genome.fa.s8719.2.7.7.80.10.50.1000.13.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  13  of  18  ( 2140 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)
3426318--3426904	32	18.4	32	66	24	146	35	0	12	51	1.43
3426385--3427013	54	11.6	54	74	17	432	35	0	12	52	1.42
3426416--3426458	22	2.0	22	95	0	77	34	2	13	48	1.56
3426490--3426736	31	7.8	31	72	22	176	35	0	12	51	1.41
3426531--3426582	14	3.5	14	70	14	50	38	0	5	55	1.24
3426318--3427013	244	2.8	244	84	8	855	35	0	12	52	1.41
3426553--3426874	138	2.4	135	90	5	496	35	0	12	51	1.42
3426660--3426702	22	2.0	22	100	0	86	34	0	13	51	1.42
3426660--3426756	21	5.1	20	73	23	93	35	0	13	51	1.41
3426798--3426840	22	2.0	22	90	0	68	37	2	13	46	1.57
3426686--3427013	86	3.9	85	88	8	505	35	0	11	53	1.40
3426843--3426922	18	4.4	18	65	22	51	35	0	11	53	1.37
3426961--3427003	22	2.0	22	95	0	77	34	0	11	53	1.37
3427028--3427086	31	1.9	31	82	6	75	40	10	6	42	1.65
3427808--3428195	194	2.0	194	100	0	776	31	5	18	44	1.73
3430099--3430425	131	2.5	133	84	5	428	24	17	19	37	1.94
3430471--3430690	110	2.0	110	94	0	386	32	15	18	33	1.92
3430960--3431327	181	2.0	187	96	3	694	20	18	19	41	1.91
3434667--3434716	21	2.5	20	80	3	55	38	20	18	24	1.93
3436070--3436102	17	1.9	17	88	11	50	6	9	6	78	1.08
3436409--3436435	5	5.4	5	100	0	54	22	0	0	77	0.76
3453247--3453342	48	2.0	48	95	0	174	19	15	19	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3453478--3453530	13	4.0	13	75	4	52	30	16	16	35	1.92
3454267--3455213	229	4.1	229	98	0	1801	45	7	8	38	1.63
3455262--3455308	20	2.4	19	89	10	76	55	10	17	17	1.69
3457700--3457743	21	2.1	21	91	0	70	40	11	31	15	1.83
3457777--3457842	33	2.0	33	90	0	105	28	0	48	22	1.51
3459634--3459682	19	2.6	19	93	0	80	30	2	10	57	1.43
3459801--3461167	198	6.9	199	97	0	2492	36	15	17	31	1.91
3459801--3461167	397	3.4	397	97	0	2488	36	15	17	31	1.91
3462630--3462733	6	17.3	6	77	4	75	38	9	33	18	1.83
3462645--3462737	3	31.0	3	71	4	53	37	8	33	20	1.83
3462633--3462733	12	8.4	12	83	4	114	37	9	33	18	1.84
3464232--3464724	183	2.7	182	95	1	878	34	15	17	33	1.91
3467193--3467257	25	2.6	25	80	0	85	35	9	13	41	1.77
3467570--3467642	23	3.2	23	88	0	101	34	4	21	39	1.73
3468061--3468111	24	2.1	24	85	3	66	35	1	13	49	1.54
3468364--3468450	39	2.2	39	91	0	147	48	19	13	18	1.81
3468872--3468944	23	3.2	23	88	0	101	34	4	21	39	1.73
3469302--3469374	23	3.2	23	88	0	101	34	4	21	39	1.73
3468669--3469723	430	2.5	430	98	0	2049	41	7	11	38	1.70
3490104--3490141	20	1.9	20	100	0	76	39	26	18	15	1.91
3490145--3490201	19	3.1	19	75	12	64	38	19	22	19	1.93
3490198--3490242	20	2.2	20	92	0	72	20	17	31	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3494262--3494311	2	24.5	2	95	4	91	50	2	0	48	1.12
3496774--3496812	20	2.0	20	89	0	60	35	25	20	17	1.95
3496882--3496920	20	2.0	20	94	0	69	20	17	28	33	1.96
3500990--3501028	13	2.7	14	88	11	53	51	10	0	38	1.36
3500980--3501032	14	3.5	15	85	15	65	50	9	0	39	1.35
3501131--3501168	17	2.2	17	95	0	67	44	7	10	36	1.68
3526468--3526783	156	2.0	157	99	0	625	33	20	18	28	1.96
3529964--3530042	35	2.3	35	86	0	104	29	37	2	30	1.71
3539936--3540043	18	5.9	18	76	11	103	35	3	3	57	1.34
3540684--3540715	10	3.0	11	90	9	57	46	9	0	43	1.35
3540719--3540766	3	16.0	3	100	0	96	66	0	0	33	0.92
3543062--3543090	13	2.1	14	93	6	51	34	3	0	62	1.12
3566499--3566539	17	2.4	17	95	0	73	41	9	4	43	1.59
3566539--3566588	13	3.7	14	86	2	68	34	20	26	20	1.96
3582400--3582657	134	1.9	134	84	3	340	29	19	20	30	1.97
3582400--3582737	133	2.5	133	82	5	369	28	19	20	31	1.97
3585639--3585694	23	2.5	23	88	2	78	35	26	10	26	1.89
3585790--3585831	20	2.1	20	86	0	57	61	16	4	16	1.50
3588549--3588616	6	11.3	6	82	0	82	10	2	38	48	1.52
3588553--3588616	12	5.3	12	90	0	101	9	3	40	46	1.52
3588552--3588622	18	3.9	18	86	0	97	11	2	40	45	1.55
3588790--3588977	103	1.8	103	82	4	245	35	6	27	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3588779--3589013	103	2.3	103	79	5	242	35	6	27	29	1.83
3589396--3589477	26	2.9	27	81	16	87	46	2	6	45	1.41
3589454--3589513	18	3.3	18	83	0	75	40	8	3	48	1.50
3589498--3589536	13	3.0	13	84	0	51	35	5	5	53	1.45
3589523--3589566	18	2.3	20	84	7	56	45	4	6	43	1.51
3589647--3589681	15	2.4	15	90	4	54	51	2	5	40	1.40
3589677--3589747	27	2.7	27	91	2	117	47	7	5	39	1.54
3589738--3589776	13	2.9	13	80	3	51	41	2	5	51	1.38
3589784--3589851	22	3.2	22	82	12	79	42	10	4	42	1.58
3589784--3589853	20	3.4	20	77	14	79	41	10	5	42	1.62
3589895--3589944	24	2.1	24	85	7	66	44	12	4	40	1.60
3590172--3590224	2	26.5	2	96	0	97	50	1	0	47	1.12
3590536--3590659	2	63.0	2	69	20	75	44	2	4	48	1.37
3590518--3590581	20	3.2	20	88	0	92	40	4	9	45	1.57
3590430--3590662	20	11.8	20	70	22	90	43	4	6	45	1.48
3591879--3592288	204	2.0	205	99	0	813	46	8	2	41	1.49
3592273--3592302	2	15.0	2	100	0	60	50	0	0	50	1.00
3593848--3593884	17	2.2	17	90	0	56	18	40	18	21	1.91
3602730--3602803	22	3.4	22	71	17	64	71	5	2	20	1.18
3602848--3602911	21	3.1	21	88	2	94	56	4	18	20	1.59
3602898--3602928	10	3.1	10	100	0	62	67	0	0	32	0.91
3607193--3607273	21	3.8	22	77	9	78	18	23	33	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3607214--3607275	20	2.9	21	85	7	72	17	24	33	24	1.96
3611082--3611121	21	1.9	21	85	10	55	35	10	2	52	1.48
3613452--3614477	514	2.0	510	92	2	1707	19	16	15	48	1.81
3617498--3617527	15	1.9	16	93	6	53	53	0	0	46	1.00
3629312--3629381	12	5.8	12	76	6	61	15	15	17	51	1.77
3629312--3629383	24	3.0	24	83	4	101	16	15	16	51	1.77
3629275--3629383	48	2.3	48	84	6	132	19	15	15	49	1.80
3629545--3629577	2	16.5	2	100	0	66	48	0	0	51	1.00
3634463--3634532	12	5.8	12	73	6	61	17	12	18	51	1.76
3634426--3634530	48	2.2	48	83	6	124	20	16	15	48	1.81
3634464--3634536	24	3.0	24	82	7	103	19	10	17	52	1.74
3634443--3634536	48	2.0	48	89	4	145	20	13	15	50	1.78
3639560--3639631	24	3.0	23	81	4	81	20	13	15	50	1.78
3639791--3639841	2	25.5	2	100	0	102	49	0	0	50	1.00
3642965--3644018	136	7.7	135	81	7	1126	25	22	16	34	1.95
3642965--3644039	275	3.9	276	92	1	1664	25	22	17	34	1.95
3644118--3644169	22	2.4	22	93	0	86	15	30	13	40	1.86
3644936--3645140	113	1.8	110	82	8	261	39	18	10	31	1.85
3645194--3645256	20	3.0	22	74	9	67	36	23	14	25	1.93
3645179--3645282	42	2.5	42	82	4	131	32	25	18	24	1.97
3645323--3645672	109	3.2	109	82	2	436	42	16	8	32	1.79
3645323--3645683	54	6.7	54	81	2	375	42	16	9	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3647702--3647762	10	6.2	10	83	9	81	1	18	1	78	0.91
3647694--3647835	27	4.9	28	74	16	94	4	18	3	73	1.13
3647706--3647762	19	3.1	19	82	12	82	1	17	1	78	0.91
3647694--3647782	9	9.7	9	78	17	85	3	17	2	76	1.03
3647694--3647798	18	5.9	16	73	18	68	2	18	1	77	0.99
3655922--3655981	20	3.0	20	80	9	70	56	16	10	16	1.66
3656518--3656561	22	2.0	23	86	4	63	63	2	6	27	1.31
3658403--3658523	32	3.8	32	88	0	152	37	5	39	17	1.74
3658418--3658559	64	2.2	65	82	1	160	41	6	35	16	1.73
3658642--3658817	82	2.1	83	88	3	257	32	2	39	25	1.71

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