genome.fa.s8280.2.7.7.80.10.50.1000.2.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

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

This is table  2  of  17  ( 1944 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)
292336--292374	19	2.1	19	95	0	69	20	38	15	25	1.92
292271--292500	64	3.5	65	80	9	213	30	26	16	26	1.96
292452--292500	19	2.6	19	84	9	57	24	30	18	26	1.98
295020--295045	3	8.7	3	100	0	52	34	0	0	65	0.93
300479--300549	30	2.4	30	74	9	81	26	9	16	46	1.79
305331--305388	21	2.8	21	91	0	89	15	25	18	39	1.91
305916--305956	20	2.0	20	90	0	64	58	14	14	12	1.63
305972--306012	19	2.2	19	86	0	55	51	24	14	9	1.72
306050--306105	20	2.8	21	81	8	62	12	21	17	48	1.80
307563--308022	188	2.5	179	87	6	637	22	11	18	47	1.80
307673--308022	94	3.7	94	92	0	576	22	11	18	48	1.79
308104--308204	19	5.2	19	89	3	148	48	20	21	8	1.77
308110--308204	39	2.4	38	89	3	145	48	22	21	8	1.76
308211--308370	19	8.8	19	73	15	142	10	23	20	46	1.81
308235--308289	14	3.6	14	73	21	56	9	23	21	45	1.80
308214--308346	33	3.8	33	84	11	185	9	24	20	45	1.81
308214--308370	33	4.3	37	86	8	168	10	22	19	46	1.81
308829--308889	21	2.9	21	72	0	68	22	36	19	21	1.95
310388--310438	14	3.1	17	72	21	54	45	17	23	13	1.84
310388--310481	33	2.8	33	91	3	145	45	22	20	11	1.83
310388--310486	19	5.7	18	72	24	72	46	22	20	11	1.81
310420--310496	19	4.3	19	79	18	85	45	24	16	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310492--310609	19	6.7	19	66	19	76	12	24	19	43	1.86
310496--310589	33	2.8	33	95	0	161	12	24	18	44	1.84
310573--310616	20	2.3	19	88	4	61	20	22	20	36	1.95
313127--313180	24	2.2	24	93	0	90	40	20	18	20	1.91
313127--313194	24	2.8	24	84	0	64	38	20	17	23	1.93
314026--314091	20	3.2	20	83	10	80	36	18	19	25	1.94
314035--314187	21	7.7	21	80	10	178	41	15	21	21	1.90
316456--316502	24	2.0	24	83	8	60	57	12	2	27	1.47
319526--319569	20	2.2	20	84	4	63	65	0	15	18	1.27
326417--326463	24	2.0	24	83	8	60	57	12	2	27	1.47
327694--327741	21	2.3	21	92	0	78	22	10	4	62	1.44
328376--328516	60	2.4	59	81	9	153	32	21	5	40	1.77
328645--328796	60	2.5	60	81	6	173	39	5	21	34	1.76
330369--330408	18	2.2	18	86	8	55	45	0	35	20	1.51
332108--332192	35	2.4	35	94	0	152	30	23	18	27	1.98
332854--332886	11	3.0	11	91	8	50	63	3	0	33	1.10
332853--332885	12	2.8	12	86	13	50	66	3	0	30	1.06
341116--341177	31	2.0	31	93	0	106	19	30	16	33	1.94
341413--341449	15	2.5	15	95	0	65	43	2	0	54	1.14
352131--352270	60	2.3	60	84	4	185	31	21	5	41	1.76
352131--352298	60	2.8	58	79	10	178	32	19	5	42	1.74
352419--352546	60	2.1	60	85	8	172	39	3	24	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355527--355555	2	14.5	2	100	0	58	48	0	0	51	1.00
355534--355835	150	2.0	150	98	0	586	36	11	12	40	1.79
355808--355868	27	2.3	27	91	0	95	29	19	21	29	1.98
356355--356407	21	2.6	19	77	16	61	18	20	24	35	1.95
356788--356877	21	4.2	21	76	14	85	30	21	22	26	1.99
356886--357053	21	8.2	21	80	10	186	23	22	24	29	1.99
362658--362744	41	2.1	42	86	2	122	20	18	25	35	1.95
362821--362848	6	4.7	6	100	0	56	32	50	17	0	1.47
363628--363785	21	7.5	21	64	19	71	32	24	21	21	1.98
363623--363795	41	4.2	42	91	1	269	32	24	20	21	1.98
363728--363795	21	3.2	21	68	15	59	32	26	19	22	1.97
369679--369727	23	2.2	24	89	10	77	26	6	2	65	1.27
382535--382685	60	2.5	59	82	9	162	33	20	4	41	1.73
382819--383006	60	3.1	59	81	4	207	38	3	22	34	1.72
396159--396200	22	2.0	22	90	4	68	21	23	16	38	1.93
398189--398221	14	2.4	14	94	0	57	24	39	30	6	1.79
398204--398255	23	2.3	23	89	0	77	23	26	40	9	1.85
398211--398263	23	2.3	23	86	0	79	26	24	37	11	1.89
398227--398293	33	2.0	33	94	0	116	22	26	40	10	1.86
398309--398364	29	1.9	29	92	0	94	23	30	33	12	1.92
399156--399359	109	1.8	109	87	5	302	36	16	13	33	1.88
399876--399946	24	3.0	23	81	4	79	11	12	16	59	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404116--404155	21	2.0	21	90	5	64	47	27	0	25	1.52
404749--404795	18	2.7	18	93	3	78	34	8	29	27	1.87
405153--405758	258	2.4	254	87	6	831	40	19	12	27	1.88
408831--409150	158	2.0	160	98	1	617	35	19	23	22	1.96
416049--416101	21	2.6	21	94	5	92	39	26	13	20	1.89
416092--416189	21	4.8	20	71	6	70	35	21	20	22	1.96
416157--416348	20	9.6	20	82	4	226	34	26	19	19	1.96
416726--416796	33	2.2	33	92	0	115	11	22	18	47	1.80
416917--416971	14	3.6	14	73	21	56	41	23	25	9	1.83
417004--417093	14	5.7	14	72	23	72	10	26	24	38	1.87
416982--417097	19	6.9	18	70	24	76	11	25	22	40	1.87
416987--417100	33	3.5	33	90	1	185	10	25	21	42	1.85
418731--419283	92	6.1	93	95	4	1006	22	12	18	46	1.83
419322--419412	19	5.0	19	76	14	93	47	27	16	8	1.76
419358--419439	33	2.7	30	83	12	98	48	26	18	6	1.71
419382--419439	27	2.0	29	87	12	84	48	29	18	3	1.65
419445--419535	32	2.8	32	91	1	146	12	19	21	46	1.83
419461--419516	14	3.7	14	76	17	58	10	21	23	44	1.83
419507--419572	19	3.4	20	87	6	100	12	15	27	45	1.81
419959--420038	42	1.9	42	84	0	106	21	40	17	21	1.92
421444--421479	14	2.6	14	95	0	63	33	0	22	44	1.53
421586--421687	19	5.6	19	84	13	151	44	17	23	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421694--421908	33	6.5	33	82	13	205	15	20	18	46	1.85
421716--421994	19	16.4	19	73	23	257	14	20	18	46	1.83
421694--421994	52	5.9	50	83	11	287	14	20	18	46	1.84
421735--421994	114	2.2	118	89	6	397	14	20	18	46	1.84
421901--421994	34	2.8	33	88	6	136	12	20	20	46	1.82
424259--424283	12	2.1	12	100	0	50	0	28	0	72	0.86
424375--424739	20	18.5	20	83	7	415	20	18	26	35	1.95
425320--425370	2	25.5	2	100	0	102	49	0	0	50	1.00
427578--427653	35	2.2	35	92	0	125	39	23	1	35	1.63
428039--428300	130	2.0	126	90	2	407	37	14	12	36	1.84
428768--428801	16	2.0	18	88	11	54	64	5	2	26	1.30
428858--428917	22	2.7	21	77	10	57	43	3	3	50	1.35
431429--431483	25	2.3	23	78	6	56	54	1	12	30	1.48
432594--432665	35	2.1	35	89	0	108	51	11	8	29	1.66
447041--447069	6	4.8	6	100	0	58	17	48	17	17	1.82
460418--460462	17	2.6	17	85	3	54	37	8	24	28	1.86
460416--460462	18	2.7	18	83	3	60	36	8	27	27	1.86
461750--461783	18	1.9	17	88	5	50	38	0	5	55	1.24
461943--461989	18	2.6	18	96	0	85	19	27	12	40	1.88
461942--462005	18	3.6	18	86	0	74	23	23	12	40	1.88
474225--474262	2	19.0	2	94	0	67	47	0	0	52	1.00
475831--475914	38	2.2	38	82	0	105	44	16	16	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485508--485542	16	2.2	16	89	0	52	71	0	0	28	0.86
485873--485902	15	2.0	15	93	0	51	23	0	3	73	0.98
494744--494790	17	2.8	17	93	0	76	34	44	4	17	1.68
499164--499188	11	2.3	11	100	0	50	76	0	0	24	0.80
500012--500045	16	2.1	16	100	0	68	20	0	26	52	1.46
500168--500231	33	1.9	33	93	0	110	37	17	4	40	1.70
509309--509342	3	11.0	3	93	6	59	32	0	0	67	0.91
512270--512445	75	2.3	75	81	6	205	44	9	6	39	1.63
517145--517175	15	2.1	15	100	0	62	32	12	19	35	1.90
519125--519210	32	2.6	33	81	9	104	10	8	38	43	1.69

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