genome.fa.s8959.2.7.7.80.10.50.1000.17.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  17  of  21  ( 2431 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)
3408990--3409095	29	3.7	29	90	0	176	33	4	17	44	1.70
3408990--3409115	29	4.3	29	87	2	173	31	4	17	46	1.69
3410362--3410400	19	2.1	19	86	13	55	30	5	5	58	1.41
3416138--3416172	7	4.9	7	92	3	52	14	25	28	31	1.95
3416176--3416306	29	4.6	29	87	3	176	32	3	18	45	1.67
3416175--3416306	57	2.3	58	90	1	203	32	3	18	44	1.68
3417620--3417658	19	2.1	19	86	13	55	30	5	5	58	1.41
3418521--3418570	24	2.1	24	85	7	66	22	2	16	60	1.46
3423305--3423354	24	2.1	24	85	7	66	22	2	16	60	1.46
3428180--3428229	24	2.1	24	85	7	66	24	2	14	60	1.45
3434237--3434261	12	2.1	12	100	0	50	16	52	0	32	1.44
3435299--3435375	26	3.0	25	81	3	93	28	22	5	44	1.74
3436781--3436821	19	2.2	19	100	0	82	53	21	14	9	1.70
3438503--3438544	22	1.9	22	85	9	59	28	4	28	38	1.77
3440465--3440574	2	59.0	2	71	13	83	49	0	0	50	1.00
3440465--3440555	38	2.4	37	85	7	130	48	0	0	51	1.00
3447574--3448453	438	2.0	438	99	0	1742	34	16	16	31	1.92
3450544--3450613	33	2.1	33	83	0	86	34	12	28	24	1.92
3453316--3453366	21	2.6	21	81	9	63	33	11	11	43	1.78
3453618--3453686	36	1.9	36	85	5	95	30	28	14	26	1.95
3454038--3454108	33	2.2	33	86	0	97	35	11	28	25	1.90
3462574--3462781	103	2.0	105	88	3	314	45	10	6	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3463891--3463939	3	16.3	3	100	0	98	67	0	0	32	0.91
3464098--3465107	111	9.1	111	88	3	1358	28	16	23	30	1.97
3464098--3465107	332	3.0	331	87	3	1440	28	16	23	30	1.97
3465111--3465279	79	2.1	79	81	2	196	28	17	23	29	1.97
3465239--3465511	34	8.0	34	93	0	447	27	16	22	33	1.95
3468100--3468143	11	4.2	11	88	11	65	4	9	0	86	0.70
3468103--3468144	20	2.1	20	95	0	75	2	9	0	88	0.61
3468106--3468145	12	3.4	12	86	6	55	2	7	0	90	0.55
3476170--3476234	15	4.3	15	75	14	62	40	21	6	32	1.78
3477105--3477146	20	2.1	20	100	0	84	42	23	0	33	1.55
3477653--3477690	14	2.7	14	100	0	76	57	7	7	26	1.54
3479307--3479350	22	2.0	22	95	4	81	20	13	18	47	1.82
3483712--3483842	65	2.0	65	100	0	262	25	24	18	32	1.97
3484499--3484555	2	29.5	2	80	19	68	43	3	0	52	1.18
3484848--3485039	75	2.5	75	88	3	260	22	32	24	19	1.97
3490791--3490853	21	2.9	21	85	4	81	20	36	25	17	1.94
3490835--3490874	21	1.9	21	89	0	62	25	40	25	10	1.86
3493010--3493042	16	2.1	16	100	0	66	51	18	6	24	1.68
3493324--3493530	75	2.7	75	86	3	263	23	31	23	20	1.98
3500275--3500313	17	2.2	18	86	9	53	61	0	0	38	0.96
3500275--3500313	20	2.0	21	90	10	64	61	0	0	38	0.96
3500360--3500387	13	2.2	13	100	0	56	28	0	50	21	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500611--3500639	2	14.5	2	100	0	58	48	0	0	51	1.00
3500821--3500870	17	2.6	19	84	15	68	30	0	0	70	0.88
3500830--3500915	22	3.8	23	73	13	72	27	3	0	68	1.06
3508543--3508584	22	2.0	22	85	4	59	47	0	2	50	1.14
3514050--3514210	9	17.3	9	66	12	58	14	7	3	74	1.17
3514176--3514229	15	3.5	15	80	9	56	14	9	1	74	1.15
3514049--3514224	20	8.4	20	68	21	62	14	7	3	73	1.20
3515458--3515584	56	2.3	55	90	4	193	28	16	14	40	1.87
3515564--3515626	31	2.0	31	87	0	90	33	22	12	31	1.91
3515808--3516004	55	3.6	56	85	4	258	28	17	14	40	1.88
3517288--3517566	141	2.0	141	86	0	360	30	14	16	38	1.88
3519108--3519241	68	2.0	68	94	2	234	21	24	11	42	1.85
3519141--3519182	20	2.1	20	90	0	66	19	28	14	38	1.90
3519161--3519528	47	8.0	47	84	6	475	23	23	11	42	1.86
3519276--3519410	27	5.5	27	63	28	77	24	22	12	40	1.89
3519397--3519516	20	5.7	20	78	13	125	21	26	11	40	1.88
3519437--3519528	46	2.0	47	93	6	161	23	23	9	42	1.84
3519916--3519973	20	2.9	20	92	0	98	25	24	10	39	1.87
3519962--3520157	95	2.1	96	88	2	288	28	22	16	32	1.95
3526232--3526517	47	6.1	47	88	0	392	23	21	12	42	1.87
3526924--3527103	94	1.9	95	86	3	256	27	24	15	33	1.95
3526944--3527139	94	2.1	94	80	5	209	29	23	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529728--3529764	18	2.0	20	84	10	51	35	5	5	54	1.47
3533491--3533602	44	2.5	44	78	4	118	26	21	16	34	1.95
3533643--3533868	97	2.3	97	87	3	312	27	18	11	42	1.84
3534027--3534174	36	4.1	36	79	1	145	29	14	7	47	1.72
3534030--3534168	72	1.9	72	83	2	181	30	15	7	46	1.75
3535838--3535903	21	3.3	21	72	20	77	43	7	18	30	1.77
3535818--3535916	39	2.5	39	98	0	189	41	9	20	29	1.83
3535826--3535891	22	3.2	22	71	20	79	45	7	22	24	1.78
3536148--3536289	36	3.9	35	74	12	117	26	15	9	48	1.75
3537429--3537462	2	17.0	2	100	0	68	50	0	0	50	1.00
3546837--3546927	3	31.0	3	95	4	168	65	0	0	34	0.93
3547337--3547545	105	2.0	105	82	3	251	43	12	12	31	1.80
3550193--3550282	9	9.7	10	87	6	77	63	2	4	30	1.26
3550211--3550283	3	24.3	3	88	0	110	61	0	5	32	1.19
3553105--3553131	9	3.0	9	100	0	54	11	11	22	55	1.66
3558130--3558213	31	2.7	32	75	7	91	27	29	27	15	1.96
3571537--3571613	37	2.1	36	83	9	93	46	1	3	48	1.28
3571759--3571796	20	1.9	20	88	0	58	21	26	10	42	1.85
3584864--3584912	23	2.1	23	85	7	64	57	14	2	26	1.48
3585749--3585787	12	3.2	12	96	0	69	35	0	30	33	1.58
3587252--3587304	20	2.7	20	96	0	97	26	35	16	20	1.94
3588244--3588277	18	1.9	17	94	5	59	50	5	2	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590556--3590589	10	3.5	10	88	8	52	67	0	0	32	0.91
3594161--3594834	54	12.5	54	84	3	759	35	16	16	31	1.91
3594159--3594834	161	4.2	162	84	3	844	35	16	16	31	1.92
3600995--3601047	14	3.7	14	80	9	54	22	20	32	24	1.98
3604627--3604656	16	1.9	15	93	6	51	43	0	3	53	1.17
3609306--3609354	2	24.5	2	100	0	98	51	0	0	48	1.00
3611671--3611721	21	2.4	21	96	0	93	7	37	19	35	1.81
3617496--3617554	20	2.7	22	82	10	68	45	16	11	25	1.82
3618235--3618303	34	2.0	34	100	0	138	50	0	28	20	1.48
3618649--3618695	24	2.0	24	83	8	60	21	4	4	70	1.22
3618870--3618909	18	2.2	18	95	0	71	37	12	32	17	1.87
3623753--3623781	14	2.1	14	100	0	58	44	27	0	27	1.54
3626379--3626584	101	2.0	105	88	3	312	44	11	6	37	1.67
3627686--3627727	3	14.0	3	90	9	68	66	0	0	33	0.92
3630997--3631035	17	2.4	17	91	4	62	53	5	0	41	1.23
3633211--3633263	23	2.3	22	78	18	63	43	0	1	54	1.11
3633374--3633431	22	2.8	20	78	19	66	60	1	1	36	1.17
3651927--3651965	12	2.9	13	85	14	53	20	2	2	74	1.06
3653989--3654018	13	2.2	14	94	5	53	33	3	6	56	1.42
3656681--3657215	37	14.5	37	86	6	716	45	6	3	44	1.45
3656681--3657190	73	6.9	73	88	5	708	46	5	3	44	1.43
3656681--3657190	110	4.6	109	90	3	740	46	5	3	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3657755--3658806	84	12.7	84	77	5	890	25	19	23	31	1.98
3657776--3658806	165	6.2	165	78	7	865	25	19	23	31	1.98
3657748--3658806	249	4.3	249	84	2	1290	25	19	23	31	1.98
3658163--3658803	332	1.9	330	81	5	774	24	19	23	32	1.98
3657906--3658806	497	1.8	498	87	1	1369	25	19	23	31	1.98
3660000--3660221	95	2.5	87	75	17	233	31	20	21	27	1.98
3660055--3660238	95	2.0	93	87	6	264	28	19	20	31	1.97
3662959--3663008	24	2.1	23	78	10	55	68	0	14	18	1.22
3662955--3663006	19	2.8	20	77	8	56	69	0	13	17	1.19
3671729--3671777	20	2.5	20	80	3	55	16	18	0	65	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21