genome.fa.s8319.2.7.7.80.10.50.1000.2.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  2  of  21  ( 2487 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)
343078--343217	62	2.2	62	76	7	149	50	3	2	43	1.31
345357--345381	2	12.5	2	100	0	50	52	0	0	48	1.00
347796--347883	3	29.3	3	78	21	64	29	2	0	68	1.02
347796--347883	10	9.8	9	73	26	64	29	2	0	68	1.02
347796--347883	28	3.1	28	82	14	110	29	2	0	68	1.02
347796--347883	25	3.5	24	80	17	92	29	2	0	68	1.02
347796--347886	31	3.0	32	78	18	95	29	2	0	68	1.02
347795--347883	7	12.1	7	71	13	63	29	2	0	68	1.02
349464--349517	14	3.8	14	82	4	63	24	14	9	51	1.71
352667--352712	6	7.3	6	82	7	56	80	0	19	0	0.71
354933--355196	83	3.2	83	92	2	442	27	14	21	36	1.92
357890--357944	22	2.5	22	90	0	92	34	12	14	38	1.84
358346--358781	113	3.9	113	91	1	608	38	14	17	28	1.90
358721--358821	40	2.5	40	96	0	184	49	9	20	19	1.77
358603--358932	153	2.2	153	88	4	479	42	13	18	25	1.87
358496--359043	266	2.1	264	97	0	1033	40	13	18	27	1.88
358756--359176	113	3.8	112	87	4	589	39	13	18	28	1.89
359110--359154	24	1.9	23	82	13	56	55	6	22	15	1.63
358756--359170	224	1.8	226	90	4	669	40	13	18	27	1.89
358909--359474	308	1.8	307	91	3	933	38	15	18	27	1.91
359216--360050	112	7.3	113	87	3	1049	37	15	18	28	1.91
358796--359586	420	1.9	420	90	3	1263	38	14	18	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359633--359696	17	3.2	20	63	20	53	43	9	20	26	1.82
359216--360050	337	2.4	338	84	5	1106	37	15	18	28	1.91
359839--360137	122	2.5	122	87	2	404	41	15	18	25	1.89
366168--366198	16	1.9	16	93	0	53	41	19	6	32	1.77
366298--366369	31	2.4	30	90	4	110	37	15	12	34	1.85
370621--370727	29	3.6	30	76	8	94	35	12	12	40	1.80
370808--370901	27	3.3	27	75	10	89	40	10	10	38	1.75
374123--374174	17	3.2	17	75	10	54	32	3	13	50	1.60
374676--374734	2	29.5	2	100	0	118	49	0	0	50	1.00
376094--376263	84	2.0	84	98	0	331	32	17	21	28	1.95
377008--377068	21	3.2	21	65	29	64	31	4	21	42	1.74
377002--377106	35	3.0	35	94	2	176	30	5	18	45	1.72
381640--381700	21	3.2	21	65	29	64	31	4	21	42	1.74
381634--381738	35	3.0	35	95	2	185	29	5	19	45	1.73
385774--385811	19	2.0	19	85	10	51	57	2	0	39	1.12
387804--388055	36	7.0	36	92	1	391	17	26	24	31	1.97
396623--396674	2	26.0	2	100	0	104	50	0	0	50	1.00
398844--398881	19	2.1	18	85	14	51	65	2	2	28	1.19
399401--399425	5	5.0	5	100	0	50	20	0	0	80	0.72
401202--401369	85	2.0	85	100	0	336	25	22	25	27	2.00
406589--406666	38	2.1	38	95	0	138	29	42	10	17	1.83
408347--408467	7	17.3	7	99	0	233	29	14	13	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419289--419363	38	2.0	37	84	5	98	45	1	4	49	1.29
419824--419876	21	2.5	21	93	0	88	22	24	16	35	1.95
419872--419931	31	1.9	31	100	0	120	35	16	20	28	1.94
419866--419990	20	6.7	20	75	17	142	37	18	20	23	1.94
419903--419990	41	2.2	41	91	2	142	38	18	21	21	1.93
420178--420253	22	3.5	22	87	0	98	25	36	15	22	1.93
420590--420659	20	3.5	20	88	1	106	11	15	22	50	1.76
422538--422734	20	10.5	20	82	14	233	42	21	18	17	1.90
422804--422856	20	2.7	20	100	0	106	32	15	15	37	1.88
422785--422887	20	5.2	20	86	0	98	26	17	20	35	1.94
422844--422897	20	2.7	20	88	0	54	16	18	22	42	1.89
423707--423748	21	2.0	21	100	0	84	23	28	23	23	2.00
423853--423900	19	2.5	19	86	0	60	35	14	10	39	1.80
423965--424055	31	3.0	31	96	3	168	42	17	6	32	1.75
424215--424262	23	2.1	23	96	0	87	33	2	8	56	1.41
426234--426303	34	2.1	32	89	5	104	21	31	15	31	1.95
426586--426627	21	2.0	21	95	0	75	26	28	21	23	1.99
426732--426779	19	2.5	19	86	0	60	35	14	10	39	1.80
426844--426934	31	3.0	31	96	3	168	42	17	6	32	1.75
427223--427308	21	4.1	21	69	11	59	23	32	19	24	1.98
428689--428723	14	2.5	14	85	0	52	31	0	20	48	1.50
428851--428904	14	3.5	14	73	22	54	44	20	24	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428831--428919	33	2.6	33	91	3	133	43	19	23	13	1.86
428920--429002	33	2.5	33	90	2	121	15	22	16	44	1.86
428985--429073	20	4.4	20	82	2	117	19	21	23	35	1.95
431498--431544	24	2.0	24	91	0	76	34	17	19	29	1.94
432381--432447	20	3.3	20	89	4	82	20	19	26	32	1.97
432414--432607	20	9.6	20	90	2	300	17	20	23	38	1.93
432605--432644	21	1.9	21	94	0	71	45	17	20	17	1.86
440853--440899	2	23.5	2	100	0	94	51	0	0	48	1.00
446013--446076	29	2.1	31	82	5	78	50	6	4	39	1.49
446297--446321	2	12.5	2	100	0	50	48	0	0	52	1.00
447584--447638	25	2.2	24	81	12	67	29	12	3	54	1.55
450778--450807	15	1.9	16	93	6	53	50	0	3	46	1.18
457322--457380	30	1.9	30	86	10	84	35	5	16	42	1.71
457322--457380	29	2.0	31	90	6	95	35	5	16	42	1.71
457474--457530	21	2.7	21	94	0	96	21	36	28	14	1.92
457570--457611	21	2.0	21	90	9	68	23	19	28	28	1.98
457641--457680	20	1.9	21	85	10	55	37	37	10	15	1.80
479556--479592	11	3.3	11	92	7	65	16	51	16	16	1.77
479555--479592	12	3.2	12	92	7	69	15	52	15	15	1.75
482769--482800	15	2.1	16	94	5	57	6	25	18	50	1.70
483974--484013	12	3.2	12	93	6	71	15	55	15	15	1.71
483973--484013	13	3.2	13	93	6	75	14	56	14	14	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484105--484160	28	2.0	28	100	0	112	46	7	7	39	1.59
486453--486499	16	2.9	16	84	6	60	31	2	0	65	1.04
488780--488843	25	2.6	25	80	9	69	23	1	12	62	1.38
488870--488940	38	1.9	37	86	11	101	32	2	9	54	1.48
491173--491220	24	2.0	24	95	0	87	39	12	6	41	1.68
491399--491449	22	2.2	23	82	10	77	47	13	3	35	1.62
491406--491449	22	2.0	22	95	0	79	47	15	4	31	1.66
491825--491853	15	1.9	15	100	0	58	20	20	37	20	1.94
492298--492334	2	18.5	2	94	0	65	51	0	2	45	1.15
497094--497173	20	4.0	20	84	9	90	30	23	12	33	1.92
497304--497349	22	2.1	22	84	8	58	26	41	6	26	1.80
497980--498013	12	2.8	12	90	0	50	55	29	0	14	1.40
500656--500711	29	1.9	29	88	0	85	28	19	23	28	1.98
500733--500794	20	3.1	20	92	0	106	20	19	20	38	1.93
501644--501685	20	2.1	20	86	0	57	14	14	21	50	1.78
502217--502286	20	3.5	20	92	0	104	22	15	24	37	1.93
502833--502887	4	13.8	4	100	0	110	50	25	0	23	1.49
503763--503803	2	20.5	2	89	0	64	43	0	4	51	1.23
504340--504366	13	2.1	13	100	0	54	37	29	11	22	1.89
504604--504694	43	2.1	43	95	0	164	18	4	20	56	1.59
504603--504687	22	4.0	22	89	4	138	18	4	21	55	1.61
505760--505928	30	5.9	30	78	14	203	28	3	20	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505768--505928	57	2.8	57	92	0	279	28	3	19	47	1.67
507231--507289	31	1.9	31	92	0	100	44	8	5	42	1.57
508045--508123	40	2.0	39	85	2	104	36	13	15	34	1.87
508618--508663	22	2.1	22	95	0	83	50	4	15	30	1.63
508936--509043	30	3.6	30	81	7	105	1	9	26	62	1.36
510076--510152	36	2.1	36	87	0	109	36	19	23	20	1.95
511958--512048	37	2.5	37	92	3	148	40	9	7	41	1.67
512622--512660	18	2.2	17	90	4	60	43	10	10	35	1.73
517796--517850	22	2.6	22	94	5	96	18	5	16	60	1.55
526204--526519	113	2.8	112	87	5	447	38	19	12	29	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21