genome.fa.s8245.2.7.7.80.10.50.1000.3.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  3  of  33  ( 3922 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)
454556--454894	146	2.3	149	81	10	392	44	2	7	46	1.45
454914--454977	4	15.5	4	90	3	92	23	3	0	73	0.97
456368--456400	2	16.5	2	93	0	57	48	3	0	48	1.17
458665--458827	54	3.0	54	93	3	292	25	20	37	15	1.93
465174--465250	38	2.0	38	97	0	145	45	24	5	24	1.74
471218--471272	13	4.2	13	80	0	65	25	20	18	36	1.94
471254--471409	85	1.8	84	87	6	235	30	21	17	29	1.97
475321--475366	19	2.4	18	83	16	58	60	8	8	21	1.53
477457--477507	22	2.3	22	96	0	93	37	15	19	27	1.92
481798--481864	31	2.2	30	80	12	75	44	2	2	49	1.32
484097--484336	3	80.0	3	100	0	480	33	0	0	66	0.92
485201--485245	24	1.9	24	86	4	65	40	2	4	53	1.33
485363--485448	35	2.5	35	98	0	163	51	2	4	41	1.35
486386--486445	26	2.3	26	85	5	77	25	8	11	55	1.63
488526--488566	20	2.0	20	85	4	55	60	0	2	36	1.10
489391--489431	14	3.0	14	80	16	50	36	0	2	60	1.10
489386--489426	14	3.0	14	83	13	50	34	0	2	63	1.08
491030--491095	21	3.1	21	76	8	71	37	16	12	33	1.86
491030--491095	22	3.0	22	78	6	73	37	16	12	33	1.86
492479--492541	15	4.2	15	74	17	60	68	0	1	30	0.99
492487--492541	14	3.8	14	75	20	51	69	0	0	30	0.89
492489--492542	29	1.9	29	88	7	85	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492608--492655	21	2.2	22	81	7	62	20	18	14	45	1.85
496443--496484	18	2.3	18	100	0	84	21	30	4	42	1.73
498238--498425	94	2.0	94	100	0	376	30	21	28	19	1.97
501884--501928	23	2.0	23	81	0	54	26	24	26	22	2.00
501896--502203	150	2.1	146	89	6	475	33	21	18	26	1.96
504348--504654	150	2.1	150	94	0	544	27	16	20	34	1.95
505430--505463	2	17.0	2	100	0	68	50	0	0	50	1.00
505860--506207	41	8.4	41	95	2	615	19	19	24	36	1.95
505893--505961	21	3.0	24	66	12	72	17	21	23	37	1.94
506196--506316	41	3.0	40	82	9	149	21	19	21	38	1.94
506262--506311	19	2.5	19	77	6	55	22	18	22	38	1.94
506388--506438	6	8.5	6	97	0	93	33	50	13	1	1.53
506932--506975	6	7.8	6	85	14	67	0	18	47	34	1.49
506937--506968	15	2.1	15	100	0	64	0	18	46	34	1.49
506932--506974	21	2.0	21	100	0	86	0	18	46	34	1.50
507172--507218	6	7.8	6	100	0	94	0	17	48	34	1.47
507320--507551	41	5.8	40	75	14	153	36	24	19	19	1.95
507376--507444	19	3.5	19	71	11	66	40	21	18	18	1.91
507394--507465	22	3.4	21	69	11	67	38	23	18	19	1.93
507457--507508	20	2.6	20	96	0	95	40	25	25	9	1.85
507497--507550	21	2.6	21	100	0	108	29	29	16	24	1.97
507454--507558	21	5.1	21	85	2	97	36	26	19	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508346--508412	23	2.9	23	97	0	125	29	25	25	19	1.98
514515--514617	39	2.6	39	85	0	143	31	45	5	17	1.72
522543--522611	20	3.4	20	76	4	84	40	15	23	20	1.91
522603--522717	20	5.7	20	81	6	106	31	25	18	25	1.97
522601--522731	41	3.2	41	78	6	140	34	24	16	24	1.96
523133--523196	20	3.2	20	81	0	74	17	18	20	43	1.88
524244--524375	66	2.0	66	100	0	264	40	15	15	28	1.87
524557--524601	18	2.5	18	88	0	72	26	44	15	13	1.83
524988--525030	20	2.1	21	87	12	63	4	2	23	69	1.18
525084--525129	20	2.3	20	88	0	65	36	26	21	15	1.93
525139--525196	14	3.9	14	79	16	71	48	24	17	10	1.78
525123--525213	32	2.8	32	93	3	146	46	20	19	13	1.83
525123--525218	19	5.7	18	72	20	82	44	20	20	13	1.85
525256--525310	19	2.8	19	86	5	74	16	23	23	36	1.94
527173--527208	14	2.6	14	90	0	54	30	0	22	47	1.52
527314--527367	14	3.5	14	77	22	63	48	20	20	11	1.80
527295--527372	33	2.4	33	91	0	120	42	21	23	12	1.87
527391--527448	20	2.9	20	97	0	107	15	22	24	37	1.93
528484--528541	24	2.5	24	88	2	82	29	17	17	36	1.92
531151--531276	33	3.8	33	88	4	200	42	19	22	15	1.88
531152--531276	66	1.9	66	98	0	241	42	20	22	15	1.89
531458--531494	14	2.6	14	91	0	65	45	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532841--532907	21	3.2	21	68	4	55	19	20	35	23	1.95
534954--535108	19	8.8	19	70	19	79	43	21	21	12	1.85
535003--535039	14	2.6	14	95	0	65	40	24	24	10	1.87
535063--535113	19	2.7	19	96	0	93	45	21	21	11	1.84
535016--535090	33	2.3	33	83	0	105	41	26	21	10	1.86
535109--535175	19	3.5	19	83	2	89	8	16	23	50	1.73
535693--535806	20	5.7	20	83	6	122	25	18	24	31	1.97
535693--535809	61	1.9	61	87	0	171	24	17	23	33	1.97
535693--535827	61	2.2	61	82	2	164	23	20	23	32	1.98
535877--535917	21	2.0	21	85	0	55	34	31	17	17	1.93
542359--542493	20	6.7	20	86	3	198	40	18	20	20	1.92
542359--542493	41	3.3	40	90	3	198	40	18	20	20	1.92
542359--542493	61	2.2	61	95	0	252	40	18	20	20	1.92
543044--543094	20	2.5	20	87	0	66	50	19	13	15	1.77
543170--543243	20	3.8	19	85	5	85	12	22	21	43	1.86
543121--543252	19	7.1	19	78	11	148	12	22	18	45	1.84
544938--545405	94	5.1	94	93	2	729	22	12	18	47	1.82
545521--545578	19	3.0	19	87	5	89	48	25	18	6	1.73
545522--545578	20	2.9	20	89	2	89	49	26	17	7	1.72
545584--545709	19	6.8	19	79	10	136	10	21	22	46	1.81
545584--545685	33	2.9	34	85	8	134	8	22	23	45	1.80
546579--546614	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546721--546800	33	2.4	33	91	0	124	46	20	21	12	1.83
546721--546779	19	3.4	19	73	22	74	45	16	22	15	1.84
546806--546956	19	8.7	19	66	21	98	11	24	19	43	1.85
546810--546936	33	3.8	33	97	0	236	11	24	18	44	1.83
546831--546918	14	5.6	14	70	23	59	11	25	19	44	1.84
546909--547002	20	4.7	20	72	13	68	21	20	23	35	1.96
547464--547518	27	2.0	27	89	6	85	40	3	7	49	1.48
547478--547938	36	12.8	37	82	8	501	44	3	7	44	1.50
547490--547973	109	4.5	109	83	10	554	44	3	7	45	1.49
547982--548019	3	12.7	3	94	0	67	31	2	0	65	1.06
548223--548252	16	1.9	15	93	6	51	20	33	26	20	1.97
550534--550581	20	2.4	20	85	0	69	20	25	25	29	1.99
551753--551808	26	2.2	26	86	0	76	10	16	12	60	1.58
551849--551882	9	3.6	9	85	14	50	23	2	0	73	0.97
557193--557975	84	9.4	83	77	5	668	32	23	18	25	1.97
557248--557977	165	4.4	164	83	3	761	31	24	19	25	1.98
557248--557951	249	2.8	243	83	4	829	31	24	19	25	1.98
557248--557942	84	8.4	83	80	5	694	30	24	19	25	1.98
558636--558693	27	2.1	28	87	3	82	46	1	6	44	1.40
558603--558724	65	1.9	63	85	6	165	42	2	5	49	1.40
558644--558698	27	2.0	27	89	6	85	40	3	7	49	1.48
558658--558847	36	5.1	37	83	11	230	40	4	7	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561410--561452	21	2.0	21	81	0	50	20	6	9	62	1.48
561452--561536	35	2.5	33	78	14	91	25	8	10	55	1.62
565537--565572	18	2.0	18	100	0	72	11	33	22	33	1.89
568103--568770	200	3.4	198	77	7	628	34	11	19	34	1.88
572113--572154	15	2.8	15	92	0	66	21	21	38	19	1.94
585351--585394	22	2.0	22	100	0	88	18	13	13	54	1.71
585578--585607	16	1.9	16	93	6	53	43	6	20	30	1.77
588915--588945	7	4.4	7	91	0	53	16	25	29	29	1.96
596063--596187	10	12.8	9	77	15	115	17	25	25	31	1.97
596063--596180	20	5.9	20	85	9	136	16	25	25	32	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33