genome.fa.s9585.2.7.7.80.10.50.1000.16.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  16  of  35  ( 4106 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)
3244719--3244781	6	10.5	6	92	0	72	25	1	41	31	1.65
3244719--3244781	12	5.2	12	90	0	81	25	1	41	31	1.65
3244719--3244781	18	3.5	18	86	0	90	25	1	41	31	1.65
3244895--3244920	13	2.0	13	100	0	52	23	0	0	76	0.78
3244981--3245040	25	2.4	24	78	13	68	23	3	6	66	1.30
3248454--3248483	10	3.0	10	90	0	51	30	16	0	53	1.44
3252361--3252395	6	5.8	6	96	0	61	20	0	45	34	1.51
3252599--3252658	25	2.4	24	78	13	68	23	3	6	66	1.30
3254053--3254217	66	2.5	63	83	10	183	32	24	16	26	1.96
3254185--3254235	19	2.7	19	96	0	93	33	33	15	17	1.92
3254118--3254302	83	2.2	83	79	8	196	31	25	15	27	1.96
3260054--3260135	21	3.6	24	77	14	84	25	24	23	26	2.00
3260055--3260136	23	3.6	23	80	8	96	25	24	23	26	2.00
3260055--3260160	44	2.4	43	82	3	122	25	25	22	26	2.00
3260565--3260589	13	1.9	13	100	0	50	40	8	0	52	1.31
3261388--3261432	23	2.0	23	86	0	63	26	26	26	20	1.99
3262616--3262657	19	2.2	19	79	12	50	59	0	35	4	1.19
3268921--3268963	21	2.0	21	86	0	59	16	25	27	30	1.97
3269424--3269465	19	2.2	19	79	12	50	59	0	35	4	1.19
3270551--3270594	21	2.1	21	86	0	61	9	36	15	38	1.80
3271604--3271768	66	2.5	63	84	9	199	33	23	16	27	1.95
3272887--3272951	25	2.6	25	75	22	66	64	9	4	21	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3272951--3272993	19	2.3	18	81	14	52	69	0	4	25	1.07
3273146--3273187	3	14.0	3	84	0	57	33	35	0	30	1.58
3277085--3277109	9	2.8	9	100	0	50	24	32	0	44	1.54
3277406--3277441	18	2.0	18	100	0	72	27	33	22	16	1.95
3277509--3277568	24	2.4	25	81	10	61	26	20	3	50	1.64
3277805--3277831	2	13.5	2	100	0	54	48	0	0	51	1.00
3293972--3294039	34	2.0	34	88	0	100	25	7	23	44	1.79
3294602--3294685	42	2.0	42	100	0	168	19	19	21	40	1.92
3301817--3301878	2	33.0	2	75	12	60	51	0	0	48	1.00
3301876--3301941	12	5.6	12	81	3	80	24	46	15	13	1.81
3301876--3301941	23	2.8	24	81	4	80	24	46	15	13	1.81
3303321--3303389	23	3.0	23	89	0	102	26	24	28	20	1.99
3304040--3304091	19	2.7	19	90	0	77	23	28	19	28	1.98
3310195--3310263	23	3.0	23	80	0	84	27	24	26	21	1.99
3310870--3310972	44	2.3	44	86	3	136	28	17	19	34	1.94
3311790--3311869	32	2.5	32	91	0	133	21	23	25	30	1.99
3314130--3314202	24	3.0	24	79	0	83	21	10	17	49	1.78
3314109--3314202	48	2.0	48	82	4	118	22	13	15	47	1.81
3318723--3318785	12	5.2	12	71	7	56	15	14	17	52	1.75
3318719--3318785	24	2.8	24	86	0	98	17	13	17	50	1.77
3320379--3320459	26	3.3	24	71	25	71	40	7	2	49	1.44
3320382--3320474	47	2.0	48	83	10	120	41	10	2	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3326532--3326574	16	2.7	15	79	10	50	39	4	0	55	1.20
3327855--3327888	15	2.2	16	90	10	54	55	0	5	38	1.24
3329516--3329546	14	2.2	14	94	0	53	45	16	16	22	1.85
3329602--3329644	21	2.0	21	86	4	59	25	32	23	18	1.97
3330236--3330363	31	4.1	31	74	11	118	33	20	17	28	1.95
3330239--3330356	63	1.9	62	84	8	159	32	20	16	30	1.95
3330897--3330927	16	1.9	16	93	0	53	35	22	0	41	1.54
3332482--3332509	3	9.3	3	100	0	56	32	0	0	67	0.91
3332683--3332724	19	2.2	19	100	0	84	38	16	26	19	1.92
3334683--3334791	29	3.6	31	78	10	102	53	7	18	21	1.68
3336273--3336311	3	12.7	3	94	5	69	66	0	0	33	0.92
3336691--3337028	125	2.7	126	86	1	462	26	19	23	29	1.98
3337264--3337386	32	3.8	32	92	1	174	30	21	16	31	1.95
3338391--3338456	22	3.0	22	80	2	62	3	21	7	68	1.29
3338430--3338470	13	3.2	13	80	13	57	0	24	4	70	1.06
3340080--3340235	64	2.4	65	82	3	190	28	17	23	30	1.97
3340627--3340666	18	2.2	18	86	8	55	30	27	5	37	1.78
3342182--3342221	21	1.9	21	94	0	71	35	5	40	20	1.74
3346213--3346252	21	1.9	21	89	0	62	30	10	7	52	1.62
3348171--3348357	64	2.9	65	80	4	191	29	18	22	29	1.97
3349756--3349981	63	3.6	63	87	1	328	41	15	19	23	1.90
3349849--3349952	36	3.1	36	59	27	84	40	14	18	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3349963--3350001	20	2.0	20	94	0	69	43	15	20	20	1.88
3351818--3351879	32	1.9	32	90	6	99	59	9	12	17	1.59
3353682--3353787	29	3.6	29	76	12	101	53	6	17	21	1.66
3355194--3355242	3	15.7	3	91	8	80	63	0	0	36	0.95
3355193--3355242	19	2.6	19	93	6	84	62	0	0	38	0.96
3355194--3355242	22	2.2	22	92	7	82	63	0	0	36	0.95
3360606--3360648	16	2.7	15	79	10	50	39	4	0	55	1.20
3361915--3361947	14	2.3	15	89	5	50	57	0	6	36	1.23
3363560--3363590	14	2.2	14	94	0	53	45	16	16	22	1.85
3364222--3364305	30	2.8	30	83	0	96	33	28	20	17	1.95
3364280--3364407	31	4.1	31	77	7	125	33	21	16	28	1.95
3364281--3364400	63	1.9	63	86	5	172	32	22	15	29	1.95
3364938--3364968	16	1.9	16	100	0	62	35	19	0	45	1.51
3366093--3366144	19	2.7	19	93	3	86	30	32	17	19	1.95
3366524--3366554	3	10.3	3	100	0	62	32	0	0	67	0.91
3368708--3368793	29	2.9	31	79	10	99	54	6	17	20	1.66
3370303--3370332	3	9.7	3	92	7	51	36	0	0	63	0.95
3370720--3371058	126	2.7	126	88	0	489	25	20	24	30	1.99
3372058--3372119	32	1.9	32	90	6	99	59	9	12	17	1.59
3372526--3372576	20	2.5	20	93	0	84	27	13	29	29	1.94
3373000--3373084	18	4.7	18	73	0	80	35	22	4	37	1.75
3373000--3373084	36	2.4	36	95	0	152	35	22	4	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373320--3373372	12	4.5	12	80	4	63	28	20	13	37	1.90
3373468--3373574	21	5.5	20	67	31	72	23	25	27	24	2.00
3373446--3373620	38	4.6	38	94	0	296	23	26	25	24	2.00
3373489--3373553	17	3.6	17	74	22	69	23	30	26	20	1.98
3373771--3373868	33	3.0	33	98	0	187	27	15	14	42	1.85
3374758--3374811	27	2.0	27	88	0	81	46	20	7	25	1.77
3374767--3374813	18	2.6	18	83	12	69	44	19	8	27	1.79
3375013--3375084	30	2.4	30	81	9	92	33	26	6	33	1.83
3376100--3376150	17	2.9	17	75	13	50	45	5	9	39	1.62
3377481--3377520	20	2.0	21	85	5	55	57	12	0	30	1.36
3381193--3381257	24	2.7	24	87	0	94	21	12	16	49	1.79
3383514--3383553	17	2.4	17	86	0	53	15	25	30	30	1.95
3383522--3383554	17	1.9	17	93	0	57	12	24	30	33	1.91
3385829--3385899	24	3.0	24	76	0	79	21	15	15	47	1.82
3385826--3385915	24	3.8	24	77	0	72	21	12	15	51	1.76
3387857--3387905	3	15.7	3	87	8	62	59	0	0	40	0.98
3387859--3387905	22	2.3	19	86	13	67	59	0	0	40	0.97
3387856--3387907	25	2.1	25	89	7	79	55	0	0	44	0.99
3390337--3390372	17	2.1	17	100	0	72	33	27	16	22	1.95
3394684--3394726	16	2.7	15	79	10	50	37	6	0	55	1.27
3395568--3395620	26	2.0	25	82	7	61	54	0	5	39	1.24
3395579--3395614	14	2.4	16	90	9	58	55	0	5	38	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3397570--3397614	23	2.0	23	90	0	72	24	26	26	22	2.00
3397582--3398045	149	3.1	149	97	0	885	33	21	17	27	1.96
3399548--3399592	21	2.1	21	87	0	63	15	24	28	31	1.96
3400472--3400523	19	2.7	19	93	3	86	30	32	17	19	1.95
3400902--3400941	3	13.3	3	100	0	80	32	0	0	67	0.91
3401115--3401156	19	2.2	19	100	0	84	38	16	26	19	1.92
3402981--3403021	20	2.1	19	86	4	55	60	12	0	26	1.31
3403119--3403223	29	3.5	30	79	10	117	51	6	20	21	1.70
3404699--3404741	16	2.7	16	81	0	59	51	0	2	46	1.13
3405136--3405474	126	2.7	126	88	0	480	26	19	23	30	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35