genome.fa.s8484.2.7.7.80.10.50.1000.3.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: VEPZ01008484.1 Hibiscus syriacus cultivar Beakdansim tig00111318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  688492

Tables:   1   2   3   4   

This is table  3  of  4  ( 393 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)
377348--377446	52	1.9	52	83	8	130	46	10	9	34	1.69
381492--381579	44	2.0	44	95	0	158	20	21	11	46	1.82
382165--382193	13	2.3	13	94	5	51	72	0	0	27	0.85
382205--382239	12	2.9	12	91	8	54	57	0	0	42	0.99
382277--382323	19	2.6	18	90	9	78	74	4	4	17	1.14
383614--383666	3	17.7	3	92	0	88	62	1	1	33	1.17
383984--385582	113	14.2	113	90	2	2159	29	19	13	37	1.90
383984--385582	338	4.7	337	90	2	2370	29	19	13	37	1.90
383984--385582	451	3.5	451	92	1	2492	29	19	13	37	1.90
386051--386105	22	2.5	22	96	0	101	36	14	14	34	1.87
388667--389474	83	9.7	83	94	0	1282	37	22	13	27	1.91
391609--391655	20	2.4	20	85	3	60	0	6	6	87	0.68
396578--396636	30	1.9	32	82	6	77	61	1	6	30	1.32
397333--397367	12	2.8	13	87	12	56	57	0	0	42	0.99
397407--397455	19	2.7	18	90	9	82	73	4	4	18	1.15
398763--398843	3	26.7	3	94	2	144	64	1	0	34	1.02
407430--407493	3	22.0	3	83	12	80	35	0	0	64	0.94
409171--409229	31	2.0	31	83	12	79	45	3	0	50	1.18
409703--409783	28	3.2	26	76	13	73	30	4	2	61	1.30
409703--409769	28	2.5	27	83	7	75	32	4	2	59	1.32
411273--411314	7	6.0	7	81	8	50	14	16	14	54	1.71
411273--411314	15	3.0	14	83	10	50	14	16	14	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411374--411429	27	2.1	27	86	0	76	19	8	5	66	1.39
418319--418372	21	2.5	22	93	6	101	35	11	14	38	1.82
419053--419355	76	4.0	76	95	0	536	24	20	21	34	1.97
419365--419842	113	4.2	113	88	1	638	38	14	19	28	1.91
420197--420284	3	30.0	3	87	8	128	35	0	0	64	0.94
421682--421717	18	1.9	18	88	5	54	50	0	0	50	1.00
425148--425344	36	5.5	35	88	4	279	28	25	26	19	1.98
426365--426554	35	5.4	35	89	2	265	34	18	24	22	1.96
426341--426554	71	3.0	71	88	1	313	35	17	25	21	1.95
426363--426554	106	1.8	105	89	1	303	33	18	25	21	1.96
430301--430340	20	2.1	19	90	4	62	40	15	10	35	1.80
445878--445909	2	16.0	2	93	0	55	46	0	3	50	1.17
451420--451580	64	2.5	63	78	5	162	31	19	24	25	1.98
451549--451625	20	3.7	20	77	14	75	27	23	24	24	2.00
452104--452171	2	34.5	2	97	2	129	48	0	0	51	1.00
452410--452470	2	30.5	2	100	0	122	50	0	0	49	1.00
452825--453077	30	8.4	30	95	0	443	24	18	22	33	1.97
454763--454889	3	41.7	3	88	3	191	35	0	0	62	1.06
455560--455588	13	2.2	13	100	0	58	0	31	62	6	1.22
457080--457131	20	2.6	21	76	11	56	26	7	0	65	1.20
465277--465454	74	2.4	75	84	4	234	33	16	20	29	1.94
467378--468020	76	8.5	76	97	0	1187	22	21	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468148--468265	3	38.7	3	89	3	182	34	0	0	63	1.06
468936--468964	13	2.2	13	100	0	58	0	31	62	6	1.22
469761--469965	111	1.8	113	86	4	299	38	9	10	41	1.72
472886--472938	22	2.5	22	78	9	56	56	5	13	24	1.58
473404--473656	30	8.4	30	95	0	434	24	19	23	32	1.98
486137--486178	13	3.2	13	89	3	66	28	7	28	35	1.84
491958--491988	14	2.2	14	94	0	53	0	38	0	61	0.96
497757--497786	14	2.1	14	93	0	51	36	6	33	23	1.81
507094--507670	21	27.4	21	76	14	480	35	24	20	20	1.96
507069--507686	42	14.7	42	88	5	744	35	24	19	20	1.96
507094--507670	63	9.1	63	79	11	530	35	24	20	20	1.96
507682--507734	21	2.5	21	87	0	79	16	18	32	32	1.94
522750--522833	34	2.5	33	81	12	91	61	14	2	21	1.43
522746--522822	34	2.2	34	84	11	95	61	16	1	20	1.42
524901--524945	19	2.4	19	92	7	74	42	13	15	28	1.85
530783--530816	2	17.0	2	93	0	59	50	2	0	47	1.16
531084--531179	30	3.2	30	94	1	149	31	27	20	20	1.98
531168--531265	31	3.2	30	78	13	117	32	18	19	29	1.96
532092--532136	21	2.1	21	87	0	63	15	24	28	31	1.96
535617--535652	2	18.0	2	94	0	63	50	2	0	47	1.15
535921--536016	30	3.2	30	94	1	149	31	27	20	20	1.98
536005--536102	31	3.2	30	78	13	117	32	18	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536932--536970	20	1.9	19	85	10	51	17	25	25	30	1.97
540543--540603	23	2.7	23	92	0	95	26	26	27	19	1.99
542236--542278	21	2.0	21	86	0	59	18	23	25	32	1.97
544453--544512	20	2.9	20	80	5	66	30	25	23	21	1.99
549811--549901	21	4.3	20	90	6	119	19	36	25	18	1.95
550427--550523	33	2.9	34	85	3	133	55	4	3	37	1.35
550425--550530	34	3.2	33	82	8	133	54	4	2	37	1.36
550909--551261	126	2.8	126	98	0	679	31	20	26	21	1.98
551329--551369	8	5.2	8	82	5	57	36	29	0	34	1.58
554361--554398	13	3.0	13	88	3	60	44	0	0	55	0.99
554412--554469	23	2.6	23	94	5	102	44	12	3	39	1.58
554984--555024	21	1.9	22	85	5	57	36	0	0	63	0.95
560350--560374	2	12.5	2	100	0	50	0	0	48	52	1.00
563653--563682	2	15.5	2	93	6	53	0	0	46	53	1.00
577406--577727	55	5.9	55	92	2	542	35	10	16	37	1.83
577406--577727	109	2.9	110	92	3	542	35	10	16	37	1.83
582972--583011	21	1.9	21	89	0	62	57	5	7	30	1.48
583808--583836	13	2.2	13	100	0	58	31	17	20	31	1.96
584508--584546	20	2.0	20	100	0	78	25	10	20	43	1.83
595943--596006	26	2.4	27	89	7	103	34	3	9	53	1.49
600310--600366	3	18.7	3	81	3	69	42	0	0	57	0.98
600528--600593	32	2.1	32	94	2	116	22	42	19	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601402--601441	17	2.2	19	86	8	57	30	2	2	65	1.19
601715--601785	25	2.9	24	78	15	83	30	4	2	61	1.29
601722--601786	12	5.5	11	76	20	69	30	3	1	64	1.18
601794--601825	2	16.0	2	100	0	64	50	0	0	50	1.00
604693--604733	6	6.0	7	83	16	50	17	17	7	58	1.60
604822--604864	16	2.9	15	80	10	52	30	13	2	53	1.53
605065--605148	42	2.0	42	85	0	114	50	11	17	20	1.78
610001--610188	74	2.5	74	83	4	252	33	17	21	28	1.95
610552--610701	54	2.8	53	79	8	153	38	14	22	25	1.91
611060--611116	22	2.6	22	97	0	105	35	10	14	40	1.80
611773--612434	45	14.8	45	91	0	1006	25	23	19	31	1.98
611773--612434	269	2.5	269	89	2	1026	25	23	19	31	1.98
612663--612706	3	14.7	3	90	0	70	38	0	0	61	0.96
613706--613745	17	2.2	19	86	8	57	30	2	2	65	1.19
614018--614089	25	3.0	24	76	15	76	33	4	2	59	1.31
614026--614090	11	5.5	11	75	20	60	32	3	1	63	1.19
616075--616182	32	3.4	31	75	7	110	25	29	26	18	1.98
620900--621110	45	4.7	46	85	5	279	30	19	10	38	1.87
620900--621110	90	2.3	90	90	1	316	30	19	10	38	1.87
621462--621516	22	2.7	20	83	10	74	23	32	14	29	1.94
621504--621552	19	2.6	19	96	0	89	26	38	8	26	1.84
621576--621647	19	3.6	19	72	18	56	29	23	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621542--621721	95	1.9	94	84	5	238	30	22	15	31	1.95
628763--629022	45	5.8	45	88	1	387	31	17	8	42	1.80
628763--629022	135	1.9	135	92	1	432	31	17	8	42	1.80
632431--632480	24	2.1	24	85	10	68	46	2	0	52	1.12
632620--632656	19	2.0	18	89	5	56	56	2	0	40	1.13
633437--633475	19	2.1	19	90	0	60	35	25	15	23	1.94
633518--633565	21	2.3	21	77	0	60	27	20	18	33	1.96
633779--633829	22	2.3	22	96	0	93	19	45	15	19	1.86
634249--634301	20	2.7	20	90	0	79	16	18	26	37	1.93
634219--634311	20	4.7	19	78	4	69	17	16	23	43	1.88

Tables:   1   2   3   4