genome.fa.s886.2.7.7.80.10.50.1000.2.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: VEPZ01000886.1 Hibiscus syriacus cultivar Beakdansim tig00001731_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  974096

Tables:   1   2   3   4   

This is table  2  of  4  ( 428 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)
331393--331472	9	9.1	8	72	21	54	76	0	15	8	1.02
336795--336932	35	3.8	36	82	4	172	35	15	24	24	1.94
336795--336939	71	2.0	73	84	5	188	35	15	24	24	1.94
336795--336939	36	4.0	36	80	7	170	35	15	24	24	1.94
336982--337186	55	3.7	55	82	5	236	29	17	21	31	1.96
336988--337186	110	1.8	110	84	6	278	30	17	22	30	1.96
345155--345618	59	7.9	59	70	6	253	37	11	21	29	1.89
345220--345522	118	2.6	117	88	1	426	37	11	22	29	1.88
345462--345606	58	2.5	59	77	11	147	37	10	21	30	1.87
345710--345867	44	3.6	44	95	0	280	37	4	24	33	1.75
345840--345890	23	2.2	23	96	0	93	45	0	21	33	1.52
345796--345935	67	2.1	68	95	1	255	40	3	23	32	1.72
345866--345963	45	2.2	45	92	0	160	36	6	26	30	1.81
349978--350014	19	2.0	18	89	5	56	13	43	0	43	1.44
353782--353835	25	2.2	25	93	0	90	25	16	24	33	1.96
355015--355107	24	3.9	24	80	2	107	19	19	18	43	1.89
356628--356655	14	2.0	14	100	0	56	50	14	14	21	1.78
368229--368269	12	3.3	13	78	21	52	0	14	2	82	0.76
368215--368277	24	2.5	25	89	5	76	1	9	6	82	0.90
368220--368275	24	2.3	24	90	3	85	0	10	5	83	0.78
368763--368889	50	2.5	50	94	0	218	38	29	15	16	1.90
372999--373048	19	2.4	21	87	12	77	0	16	8	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375212--375495	54	5.3	54	87	2	403	36	16	16	29	1.92
375800--375844	22	2.1	22	88	8	67	20	24	15	40	1.91
383533--383624	29	3.2	29	75	9	80	16	25	21	36	1.94
390059--390092	15	2.3	15	94	0	59	32	29	11	26	1.92
400057--400161	28	3.6	29	82	6	108	57	6	2	33	1.40
400087--400258	28	6.0	27	72	14	123	53	6	4	36	1.46
400088--400261	58	3.0	57	78	10	169	52	6	5	35	1.49
409078--409111	17	1.9	18	88	5	52	55	0	5	38	1.24
409930--410005	39	1.9	39	91	0	125	50	14	17	18	1.79
411046--411097	3	17.3	3	92	7	88	65	0	0	34	0.93
413205--413310	40	2.7	40	90	0	176	20	14	32	33	1.92
420258--420376	40	3.0	40	86	2	161	22	16	29	31	1.96
426203--426260	30	1.9	31	89	3	91	24	5	34	36	1.78
426952--427009	29	2.0	29	93	3	100	29	6	24	39	1.81
427886--428031	40	3.7	40	86	3	204	23	17	26	32	1.96
433127--433450	177	1.8	178	82	7	426	45	8	7	37	1.64
433603--433647	18	2.5	18	96	0	81	40	22	0	37	1.54
433863--433892	15	1.9	16	93	6	53	40	13	6	40	1.71
434250--434346	37	2.6	37	86	3	142	41	16	11	30	1.84
434825--434914	19	4.6	19	70	20	60	33	3	3	60	1.30
435210--435239	4	7.2	4	92	7	51	23	3	0	73	0.98
435246--435279	11	2.8	12	86	13	52	8	8	0	82	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435250--435280	11	2.7	12	95	5	55	6	12	0	80	0.89
439718--439783	18	4.1	17	74	20	70	80	6	13	0	0.89
439718--439779	31	2.0	30	87	9	90	80	6	12	0	0.89
441369--442424	106	10.0	106	89	2	1520	34	24	18	22	1.96
441369--442424	423	2.5	423	90	1	1642	34	24	18	22	1.96
443122--443225	37	2.8	37	84	4	131	42	15	13	28	1.85
443689--443782	20	4.6	20	67	23	52	32	5	2	59	1.32
443814--443881	2	33.5	2	97	2	127	48	1	0	50	1.10
444132--444172	15	2.6	16	81	14	50	14	7	0	78	0.96
448422--448469	23	2.2	22	88	7	71	10	6	4	79	1.05
460690--460734	18	2.3	20	88	7	67	35	0	26	37	1.57
461913--462095	59	3.1	60	84	3	192	28	15	22	33	1.94
464474--464498	12	2.1	12	100	0	50	44	8	16	32	1.76
473811--473857	21	2.2	21	100	0	94	36	6	21	36	1.79
485433--485469	15	2.6	15	87	8	51	29	32	13	24	1.93
487337--487361	13	1.9	13	100	0	50	32	16	4	48	1.64
487876--487901	2	13.0	2	100	0	52	50	0	0	50	1.00
490015--490055	14	2.9	14	86	10	57	26	2	14	56	1.51
492975--493125	31	5.0	31	89	6	188	38	22	18	20	1.93
492975--493125	62	2.5	61	91	5	236	38	22	18	20	1.93
501033--501057	13	1.9	13	100	0	50	64	0	0	36	0.94
501064--501100	20	1.9	18	89	10	56	64	2	2	29	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504679--504750	30	2.4	31	83	2	83	29	34	13	22	1.93
506680--506746	24	2.8	24	93	0	107	32	0	11	55	1.37
507654--507702	14	3.5	14	81	18	66	20	10	0	69	1.17
512453--512487	12	2.7	13	86	13	54	17	0	8	74	1.06
512541--512593	28	1.9	27	84	3	70	22	9	0	67	1.19
512612--512660	14	3.5	14	81	18	66	20	10	0	69	1.17
513444--513474	12	2.6	12	94	0	53	9	12	41	35	1.76
515444--515576	7	19.6	7	71	17	77	37	1	0	60	1.12
515470--515514	16	2.9	15	84	12	56	40	2	0	57	1.11
515443--515542	43	2.4	41	78	16	100	41	1	0	58	1.05
515488--515577	26	3.5	26	75	14	89	33	1	1	64	1.08
515486--515534	16	2.9	16	83	16	64	36	0	0	63	0.95
515498--515559	16	3.7	17	73	16	58	35	1	0	62	1.05
524048--524110	31	2.0	31	100	0	126	31	12	17	38	1.87
527125--527163	15	2.6	15	100	0	78	30	15	28	25	1.96
528587--528611	8	3.1	8	100	0	50	36	0	12	52	1.39
532073--532194	5	25.0	5	70	21	57	80	0	13	4	0.92
532089--532193	23	4.4	24	76	17	94	80	0	13	4	0.91
532089--532185	16	6.3	15	76	14	72	80	1	14	4	0.91
532072--532193	9	13.1	9	76	16	90	81	0	13	4	0.90
532072--532186	7	15.7	7	71	20	76	80	0	13	4	0.90
533736--533770	15	2.3	15	95	0	61	14	20	34	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533754--533801	18	2.7	18	93	0	78	14	22	37	25	1.92
536282--536666	192	2.0	191	98	0	752	32	17	23	25	1.97
539971--540008	20	1.9	20	100	0	76	10	31	34	23	1.89
542497--542819	133	2.4	132	85	4	418	32	21	16	29	1.95
543039--543096	19	3.1	17	80	14	62	25	3	0	70	1.03
543061--543100	14	2.7	15	88	3	55	22	2	0	75	0.93
544056--544280	106	2.1	105	82	7	267	20	16	18	45	1.86
546038--546342	38	7.8	38	72	17	193	40	12	7	39	1.72
546315--546519	96	2.2	92	82	10	245	40	13	6	39	1.71
546482--546554	35	2.1	34	82	2	83	42	13	8	35	1.74
546594--546678	39	2.2	39	81	8	93	47	12	3	36	1.59
546623--546747	55	2.3	54	87	2	180	51	16	6	26	1.68
546234--546732	225	2.2	223	78	11	525	41	13	6	37	1.72
546774--547061	58	5.1	58	77	11	294	43	13	7	34	1.74
546827--546919	48	1.9	48	89	4	143	49	12	8	29	1.71
546774--547061	106	2.6	106	82	6	281	43	13	7	34	1.74
547235--547413	44	4.1	43	82	9	211	39	16	10	34	1.82
547225--547413	86	2.1	88	83	9	242	40	16	9	32	1.81
548267--548379	56	2.0	57	96	3	212	33	17	18	30	1.94
548745--548774	10	3.0	10	95	0	51	43	0	0	56	0.99
549226--549285	27	2.2	26	83	13	77	68	5	5	21	1.29
554627--554789	87	1.9	87	91	5	267	46	5	9	38	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559557--559644	44	2.0	44	100	0	176	27	13	20	38	1.90
566409--566513	54	2.0	53	82	1	129	38	19	15	27	1.91
566414--566528	54	2.1	54	80	4	126	38	18	15	27	1.91
568220--568737	136	3.8	135	87	2	700	27	20	17	35	1.94
569054--569167	42	2.7	42	79	2	113	35	20	21	22	1.96
569464--569629	54	3.1	54	83	3	201	42	16	10	30	1.82
571601--571665	20	3.3	19	77	14	69	1	15	4	78	0.99
571619--571656	11	3.5	11	85	3	51	0	15	0	84	0.63
571597--571686	40	2.2	40	84	5	110	3	18	3	74	1.10
576812--576850	19	2.1	19	90	0	60	12	7	41	38	1.72

Tables:   1   2   3   4