genome.fa.s7716.2.7.7.80.10.50.1000.13.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

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

This is table  13  of  17  ( 1966 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)
3295161--3295308	52	2.8	52	91	0	224	39	5	22	32	1.77
3296202--3296285	42	2.0	42	88	0	123	23	19	19	38	1.93
3296508--3296559	17	3.2	16	75	19	54	36	0	3	59	1.16
3297206--3297258	7	7.6	7	95	0	97	58	1	39	0	1.09
3300432--3300685	54	4.7	54	79	3	271	27	15	21	35	1.94
3302664--3302711	2	24.0	2	100	0	96	50	0	0	50	1.00
3312756--3312938	54	3.4	54	82	1	206	28	19	16	34	1.94
3323348--3323740	46	8.6	46	83	3	481	24	21	12	41	1.87
3323740--3324222	81	6.0	81	89	0	698	32	19	13	35	1.90
3329324--3329781	46	10.0	46	84	0	592	22	22	12	42	1.86
3329788--3330122	81	4.1	81	88	0	454	31	18	12	37	1.88
3330090--3330144	22	2.5	22	93	0	92	34	12	5	47	1.65
3330013--3330205	103	1.9	103	91	2	316	31	18	10	39	1.85
3330663--3330707	21	2.3	19	88	7	63	35	22	8	33	1.85
3334534--3334568	18	1.9	18	88	11	54	34	2	11	51	1.53
3336546--3336580	18	1.9	18	88	11	54	34	2	11	51	1.53
3338802--3338915	6	18.3	6	71	19	74	76	4	16	2	1.06
3338808--3338849	10	3.8	12	81	18	63	80	7	11	0	0.88
3338812--3338848	11	3.5	11	85	7	58	81	8	10	0	0.89
3338852--3338910	21	2.7	22	72	15	59	72	3	20	3	1.13
3338804--3338917	33	3.4	34	78	11	103	76	4	16	2	1.06
3346081--3346229	77	1.9	78	81	8	178	42	6	10	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347612--3347657	21	2.2	21	88	0	65	36	13	17	32	1.88
3362746--3362774	12	2.4	12	100	0	58	24	10	6	58	1.55
3363671--3363721	24	2.1	25	96	3	95	60	7	15	15	1.56
3365325--3365392	30	2.3	30	79	5	75	61	11	7	19	1.53
3366999--3367149	75	2.0	75	100	0	302	26	29	18	25	1.98
3369851--3369908	30	1.9	30	96	0	107	32	1	18	46	1.60
3369990--3370068	21	3.8	21	98	0	149	20	35	18	25	1.95
3370131--3370198	21	3.3	21	87	2	102	20	33	16	29	1.94
3373500--3373608	53	2.1	53	96	3	202	33	9	17	39	1.81
3373637--3373696	30	2.0	30	96	0	111	30	5	20	45	1.72
3373853--3373914	17	3.6	17	69	18	56	35	20	19	24	1.96
3373846--3373917	34	2.1	34	97	0	135	36	23	16	23	1.94
3373903--3373978	21	3.7	21	85	3	109	22	32	17	27	1.96
3375544--3375602	18	3.3	18	80	7	75	59	6	23	10	1.54
3375543--3375611	18	3.9	17	77	5	66	59	8	21	10	1.57
3375543--3375611	35	2.0	35	91	5	113	59	8	21	10	1.57
3376664--3376694	2	16.0	2	93	6	55	48	0	0	51	1.00
3376901--3376946	15	3.0	15	87	3	56	45	4	2	47	1.34
3377995--3378022	5	5.6	5	100	0	56	82	0	17	0	0.68
3378891--3378931	18	2.3	18	82	0	55	48	14	12	24	1.78
3379187--3379250	31	2.1	31	93	0	110	21	29	14	34	1.93
3380968--3381044	31	2.5	31	86	0	100	33	14	25	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381465--3381570	2	53.5	2	72	15	51	44	5	5	44	1.51
3381495--3381587	20	4.8	19	74	14	68	40	1	8	49	1.40
3381533--3381587	27	2.1	25	86	6	74	38	0	10	50	1.37
3381537--3381593	27	2.1	27	83	6	71	36	1	12	49	1.51
3383565--3383635	37	1.9	37	94	0	124	35	2	21	40	1.68
3384111--3384160	23	2.2	23	88	0	73	24	22	20	34	1.97
3386854--3387024	83	2.1	83	97	0	324	40	11	15	33	1.82
3394970--3395147	90	2.0	90	90	0	284	45	6	10	37	1.64
3400515--3400570	10	5.7	10	79	12	62	83	8	7	0	0.80
3400516--3400577	19	3.2	19	84	10	81	80	11	8	0	0.90
3406496--3406554	29	2.0	29	100	0	118	32	13	16	37	1.88
3406948--3407021	33	2.2	35	85	4	98	47	6	13	32	1.69
3407031--3407072	17	2.5	17	84	0	57	42	11	14	30	1.81
3408148--3408187	21	1.9	21	90	10	64	20	27	5	47	1.70
3409737--3409792	27	2.1	27	100	0	112	46	21	7	25	1.76
3410597--3410648	18	2.9	18	88	2	79	44	11	5	38	1.65
3410704--3410745	17	2.4	18	80	7	52	42	9	14	33	1.78
3411656--3411681	13	2.0	13	100	0	52	38	23	0	38	1.55
3411879--3411952	3	24.7	3	77	10	71	66	2	1	29	1.14
3413333--3413594	26	11.0	26	69	19	187	24	20	11	44	1.84
3413333--3413594	46	5.6	46	86	4	337	24	20	11	44	1.84
3413411--3413581	20	7.7	20	68	22	92	23	22	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414233--3414339	45	2.4	45	90	0	160	24	22	6	46	1.75
3415074--3415674	57	10.5	57	89	0	817	32	18	11	37	1.87
3415599--3415759	84	1.9	85	89	3	254	31	17	10	40	1.84
3415683--3415816	57	2.4	57	92	0	214	33	17	10	38	1.84
3415542--3415833	141	2.1	142	92	1	489	31	18	10	39	1.85
3423735--3423838	46	2.3	45	80	5	102	24	24	10	41	1.86
3423785--3423973	20	8.6	20	67	19	83	23	22	8	44	1.80
3423759--3423955	46	4.3	46	85	2	243	24	21	9	44	1.81
3424064--3424115	2	26.5	2	96	3	97	51	0	0	48	1.00
3424506--3424555	20	2.5	20	96	3	93	18	24	18	40	1.91
3427781--3427824	11	3.9	11	79	5	52	61	0	4	34	1.16
3428677--3428753	10	8.0	10	77	21	67	1	19	0	79	0.81
3428680--3428781	18	5.9	17	72	21	72	3	17	0	78	0.90
3428686--3428757	27	2.6	28	87	10	105	1	18	0	80	0.78
3428695--3428751	16	3.5	16	76	17	55	1	15	0	82	0.75
3428677--3428777	48	2.0	52	83	12	133	3	17	0	78	0.91
3428682--3428764	27	3.0	28	81	8	100	2	16	0	80	0.81
3428677--3428783	13	8.5	13	76	14	66	3	18	0	77	0.91
3432652--3432694	17	2.5	17	78	14	52	79	0	6	13	0.93
3438112--3438185	37	2.0	37	91	0	121	40	14	16	28	1.88
3438608--3438640	9	3.7	9	100	0	66	45	0	0	54	0.99
3440301--3440353	3	17.7	3	82	7	63	66	0	1	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3442756--3442827	19	3.6	19	86	5	90	34	23	11	30	1.90
3442716--3442827	20	5.6	20	77	8	93	33	26	11	28	1.91
3442984--3443021	16	2.5	15	84	12	51	28	5	0	65	1.14
3443749--3443816	24	2.8	24	86	0	91	25	17	19	38	1.93
3443970--3444010	21	2.0	21	90	4	66	53	17	21	7	1.67
3446053--3446093	12	3.4	12	86	0	55	56	24	2	17	1.53
3446052--3446086	6	5.8	6	86	0	52	60	20	2	17	1.49
3446305--3446385	42	1.9	43	89	2	128	24	16	22	37	1.93
3446381--3446424	20	2.2	20	87	0	61	36	20	22	20	1.95
3446491--3446542	20	2.6	20	78	0	59	26	17	17	38	1.92
3446608--3446762	64	2.4	64	95	1	274	50	16	1	30	1.56
3448130--3448248	42	2.8	42	85	2	159	23	18	36	21	1.95
3448130--3448248	21	5.7	21	78	6	116	23	18	36	21	1.95
3448519--3448560	21	2.0	21	85	0	57	33	28	16	21	1.95
3450773--3450842	22	3.3	22	76	4	72	27	8	38	25	1.85
3450975--3451013	20	2.0	20	94	0	69	12	12	25	48	1.77
3451007--3451114	20	5.3	20	82	2	135	24	18	21	36	1.95
3451009--3451114	41	2.6	40	84	1	131	24	18	20	35	1.95
3456721--3456804	38	2.2	39	84	4	107	19	19	35	26	1.95
3457081--3457137	30	1.9	30	82	7	71	40	14	17	28	1.88
3457244--3457385	36	3.9	35	83	8	153	38	12	17	30	1.87
3457238--3457385	37	4.0	38	85	7	173	38	12	17	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3458355--3458415	22	2.8	22	87	7	81	27	26	19	26	1.99
3459074--3459104	2	15.5	2	93	0	53	48	0	0	51	1.00
3461673--3461717	13	3.4	14	77	20	51	4	13	6	75	1.15
3461684--3461735	23	2.3	22	80	6	59	1	13	7	76	1.07
3461697--3461748	18	3.0	17	81	10	61	1	15	7	75	1.12
3461682--3461757	26	3.1	26	74	16	81	2	14	7	75	1.14
3465348--3465553	54	3.8	54	86	0	259	34	17	15	31	1.92
3465992--3466061	19	3.6	19	82	1	77	22	34	12	30	1.92
3474097--3474415	54	5.9	54	90	1	453	32	17	18	30	1.95
3474121--3474415	162	1.8	162	93	0	518	32	18	19	29	1.96

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