genome.fa.s8217.2.7.7.80.10.50.1000.3.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: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2417150

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

This is table  3  of  14  ( 1575 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)
418270--418316	14	3.8	12	78	18	51	40	2	0	57	1.11
431663--431707	22	2.0	22	100	0	90	17	22	37	22	1.94
438628--438694	31	2.2	31	88	0	98	28	8	13	49	1.72
438830--438883	27	2.1	26	86	10	76	55	0	3	40	1.17
438830--438896	27	2.6	25	80	15	68	50	0	4	44	1.22
441321--441387	6	10.8	6	83	12	57	76	1	2	19	1.00
441318--441356	3	12.7	3	89	5	60	71	0	0	28	0.86
441404--441470	32	2.2	29	84	12	82	67	1	16	14	1.31
441930--442248	158	2.0	158	92	1	532	26	27	16	29	1.97
442748--442783	4	9.5	4	88	11	58	75	0	0	25	0.81
442748--442783	11	3.2	11	96	4	63	75	0	0	25	0.81
442870--443063	38	5.2	38	79	11	172	43	7	2	46	1.44
442886--443075	36	5.2	33	78	15	148	43	7	2	46	1.46
443903--443931	10	2.9	10	100	0	58	20	37	0	41	1.53
443900--443938	10	3.9	10	89	0	51	28	33	0	38	1.57
443985--444035	9	5.9	9	81	9	70	35	0	3	60	1.15
443984--444039	17	3.4	17	97	2	105	33	0	5	60	1.19
446096--446169	26	3.0	25	75	18	82	24	2	6	66	1.29
446840--446894	25	2.2	25	100	0	110	18	29	29	23	1.98
447265--447304	19	2.1	19	95	0	71	45	5	17	32	1.70
450788--450896	53	2.1	53	100	0	218	20	12	35	31	1.90
453937--453969	18	1.9	17	88	11	50	63	0	30	6	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459908--459945	2	19.0	2	100	0	76	50	0	0	50	1.00
462971--463046	40	1.9	40	100	0	152	23	14	42	19	1.88
463846--463998	56	2.8	55	81	4	173	32	15	11	40	1.83
464898--465029	60	2.2	60	84	2	167	33	15	20	31	1.93
469430--469992	240	2.4	235	88	4	807	25	21	18	34	1.96
469915--470404	139	3.6	136	85	6	684	24	22	17	35	1.95
470977--471023	18	2.6	18	93	6	78	19	23	10	46	1.80
471164--471304	54	2.7	53	83	4	169	43	20	8	26	1.80
471211--471745	54	9.9	54	81	7	519	42	15	10	31	1.81
471211--471747	109	4.9	108	84	5	548	42	15	10	31	1.81
471217--471747	163	3.3	163	84	2	647	41	15	10	32	1.81
471325--471793	54	8.6	54	82	5	498	42	15	10	31	1.80
473685--473727	16	2.6	17	81	7	52	9	11	0	79	0.95
473690--473745	27	2.1	27	82	0	67	5	16	0	78	0.92
473733--473795	9	6.9	9	80	10	65	1	15	3	79	0.94
473725--473806	39	2.1	40	88	2	121	1	14	4	79	0.96
473689--473797	10	11.3	9	73	18	87	3	14	1	79	0.95
493583--493738	82	1.9	80	80	12	176	43	5	9	41	1.59
498010--498089	31	2.6	31	81	0	88	36	16	18	28	1.93
500479--500516	17	2.2	17	90	0	58	50	0	0	50	1.00
504177--504203	3	9.0	3	100	0	54	66	0	0	33	0.92
509861--509986	36	3.8	35	70	15	83	73	6	6	13	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509930--509990	18	3.6	17	78	8	54	78	9	3	8	1.06
509928--509986	30	2.0	30	83	12	77	79	8	3	8	1.03
510150--510206	23	2.6	21	78	13	62	78	3	3	14	1.01
510154--510208	14	3.9	14	82	0	65	78	3	3	14	1.03
510269--510309	15	2.7	16	81	7	50	78	14	2	4	1.03
510266--510307	20	2.1	20	86	8	59	78	11	2	7	1.04
511313--511370	19	3.1	18	77	5	62	10	18	29	41	1.84
511524--511552	14	2.1	14	100	0	58	79	0	6	13	0.93
511592--511869	36	8.1	32	70	21	138	44	5	4	45	1.45
511592--511762	31	5.2	31	70	21	116	45	5	2	46	1.40
511600--511869	111	2.6	104	81	12	256	45	4	4	45	1.44
511638--511857	36	6.2	36	79	15	207	44	5	5	45	1.47
511581--511890	37	8.8	35	74	17	182	44	6	4	45	1.48
512594--513382	85	9.5	83	82	4	899	25	20	23	30	1.98
512536--513382	249	3.4	247	85	4	1035	25	19	23	30	1.98
512636--513382	333	2.2	333	94	0	1280	25	20	23	30	1.98
516723--516767	19	2.4	19	92	3	74	66	8	13	11	1.44
518598--518704	36	3.1	35	72	6	85	72	5	6	14	1.23
518665--518721	29	2.0	29	83	13	73	78	8	3	8	1.05
519005--519034	16	1.9	15	93	6	51	80	6	3	10	1.01
519003--519046	15	2.9	14	83	9	52	79	11	2	6	1.01
519003--519044	20	2.1	20	86	8	59	80	9	2	7	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520040--520097	19	3.1	18	77	5	62	10	18	29	41	1.84
520251--520279	14	2.1	14	100	0	58	79	0	6	13	0.93
520319--520379	31	1.9	32	83	9	81	45	6	1	45	1.39
520397--520576	36	4.9	36	81	13	165	44	5	5	45	1.47
520398--520597	37	5.4	36	81	11	185	43	6	4	46	1.50
520397--520597	74	2.7	70	82	11	217	42	6	4	45	1.51
521293--521344	17	3.2	17	71	15	56	42	1	7	48	1.43
521281--521358	31	2.5	31	85	0	111	42	5	11	41	1.63
529712--529754	16	2.6	16	92	3	68	34	6	27	30	1.83
530162--530312	60	2.6	57	80	5	169	31	23	5	39	1.78
532831--532861	15	2.1	15	93	0	53	29	29	22	19	1.98
532817--532923	54	2.0	54	92	0	178	29	25	23	21	1.99
534013--534057	22	2.0	22	95	0	81	20	22	17	40	1.92
534012--534197	20	9.1	20	72	6	122	26	18	18	36	1.94
534037--534191	82	1.9	82	82	2	195	27	18	18	35	1.94
534015--534239	102	2.2	102	86	3	326	24	19	19	36	1.95
534373--534646	36	7.7	36	85	6	321	36	17	22	24	1.95
534374--534646	72	3.8	72	88	7	389	36	17	22	24	1.95
534374--534646	141	1.9	144	89	4	428	36	17	22	24	1.95
536894--537351	161	2.9	160	82	7	590	26	17	7	48	1.73
536894--537416	161	3.3	158	79	7	533	27	17	7	47	1.74
539568--539676	23	4.7	23	74	0	83	27	14	15	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539682--539706	13	1.9	13	100	0	50	72	0	16	12	1.13
542520--542576	23	2.6	22	88	5	89	22	15	31	29	1.95
545531--545568	19	2.0	19	90	10	60	31	18	15	34	1.92
547137--547218	28	2.7	29	73	17	78	42	1	2	53	1.21
548150--548192	22	2.0	22	95	0	77	46	0	11	41	1.40
548931--548987	23	2.5	23	76	0	60	31	19	10	38	1.86
553982--554050	23	3.0	23	80	0	84	31	24	24	18	1.98
555653--555707	20	2.5	22	80	17	69	20	27	23	29	1.99
558999--559067	23	3.0	23	80	0	84	31	24	24	18	1.98
559546--559570	2	12.5	2	100	0	50	48	0	0	52	1.00
560686--560743	20	2.6	22	81	15	75	20	25	22	31	1.98
565416--565465	24	2.1	23	85	3	64	40	8	16	36	1.77
565726--565783	2	30.0	2	93	6	102	51	0	0	48	1.00
567749--567790	19	2.2	19	95	0	75	50	0	0	50	1.00
568032--568071	14	2.9	14	85	3	55	57	27	12	2	1.48
568325--568376	24	2.1	26	89	7	81	53	17	13	15	1.72
569097--569131	2	17.5	2	100	0	70	51	0	0	48	1.00
569286--569328	2	21.5	2	100	0	86	51	0	0	48	1.00
571365--571498	60	2.2	60	84	5	164	32	15	16	35	1.90
571386--571511	60	2.1	60	82	2	146	32	15	16	34	1.91
582154--582181	6	4.7	6	100	0	56	32	50	17	0	1.47
587717--587752	6	6.0	6	100	0	72	0	16	50	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587881--587944	21	3.1	21	72	4	67	39	26	17	17	1.91
590066--590114	19	2.7	17	84	9	53	26	20	28	24	1.99
590062--590246	65	2.9	64	82	7	223	26	19	24	29	1.98
590087--590285	65	3.1	64	77	7	206	26	17	24	31	1.97
591384--591427	21	2.1	21	82	0	52	31	15	43	9	1.79
596865--596904	21	1.9	21	85	10	55	35	10	2	52	1.48
598836--598884	19	2.7	17	84	9	53	26	20	28	24	1.99
598832--599016	65	2.9	64	82	7	223	25	20	25	28	1.99
600615--600667	20	2.7	20	82	11	65	32	30	7	30	1.85
600715--600770	23	2.5	23	91	5	89	25	16	32	26	1.96

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