genome.fa.s7973.2.7.7.80.10.50.1000.3.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: VEPZ01007973.1 Hibiscus syriacus cultivar Beakdansim tig00110410_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1299094

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 746 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)
378525--378562	5	7.6	5	96	0	58	26	0	42	31	1.56
379608--379726	38	3.2	38	96	1	213	11	10	38	38	1.77
380300--380363	17	3.7	17	95	2	110	28	31	9	31	1.88
392174--392234	21	2.9	21	76	7	70	34	24	21	19	1.96
392136--392234	42	2.4	41	83	5	119	35	22	20	22	1.96
401438--401536	41	2.5	40	80	6	105	28	19	18	34	1.95
401468--401555	41	2.1	41	85	4	115	30	20	19	29	1.97
404938--404987	24	2.1	24	96	0	91	12	32	20	36	1.89
414406--414638	113	2.1	113	91	0	376	28	12	24	33	1.92
417332--417400	27	2.3	30	80	19	99	65	5	13	15	1.45
418957--418994	18	2.1	18	90	0	58	55	0	5	39	1.23
418968--419025	20	3.0	20	78	17	68	53	0	1	44	1.10
419039--419068	14	2.1	14	100	0	60	43	13	20	23	1.86
422836--422878	18	2.5	17	81	7	52	25	6	2	65	1.30
426507--426551	11	4.0	11	83	11	56	77	8	13	0	0.98
426510--426553	10	4.7	9	80	8	52	81	6	11	0	0.86
426500--426546	22	2.1	22	88	7	69	76	8	14	0	1.01
427157--427200	22	2.0	22	91	8	72	36	22	13	27	1.92
428165--428288	36	3.4	36	82	6	160	25	20	13	40	1.89
428264--428420	66	2.4	66	85	5	210	31	22	8	36	1.85
429063--429883	105	8.0	105	88	4	1181	34	25	17	22	1.96
429063--429883	304	2.6	307	87	5	1127	34	25	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429454--429883	205	2.1	211	87	4	615	34	25	17	21	1.96
430431--430532	34	2.9	36	88	5	163	43	13	15	27	1.85
430922--430964	18	2.5	17	81	7	52	25	6	2	65	1.30
430970--431050	41	2.0	39	81	9	92	32	3	1	62	1.20
431446--431471	2	13.0	2	100	0	52	50	0	0	50	1.00
432121--432176	29	1.9	29	89	7	87	28	26	7	37	1.83
432538--432708	44	3.9	45	85	9	228	66	6	2	24	1.30
432550--432709	87	1.8	86	92	5	268	66	6	3	23	1.31
432675--432736	25	2.5	25	100	0	124	72	8	3	16	1.21
433139--433179	21	1.9	22	85	5	57	21	17	34	26	1.95
433932--433971	21	1.9	21	90	10	64	55	10	0	35	1.34
441022--441076	23	2.4	22	76	11	58	67	5	3	23	1.28
441896--441951	2	29.0	2	92	7	98	51	0	0	48	1.00
450527--450567	21	2.0	21	86	13	59	51	2	7	39	1.43
460355--460397	22	2.0	22	86	9	61	60	13	25	0	1.34
467293--467336	21	2.1	21	82	0	52	36	15	38	9	1.80
474672--474789	56	2.1	57	85	6	161	27	19	22	29	1.98
476642--476687	23	1.9	25	83	16	62	41	0	8	50	1.33
477011--477045	16	2.2	16	89	0	52	31	25	20	22	1.98
477882--477955	10	7.7	10	68	24	52	58	20	12	9	1.61
477886--477949	16	4.1	16	91	4	112	57	21	12	7	1.60
477884--477947	31	2.1	31	96	0	119	59	20	12	7	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478703--478758	14	4.3	14	82	17	75	51	25	14	8	1.70
478683--478757	24	3.1	24	90	3	107	54	21	12	12	1.69
478696--478743	10	4.4	10	78	19	51	54	22	12	10	1.68
479335--479404	21	3.3	20	71	15	61	41	1	1	55	1.17
479340--479428	35	2.6	36	75	13	75	44	1	1	52	1.15
479365--479422	29	2.0	29	86	6	82	44	1	0	53	1.10
479515--479551	17	2.2	17	95	0	65	35	0	0	64	0.94
479532--479613	33	2.5	32	86	5	121	45	2	0	52	1.14
479846--479880	14	2.5	14	90	9	54	57	8	0	34	1.29
494608--494657	22	2.3	22	79	6	57	40	2	16	42	1.59
507259--507283	5	5.0	5	100	0	50	60	0	0	40	0.97
522972--523088	17	6.8	17	78	15	116	81	0	10	8	0.88
522972--523088	8	13.4	9	80	15	115	81	0	10	8	0.88
522981--523082	11	9.3	11	79	10	102	82	0	9	7	0.85
522964--523111	19	7.9	20	68	25	85	78	0	12	9	0.97
522971--523108	52	2.6	53	78	20	157	80	0	11	7	0.90
522989--523074	1	86.0	1	77	0	55	84	0	8	6	0.76
522992--523108	8	15.7	7	77	15	53	81	0	11	7	0.88
524018--524500	105	4.6	105	94	0	822	36	19	21	22	1.95
527964--528008	20	2.2	20	96	0	81	24	8	40	26	1.84
527976--528019	20	2.2	20	87	0	61	22	13	31	31	1.93
528561--528613	24	2.2	24	87	12	74	22	24	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529884--529957	20	3.7	20	81	3	103	39	17	22	20	1.92
529881--529976	41	2.3	42	94	3	169	39	15	23	20	1.91
529884--529976	20	4.6	20	79	4	96	38	16	24	20	1.92
529968--530059	20	4.6	20	73	2	67	35	22	17	23	1.95
529962--530039	41	1.9	41	83	0	102	41	19	15	24	1.90
530247--530290	22	2.0	22	95	0	79	20	45	15	18	1.85
530497--530547	19	2.7	19	100	0	102	41	27	21	9	1.84
530574--530611	20	1.9	20	88	0	58	13	15	21	50	1.78
531931--531975	18	2.5	18	85	0	63	26	42	15	15	1.87
532482--532571	14	5.9	14	76	19	90	47	25	17	8	1.77
532466--532588	32	3.8	33	96	2	223	47	23	18	10	1.80
532605--532662	14	3.9	14	79	16	71	8	17	25	48	1.75
532600--532678	32	2.4	33	95	2	142	10	18	24	46	1.80
532619--532736	20	6.4	19	77	11	95	13	20	24	41	1.88
534577--534612	14	2.6	14	90	0	54	30	0	22	47	1.52
534719--534795	18	4.7	16	76	19	54	45	19	20	14	1.85
534731--534795	18	3.8	18	82	15	84	46	18	21	13	1.84
534821--534871	20	2.5	20	93	0	84	19	23	23	33	1.97
535237--535272	14	2.6	14	90	0	54	30	0	22	47	1.52
536517--536575	24	2.5	24	82	0	73	28	16	18	35	1.93
536750--536774	12	2.1	12	100	0	50	72	0	28	0	0.86
539073--539167	19	5.5	19	68	23	84	44	18	25	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539073--539163	33	2.8	33	98	0	173	43	18	25	12	1.84
539163--539205	20	2.2	20	87	4	61	16	18	23	41	1.89
539191--539224	14	2.4	14	85	0	50	8	23	20	47	1.78
539346--539382	14	2.6	14	91	0	65	45	24	0	29	1.53
540740--540806	21	3.2	21	68	4	55	19	20	35	23	1.95
540740--540862	42	2.9	41	80	7	113	22	17	36	22	1.95
541037--541095	29	2.0	29	86	0	82	61	11	8	18	1.55
542852--543036	19	10.1	19	77	14	174	43	22	22	12	1.86
542852--543036	33	5.1	38	81	10	174	43	22	22	12	1.86
543032--543076	19	2.4	19	92	0	72	8	17	26	46	1.78
543630--543681	20	2.6	20	87	6	70	25	17	28	28	1.97
543712--543804	20	4.6	20	78	4	96	18	24	18	38	1.92
543712--543807	41	2.3	41	98	0	183	18	23	17	39	1.92
549406--549520	41	2.8	41	91	0	194	19	27	37	15	1.92
551176--551444	134	2.0	134	98	0	520	40	23	14	21	1.90
560082--560110	12	2.4	12	100	0	58	0	13	6	79	0.93
560886--560991	50	2.3	46	84	14	130	52	11	1	33	1.48
568401--568438	19	2.0	19	100	0	76	31	10	15	42	1.81
575149--575204	24	2.3	24	90	0	94	26	21	26	25	1.99
575878--575923	22	2.0	23	83	4	58	47	4	0	47	1.21
576488--576527	17	2.3	17	95	4	71	47	7	0	45	1.31
577165--577224	24	2.6	24	82	15	81	43	0	3	53	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584295--584459	42	4.0	42	83	3	199	33	19	21	24	1.97
590353--590382	3	10.0	3	100	0	60	33	0	0	66	0.92
594412--594468	24	2.5	24	81	13	66	56	3	3	36	1.34
594647--594713	24	2.7	24	84	9	73	52	5	1	40	1.35
594728--594790	23	2.8	23	75	15	60	47	3	1	47	1.27
596177--596209	16	2.1	16	88	11	50	30	0	0	69	0.88
599840--599896	28	2.1	27	86	3	78	10	15	15	57	1.64
599844--599902	28	2.0	29	83	6	75	11	18	15	54	1.71
599995--600042	25	2.0	25	87	4	71	66	0	2	31	1.03
600025--600049	11	2.3	11	100	0	50	84	0	0	16	0.63

Tables:   1   2   3   4   5   6   7