genome.fa.s89.2.7.7.80.10.50.1000.22.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  22  of  27  ( 3236 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)
3686133--3686172	19	2.0	20	86	13	57	47	0	2	50	1.14
3686599--3686691	47	2.0	47	97	0	177	32	9	13	44	1.77
3687900--3687941	23	1.9	23	85	9	61	38	4	7	50	1.51
3688810--3688868	24	2.6	22	75	21	59	57	0	1	40	1.09
3696204--3696252	20	2.3	22	86	10	66	44	0	0	55	0.99
3700431--3700464	17	2.0	17	88	0	50	2	5	11	79	1.02
3706321--3706364	11	4.1	11	85	2	63	43	0	0	56	0.99
3706317--3706360	22	2.0	22	95	0	79	38	0	0	61	0.96
3706369--3706409	20	2.0	21	85	4	57	41	2	4	51	1.36
3706972--3707052	28	2.8	28	83	9	83	54	3	2	39	1.32
3708873--3709551	78	8.7	78	82	0	676	23	16	34	25	1.95
3708952--3709007	26	2.2	26	83	0	67	23	17	39	19	1.92
3709283--3709398	26	4.5	25	68	14	56	25	17	33	24	1.96
3709411--3709540	26	5.0	26	69	14	79	21	16	36	25	1.93
3708886--3709551	313	2.1	312	85	3	890	23	16	33	25	1.96
3711670--3711733	29	2.2	30	83	8	78	46	1	0	51	1.10
3711683--3711732	14	3.5	14	79	15	50	46	2	0	52	1.12
3711827--3711875	15	3.5	14	76	18	57	14	0	6	79	0.91
3711821--3711865	20	2.4	17	85	14	54	15	0	4	80	0.87
3711822--3711875	7	7.9	7	78	10	58	14	0	5	79	0.90
3711827--3711883	17	3.3	18	74	16	57	15	0	5	78	0.91
3712190--3712271	42	1.9	43	83	11	107	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3712215--3712270	23	2.3	25	87	9	80	58	0	0	41	0.98
3712190--3712271	43	1.9	42	83	11	105	57	0	0	42	0.98
3712637--3712694	8	6.9	8	75	16	55	0	17	0	82	0.66
3712649--3712697	26	1.9	25	91	4	80	0	18	0	81	0.69
3712637--3712693	30	1.9	29	96	3	105	0	17	0	82	0.67
3712809--3712851	18	2.3	19	88	4	61	62	4	2	30	1.28
3713149--3713214	22	3.0	21	73	10	60	3	18	1	77	0.98
3715096--3715143	15	3.5	13	76	17	53	41	0	2	56	1.11
3715088--3715192	30	3.6	28	80	8	104	47	4	1	45	1.34
3715935--3715976	20	2.1	20	95	0	75	14	0	33	52	1.42
3715967--3715993	2	13.5	2	100	0	54	0	0	48	51	1.00
3716422--3716447	12	2.2	12	100	0	52	7	15	30	46	1.74
3717419--3717454	2	18.0	2	94	0	63	47	0	2	50	1.15
3722431--3722861	228	1.9	233	85	3	604	41	9	13	35	1.77
3722958--3723000	22	2.0	22	86	13	63	55	0	0	44	0.99
3724397--3724446	16	3.0	17	77	16	59	40	2	2	56	1.22
3724393--3724472	16	5.1	16	71	22	55	42	1	1	55	1.16
3724434--3724488	20	2.8	20	79	17	62	47	0	0	52	1.00
3731301--3731361	27	2.3	27	91	0	95	22	4	49	22	1.69
3736362--3736401	15	2.5	16	88	8	55	57	0	2	40	1.12
3736362--3736404	16	2.6	17	85	10	63	55	0	2	41	1.12
3736851--3736882	13	2.5	13	89	0	55	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3737592--3737629	11	3.5	11	82	7	51	55	2	7	34	1.43
3737635--3737729	30	3.2	28	71	15	68	64	4	0	31	1.13
3737618--3737730	29	3.6	30	72	18	79	61	4	0	32	1.21
3737734--3737788	4	13.8	4	77	11	51	0	18	0	81	0.68
3737730--3737791	17	3.5	17	80	10	79	0	17	0	82	0.67
3737732--3737788	23	2.6	23	84	15	84	0	17	0	82	0.67
3738137--3738182	24	1.9	24	86	0	65	41	4	52	2	1.33
3740702--3740731	3	10.0	3	100	0	60	33	0	0	66	0.92
3741082--3741137	28	2.0	28	96	0	103	37	10	5	46	1.62
3748840--3749088	124	2.0	124	100	0	498	27	13	20	38	1.91
3757749--3757809	26	2.4	25	83	10	70	37	0	0	62	0.96
3757820--3757903	42	2.0	41	83	2	105	57	2	0	40	1.12
3758184--3758216	16	2.0	17	88	5	50	45	24	3	27	1.68
3763751--3763796	16	2.8	17	80	6	51	47	4	0	47	1.21
3765350--3765382	15	2.3	15	94	5	59	39	0	0	60	0.97
3766341--3766372	13	2.4	14	94	5	57	40	0	0	59	0.97
3766320--3766388	30	2.3	30	80	7	79	42	0	1	56	1.08
3767941--3768005	32	2.0	32	93	0	112	46	0	0	53	1.00
3767945--3768008	17	3.8	17	72	17	53	43	0	0	56	0.99
3767957--3768047	18	5.3	18	70	18	68	36	0	0	63	0.94
3767996--3768044	11	4.2	11	76	23	55	26	0	0	73	0.83
3767985--3768051	18	3.7	18	77	15	75	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767964--3768053	17	5.3	17	71	18	71	33	0	0	66	0.92
3767979--3768047	28	2.6	25	82	11	77	31	0	0	68	0.90
3768858--3768898	21	2.0	21	90	4	66	56	0	0	43	0.99
3768862--3768903	19	2.2	19	87	8	59	52	0	0	47	1.00
3770567--3770627	22	2.8	20	76	16	59	40	0	1	57	1.08
3771088--3771128	18	2.3	18	86	0	55	29	4	0	65	1.13
3773991--3774042	26	2.0	26	100	0	104	38	7	23	30	1.83
3775033--3775194	82	2.0	82	98	0	315	24	19	12	43	1.85
3775577--3775712	67	2.0	67	97	0	254	42	11	20	25	1.85
3777620--3777648	15	1.9	15	100	0	58	41	3	20	34	1.69
3779591--3779982	198	2.0	198	86	2	554	27	23	12	36	1.91
3781297--3781363	14	4.4	14	72	27	57	41	0	2	55	1.15
3781360--3781399	21	2.0	20	90	9	64	67	0	0	32	0.91
3782453--3782486	8	4.4	8	88	3	52	41	2	8	47	1.50
3785953--3785987	18	2.0	17	88	5	52	42	0	11	45	1.40
3786878--3786916	21	1.9	21	89	5	62	12	12	7	66	1.43
3787903--3787930	10	2.8	10	100	0	56	42	32	7	17	1.77
3788458--3788488	2	15.5	2	100	0	62	0	0	51	48	1.00
3791801--3791868	2	35.0	2	82	11	70	50	4	1	44	1.31
3794748--3794780	16	2.2	15	89	10	50	27	3	0	69	1.03
3799811--3799921	22	5.1	21	71	19	77	52	3	0	43	1.25
3799795--3799852	23	2.5	24	78	16	59	55	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3799868--3799921	23	2.4	22	87	3	72	50	7	0	42	1.30
3811419--3811456	18	2.1	18	90	0	58	55	0	0	44	0.99
3812014--3812060	18	2.6	18	83	6	60	48	0	0	51	1.00
3812085--3812139	18	2.8	20	81	16	69	25	0	0	74	0.82
3812085--3812136	23	2.2	25	80	13	65	25	0	0	75	0.81
3812092--3812139	17	2.8	17	84	6	62	27	0	0	72	0.84
3812806--3812831	11	2.4	11	100	0	52	53	0	0	46	1.00
3819561--3819596	18	2.0	18	100	0	72	38	16	22	22	1.93
3820713--3820760	23	2.1	22	84	3	60	35	2	0	62	1.07
3821458--3821487	2	15.0	2	100	0	60	50	0	0	50	1.00
3821792--3821846	27	2.0	27	82	6	67	56	0	0	43	0.99
3823250--3823283	14	2.6	13	90	9	52	55	0	0	44	0.99
3824650--3824681	7	4.6	7	96	0	55	75	3	0	21	0.95
3832269--3832326	27	2.1	28	87	9	84	36	3	0	60	1.14
3833561--3833600	2	20.0	2	100	0	80	0	50	0	50	1.00
3835222--3835253	2	16.0	2	93	0	55	50	3	0	46	1.17
3837304--3837338	12	2.9	12	91	0	52	42	2	48	5	1.41
3840167--3840322	31	5.0	31	90	0	213	32	21	17	28	1.96
3864659--3864692	7	4.7	7	85	7	50	35	0	0	64	0.94
3864659--3864693	15	2.4	15	90	4	54	37	0	0	62	0.95
3864691--3864766	23	3.1	24	76	19	77	43	2	0	53	1.14
3867084--3867113	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3868332--3868387	30	2.0	27	89	10	85	33	1	1	62	1.16
3879389--3879431	21	2.1	20	86	4	59	62	0	0	37	0.95
3879384--3879434	15	3.3	15	73	13	50	54	0	0	45	0.99
3879427--3879466	11	3.8	10	87	12	62	35	0	0	65	0.93
3879381--3879454	30	2.5	29	76	8	78	51	0	0	48	1.00
3879570--3879642	32	2.2	32	82	2	83	54	9	1	34	1.41
3882300--3882327	3	9.3	3	100	0	56	64	0	0	35	0.94
3882826--3882907	30	2.8	30	83	9	98	34	0	3	62	1.13
3882855--3882919	30	2.2	30	88	0	94	36	0	0	63	0.95
3882915--3882973	22	2.7	22	80	15	68	49	0	1	49	1.11

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