genome.fa.s8824.2.7.7.80.10.50.1000.15.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  15  of  19  ( 2203 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)
3383679--3383779	18	5.8	17	80	5	103	30	10	12	45	1.77
3383701--3383779	35	2.3	35	95	0	140	31	8	12	46	1.73
3383683--3383793	53	2.1	53	81	3	125	30	11	13	44	1.80
3383701--3383818	18	6.6	18	78	3	96	31	10	13	44	1.77
3387950--3388074	28	4.5	28	95	0	223	48	12	3	36	1.56
3393843--3393886	22	2.0	22	86	0	61	34	38	9	18	1.82
3398465--3398530	22	3.0	22	93	0	96	37	37	4	19	1.73
3405915--3405952	20	1.9	20	88	0	58	39	21	10	28	1.86
3405997--3406128	65	2.0	65	92	0	219	39	22	13	24	1.90
3406145--3406198	22	2.5	22	85	8	67	27	7	29	35	1.84
3406250--3406359	20	5.4	21	73	9	77	26	9	27	37	1.86
3406616--3406858	123	2.0	123	100	0	486	41	18	16	23	1.89
3407412--3407484	32	2.3	32	83	11	96	32	13	2	50	1.56
3409216--3409287	34	2.2	34	83	11	96	59	0	5	34	1.21
3410881--3410920	20	2.0	20	85	14	55	5	2	25	67	1.23
3411155--3411196	15	2.9	15	86	6	52	69	0	0	30	0.89
3411288--3411404	28	4.2	28	81	3	128	39	12	5	41	1.68
3411330--3411398	12	4.9	15	70	22	60	42	15	5	36	1.72
3422124--3422474	55	6.3	55	83	4	420	35	17	16	30	1.93
3428618--3428657	20	2.1	19	86	9	55	27	10	32	30	1.89
3429074--3429474	55	7.3	55	89	2	567	35	18	18	27	1.94
3429534--3429571	20	1.9	20	84	10	51	39	5	10	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3433343--3433431	28	3.2	28	83	4	117	38	12	5	43	1.66
3433866--3433920	10	5.5	10	82	0	56	27	14	12	45	1.81
3433869--3433920	20	2.6	19	81	6	68	25	13	13	48	1.79
3437397--3437447	20	2.5	20	90	0	84	27	3	19	49	1.66
3437964--3438077	40	2.8	40	89	1	165	27	15	19	37	1.92
3438012--3438282	82	3.3	82	78	5	289	31	14	16	36	1.90
3437959--3438272	41	7.7	41	71	9	149	30	15	17	36	1.91
3442092--3442146	28	2.0	28	85	0	74	25	9	18	47	1.78
3442233--3442678	85	5.2	85	82	3	452	25	20	19	35	1.96
3442247--3442678	128	3.4	128	84	2	494	25	20	18	35	1.95
3442233--3442678	43	10.5	42	82	2	444	25	20	19	35	1.96
3445391--3445419	14	2.1	14	93	6	51	13	27	24	34	1.93
3445419--3445450	16	2.0	16	93	0	55	46	12	6	34	1.67
3447622--3447718	24	4.0	24	73	0	86	20	15	15	48	1.81
3449145--3449245	38	2.6	38	80	13	107	55	6	14	22	1.63
3449687--3449716	14	2.1	14	93	0	51	40	16	10	33	1.82
3449971--3450055	23	3.9	22	72	15	61	45	0	1	52	1.08
3449970--3450027	28	2.3	23	80	14	62	46	0	0	53	1.00
3450013--3450093	19	4.3	19	72	20	64	48	1	1	49	1.17
3450198--3450241	22	2.0	22	86	0	61	50	2	2	45	1.27
3461831--3461875	20	2.2	20	88	7	65	55	2	8	33	1.43
3470624--3470760	50	2.6	50	84	7	159	37	17	15	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3470543--3470807	55	4.9	54	77	9	231	35	16	15	32	1.91
3480250--3480828	55	10.5	55	86	2	759	36	16	15	31	1.90
3490993--3491041	23	2.1	23	84	3	62	42	22	16	18	1.88
3496899--3496951	22	2.5	21	81	9	63	28	22	15	33	1.94
3498449--3498609	66	2.5	66	87	6	222	27	18	22	31	1.97
3508475--3508517	17	2.5	17	96	0	77	53	4	27	13	1.60
3508856--3509059	111	1.8	111	80	4	241	31	6	27	34	1.82
3509261--3509396	61	2.2	61	96	2	247	34	10	7	47	1.65
3509260--3509349	27	3.0	28	65	20	74	35	11	6	46	1.66
3509266--3509396	21	6.5	19	70	24	67	34	10	7	47	1.67
3509453--3509551	33	3.1	32	82	11	114	42	4	8	45	1.52
3509481--3509522	18	2.3	18	95	0	75	42	2	4	50	1.36
3509481--3509573	20	4.7	20	72	17	77	41	3	7	47	1.48
3509429--3509593	33	5.6	30	73	22	111	43	3	7	46	1.46
3509539--3509595	9	5.9	9	75	15	51	42	1	8	47	1.45
3509487--3509625	31	4.5	31	75	15	92	41	5	7	46	1.53
3509643--3509699	22	2.5	22	82	2	69	42	3	3	50	1.36
3509648--3510266	20	32.0	20	66	23	147	45	5	3	45	1.45
3509853--3509890	17	2.2	17	90	0	58	47	0	2	50	1.15
3509875--3509916	11	3.8	11	75	12	50	42	2	4	50	1.36
3509934--3509976	22	1.9	23	90	4	70	44	4	4	46	1.45
3509957--3510262	2	154.5	2	64	21	103	46	3	3	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3509957--3510261	11	27.5	11	67	20	95	46	3	3	46	1.37
3510842--3511032	90	2.1	90	99	0	373	36	25	10	27	1.90
3513300--3513348	17	3.0	16	79	8	55	61	2	2	34	1.19
3513348--3513390	17	2.5	17	100	0	86	62	0	4	32	1.15
3513314--3513372	27	2.2	27	84	6	75	61	1	1	35	1.16
3513293--3513389	44	2.2	42	80	12	106	60	1	3	35	1.19
3525670--3525735	29	2.3	30	89	5	100	18	24	24	33	1.97
3525670--3525735	9	6.9	9	88	8	78	18	24	24	33	1.97
3525755--3525793	17	2.3	17	100	0	78	17	46	23	12	1.83
3525783--3525813	7	4.4	7	91	0	53	16	25	29	29	1.96
3532982--3533080	10	10.3	9	75	12	72	18	28	25	28	1.98
3532982--3533074	29	3.2	29	82	8	100	18	26	25	29	1.98
3532983--3533080	19	5.1	19	75	16	69	17	28	25	28	1.97
3533083--3533124	12	3.7	12	75	12	52	19	47	21	11	1.81
3533085--3533140	22	2.5	22	100	0	112	17	44	23	14	1.85
3539766--3539797	15	2.1	15	100	0	64	12	28	18	40	1.87
3546039--3546094	10	5.8	9	82	12	58	19	26	25	28	1.99
3546039--3546094	20	2.8	20	82	15	71	19	26	25	28	1.99
3546039--3546087	10	4.9	10	85	14	66	20	26	22	30	1.98
3546103--3546166	22	2.7	23	88	11	85	18	48	21	10	1.79
3546114--3546159	5	8.8	5	81	9	56	19	52	21	6	1.69
3546097--3546173	27	2.8	27	90	4	109	19	46	22	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3547081--3547109	14	2.1	14	100	0	58	0	24	20	55	1.44
3549388--3549598	45	4.7	45	94	0	361	40	8	22	29	1.82
3556958--3557063	35	3.0	35	87	4	151	23	15	9	51	1.72
3556965--3557090	31	3.8	31	73	19	110	25	14	8	51	1.70
3570531--3570689	55	2.9	55	85	2	205	33	11	20	33	1.88
3570911--3571086	67	2.6	67	90	0	271	29	15	23	31	1.95
3571043--3571266	81	2.8	81	88	0	313	32	11	24	32	1.90
3571218--3571529	68	4.6	68	90	0	480	30	14	25	29	1.94
3571472--3571690	81	2.7	82	89	2	325	35	11	21	31	1.90
3571679--3571737	29	2.0	29	87	6	84	47	8	18	25	1.77
3571595--3571801	110	1.9	111	83	8	271	43	8	20	27	1.80
3574377--3574411	17	2.1	17	100	0	70	40	0	5	54	1.24
3574945--3574985	20	2.0	20	90	0	64	53	21	4	19	1.63
3586580--3586669	27	3.3	27	92	0	144	37	14	15	32	1.88
3587323--3587369	18	2.6	18	96	0	85	55	0	31	12	1.38
3587853--3587886	17	1.9	18	94	5	61	55	5	2	35	1.39
3587858--3587893	17	2.1	17	89	0	54	61	5	2	30	1.33
3595983--3596138	78	2.0	78	100	0	312	41	12	17	28	1.87
3597133--3597177	23	2.0	23	91	4	74	51	4	13	31	1.61
3604620--3604651	15	2.1	16	94	5	57	37	21	0	40	1.54
3607105--3607167	30	2.1	29	83	13	76	38	6	22	33	1.79
3612069--3612106	20	1.9	20	89	10	60	60	5	2	31	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3612488--3612534	18	2.5	20	83	16	66	42	4	2	51	1.33
3613017--3613114	30	3.3	30	86	0	133	26	23	16	33	1.95
3617822--3617860	3	12.7	3	94	5	69	66	0	0	33	0.92
3618095--3618182	39	2.3	38	86	3	115	25	12	10	52	1.70
3618111--3618186	39	2.0	38	92	2	125	25	14	10	50	1.75
3621852--3621886	17	2.1	17	88	0	52	51	2	5	40	1.40
3622710--3622761	27	2.0	27	84	3	70	44	23	11	21	1.84
3624701--3624728	9	3.1	9	100	0	56	46	0	0	53	1.00
3627995--3628056	31	2.0	31	100	0	124	25	25	19	29	1.99
3628036--3628171	35	3.9	36	75	7	118	29	18	16	35	1.93

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