	2.7	108	89	7	414	44	11	0	43	1.45
521308--521389	13	6.5	13	72	19	50	42	12	0	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521164--521422	49	5.1	49	84	12	362	44	11	0	43	1.43
522959--523001	2	21.5	2	100	0	86	51	0	0	48	1.00
523191--523251	17	3.4	17	72	16	59	47	11	0	40	1.40
523324--523350	14	1.9	14	100	0	54	74	14	3	7	1.18
523511--523541	5	6.2	5	92	0	53	58	0	0	41	0.98
523761--523814	28	1.9	28	100	0	108	57	14	0	27	1.38
523757--523821	28	2.3	28	87	10	105	55	12	0	32	1.37
523791--523839	21	2.3	21	85	3	71	53	16	0	30	1.43
525344--525387	14	2.9	14	86	10	52	50	0	0	50	1.00
535011--535356	171	2.0	171	97	0	647	49	5	10	34	1.60
544502--544921	226	1.8	229	86	1	603	32	20	19	27	1.97
552985--553032	21	2.2	22	85	3	62	41	18	10	29	1.84
553833--553894	31	2.0	31	90	3	99	38	22	19	19	1.93
554551--554771	64	3.5	64	88	3	277	26	18	20	34	1.96
555634--555664	2	15.5	2	100	0	62	48	0	0	51	1.00
556610--556659	25	2.0	25	84	7	66	40	4	28	28	1.74
557789--557822	11	3.1	11	86	0	50	38	0	2	58	1.13
560381--560421	16	2.6	16	96	0	73	24	14	9	51	1.72
575508--575554	21	2.2	21	96	0	85	63	8	2	25	1.34
585196--585228	13	2.5	13	86	13	50	45	0	3	51	1.16
587637--587703	26	2.6	26	90	0	107	34	5	8	50	1.58
590040--590109	24	2.8	25	81	14	83	50	1	2	45	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590235--590391	24	6.6	22	65	20	59	49	2	1	46	1.23
590296--590355	27	2.2	27	84	0	75	45	5	0	50	1.23
590323--590380	18	3.1	18	77	18	57	51	0	0	48	1.00
593466--593515	22	2.1	24	85	10	68	46	2	4	48	1.32
593693--593784	40	2.4	38	83	8	107	41	3	8	46	1.51
593772--594180	36	11.5	34	78	14	334	44	4	6	44	1.47
593794--594115	74	4.5	71	84	10	422	44	4	6	44	1.50
593994--594181	34	5.5	33	72	17	100	44	3	6	46	1.45
594433--594463	16	2.0	15	93	6	53	19	32	25	22	1.97
595367--595416	22	2.4	22	83	12	61	16	10	2	72	1.21

Tables:   1   2   3   4