genome.fa.s8539.2.7.7.80.10.50.1000.19.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  19  of  31  ( 3630 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)
3492426--3492649	114	2.0	114	91	1	369	33	21	16	27	1.95
3492965--3493053	15	6.5	15	73	19	95	60	0	39	0	0.97
3492981--3493040	11	5.0	11	79	16	57	60	0	40	0	0.97
3492966--3493091	26	4.8	26	89	1	180	57	0	39	2	1.11
3492965--3493091	41	3.2	40	77	10	127	58	0	39	2	1.11
3492983--3493066	11	6.9	11	71	21	53	58	0	40	1	1.06
3493130--3493194	28	2.3	29	92	5	107	30	0	13	55	1.39
3493144--3493208	28	2.3	29	84	7	82	38	0	10	50	1.37
3496388--3496428	23	1.9	22	85	14	59	56	2	0	41	1.13
3497425--3497479	21	2.6	21	72	11	58	52	3	0	43	1.18
3497738--3497783	23	2.0	22	95	4	83	54	17	0	28	1.43
3497881--3497917	17	2.2	17	100	0	74	0	40	0	59	0.97
3497888--3497933	15	2.9	15	87	6	56	0	41	0	58	0.98
3498141--3498251	31	3.7	29	86	4	125	25	27	27	19	1.99
3498168--3498251	31	2.8	31	92	3	136	26	27	26	20	1.99
3498863--3498897	18	1.9	18	88	0	52	54	0	0	45	0.99
3502710--3502799	40	2.4	36	71	20	85	32	2	0	65	1.05
3502767--3502806	14	2.7	14	84	7	53	32	2	0	65	1.06
3502964--3502988	13	1.9	13	100	0	50	12	8	0	80	0.92
3506309--3506350	13	3.2	12	81	18	57	78	2	16	2	0.96
3506302--3506377	37	2.1	36	80	7	82	76	1	15	6	1.06
3506528--3506553	8	3.2	8	100	0	52	34	26	11	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507977--3508051	37	2.0	38	84	2	98	29	21	16	33	1.95
3508058--3508144	37	2.4	37	88	1	131	26	22	11	39	1.88
3508160--3508385	36	6.4	36	76	10	207	27	19	11	41	1.86
3507971--3508347	203	1.9	204	82	1	479	29	19	11	38	1.88
3507971--3508347	102	3.7	102	87	1	470	29	19	11	38	1.88
3508181--3508439	138	1.9	138	85	3	360	27	19	11	41	1.86
3508334--3508515	65	2.7	67	85	6	246	31	20	8	39	1.83
3509232--3509467	110	2.2	110	84	6	313	35	21	18	25	1.96
3510895--3510973	37	2.1	37	80	17	85	31	2	0	65	1.06
3510913--3510994	19	4.4	19	76	13	66	32	4	0	62	1.17
3510894--3510969	14	5.6	14	72	20	56	31	2	0	65	1.06
3512289--3512322	11	3.0	11	91	4	50	26	2	0	70	1.01
3512349--3512396	22	2.2	22	88	7	71	41	6	2	50	1.39
3512389--3512428	18	2.2	19	95	4	73	40	10	0	50	1.36
3512408--3512433	12	2.2	12	100	0	52	42	7	0	50	1.31
3512705--3512753	13	3.5	13	86	10	62	38	0	2	59	1.09
3512863--3512899	17	2.2	17	100	0	74	37	32	0	29	1.58
3527395--3527456	31	2.0	31	84	12	83	43	9	11	35	1.73
3528026--3528088	31	2.0	32	87	9	94	42	9	12	34	1.76
3526879--3528134	632	2.0	621	96	3	2331	34	11	16	37	1.85
3532358--3532390	17	1.9	17	88	11	50	30	3	0	66	1.06
3539903--3540004	34	3.1	34	79	12	113	38	14	9	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3539908--3540060	30	4.9	30	80	10	132	32	14	11	42	1.81
3540094--3540370	133	2.1	133	81	4	317	25	31	16	26	1.97
3540329--3540533	91	2.3	91	87	0	284	23	29	18	28	1.98
3545580--3545637	20	2.7	20	86	10	71	27	22	18	31	1.97
3545625--3545761	64	2.2	63	81	6	152	24	24	18	32	1.97
3550225--3550282	20	2.7	20	86	10	71	27	22	18	31	1.97
3550270--3550406	64	2.2	63	81	6	152	24	23	18	33	1.97
3550397--3550436	21	1.9	21	94	0	71	30	22	20	27	1.98
3552382--3552430	2	24.5	2	95	0	89	48	0	2	48	1.12
3552542--3552589	2	24.5	2	85	4	62	47	2	4	45	1.33
3553133--3553171	17	2.3	17	100	0	78	43	17	10	28	1.82
3554165--3554320	66	2.4	67	82	7	178	28	12	13	44	1.81
3554286--3554415	32	4.1	32	77	8	133	34	13	10	40	1.80
3554282--3554455	30	5.7	30	76	14	160	31	13	12	43	1.81
3554281--3554470	59	3.1	60	77	7	154	31	15	11	42	1.82
3554496--3554894	134	3.0	133	83	2	462	26	30	18	25	1.98
3559951--3560027	31	2.5	32	78	6	86	42	11	11	33	1.78
3561321--3561385	30	2.2	30	100	0	130	60	10	7	21	1.55
3561427--3561464	8	4.8	8	93	0	58	18	0	0	81	0.69
3562060--3562747	338	2.0	344	82	4	849	39	11	13	35	1.81
3564568--3564632	32	2.1	29	83	8	76	32	12	10	44	1.76
3568950--3569027	29	2.7	29	78	11	88	61	2	1	34	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3583876--3583954	40	2.0	41	94	2	142	30	11	15	43	1.82
3591075--3591108	17	2.0	17	88	0	50	38	5	11	44	1.65
3596131--3596252	54	2.3	54	98	0	235	28	20	22	28	1.98
3596590--3596636	21	2.3	20	85	3	58	38	8	21	31	1.83
3596773--3596832	21	2.8	21	76	20	70	18	23	30	28	1.98
3597017--3597096	40	2.0	40	97	2	153	32	15	12	40	1.84
3597398--3597519	3	40.7	3	85	6	167	36	0	0	62	1.07
3598795--3598834	18	2.2	18	86	0	53	40	2	2	55	1.27
3599533--3599569	15	2.7	15	88	12	53	24	5	8	62	1.44
3610081--3610156	31	2.4	32	82	4	91	84	0	15	0	0.63
3610082--3610127	1	46.0	1	82	0	56	91	0	8	0	0.43
3610081--3610155	5	13.0	6	78	16	63	84	0	16	0	0.63
3611097--3611717	52	12.0	52	94	1	1079	25	14	22	37	1.93
3611097--3611708	103	5.9	103	98	0	1161	24	14	23	37	1.92
3611097--3611705	155	3.9	156	94	1	1082	24	14	22	37	1.93
3611753--3611890	52	2.7	52	94	2	233	23	15	19	42	1.89
3612448--3613140	118	5.9	118	94	1	1127	37	14	19	27	1.91
3613436--3613560	3	40.7	3	87	4	178	36	0	0	62	1.07
3614853--3614892	18	2.2	18	86	0	53	40	2	2	55	1.27
3618760--3618795	18	1.9	19	88	5	56	27	16	27	27	1.97
3620154--3620225	30	2.4	30	92	0	117	30	25	20	23	1.99
3620212--3620335	31	4.0	31	76	10	101	31	19	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3621482--3621638	64	2.5	64	76	12	153	28	19	19	33	1.96
3622230--3622259	2	15.0	2	100	0	60	50	0	0	50	1.00
3622440--3622592	42	3.7	41	81	3	182	22	14	24	37	1.92
3622440--3622598	21	7.7	21	77	2	160	22	14	25	37	1.92
3622440--3622598	61	2.6	63	76	6	162	22	14	25	37	1.92
3628619--3628676	30	1.9	30	89	0	89	31	15	22	31	1.95
3633098--3633160	30	2.1	30	93	0	108	28	15	25	30	1.96
3633819--3633868	26	2.0	25	84	4	64	42	6	14	38	1.70
3636097--3636212	21	5.6	21	79	11	123	31	25	20	22	1.98
3636221--3636378	21	7.6	21	80	8	171	24	20	24	31	1.98
3638076--3638117	19	2.2	19	86	0	57	23	23	35	16	1.95
3639115--3639346	104	2.2	104	92	0	374	31	16	23	28	1.96
3644293--3644345	21	2.5	21	84	0	70	20	26	18	33	1.96
3644335--3644395	20	3.0	20	97	0	113	40	19	18	21	1.91
3644407--3644480	20	3.7	20	89	3	96	32	22	16	28	1.96
3645312--3645370	24	2.5	24	91	0	91	27	22	16	33	1.95
3647711--3647804	20	4.7	20	89	2	145	36	24	21	18	1.95
3648020--3648070	14	3.6	14	91	0	84	49	21	0	29	1.50
3649451--3649562	42	2.7	42	76	5	111	22	19	37	20	1.94
3650042--3650186	20	7.4	20	75	12	131	37	22	21	18	1.94
3650041--3650202	76	2.2	76	93	2	274	37	22	22	17	1.94
3650211--3650283	20	3.7	20	92	0	92	21	20	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3650193--3650283	40	2.3	39	84	1	110	21	20	19	37	1.95
3650268--3650325	14	4.1	14	84	0	80	8	15	24	51	1.71
3652207--3652387	20	9.4	20	77	7	144	43	23	17	15	1.87
3652227--3652370	73	2.0	74	92	1	245	40	25	18	16	1.91
3652207--3652399	93	2.1	93	88	3	282	43	23	18	15	1.87
3652724--3652789	22	3.0	22	86	0	87	21	16	37	24	1.93
3652967--3653033	20	3.3	20	81	4	73	23	19	17	38	1.93
3653403--3653473	28	2.5	30	84	11	87	29	0	16	53	1.44
3692335--3692374	15	2.6	16	88	11	66	0	22	0	77	0.77
3692330--3692372	21	2.0	22	90	4	70	2	20	0	76	0.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31