genome.fa.s8955.2.7.7.80.10.50.1000.19.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2731 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)
3813109--3813201	32	2.8	33	88	3	143	46	20	19	13	1.84
3813139--3813204	19	3.8	19	69	22	63	45	21	21	12	1.84
3813230--3813314	19	4.4	19	81	1	89	16	20	23	40	1.91
3815162--3815197	14	2.6	14	90	0	54	30	0	22	47	1.52
3815304--3815357	14	3.5	14	77	22	63	48	20	20	11	1.80
3815381--3815438	20	2.9	20	92	0	98	17	22	22	37	1.93
3816490--3816536	24	2.0	24	86	0	67	29	17	17	36	1.92
3816490--3816548	24	2.5	24	82	0	64	28	15	18	37	1.91
3816723--3816747	12	2.1	12	100	0	50	72	0	28	0	0.86
3819039--3819093	19	3.2	18	70	24	55	47	18	20	14	1.83
3819039--3819164	33	3.8	33	81	4	164	45	19	19	15	1.86
3819040--3819164	66	1.9	66	91	0	205	44	19	20	16	1.86
3819170--3819227	20	3.0	20	87	2	73	13	15	18	51	1.76
3819334--3819370	14	2.6	15	87	12	60	45	21	0	32	1.52
3820727--3820793	21	3.2	21	68	4	55	19	20	35	23	1.95
3822849--3822907	20	3.0	19	78	9	64	44	18	23	13	1.86
3822898--3822934	14	2.6	14	95	0	65	40	24	24	10	1.87
3822874--3822967	47	2.0	48	91	2	154	38	25	23	12	1.90
3822985--3823029	19	2.4	19	88	0	72	6	15	24	53	1.66
3823581--3823633	20	2.7	20	93	0	88	26	20	28	24	1.99
3823642--3823695	20	2.7	20	97	0	99	25	18	24	31	1.97
3823582--3823698	61	1.9	61	85	0	162	23	17	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3823582--3823716	61	2.2	61	81	2	155	22	20	24	32	1.98
3823766--3823806	21	2.0	21	85	0	55	34	31	17	17	1.93
3828008--3828043	2	18.0	2	100	0	72	50	0	0	50	1.00
3828464--3828510	15	3.2	15	77	17	53	63	6	0	29	1.19
3830281--3830358	31	2.5	31	100	0	156	26	21	5	46	1.72
3833059--3833092	18	1.9	18	88	5	52	32	0	11	55	1.36
3835282--3835402	4	30.2	4	84	0	134	43	3	6	46	1.46
3836131--3836200	3	22.7	3	85	8	72	40	1	0	58	1.07
3836134--3836200	23	2.7	25	86	11	93	40	1	0	58	1.07
3836244--3836322	17	4.6	17	82	6	106	27	37	20	13	1.91
3836238--3836322	34	2.5	34	92	3	136	28	38	20	12	1.89
3837489--3837529	19	2.2	19	83	16	50	65	0	9	24	1.22
3838898--3838994	47	2.1	48	83	11	121	34	12	17	36	1.87
3841758--3841883	56	2.3	55	77	16	77	80	0	17	1	0.85
3841784--3841883	44	2.3	43	86	13	134	82	0	16	2	0.77
3841758--3841883	9	13.6	9	80	13	116	80	0	17	1	0.85
3843363--3843508	51	2.8	52	87	2	222	36	20	19	23	1.95
3844789--3844843	20	2.8	20	82	0	74	29	23	20	27	1.99
3844684--3845536	119	7.2	119	92	0	1391	33	16	18	30	1.93
3844908--3844962	20	2.8	20	82	0	74	30	16	20	32	1.94
3845265--3845318	20	2.7	20	91	0	90	27	25	20	25	1.99
3845384--3845438	20	2.8	20	80	0	74	30	21	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3845680--3845743	3	20.7	3	84	9	76	37	1	0	60	1.06
3847887--3847929	12	3.7	11	87	3	59	37	58	2	2	1.24
3852809--3852838	2	15.0	2	100	0	60	50	0	0	50	1.00
3855408--3855449	21	2.0	21	90	9	68	23	7	0	69	1.13
3855445--3855493	22	2.2	22	81	3	53	24	14	12	48	1.77
3858614--3858639	12	2.2	12	100	0	52	7	11	30	50	1.67
3866169--3866208	19	2.0	20	90	4	64	17	25	37	20	1.94
3868537--3868597	20	2.9	21	85	7	70	16	26	32	24	1.96
3872405--3872444	21	1.9	21	85	10	55	35	10	2	52	1.48
3881741--3882098	129	2.7	129	86	2	448	41	17	8	31	1.80
3882942--3883176	109	2.2	109	84	3	294	49	18	12	18	1.79
3884217--3885080	44	20.1	44	88	5	1204	30	23	27	17	1.97
3884217--3885080	168	5.0	172	89	7	1165	30	23	27	17	1.97
3884249--3885080	212	3.9	211	91	2	1276	30	24	27	17	1.97
3886563--3886596	18	1.9	18	88	5	52	29	20	0	50	1.49
3889491--3889548	30	1.9	30	96	0	107	22	5	18	53	1.64
3894088--3894139	20	2.6	20	87	0	77	13	23	21	42	1.88
3894148--3894174	6	4.5	6	100	0	54	33	51	14	0	1.43
3894846--3895061	20	10.6	20	72	13	113	42	21	20	15	1.89
3894951--3894998	19	2.5	19	96	0	87	43	18	18	18	1.88
3897440--3897980	273	2.0	266	91	3	870	36	22	20	19	1.95
3907119--3907206	24	3.7	24	81	3	106	48	15	14	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3907124--3907183	12	5.0	12	71	15	52	50	16	15	18	1.79
3907116--3907220	48	2.2	48	84	6	133	48	15	17	19	1.81
3907116--3907220	24	4.4	25	74	11	85	48	15	17	19	1.81
3908605--3908670	24	2.8	24	74	4	62	56	13	9	21	1.65
3910592--3910645	24	2.2	24	96	0	99	25	18	11	44	1.83
3911889--3911947	31	2.0	29	83	12	75	50	0	1	47	1.11
3912003--3912044	20	2.2	19	86	4	57	64	2	0	33	1.07
3911916--3912148	120	2.0	120	82	5	294	45	9	8	37	1.66
3912230--3912259	3	10.0	3	92	0	51	63	0	3	33	1.11
3913610--3913644	6	5.8	6	100	0	70	51	0	0	48	1.00
3913998--3914491	113	4.3	113	85	5	652	27	20	15	36	1.93
3914128--3914174	24	2.0	23	84	12	60	17	21	6	55	1.64
3913998--3914494	233	2.2	228	85	5	678	27	20	15	36	1.93
3915673--3915763	16	4.7	19	73	17	71	53	4	7	34	1.49
3916076--3916128	16	3.2	16	89	5	88	9	3	0	86	0.68
3916083--3916162	25	3.2	25	83	11	103	5	10	0	85	0.75
3916099--3916162	12	5.5	11	76	12	65	3	12	0	84	0.74
3916076--3916176	17	6.1	15	73	20	69	6	9	0	83	0.82
3916076--3916178	23	4.4	22	81	16	100	6	10	0	82	0.84
3916076--3916163	1	88.0	1	70	0	59	5	9	0	85	0.75
3923502--3923533	15	2.1	15	94	0	55	46	9	18	25	1.79
3926795--3926844	19	2.6	20	71	9	50	68	4	2	26	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3926825--3926891	28	2.4	27	78	7	73	62	1	4	31	1.24
3927365--3927423	31	2.0	29	83	12	75	50	0	1	47	1.11
3927479--3927520	20	2.2	19	86	4	57	64	2	0	33	1.07
3927392--3927624	120	2.0	120	83	6	296	45	8	7	38	1.64
3929076--3929105	12	2.5	12	88	0	51	56	0	0	43	0.99
3930816--3930921	30	3.5	30	93	0	167	16	18	39	24	1.91
3939710--3939810	51	2.0	51	80	3	114	18	32	7	40	1.80
3940432--3940472	17	2.4	18	80	15	52	46	0	9	43	1.36
3940476--3940613	60	2.3	59	80	7	152	35	18	10	34	1.86
3942308--3942440	42	3.2	42	83	8	155	33	24	17	24	1.96
3944433--3944521	24	3.7	23	78	14	83	75	4	3	16	1.11
3944420--3944507	39	2.3	39	80	7	90	72	4	2	20	1.13
3944487--3944521	16	2.2	16	94	0	61	85	0	2	11	0.69
3945739--3946001	39	7.0	37	78	13	227	44	8	4	42	1.53
3945869--3945894	12	2.2	12	100	0	52	46	7	7	38	1.61
3945739--3945996	80	3.4	79	83	9	308	43	8	4	43	1.53
3945709--3946054	72	4.6	71	78	12	250	44	8	3	43	1.50
3946125--3946170	24	1.9	24	82	8	58	58	4	2	34	1.30
3946704--3947460	165	4.6	165	88	0	1086	24	20	25	29	1.99
3946704--3947436	329	2.2	330	89	0	1117	24	20	25	29	1.99
3952504--3952551	17	2.8	17	90	0	78	79	4	0	16	0.89
3952476--3952564	12	7.2	12	72	11	65	76	4	2	16	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3952462--3952563	42	2.5	39	81	6	105	73	3	1	20	1.09
3953806--3953889	42	2.0	41	93	2	141	39	7	4	48	1.52
3956657--3956792	48	2.6	51	84	7	161	33	19	19	27	1.96
3956748--3957253	55	9.3	55	92	3	716	30	25	15	28	1.96
3956640--3957253	110	5.7	110	87	6	711	29	25	16	28	1.96
3958635--3958668	7	4.7	7	92	7	59	11	11	0	76	1.02
3958622--3958668	22	2.2	20	82	17	51	10	12	0	76	1.02
3958634--3958669	15	2.4	15	100	0	72	11	11	0	77	0.99
3958634--3958742	9	12.9	8	71	25	66	9	18	0	71	1.17
3958676--3958748	26	2.8	25	75	22	71	6	19	1	72	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23