genome.fa.s3032.2.7.7.80.10.50.1000.12.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: scaffold198
Parameters: 2 7 7 80 10 50 1000
Length:  3915534

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1467 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)
3490515--3490650	39	3.5	40	81	5	161	44	22	2	29	1.67
3491217--3491315	47	2.1	47	98	0	189	46	16	12	25	1.81
3504261--3504298	20	1.9	20	94	0	67	34	26	13	26	1.93
3505544--3505575	15	2.2	15	94	5	57	65	0	3	31	1.08
3514609--3514750	70	2.0	71	93	1	241	44	9	7	38	1.65
3517688--3517760	25	3.0	25	92	6	114	36	19	19	24	1.94
3528394--3528685	50	5.7	50	84	3	336	26	22	28	22	1.99
3534905--3534935	16	1.9	16	100	0	62	38	9	6	45	1.63
3535287--3535379	46	2.1	43	84	9	116	23	19	25	31	1.98
3535509--3535540	16	2.0	16	93	0	55	59	0	15	25	1.36
3537717--3537881	82	2.0	82	97	0	312	40	9	19	30	1.84
3539362--3539395	16	2.1	16	88	0	50	35	20	2	41	1.68
3557387--3557481	42	2.2	42	83	5	111	28	25	20	26	1.99
3559903--3560025	42	2.9	42	79	3	131	29	15	24	30	1.96
3567153--3567249	40	2.4	40	98	0	185	37	16	23	22	1.94
3570272--3570298	11	2.5	11	100	0	54	70	7	7	14	1.32
3573410--3573461	21	2.4	21	84	12	61	28	7	17	46	1.75
3576070--3576129	29	2.1	29	96	3	113	50	10	28	11	1.71
3579842--3579899	25	2.3	25	90	0	89	32	24	20	22	1.98
3579855--3579927	25	2.9	25	87	4	94	32	19	24	23	1.97
3579866--3579945	25	3.2	25	87	3	99	28	17	28	25	1.97
3587617--3587728	25	4.5	25	79	0	116	32	23	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3587695--3587743	25	2.0	25	91	0	80	30	14	28	26	1.95
3589311--3589390	42	1.9	42	84	5	108	23	27	23	25	2.00
3594405--3594461	25	2.3	25	90	0	87	28	19	21	31	1.97
3604822--3605027	101	2.0	102	97	2	389	38	16	20	25	1.92
3605876--3605986	27	3.9	27	75	13	105	33	28	24	13	1.93
3605852--3605983	60	2.2	60	90	0	201	34	28	22	14	1.93
3605852--3605955	33	3.3	33	72	15	112	36	26	22	14	1.92
3605905--3606127	103	2.2	103	95	1	396	34	26	19	19	1.96
3609078--3609180	42	2.5	42	91	0	161	28	21	25	25	1.99
3615188--3615220	13	2.3	15	85	15	52	48	0	9	42	1.35
3619133--3619409	29	9.5	29	74	10	197	38	13	24	23	1.91
3619189--3619378	87	2.2	87	83	5	231	37	14	23	24	1.92
3619155--3619409	117	2.2	117	89	2	379	37	14	24	23	1.92
3619133--3619420	146	2.0	146	81	5	341	38	14	23	23	1.92
3622604--3622642	21	2.0	20	85	10	53	38	2	5	53	1.37
3625049--3625110	10	5.9	10	74	10	52	33	32	4	29	1.78
3625049--3625110	21	2.9	21	85	2	79	33	32	4	29	1.78
3625838--3625898	21	3.0	20	79	11	61	70	0	22	6	1.10
3625849--3625896	15	3.3	14	79	5	51	72	0	22	4	1.01
3627622--3627701	40	2.0	40	82	4	99	23	28	15	32	1.95
3631111--3631184	33	2.2	34	88	7	107	10	27	5	56	1.55
3631178--3631232	6	9.7	6	84	7	53	9	18	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635468--3635494	14	1.9	14	100	0	54	40	0	7	51	1.30
3640209--3640582	43	8.7	43	75	6	301	22	17	20	39	1.92
3640209--3640582	86	4.3	86	78	5	378	22	17	20	39	1.92
3640207--3640528	173	1.9	173	86	1	466	23	16	19	39	1.92
3642272--3642509	51	4.7	50	74	7	212	29	27	15	27	1.96
3642272--3642509	102	2.3	102	87	5	340	29	27	15	27	1.96
3649539--3649769	49	4.7	49	97	0	444	29	24	16	29	1.97
3651626--3651660	3	11.7	3	100	0	70	68	0	31	0	0.90
3651657--3651686	12	2.5	12	94	0	51	36	30	10	23	1.87
3653458--3653511	26	2.1	26	92	0	90	38	22	7	31	1.82
3653884--3654001	20	5.9	20	70	7	96	37	22	30	10	1.87
3653884--3654001	40	3.0	40	79	7	132	37	22	30	10	1.87
3655016--3655062	15	2.9	16	74	25	53	78	2	17	2	0.94
3660735--3660851	32	3.6	30	74	16	83	73	5	12	8	1.23
3662940--3663162	43	5.2	43	95	0	365	34	25	17	22	1.96
3663216--3663766	50	11.0	50	72	7	411	32	23	19	25	1.97
3663217--3663766	100	5.5	100	89	3	822	32	23	19	25	1.97
3664299--3664343	15	3.1	15	83	3	56	77	2	15	4	1.02
3673021--3673069	20	2.4	21	83	13	66	34	0	2	63	1.06
3673039--3673146	19	5.3	20	79	18	109	37	0	4	58	1.19
3673092--3673156	10	6.6	10	76	13	64	30	0	6	63	1.19
3677897--3677935	19	2.0	20	90	5	62	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3678849--3678896	17	2.8	18	76	20	57	39	0	2	58	1.10
3681838--3681898	21	2.9	21	95	0	104	55	6	11	26	1.59
3682903--3682961	30	2.0	30	93	0	100	33	25	25	15	1.95
3683744--3684024	50	5.6	50	81	2	298	27	21	28	22	1.99
3686560--3686802	50	4.8	50	80	4	202	26	26	19	27	1.99
3686610--3686799	100	1.8	105	83	6	255	26	27	18	26	1.98
3686610--3686807	50	3.8	52	83	5	215	26	27	19	26	1.99
3687406--3687440	17	2.1	17	100	0	70	77	5	0	17	0.96
3697557--3697592	18	2.0	18	100	0	72	38	11	11	38	1.76
3698171--3698216	24	2.0	23	82	4	56	28	50	4	17	1.65
3702932--3703000	25	2.7	26	78	10	81	34	4	36	24	1.76
3704289--3704379	30	3.0	30	73	9	94	35	15	25	24	1.94
3715056--3715194	42	3.3	42	95	0	242	25	25	20	28	1.99
3720936--3720987	15	3.3	15	75	8	50	75	1	21	1	1.00
3720967--3721034	26	2.6	26	69	4	66	67	5	20	5	1.33
3728414--3728470	19	3.4	19	64	31	56	29	24	14	31	1.94
3728418--3728479	31	2.0	31	100	0	124	25	25	16	32	1.96
3741751--3742060	52	6.0	52	99	0	602	33	22	17	25	1.96
3755482--3755522	21	1.9	22	90	5	66	12	24	0	63	1.28
3760239--3760331	45	2.0	46	85	6	127	34	24	17	23	1.96
3764406--3764498	46	2.0	46	97	0	177	34	21	20	23	1.97
3772457--3772524	22	3.0	22	77	16	61	10	16	1	72	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3774599--3774638	16	2.6	16	84	7	57	35	10	0	55	1.34
3777430--3777488	20	3.0	20	92	0	100	20	18	33	27	1.96
3779410--3779463	6	9.0	6	81	0	63	3	20	1	74	1.07
3779392--3779461	18	3.9	18	78	0	77	5	22	2	68	1.24
3779384--3779461	36	2.2	36	88	4	113	6	21	3	67	1.29
3780221--3780266	24	1.9	24	86	0	65	47	19	19	13	1.81
3781590--3781626	14	2.6	14	86	0	56	72	2	16	8	1.19
3782558--3782593	15	2.5	15	90	4	56	75	2	16	5	1.12
3782564--3782609	24	1.9	24	90	0	74	69	2	21	6	1.22
3782613--3782655	18	2.4	18	84	7	52	60	0	23	16	1.35
3782624--3782658	18	1.9	18	94	0	61	54	0	22	22	1.45
3801110--3801155	23	2.0	23	83	4	58	45	17	19	17	1.85
3805238--3805288	23	2.3	22	83	6	66	29	3	27	39	1.74
3811493--3811810	17	17.6	17	67	14	138	44	9	14	30	1.77
3811478--3811798	37	8.8	36	71	14	157	45	9	15	29	1.78
3811477--3811641	73	2.2	73	82	6	208	43	10	13	32	1.78
3811492--3811808	18	17.6	18	67	18	110	44	9	14	31	1.77
3811930--3811961	17	1.9	16	100	0	55	56	12	12	18	1.67
3812101--3812144	16	2.7	16	78	3	52	79	4	2	13	0.98
3812433--3812480	21	2.3	20	85	3	60	8	29	33	29	1.86
3812570--3812609	10	4.2	10	87	9	57	0	27	0	72	0.85
3812569--3812618	10	4.8	10	83	9	55	0	26	0	74	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3812706--3812748	14	2.9	15	86	6	52	0	25	2	72	0.97
3812752--3812802	24	2.1	24	82	7	59	1	9	17	70	1.24
3812766--3812806	18	2.3	18	87	4	57	0	12	19	68	1.21
3813152--3813268	59	2.0	60	93	1	200	37	1	25	35	1.66
3813106--3813274	89	1.9	89	86	2	241	37	5	24	32	1.78
3813115--3813275	30	5.4	30	85	3	200	36	4	26	31	1.78
3813471--3817138	153	23.9	153	92	3	5111	34	21	17	25	1.95
3818005--3818056	7	7.6	7	89	10	81	11	13	0	75	1.06
3818053--3818078	8	3.2	8	100	0	52	0	0	11	88	0.52
3825785--3825838	20	2.7	20	83	13	67	33	12	14	38	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13