genome.fa.s7910.2.7.7.80.10.50.1000.3.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: VEPZ01007910.1 Hibiscus syriacus cultivar Beakdansim tig00110306_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  704475

Tables:   1   2   3   4   

This is table  3  of  4  ( 400 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)
397258--397310	17	3.3	15	78	19	54	81	0	13	5	0.86
397270--397315	14	3.3	15	82	11	53	84	0	10	4	0.75
397272--397319	17	2.8	17	87	6	62	83	0	10	6	0.81
398631--398876	135	1.8	133	84	6	336	33	23	15	28	1.94
398631--398935	135	2.3	132	80	6	319	33	22	15	28	1.95
399129--399250	3	40.3	3	92	3	165	33	3	0	62	1.17
399226--399259	13	2.5	13	90	4	50	26	0	0	73	0.83
401452--401700	131	1.9	131	84	1	329	34	7	18	39	1.79
404376--406821	819	3.0	815	87	3	3423	37	17	12	32	1.87
408484--411227	817	3.4	809	84	4	3352	36	16	12	33	1.87
411119--411451	78	4.3	78	92	0	531	23	19	17	40	1.91
413991--414038	20	2.3	21	75	7	53	25	4	2	68	1.18
415907--415966	29	2.0	30	87	3	86	15	16	10	58	1.63
425882--425939	29	2.0	29	100	0	116	27	24	0	48	1.51
434540--434564	8	3.1	8	100	0	50	72	0	0	28	0.86
439877--439954	39	2.0	39	94	0	138	23	28	23	25	1.99
439886--439954	18	3.6	20	81	14	92	24	28	23	23	1.99
440312--440348	18	2.2	17	86	13	51	40	16	0	43	1.48
457820--457944	47	2.7	46	84	8	157	41	7	21	29	1.80
459396--459441	22	2.1	22	83	0	56	63	8	2	26	1.35
459850--459908	23	2.7	23	79	10	70	18	23	33	23	1.97
463716--463755	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467312--467346	18	1.9	18	88	11	54	45	0	0	54	0.99
471399--471429	14	2.2	14	100	0	62	19	0	25	54	1.44
472468--472549	29	2.8	29	94	1	137	32	14	9	42	1.79
476455--476536	28	2.8	29	88	5	130	32	14	9	42	1.79
478084--478119	19	1.9	19	88	5	56	44	0	2	52	1.15
479682--479721	15	2.7	15	92	0	62	25	32	27	15	1.95
480043--480094	21	2.5	21	83	0	68	34	17	7	40	1.78
482576--482606	14	2.2	14	100	0	62	19	0	25	54	1.44
486447--486486	15	2.7	15	92	0	62	25	32	27	15	1.95
486810--486861	21	2.5	21	83	0	68	34	17	7	40	1.78
489333--489363	14	2.2	14	100	0	62	19	0	25	54	1.44
491647--491704	27	2.2	27	79	11	66	43	0	1	55	1.10
493230--493269	15	2.7	15	92	0	62	25	32	27	15	1.95
493592--493643	21	2.5	21	83	0	68	34	17	7	40	1.78
495148--495177	13	2.3	13	100	0	60	60	16	0	23	1.36
497263--497315	26	2.0	26	88	0	79	49	9	9	32	1.67
509031--509126	40	2.4	40	91	0	147	23	16	32	27	1.96
508897--509263	177	2.1	174	86	3	504	27	15	30	26	1.96
509071--509555	137	3.6	137	83	2	516	26	15	29	28	1.96
509557--509877	65	4.9	65	87	0	417	40	12	18	28	1.87
509853--510188	168	2.0	168	80	9	382	37	11	16	34	1.85
510199--510279	37	2.3	35	85	10	105	40	8	14	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512698--512739	7	6.1	7	78	15	52	52	14	19	14	1.75
517808--517917	44	2.4	46	83	3	134	47	13	20	18	1.82
517808--517929	46	2.7	44	82	2	136	46	13	20	19	1.83
521210--521236	13	2.1	13	100	0	54	40	0	7	51	1.30
521203--521444	38	6.6	37	74	15	202	42	4	11	41	1.63
521542--521610	12	5.5	13	71	25	51	36	0	1	62	1.04
521567--521631	10	6.9	9	93	6	87	35	0	0	64	0.94
521542--521631	36	2.5	35	80	10	92	34	0	1	64	1.01
521566--521633	4	15.8	4	74	19	57	33	0	0	66	0.92
534472--534552	25	3.2	25	83	10	101	39	1	28	30	1.65
534482--534561	27	3.0	26	83	7	99	36	1	30	32	1.66
537821--538352	44	12.0	44	86	1	663	26	21	11	40	1.87
537858--538352	219	2.3	220	87	1	697	26	21	11	40	1.87
547655--547716	23	2.9	21	80	11	63	22	35	25	16	1.94
549817--549841	13	1.9	13	100	0	50	48	0	8	44	1.32
556716--556872	74	2.1	74	96	1	287	36	15	15	31	1.90
560055--560079	5	5.0	5	100	0	50	60	0	0	40	0.97
560193--560240	24	2.0	24	91	4	78	56	4	0	39	1.19
561221--561247	5	5.4	5	100	0	54	0	0	22	77	0.76
563472--563529	3	17.3	3	86	13	62	63	0	1	34	1.04
563473--563526	20	2.9	18	82	15	65	62	0	1	35	1.06
563473--563524	27	1.9	27	92	0	86	63	0	1	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563472--563529	14	4.3	13	82	8	71	63	0	1	34	1.04
564069--564316	84	2.9	84	84	2	273	22	20	24	32	1.98
564315--564420	36	2.9	35	91	2	158	36	14	21	27	1.92
564661--564910	43	5.4	43	66	14	149	22	18	25	34	1.96
564625--565127	106	5.1	94	92	5	754	22	17	25	33	1.96
570070--570131	3	19.3	3	87	12	72	64	0	1	33	1.03
570070--570131	27	2.4	26	86	7	90	64	0	1	33	1.03
570671--570918	84	2.9	84	83	2	264	22	20	24	32	1.98
570917--571022	36	2.9	35	90	2	149	36	13	20	29	1.91
571147--571822	106	6.6	106	93	4	1062	22	18	25	33	1.96
571326--571575	43	5.4	43	67	14	158	21	18	25	34	1.96
574680--574719	16	2.5	17	84	12	57	25	45	2	27	1.66
577047--577108	3	19.3	3	87	12	72	64	0	1	33	1.03
577047--577108	27	2.4	26	86	7	90	64	0	1	33	1.03
579034--579063	2	15.0	2	100	0	60	50	0	0	50	1.00
581634--581690	24	2.4	24	93	0	96	43	3	29	22	1.70
581734--581780	24	2.0	23	83	4	58	48	2	10	38	1.50
583661--583720	30	1.9	31	83	10	77	48	16	11	23	1.79
584011--584055	17	2.6	17	89	0	72	26	33	20	20	1.97
587652--587722	27	2.7	27	84	2	81	61	4	4	29	1.33
594864--595038	88	2.0	88	86	0	242	22	16	12	49	1.77
599506--599539	17	2.0	17	94	0	59	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599733--600333	134	4.5	134	85	2	753	32	18	18	30	1.95
600891--601071	50	3.8	49	79	10	203	37	19	18	24	1.94
600926--601156	89	2.5	89	81	5	239	39	18	17	24	1.92
600978--601244	45	6.1	45	78	5	260	40	18	16	24	1.90
600991--601256	89	3.0	90	78	4	238	40	18	16	24	1.90
601210--601941	38	19.2	38	82	3	808	39	17	18	24	1.92
602800--602864	25	2.8	22	76	17	69	56	0	9	33	1.31
603797--603897	8	13.1	7	68	20	51	3	25	0	69	1.12
603786--603847	18	3.2	18	80	15	63	4	19	0	75	0.97
603785--603847	21	3.2	20	74	12	58	4	19	0	76	0.96
603786--603876	16	5.6	17	70	13	59	4	24	0	71	1.04
603786--603869	22	4.0	21	75	14	66	4	22	0	72	1.03
609030--609067	17	2.3	17	81	4	51	57	10	13	18	1.63
610718--610759	3	14.7	3	80	9	52	66	0	0	33	0.92
610717--610749	17	1.9	17	93	0	57	63	0	0	36	0.95
610718--610759	20	2.1	20	90	0	66	66	0	0	33	0.92
610860--611236	200	1.9	200	90	0	601	42	18	11	28	1.84
614458--614964	228	2.2	227	86	2	687	31	17	22	28	1.96
614900--615042	59	2.4	58	79	5	160	32	13	25	28	1.93
617357--617386	15	2.0	15	100	0	60	33	0	13	53	1.40
617358--617386	8	3.8	8	90	9	51	34	0	10	55	1.34
634662--634756	43	2.2	44	81	11	115	48	7	0	44	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636012--636045	17	1.9	18	88	5	52	14	8	26	50	1.72
638120--638154	16	2.2	16	89	0	52	28	2	2	65	1.21
651743--651781	19	2.1	19	95	0	69	28	17	20	33	1.96
662220--662263	21	2.1	21	82	0	52	9	43	15	31	1.79
663359--663397	19	2.1	19	90	0	60	25	33	15	25	1.95
663434--663483	19	2.6	19	90	0	82	28	34	22	16	1.95
663369--663528	83	1.9	83	84	6	214	28	25	20	26	1.99
663500--663548	19	2.6	19	84	9	57	24	28	20	26	1.99
666352--666382	16	1.9	16	93	0	53	22	9	0	67	1.19
666421--666462	16	2.6	16	81	7	50	19	0	7	73	1.05

Tables:   1   2   3   4