genome.fa.s9.2.7.7.80.10.50.1000.23.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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   

This is table  23  of  24  ( 2830 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)
3576255--3576280	13	2.0	13	100	0	52	30	15	15	38	1.88
3576235--3576298	32	2.0	33	90	3	103	28	14	18	39	1.90
3576235--3576305	19	4.0	18	72	25	62	26	12	21	39	1.89
3583364--3583481	51	2.3	51	92	0	191	32	13	27	26	1.94
3583468--3583540	27	2.6	28	81	12	89	28	17	27	26	1.98
3583521--3583640	52	2.3	52	84	5	154	34	12	24	29	1.92
3586703--3587337	61	10.8	59	84	7	664	25	21	27	25	1.99
3586762--3587358	55	10.3	54	84	8	502	25	21	27	26	1.99
3586703--3587338	170	3.6	169	86	5	765	25	21	27	25	1.99
3588343--3588367	13	1.9	13	100	0	50	36	16	16	32	1.90
3588323--3588386	32	2.0	33	93	3	112	34	14	18	32	1.91
3588322--3588405	19	4.7	19	77	18	90	33	13	17	35	1.89
3588323--3588439	52	2.2	52	82	5	130	35	14	17	32	1.90
3588481--3588609	52	2.5	52	93	0	222	36	17	17	28	1.93
3594854--3594951	19	5.8	18	71	28	90	38	17	12	31	1.86
3594872--3594931	13	4.2	13	73	22	57	36	18	13	31	1.89
3594849--3594950	32	3.2	32	91	1	159	38	17	11	32	1.86
3594885--3594950	20	3.7	20	75	24	67	37	18	12	31	1.87
3595657--3595779	49	2.5	49	94	0	219	32	16	27	23	1.96
3595799--3597291	49	30.8	49	81	9	1590	32	17	25	24	1.97
3595786--3597247	101	15.0	100	86	6	1795	32	17	25	24	1.97
3595847--3597291	294	5.0	292	87	6	1950	32	17	25	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3597296--3597518	65	3.4	64	90	4	349	17	19	32	29	1.95
3597294--3597526	33	7.2	33	90	3	350	19	18	33	28	1.96
3597530--3598275	65	11.4	63	74	16	452	32	13	33	20	1.92
3597562--3598280	100	7.3	99	82	8	729	32	13	33	20	1.92
3597508--3598280	201	3.9	198	81	7	785	32	13	33	20	1.92
3597788--3598230	166	2.7	163	79	9	482	33	13	31	20	1.92
3597656--3598182	31	15.7	34	74	13	175	32	12	33	20	1.91
3606591--3606615	13	1.9	13	100	0	50	36	16	16	32	1.90
3606658--3606755	19	5.8	18	71	28	90	36	17	12	33	1.87
3606653--3606753	32	3.1	32	94	1	166	35	17	11	34	1.87
3606677--3606733	13	3.9	13	74	24	51	33	19	14	33	1.91
3607553--3607598	18	2.6	17	90	6	74	0	2	10	86	0.64
3622130--3622257	52	2.5	52	94	1	222	30	17	17	35	1.93
3622130--3622277	52	2.9	52	88	5	194	31	16	17	33	1.93
3622266--3622290	13	1.9	13	100	0	50	36	16	16	32	1.90
3622352--3622376	13	1.9	13	100	0	50	32	16	16	36	1.90
3622331--3622396	32	2.0	33	94	2	116	36	16	12	34	1.86
3623117--3623243	67	1.9	68	86	1	184	38	12	25	23	1.90
3623193--3623530	49	6.9	52	76	13	240	33	16	24	25	1.96
3623256--3623530	43	5.8	48	80	12	311	32	17	24	25	1.97
3623247--3623532	92	3.1	92	92	2	455	32	17	25	25	1.97
3623536--3623860	33	9.9	33	87	3	435	18	18	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3623864--3624511	36	19.8	35	78	12	561	32	12	33	20	1.91
3624032--3624203	27	5.9	27	73	17	146	29	13	36	20	1.91
3623998--3624506	61	7.9	62	81	10	514	32	12	34	20	1.91
3624313--3624377	31	2.1	31	85	0	85	30	18	29	21	1.97
3624419--3624608	30	6.1	30	81	11	186	30	15	31	22	1.95
3624458--3624605	62	2.4	62	90	3	226	28	17	29	24	1.97
3625571--3625600	14	2.2	13	94	5	51	0	10	6	83	0.81
3625837--3625870	14	2.5	13	86	9	50	0	0	17	82	0.67
3625840--3625890	23	2.1	23	82	13	59	1	3	21	72	1.11
3632750--3632897	52	2.9	52	90	5	237	29	17	18	34	1.94
3632886--3632910	13	1.9	13	100	0	50	36	16	16	32	1.90
3632953--3633005	20	2.7	20	91	2	90	39	16	11	32	1.85
3634063--3634110	20	2.4	20	96	0	87	45	6	16	31	1.72
3634111--3634314	79	2.6	77	87	4	273	30	14	26	27	1.95
3634269--3634342	28	2.6	28	80	0	76	25	17	29	27	1.97
3634323--3634437	51	2.2	52	80	4	135	33	7	26	32	1.85
3637567--3637654	31	2.8	31	88	6	133	43	11	21	23	1.85
3643271--3655156	159	74.7	157	65	12	2071	36	14	18	31	1.90
3642771--3653238	951	11.0	948	84	3	12342	36	14	18	31	1.90
3643250--3653238	476	21.0	476	85	2	12027	36	14	18	31	1.90
3653245--3655496	476	4.7	477	85	3	3001	38	13	17	30	1.89
3657124--3657199	12	6.9	11	75	15	52	39	2	48	9	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3657114--3657232	42	2.8	42	93	0	202	42	1	46	9	1.46
3657189--3657238	18	2.8	18	81	6	57	44	2	46	8	1.44
3664347--3664465	42	2.8	42	90	0	184	8	45	2	43	1.47
3664371--3664456	24	3.8	24	70	17	76	10	44	2	43	1.51
3664362--3664432	18	3.6	18	69	20	52	9	43	2	43	1.52
3667327--3669253	476	4.0	476	85	2	2434	37	15	17	30	1.90
3669090--3669462	159	2.4	158	89	3	527	34	14	20	30	1.92
3670164--3677419	159	45.8	158	66	11	2192	36	13	18	31	1.90
3669195--3677419	475	17.3	476	85	2	10083	36	13	18	31	1.90
3678215--3682708	476	9.5	475	82	3	5016	36	13	18	31	1.90
3683298--3683325	13	2.2	13	100	0	56	32	14	14	39	1.86
3683279--3683343	32	2.0	32	90	3	103	35	12	13	38	1.83
3683384--3683410	13	2.1	13	100	0	54	40	14	14	29	1.86
3683450--3683503	20	2.7	20	100	0	108	42	11	11	35	1.76
3683419--3683555	72	1.9	72	96	0	256	37	16	15	29	1.90
3697341--3697392	11	4.7	11	80	15	63	86	5	7	0	0.70
3697341--3697400	21	2.8	21	87	10	77	85	8	6	0	0.76
3697339--3697409	23	3.1	22	84	9	88	84	9	5	0	0.77
3698838--3698998	86	1.9	86	86	2	234	28	29	16	24	1.97
3698844--3699017	29	6.0	29	80	6	192	27	29	16	26	1.97
3698993--3699177	34	5.7	33	74	17	163	18	32	13	34	1.90
3698874--3699202	61	5.4	60	75	11	235	22	31	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3699244--3699472	32	7.3	32	91	4	328	29	35	18	16	1.93
3699465--3699785	49	6.7	49	82	9	396	26	23	18	32	1.97
3699460--3699741	92	3.1	92	94	0	474	25	24	17	32	1.97
3699646--3699848	49	3.9	52	83	5	241	25	22	15	36	1.94
3699646--3700059	52	7.6	55	75	12	268	24	23	14	36	1.93
3699646--3699848	107	2.0	101	82	5	244	25	22	15	36	1.94
3699798--3699924	67	1.9	68	85	1	175	23	24	12	39	1.89
3699865--3700068	53	3.8	52	77	4	158	25	24	15	34	1.95
3699646--3700126	227	2.1	224	87	4	666	24	24	14	36	1.93
3703494--3704683	476	2.5	475	87	2	1692	37	13	17	31	1.89
3705482--3705536	20	2.8	20	91	0	92	34	10	20	34	1.87
3744396--3744420	13	1.9	13	100	0	50	32	16	16	36	1.90
3744431--3744504	32	2.3	32	95	0	130	32	21	18	27	1.97
3752363--3752596	84	2.8	84	79	3	220	32	17	7	41	1.77
3752341--3752625	84	3.4	84	75	4	209	30	18	8	42	1.80
3755708--3755733	13	2.0	13	100	0	52	30	15	15	38	1.88
3755689--3755751	32	2.0	32	87	6	92	28	15	15	39	1.89
3755772--3755847	21	3.7	21	82	3	109	28	18	11	40	1.86
3755792--3755865	20	3.7	20	81	3	103	31	20	13	35	1.91
3755772--3755865	41	2.3	41	100	0	188	29	19	12	38	1.89
3758318--3758356	13	3.0	13	96	0	69	35	15	17	30	1.91
3758342--3758420	20	3.7	20	78	15	77	44	15	15	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3762261--3762305	21	2.1	21	84	8	56	22	20	4	53	1.63
3764519--3764544	13	2.0	13	100	0	52	30	15	15	38	1.88
3764500--3764562	32	2.0	32	87	6	92	28	15	15	39	1.89
3764583--3764658	21	3.7	21	82	3	109	28	18	11	40	1.86
3764603--3764676	20	3.7	20	81	3	103	31	20	13	35	1.91
3764583--3764676	41	2.3	41	100	0	188	29	19	12	38	1.89
3766655--3766685	13	2.4	13	88	0	53	35	12	16	35	1.87
3767303--3767342	15	2.7	14	88	7	53	42	25	2	30	1.68
3770438--3770481	22	2.0	23	86	4	63	52	4	9	34	1.54
3777693--3777728	16	2.2	16	90	0	54	33	5	8	52	1.55

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