genome.fa.s7832.2.7.7.80.10.50.1000.20.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

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  20  of  21  ( 2482 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)
3737967--3737991	12	2.1	12	100	0	50	72	0	28	0	0.86
3740273--3740508	33	6.8	34	76	14	209	45	19	22	13	1.84
3740287--3740508	19	12.7	19	73	20	207	45	18	22	13	1.84
3740287--3740508	52	4.2	52	85	9	267	45	18	22	13	1.84
3740411--3740467	14	3.7	14	75	20	60	43	21	24	10	1.83
3740498--3740615	54	2.2	52	95	4	218	13	24	17	44	1.85
3740517--3740615	19	5.4	19	84	12	136	14	23	17	45	1.84
3740722--3740758	14	2.6	14	91	0	65	45	21	0	32	1.52
3742680--3742783	19	5.4	19	85	1	136	47	27	16	8	1.76
3742774--3742830	14	3.7	14	75	20	51	43	22	22	10	1.84
3742715--3742847	33	3.9	33	87	5	149	48	24	18	8	1.76
3742788--3742852	19	3.7	19	74	19	50	44	20	23	12	1.84
3742848--3742925	19	4.4	19	81	15	103	7	16	28	47	1.74
3742864--3742890	14	1.9	14	100	0	54	7	14	29	48	1.71
3742848--3742955	52	2.1	53	87	1	155	8	17	26	47	1.76
3743055--3743370	93	3.4	93	99	0	623	45	18	13	22	1.85
3745056--3745162	19	5.7	20	77	15	104	46	18	23	11	1.81
3745054--3745118	21	3.1	21	82	4	96	47	15	26	10	1.78
3745174--3745249	21	3.7	20	80	7	89	14	19	19	46	1.84
3745329--3745399	33	2.2	33	94	0	124	47	15	23	12	1.80
3745779--3745951	20	8.6	20	80	6	179	19	18	26	36	1.94
3746377--3746405	12	2.4	12	100	0	58	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3746731--3746785	24	2.3	24	83	0	74	25	43	16	14	1.86
3752849--3752882	13	2.6	13	90	0	50	61	8	2	26	1.40
3758387--3758429	22	2.0	21	86	8	61	23	0	2	74	0.93
3758513--3758557	17	2.6	17	92	0	81	17	35	22	24	1.95
3758959--3759011	26	2.1	24	82	6	61	54	7	1	35	1.40
3761751--3761804	28	2.0	28	88	3	83	33	16	5	44	1.71
3762571--3762601	14	2.2	14	94	0	53	83	0	16	0	0.64
3764152--3764212	30	2.0	30	90	6	97	14	19	32	32	1.92
3764265--3764349	34	2.5	34	98	0	161	16	24	23	35	1.95
3764426--3764469	23	1.9	23	95	0	79	11	25	38	25	1.89
3764422--3764476	23	2.4	22	82	8	74	12	23	41	21	1.88
3764895--3765235	162	2.1	161	85	9	460	39	4	19	36	1.71
3766874--3766923	25	2.0	25	100	0	100	40	20	28	12	1.87
3766921--3766962	18	2.3	18	80	8	50	21	2	61	14	1.43
3767404--3767493	38	2.3	38	83	9	101	47	5	5	41	1.50
3767438--3767495	19	3.1	19	75	9	64	50	3	5	41	1.42
3767487--3767843	23	16.8	21	71	21	96	49	5	3	41	1.43
3767473--3767617	30	4.9	30	72	16	124	48	6	3	41	1.45
3767582--3767685	23	4.6	23	92	3	158	49	5	5	39	1.51
3767658--3767722	22	2.9	22	88	2	85	52	6	3	38	1.42
3767518--3767823	142	2.1	148	90	4	480	50	5	4	39	1.46
3767544--3767789	119	2.1	125	81	9	144	50	5	4	39	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767723--3767843	23	5.3	23	80	12	135	50	3	2	43	1.31
3767548--3767699	37	3.9	37	76	15	144	50	5	5	38	1.51
3767731--3767844	14	8.6	14	71	20	68	50	2	2	43	1.29
3771109--3771136	14	2.0	14	100	0	56	21	35	14	28	1.92
3773480--3773552	2	37.5	2	81	15	91	43	1	1	53	1.17
3773657--3773744	38	2.2	40	79	18	96	15	15	0	68	1.22
3773737--3773776	16	2.4	17	84	16	57	20	10	5	65	1.42
3773815--3773870	26	2.2	26	83	6	69	19	8	1	69	1.24
3777120--3777172	24	2.2	24	77	12	56	18	9	5	66	1.41
3784064--3784104	17	2.4	17	100	0	82	73	7	14	4	1.22
3785180--3785547	106	3.5	106	92	1	596	32	25	19	21	1.97
3787724--3787803	38	2.1	39	81	6	92	17	13	0	68	1.21
3787796--3787836	17	2.4	18	84	12	59	19	9	4	65	1.40
3787875--3787930	26	2.2	26	83	6	69	19	8	1	69	1.24
3794596--3794650	16	3.4	16	85	5	74	38	7	27	27	1.83
3797695--3797728	17	2.0	17	100	0	68	35	29	17	17	1.93
3798905--3798963	20	2.9	21	80	14	79	45	0	0	54	0.99
3799373--3799416	14	3.1	14	93	0	70	50	29	20	0	1.49
3807595--3807634	19	2.1	19	86	9	55	37	0	0	62	0.95
3807640--3807876	124	1.9	124	88	1	359	55	3	3	37	1.35
3807652--3807911	124	2.1	122	81	7	310	56	3	3	36	1.32
3809192--3809276	30	2.8	30	78	0	89	42	5	1	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3809304--3809685	30	12.8	29	74	11	238	51	0	8	39	1.37
3809355--3809413	23	2.5	25	83	8	70	54	0	8	37	1.31
3809565--3809676	29	3.7	29	81	8	127	53	0	6	39	1.32
3809560--3809685	58	2.2	54	76	16	137	54	0	7	37	1.33
3809667--3809729	18	3.2	20	69	13	60	50	1	9	38	1.44
3823270--3823298	15	1.9	15	100	0	58	20	3	34	41	1.69
3823827--3823856	15	2.0	15	100	0	60	20	6	33	40	1.78
3823174--3824291	557	2.0	558	97	0	2130	30	15	17	36	1.91
3826298--3826383	3	27.7	3	81	4	91	40	0	0	59	0.97
3826727--3826771	20	2.2	20	92	0	81	53	13	33	0	1.40
3826847--3826888	15	2.8	15	89	7	59	76	2	21	0	0.90
3826847--3826888	20	2.1	20	86	8	59	76	2	21	0	0.90
3827758--3827804	14	3.4	14	75	19	53	40	2	0	57	1.11
3830119--3830172	14	3.8	14	81	11	56	25	14	9	50	1.73
3830134--3830172	15	2.7	15	88	4	53	20	15	12	51	1.76
3835794--3835947	83	1.9	83	95	0	281	24	11	24	39	1.88
3836675--3837700	116	9.0	115	88	2	1290	35	15	19	30	1.92
3836678--3837650	229	4.2	229	89	1	1353	35	15	19	30	1.92
3837929--3838023	3	30.7	3	87	4	109	40	0	0	60	0.97
3838367--3838411	20	2.2	20	92	0	81	53	13	33	0	1.40
3838487--3838528	15	2.8	15	89	7	59	76	2	21	0	0.90
3838487--3838528	20	2.1	20	86	8	59	76	2	21	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3839396--3839442	14	3.4	14	75	19	53	40	2	0	57	1.11
3846963--3847054	15	6.0	15	68	14	55	44	1	4	50	1.29
3848757--3848801	22	2.0	22	82	0	54	26	0	4	68	1.08
3851265--3851366	46	2.2	46	82	6	127	19	8	23	48	1.77
3851610--3851641	3	10.7	3	100	0	64	65	0	0	34	0.93
3851726--3851767	16	2.7	16	85	3	50	14	9	23	52	1.71
3853168--3853220	21	2.5	21	90	6	81	30	28	20	20	1.98
3853229--3853287	25	2.6	21	76	19	64	22	20	27	30	1.98
3854036--3854153	21	5.6	21	76	15	127	34	24	21	19	1.96
3854022--3854147	42	3.0	42	96	0	234	35	23	20	20	1.96
3859693--3859745	3	17.7	3	92	0	88	64	1	32	1	1.15
3861550--3861639	11	7.7	12	73	19	66	27	5	0	66	1.13
3861548--3861606	25	2.3	26	82	8	68	28	5	0	66	1.13
3861574--3861639	21	3.1	19	76	20	60	28	3	0	68	1.05
3862648--3862750	43	2.4	43	88	3	163	44	3	5	45	1.46
3868935--3868983	15	3.5	15	71	21	52	0	26	18	55	1.43
3869444--3869537	3	31.7	3	93	2	163	63	0	1	35	1.01
3869673--3871000	115	11.6	112	86	6	1738	29	19	14	35	1.92
3869673--3871000	343	3.9	343	95	1	2358	29	19	14	35	1.92
3871651--3872032	82	4.6	82	94	0	640	37	22	12	28	1.90
3873053--3873091	17	2.4	17	95	4	71	0	17	0	82	0.68
3873053--3873090	12	3.4	12	82	17	55	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885349--3885397	15	3.5	15	71	21	52	0	26	18	55	1.43
3885854--3885936	3	27.7	3	92	0	139	62	0	1	36	1.03
3886773--3886817	21	2.1	21	83	0	54	48	26	0	24	1.51
3887051--3887126	26	2.8	26	75	15	75	30	2	25	42	1.69
3887909--3888033	39	3.2	39	87	0	133	36	24	24	15	1.94
3887840--3888033	78	2.5	79	76	2	203	33	23	25	17	1.96
3888809--3888857	18	2.7	18	83	0	62	34	26	22	16	1.95
3894746--3894787	17	2.4	18	82	17	54	57	2	4	35	1.33
3896176--3896241	3	22.0	3	76	11	64	59	1	1	37	1.16
3896165--3896241	24	3.1	24	85	9	102	57	1	1	40	1.15

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