genome.fa.s8301.2.7.7.80.10.50.1000.4.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  4  of  18  ( 2065 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)
427646--427734	17	5.2	17	86	2	106	39	7	15	37	1.77
427646--427804	34	4.6	35	72	6	117	40	10	15	33	1.81
429605--429682	19	4.0	20	85	6	79	37	0	1	61	1.04
429596--429661	22	3.0	22	86	2	87	28	0	3	68	1.05
429606--429661	3	20.0	3	82	14	66	32	0	1	66	1.03
430994--431058	12	5.2	12	75	17	53	29	4	0	66	1.12
431016--431058	3	14.3	3	80	9	52	25	4	0	69	1.07
431021--431058	16	2.5	15	91	4	58	23	5	0	71	1.07
431016--431058	13	3.1	15	77	16	56	25	4	0	69	1.07
431253--431294	20	2.2	19	86	4	57	33	0	2	64	1.07
431156--431386	120	1.9	120	84	4	306	38	7	7	45	1.62
436973--436997	6	4.2	6	100	0	50	64	0	0	36	0.94
437007--437067	28	2.1	29	85	8	81	67	0	4	27	1.11
437130--437169	20	2.1	19	85	4	53	65	0	0	35	0.93
437150--437207	29	2.0	29	89	0	89	51	0	1	46	1.11
442340--442504	15	10.5	15	78	14	154	44	0	3	50	1.23
442466--442522	18	3.4	18	69	18	59	33	0	12	54	1.38
442452--442581	32	4.4	32	80	18	181	36	0	10	53	1.36
442507--442549	22	2.0	22	100	0	86	34	0	13	51	1.42
442608--443021	32	13.7	32	74	19	265	33	0	13	52	1.43
442529--443101	112	5.2	112	86	5	862	32	0	14	52	1.43
442673--442737	22	3.0	22	97	0	121	33	0	13	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442507--443198	188	3.7	186	79	13	579	32	0	14	52	1.43
442695--442935	80	2.9	82	87	9	344	32	0	14	53	1.41
442861--442903	22	2.0	22	100	0	86	34	0	13	51	1.42
442915--442957	22	2.0	22	100	0	86	34	0	13	51	1.42
443072--443119	22	2.4	18	73	23	51	33	0	14	52	1.42
442883--443198	80	3.9	80	94	3	535	32	0	14	52	1.42
442452--443118	220	3.0	220	89	3	1022	33	0	13	52	1.42
443161--443203	22	2.0	22	100	0	86	34	0	13	51	1.42
442475--443212	54	13.6	53	73	16	448	33	0	14	52	1.43
443228--443286	31	1.9	31	92	0	100	42	10	6	40	1.65
447207--447255	23	2.0	24	84	7	64	40	44	0	14	1.45
457504--457551	22	2.5	20	78	21	57	43	0	4	52	1.20
460362--460405	3	14.7	3	95	0	79	63	0	0	36	0.95
463007--463064	2	28.5	2	96	3	107	48	1	0	50	1.11
463779--463851	35	2.1	35	100	0	146	50	5	5	38	1.49
464543--464574	16	2.0	16	100	0	64	18	18	18	43	1.88
465304--465331	13	2.2	13	100	0	56	28	0	0	71	0.86
465565--465596	3	10.7	3	100	0	64	65	0	0	34	0.93
471069--471120	23	2.2	24	83	6	63	48	5	5	40	1.51
471794--471863	36	1.9	36	91	0	113	27	20	27	25	1.99
472609--472651	22	2.0	22	86	9	61	41	13	20	23	1.88
479073--479426	118	3.1	117	66	13	302	37	12	16	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479025--479709	225	3.1	225	83	7	929	38	14	15	31	1.88
482434--483226	410	2.0	400	84	6	1036	31	14	13	40	1.84
483412--483449	19	2.0	19	94	0	67	28	15	10	44	1.80
486181--486209	12	2.4	12	100	0	58	62	10	10	17	1.54
487108--487161	2	27.0	2	100	0	108	50	0	0	50	1.00
487944--488375	199	2.2	198	85	3	582	34	14	13	37	1.86
488555--488970	213	2.0	213	99	0	814	32	17	20	29	1.95
489860--489908	19	2.7	18	87	6	71	46	16	0	36	1.47
493425--493502	19	4.1	19	70	9	59	35	19	1	43	1.59
493369--493790	230	1.8	231	90	2	679	35	22	6	35	1.80
496873--496939	35	1.9	35	84	6	91	31	20	20	26	1.98
497461--497518	27	2.1	27	84	6	73	25	10	15	48	1.77
503893--503974	21	3.8	21	72	13	67	20	24	30	24	1.99
503915--503959	23	2.0	23	90	0	72	22	24	28	24	1.99
511159--511226	24	3.0	22	79	12	66	17	20	25	36	1.94
511693--511738	20	2.3	19	85	7	56	26	4	6	63	1.38
516917--516958	19	2.2	20	86	4	59	30	2	4	61	1.29
517118--517187	23	3.0	23	74	0	77	22	22	22	31	1.98
517694--517731	20	1.9	20	84	10	51	26	5	5	63	1.37
522406--522477	36	2.0	36	97	0	135	34	19	8	37	1.82
522420--522479	19	3.3	19	66	17	54	28	23	8	40	1.83
525503--525530	14	2.0	14	100	0	56	42	14	14	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530942--531169	93	2.5	93	80	4	248	29	17	22	30	1.96
531140--531351	59	3.6	59	92	0	343	33	15	24	26	1.95
531409--531483	37	2.1	37	85	7	100	38	9	22	29	1.85
531557--531975	36	11.1	38	66	10	117	38	10	18	32	1.85
531529--532397	227	3.9	224	86	3	1002	38	12	17	31	1.87
531535--532487	74	12.8	72	84	3	952	38	12	17	31	1.86
535946--535976	16	1.9	16	93	0	53	32	3	19	45	1.66
538281--538311	16	1.9	16	93	0	53	74	0	0	25	0.82
540716--540783	13	5.2	13	89	0	91	17	22	13	47	1.82
540936--541012	8	9.1	9	74	16	67	1	22	0	76	0.86
540933--541015	24	3.4	23	77	14	78	1	20	0	78	0.82
540926--541015	32	2.8	33	83	9	116	1	22	0	76	0.85
540972--541016	23	2.0	23	86	8	65	0	22	0	77	0.76
540910--541016	17	6.1	17	72	22	64	1	23	0	74	0.91
541685--541754	33	2.2	32	85	12	90	5	20	0	74	1.02
541707--541758	8	6.6	8	84	8	63	3	19	0	76	0.93
541687--541739	25	2.0	27	86	13	76	7	20	0	71	1.10
541685--541764	23	3.6	22	79	17	69	5	18	0	76	0.97
541706--541758	15	3.3	15	82	12	70	3	18	0	77	0.92
563242--563281	20	2.0	20	85	9	55	55	15	10	20	1.68
564908--564940	12	2.8	12	95	0	57	51	12	15	21	1.75
567247--567297	27	2.0	24	82	17	59	41	21	21	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573268--573341	37	1.9	38	86	5	105	18	12	21	47	1.81
575043--575261	123	1.8	122	84	8	306	42	5	4	48	1.44
575316--575346	15	2.1	15	93	0	53	45	0	0	54	0.99
578881--578948	30	2.3	30	100	0	136	29	19	7	44	1.77
579082--579119	2	19.0	2	100	0	76	50	0	0	50	1.00
579159--579201	21	2.1	20	86	4	59	32	16	11	39	1.84
579332--579370	16	2.5	16	87	4	53	5	2	28	64	1.28
579734--579784	13	3.8	13	77	22	52	54	1	1	41	1.22
580785--580836	20	2.6	20	81	6	61	30	15	34	19	1.93
580861--580913	19	2.5	22	85	8	76	35	16	20	26	1.94
581260--581550	55	5.3	55	87	4	410	29	19	21	29	1.98
582913--583056	78	1.8	78	86	0	207	36	15	19	27	1.93
584793--584842	26	1.9	26	87	0	73	32	10	6	52	1.59
585058--585098	16	2.6	16	96	0	73	12	39	4	43	1.63
588843--588886	23	2.0	23	86	13	65	54	2	4	38	1.33
592202--592299	44	2.2	44	82	5	119	42	11	9	36	1.73
594019--594066	25	1.9	25	83	8	62	45	22	12	18	1.83
594812--594852	21	1.9	22	90	5	66	24	19	17	39	1.92
600038--600068	16	1.9	16	93	0	53	48	12	0	38	1.42
605181--605231	21	2.5	20	83	3	57	33	13	5	47	1.67
605416--605461	18	2.6	18	96	0	83	21	21	13	43	1.86
607907--608116	76	2.8	76	82	5	246	33	17	10	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608080--608615	39	13.7	39	88	2	743	31	16	16	36	1.90
608080--608615	118	4.6	117	87	2	752	31	16	16	36	1.90
608080--608596	79	6.6	79	87	2	745	31	15	16	36	1.90
613322--613360	20	1.9	21	94	5	71	12	15	30	41	1.85
619844--619882	21	1.9	20	84	5	51	43	20	10	25	1.83
620703--620752	21	2.4	21	90	3	75	46	10	22	22	1.81
620787--620838	21	2.5	21	81	6	61	25	11	15	48	1.78
621625--621678	20	2.7	21	94	5	87	46	22	3	27	1.69
622129--622198	30	2.4	29	85	2	86	18	28	27	25	1.98
623084--623372	144	2.0	145	99	0	571	45	15	16	22	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18