genome.fa.s8736.2.7.7.80.10.50.1000.3.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: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2478687

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1494 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)
358306--358404	46	2.2	46	83	3	128	33	23	25	18	1.97
358998--359047	20	2.5	20	93	0	91	30	14	16	40	1.87
361007--361388	43	8.9	43	88	3	556	31	20	24	23	1.98
361013--361388	171	2.2	170	89	2	567	31	20	24	23	1.98
361013--361388	128	2.9	127	91	0	599	31	20	24	23	1.98
364995--365196	41	4.9	42	85	4	214	32	16	21	29	1.95
364995--365140	42	3.5	42	89	3	215	32	19	20	27	1.97
364994--365155	83	2.0	83	85	2	218	30	19	21	28	1.97
364991--365196	83	2.5	83	81	1	216	32	16	20	29	1.95
366652--366831	41	4.4	40	81	6	182	33	17	13	34	1.90
366653--366808	41	3.8	41	85	5	199	32	18	14	34	1.91
366653--366856	82	2.5	82	84	5	234	32	17	14	35	1.90
366737--366980	42	5.9	41	71	16	139	27	18	18	36	1.94
366824--366978	82	1.9	83	87	4	233	24	18	20	36	1.94
371126--371174	22	2.2	22	96	0	89	53	12	6	28	1.62
371233--371271	16	2.4	17	86	4	53	71	7	10	10	1.30
377992--378022	16	1.9	16	93	0	53	32	22	9	35	1.87
380294--380338	14	3.2	14	77	0	54	20	28	11	40	1.86
386395--386456	27	2.3	27	94	0	106	41	4	27	25	1.75
387215--387559	55	6.3	55	88	1	453	29	17	18	34	1.94
387895--387941	22	2.1	22	84	7	60	42	2	8	46	1.46
388102--388132	10	3.0	10	90	9	53	80	0	9	9	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388102--388132	11	2.9	11	95	4	55	80	0	9	9	0.90
390914--391003	18	4.8	18	84	8	117	28	32	18	20	1.96
390914--391003	39	2.4	36	87	5	117	28	32	18	20	1.96
396224--396331	18	5.8	18	86	6	144	29	32	18	19	1.96
401574--401680	18	5.8	18	83	8	135	29	31	18	19	1.96
406867--406938	18	3.9	18	92	1	108	29	33	19	18	1.95
407775--407826	19	2.7	19	100	0	104	21	30	17	30	1.96
409752--409802	10	5.1	10	100	0	102	31	9	0	58	1.30
411580--411647	21	3.1	21	78	4	64	48	5	0	45	1.26
411622--411804	84	2.2	86	78	9	198	49	4	1	44	1.33
411700--411800	28	3.7	27	83	10	116	48	3	1	45	1.32
411710--411800	27	3.4	25	81	11	101	49	4	1	45	1.29
411783--411828	2	25.0	2	83	16	64	47	0	0	52	1.00
413360--413501	74	1.9	75	94	1	250	42	4	7	46	1.50
413295--413668	38	10.2	37	71	16	194	41	3	8	46	1.50
413295--413539	74	3.3	71	81	12	244	43	3	7	45	1.49
413680--413705	5	5.2	5	100	0	52	19	0	0	80	0.71
418772--419740	106	9.2	106	92	0	1573	33	24	18	23	1.97
418772--419741	211	4.6	212	93	0	1602	32	24	18	23	1.97
418772--419740	317	3.1	318	91	0	1573	33	24	18	23	1.97
419974--420260	81	3.5	81	82	4	378	29	24	22	23	1.99
419940--420260	81	3.9	81	80	4	367	29	24	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419930--420260	165	2.0	165	89	0	509	29	24	21	24	1.99
420875--421046	34	4.8	36	77	15	153	41	4	8	45	1.54
420902--420954	11	4.7	11	75	13	54	45	1	9	43	1.47
420851--421019	37	4.8	33	79	12	133	43	4	8	43	1.55
420887--421019	69	1.9	71	87	6	200	42	4	8	45	1.54
420881--421073	37	5.4	37	75	21	107	41	4	8	45	1.53
421000--421072	38	1.9	38	86	10	105	39	4	6	49	1.49
420851--421055	69	2.9	69	79	13	188	42	4	8	44	1.54
423299--423395	48	2.0	48	100	0	194	14	12	20	52	1.73
425898--425985	27	3.2	27	71	10	72	32	2	17	47	1.60
433940--434289	174	2.0	175	97	2	661	35	15	21	27	1.94
440151--440193	22	2.0	22	82	17	54	32	39	4	23	1.75
443501--443543	18	2.4	17	88	7	59	34	11	41	11	1.78
453382--453442	24	2.5	24	81	5	61	37	1	22	37	1.65
459664--459700	12	3.1	12	84	0	56	16	45	2	35	1.61
459799--459849	23	2.2	23	92	0	84	25	27	15	31	1.96
460479--460555	37	2.1	37	100	0	154	29	22	10	37	1.87
466401--466439	16	2.5	16	84	16	55	38	0	10	51	1.36
484169--484208	20	2.0	20	95	0	71	45	12	5	37	1.64
484222--484261	20	2.0	21	90	5	64	45	15	5	35	1.68
484275--484313	20	2.0	20	89	0	60	41	15	5	38	1.69
484165--484314	53	2.9	51	95	3	264	48	12	6	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488681--488720	20	2.0	20	95	0	71	47	10	2	40	1.50
488734--488773	20	2.0	21	90	5	64	45	15	5	35	1.68
488787--488825	20	2.0	20	89	0	60	43	17	2	35	1.63
488677--488826	52	2.9	52	93	3	248	49	12	4	33	1.62
491191--491465	137	2.0	137	97	0	523	26	22	14	35	1.93
504823--504877	27	2.0	27	92	0	92	34	14	10	40	1.81
509188--509315	59	2.2	59	85	0	166	28	24	17	28	1.98
510126--510169	14	3.1	14	83	9	54	31	2	0	65	1.05
510123--510189	25	2.7	25	81	6	75	34	2	0	62	1.10
513663--513733	36	2.0	35	89	8	108	78	2	18	0	0.86
513663--513733	11	6.0	12	80	16	78	78	2	18	0	0.86
513663--513750	9	9.0	10	71	15	51	76	2	19	2	1.01
515389--515460	37	1.9	37	91	0	117	27	20	12	38	1.89
515476--515699	36	6.4	36	75	11	198	27	18	12	41	1.87
515389--515667	101	2.8	101	84	2	326	29	18	12	39	1.87
516363--516428	22	3.0	23	64	20	59	30	37	12	19	1.88
516491--516690	111	1.8	111	90	2	321	35	24	18	22	1.96
518098--518168	25	2.9	25	81	6	74	33	2	1	61	1.19
518107--518145	14	2.6	14	84	8	51	33	2	0	64	1.08
518200--518313	38	3.0	36	82	11	115	30	3	0	64	1.16
518274--518300	2	13.5	2	100	0	54	48	0	0	51	1.00
533328--533367	21	1.9	21	94	0	71	27	27	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533907--534034	59	2.2	59	81	0	148	30	24	17	28	1.97
536674--536749	14	5.2	14	82	16	57	2	15	5	76	1.08
549360--549513	76	2.0	76	100	0	308	38	15	18	26	1.91
550075--550243	84	2.0	84	98	0	329	43	23	9	23	1.82
550322--550403	41	2.0	41	80	9	94	37	15	17	29	1.91
571540--571574	16	2.1	16	89	5	52	77	0	2	20	0.90
571542--571590	13	3.7	13	78	13	55	73	0	4	22	1.00
571542--571592	20	2.5	20	87	6	68	72	0	3	23	1.01
571542--571592	7	7.6	7	78	12	54	72	0	3	23	1.01
571587--571622	10	3.8	10	85	14	58	55	5	0	38	1.23
571579--571629	18	2.9	18	94	5	88	56	3	0	39	1.18
571563--571634	13	5.6	13	75	18	55	61	2	1	34	1.19
571892--571929	11	3.5	11	85	0	58	39	0	2	57	1.12
571638--571907	39	7.1	37	91	2	407	43	7	2	46	1.46
573454--573486	13	2.3	15	90	10	52	0	18	0	81	0.68
584112--584152	5	8.0	5	86	13	57	78	0	0	21	0.76
584112--584152	9	4.0	10	84	15	57	78	0	0	21	0.76
584120--584151	14	2.2	15	94	5	57	81	0	0	18	0.70
584124--584159	14	2.6	13	87	12	54	80	0	0	19	0.71
584190--584227	9	4.2	9	83	9	51	86	0	2	10	0.66
584176--584226	24	2.2	23	86	6	68	80	0	5	13	0.89
585221--585256	16	2.2	17	90	5	56	77	0	2	19	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585224--585288	7	9.6	7	73	20	50	67	3	1	27	1.14
585260--585310	17	3.1	17	86	8	70	56	1	0	41	1.10
585260--585310	7	7.4	7	75	20	54	56	1	0	41	1.10
585302--585347	24	1.9	24	91	8	76	50	8	0	41	1.33
585315--585642	37	8.7	37	89	5	480	42	9	4	43	1.56
589786--589812	13	2.1	13	100	0	54	7	22	22	48	1.75
591754--591838	16	4.9	16	68	19	55	74	3	3	18	1.11
593139--593173	16	2.1	17	89	5	54	77	0	2	20	0.90
593232--593594	37	9.7	37	89	3	502	42	8	4	44	1.56
594032--594072	18	2.2	19	91	4	66	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13