genome.fa.s8926.2.7.7.80.10.50.1000.18.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

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

This is table  18  of  20  ( 2371 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)
3452719--3452761	21	2.0	21	82	8	52	27	16	13	41	1.86
3452879--3452912	17	2.0	17	100	0	68	41	5	41	11	1.66
3453167--3453553	186	2.0	189	93	5	656	27	17	10	44	1.82
3459569--3459593	13	1.9	13	100	0	50	52	0	0	48	1.00
3460421--3460469	12	4.2	12	75	19	50	14	2	4	79	0.97
3460427--3460478	22	2.3	24	83	12	74	17	1	3	76	1.02
3462328--3462385	29	1.9	29	89	6	89	17	20	10	51	1.74
3465816--3465927	56	2.0	56	100	0	224	39	10	17	32	1.84
3466520--3466841	109	3.0	109	87	2	454	31	9	18	41	1.81
3466544--3466840	54	5.6	51	73	13	222	29	9	18	42	1.81
3466531--3466898	109	3.4	111	81	7	348	32	8	18	40	1.81
3467049--3467223	78	2.2	77	88	4	253	30	16	17	36	1.92
3467049--3467223	40	4.5	39	91	2	255	30	16	17	36	1.92
3471459--3471501	21	2.0	21	82	8	52	27	16	13	41	1.86
3471619--3471652	17	2.0	17	100	0	68	41	5	41	11	1.66
3479191--3479231	16	2.5	17	84	8	57	19	14	17	48	1.81
3479255--3479288	17	2.1	17	88	5	52	32	17	17	32	1.94
3481851--3481911	31	2.0	31	100	0	122	26	11	13	49	1.75
3481851--3481925	31	2.4	31	90	0	105	26	13	14	45	1.82
3482043--3482134	27	3.6	27	80	11	95	53	0	5	41	1.24
3482090--3482136	20	2.2	22	88	7	71	53	0	4	42	1.20
3483427--3483479	23	2.3	23	90	0	79	35	5	16	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3483494--3484491	4	253.0	4	89	6	1450	46	24	2	26	1.63
3488503--3488865	134	2.7	135	85	3	507	29	19	15	34	1.93
3489307--3489704	75	5.3	75	86	1	514	39	10	18	31	1.85
3489311--3489849	36	14.3	38	68	10	194	38	10	18	31	1.86
3489589--3489821	116	2.0	117	88	0	351	36	12	21	30	1.90
3489707--3489851	75	1.9	75	92	0	245	38	12	20	28	1.89
3491677--3491727	19	2.6	19	93	3	84	27	33	11	27	1.92
3493158--3493188	15	2.1	15	93	0	53	29	3	12	54	1.53
3493655--3493698	20	2.3	19	84	7	54	22	22	9	45	1.80
3504456--3504522	30	2.2	30	91	0	107	31	23	19	25	1.98
3504894--3504923	15	1.9	16	93	6	53	23	6	10	60	1.52
3521188--3521318	30	4.4	30	79	1	149	20	12	7	59	1.57
3521597--3521642	5	9.4	5	90	4	76	21	0	2	76	0.90
3521599--3521642	14	3.1	14	96	3	79	20	0	2	77	0.88
3521597--3521642	19	2.3	20	92	3	76	21	0	2	76	0.90
3524805--3524877	26	2.8	27	91	6	123	58	0	5	35	1.21
3528609--3528654	24	2.0	23	86	4	65	34	21	23	19	1.96
3528610--3528660	24	2.2	24	82	3	59	37	21	21	19	1.95
3528632--3528730	46	2.2	46	81	7	112	34	22	23	20	1.97
3528648--3528722	23	3.3	23	79	1	80	33	24	22	20	1.97
3528670--3528730	23	2.7	23	81	0	77	36	22	24	16	1.94
3536022--3536095	3	24.3	3	94	2	130	64	1	0	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3536307--3536641	131	2.5	131	80	2	348	24	17	32	25	1.97
3536665--3536789	36	3.6	36	70	16	111	40	13	19	27	1.89
3536665--3536811	66	2.2	66	87	0	213	40	12	19	27	1.88
3536665--3536811	36	4.5	31	69	16	84	40	12	19	27	1.88
3536753--3536862	51	2.2	51	94	0	193	43	10	20	25	1.84
3536684--3536927	117	2.1	116	87	0	344	41	12	20	25	1.87
3536812--3536907	36	2.9	35	69	20	96	44	11	17	26	1.82
3536801--3537038	130	1.8	131	87	0	352	42	14	19	23	1.88
3536801--3537039	65	3.7	65	84	2	300	42	14	19	23	1.88
3537091--3537220	35	3.6	36	75	9	111	39	15	15	30	1.88
3537083--3537241	73	2.2	73	79	7	180	37	14	16	30	1.89
3538254--3538317	17	4.1	15	76	20	60	0	9	9	81	0.88
3538263--3538327	18	3.8	17	80	10	78	0	10	6	83	0.82
3538266--3538328	30	2.2	28	85	5	81	0	11	6	82	0.83
3542180--3542448	6	44.8	6	97	0	502	48	16	1	33	1.54
3544092--3544268	3	59.0	3	92	2	176	30	35	8	25	1.86
3544290--3544322	3	11.0	3	93	0	57	69	30	0	0	0.88
3544526--3544884	131	2.7	130	79	6	339	25	15	29	28	1.96
3544923--3545039	30	3.7	29	73	18	101	39	14	17	28	1.89
3544884--3545271	36	11.7	35	62	18	141	41	13	18	26	1.88
3544923--3545097	30	5.4	29	68	22	82	40	14	17	28	1.88
3545119--3545226	29	3.5	29	67	16	72	39	12	22	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3544883--3545271	66	5.9	65	89	1	562	41	13	18	26	1.88
3545354--3545475	37	3.3	36	73	6	111	38	13	13	34	1.84
3546486--3546628	5	29.0	5	70	16	68	1	15	5	77	1.02
3546497--3546632	44	3.1	45	80	13	142	0	15	5	78	0.96
3546565--3546623	8	7.2	8	73	22	52	0	20	3	76	0.93
3546559--3546629	36	2.0	36	86	10	101	0	21	2	76	0.92
3546497--3546632	18	7.8	17	71	20	77	0	15	5	78	0.96
3550074--3550119	11	3.9	12	80	11	51	73	2	2	21	1.04
3551020--3551049	12	2.5	12	100	0	60	10	56	0	33	1.32
3557080--3557368	82	3.5	83	84	4	343	31	17	18	32	1.94
3557167--3557296	41	3.2	41	67	14	106	28	16	20	33	1.95
3557839--3557964	41	3.1	41	82	0	162	34	17	13	34	1.89
3583363--3583467	37	2.8	37	86	0	147	40	15	14	30	1.87
3583489--3583522	13	2.6	13	100	0	68	32	20	8	38	1.84
3584064--3584117	24	2.3	22	76	17	54	27	3	3	64	1.27
3584140--3584179	18	2.2	19	90	4	64	30	5	2	62	1.29
3584177--3584220	22	2.0	22	82	8	54	31	4	0	63	1.14
3584146--3584255	21	5.1	21	71	17	68	30	5	0	63	1.23
3584341--3584397	20	2.9	19	75	14	62	22	8	1	66	1.29
3586531--3586564	18	1.9	17	88	5	50	29	5	32	32	1.81
3590644--3590734	20	4.9	20	68	20	72	34	5	15	45	1.69
3590643--3590791	53	2.9	52	95	3	273	32	6	13	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590749--3590788	20	2.0	20	95	0	71	37	5	12	45	1.64
3593155--3593193	20	2.0	20	94	0	69	35	5	17	41	1.72
3593208--3593247	20	2.0	20	95	0	71	37	5	12	45	1.64
3597813--3597903	20	4.9	20	67	20	63	32	5	15	46	1.69
3597812--3597961	53	2.9	52	94	3	257	32	6	12	49	1.65
3597918--3597957	20	2.0	20	90	9	64	37	5	10	47	1.59
3605054--3605173	31	3.9	31	82	0	159	29	29	28	13	1.94
3605054--3605200	62	2.4	62	87	0	195	30	28	25	14	1.95
3606416--3606466	27	2.0	27	84	7	70	19	17	17	45	1.86
3610311--3610383	30	2.4	30	83	0	92	32	13	13	39	1.84
3612182--3612212	13	2.5	12	90	10	53	54	0	9	35	1.33
3615351--3615539	41	4.6	42	71	14	151	32	16	19	31	1.94
3615352--3615549	83	2.4	82	86	0	261	32	17	18	30	1.94
3621677--3621718	15	2.9	15	86	6	52	21	21	23	33	1.97
3626295--3626361	30	2.3	30	92	2	109	29	23	22	23	1.99
3626310--3626364	15	3.7	15	83	9	76	27	23	23	25	2.00
3628150--3628192	20	2.2	20	100	0	86	13	27	13	44	1.83
3633843--3633889	18	2.7	18	93	3	78	31	8	31	27	1.87
3634109--3634156	22	2.2	22	96	0	87	50	10	0	39	1.37
3634109--3634165	22	2.6	22	88	5	71	50	10	1	36	1.47
3634270--3634877	256	2.4	251	89	5	888	39	19	12	27	1.88
3644402--3644433	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3651771--3651849	33	2.5	32	82	8	99	31	18	10	39	1.84
3651771--3651896	29	4.2	31	81	7	109	29	15	13	42	1.85
3651867--3652096	92	2.5	89	79	11	223	30	12	13	44	1.80
3651957--3652031	29	2.7	29	90	10	120	33	13	10	42	1.78
3651901--3652086	92	2.0	96	83	6	238	30	13	12	43	1.81
3652410--3652610	92	2.2	92	84	6	257	27	29	16	26	1.97
3652804--3652844	3	13.7	3	100	0	82	31	0	0	68	0.90
3656558--3656619	32	1.9	32	83	6	81	17	11	11	59	1.60
3657134--3657176	21	2.0	21	100	0	86	18	23	13	44	1.86
3660673--3660813	36	3.9	35	81	14	162	31	18	10	39	1.85

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