genome.fa.s48.2.7.7.80.10.50.1000.23.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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  23  of  27  ( 3212 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)
3600563--3600661	37	2.7	37	84	6	112	34	24	17	24	1.96
3601551--3601596	22	2.1	23	88	8	69	32	4	8	54	1.51
3604164--3604212	21	2.3	21	86	6	64	59	0	4	36	1.17
3604367--3604417	26	2.0	25	81	7	59	49	13	1	35	1.54
3609846--3609929	37	2.3	37	85	0	114	32	23	19	25	1.97
3609846--3609944	37	2.7	37	84	6	112	34	24	17	24	1.96
3610837--3610882	22	2.1	23	88	8	69	32	4	8	54	1.51
3613440--3613487	21	2.3	22	79	17	57	58	0	6	35	1.23
3618907--3618978	16	4.5	16	74	11	67	51	0	0	48	1.00
3618992--3619075	25	3.4	25	77	6	82	61	0	0	38	0.96
3619146--3619179	16	2.1	16	89	10	52	55	2	0	41	1.15
3620310--3620361	17	3.2	17	81	13	56	44	0	0	55	0.99
3620330--3620363	17	2.1	16	94	5	59	47	0	0	52	1.00
3620519--3620578	33	2.0	28	84	15	75	46	0	0	53	1.00
3620548--3620598	20	2.5	20	84	12	68	54	0	0	45	0.99
3620935--3620992	26	2.3	26	83	13	70	63	0	0	36	0.94
3620935--3620992	22	2.4	22	83	13	62	63	0	0	36	0.94
3620935--3620990	27	2.1	27	83	6	69	66	0	0	33	0.92
3624708--3624756	20	2.4	19	80	12	53	34	2	0	63	1.06
3631590--3631636	2	23.5	2	95	0	85	46	0	2	51	1.13
3633960--3634031	35	2.1	35	100	0	144	22	11	26	40	1.87
3640353--3640403	22	2.3	23	83	10	61	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3640385--3640428	20	2.3	19	85	14	63	54	2	0	43	1.12
3640504--3640532	7	4.3	7	91	8	51	58	0	0	41	0.98
3640615--3640678	19	3.4	19	72	12	60	57	0	0	42	0.98
3640617--3640668	17	2.8	18	82	11	61	55	0	0	44	0.99
3640613--3640678	20	3.5	19	77	12	64	57	0	0	42	0.98
3640965--3641012	20	2.5	18	80	12	51	43	2	0	54	1.12
3641253--3641285	15	2.1	16	94	5	59	63	0	0	36	0.95
3647253--3647444	94	2.0	94	92	0	321	40	19	15	25	1.90
3650191--3650229	6	6.8	6	85	11	55	69	0	0	30	0.89
3650827--3650871	22	2.1	21	87	4	63	62	0	0	37	0.96
3650825--3650895	30	2.4	30	81	13	76	59	0	0	40	0.98
3650845--3650895	14	3.4	15	78	13	52	60	0	0	39	0.97
3650845--3650895	16	3.4	16	76	17	56	60	0	0	39	0.97
3651281--3651333	21	2.4	23	76	20	60	32	0	1	66	1.03
3652367--3652427	5	13.2	5	75	16	51	62	1	0	36	1.05
3652351--3652424	19	3.8	19	82	5	69	58	1	0	40	1.07
3654966--3655031	29	2.3	29	76	7	71	51	1	1	45	1.19
3657231--3657284	18	3.1	17	84	7	63	42	0	1	55	1.10
3657242--3657290	18	2.7	18	81	9	55	42	0	2	55	1.11
3660038--3660088	18	3.0	17	75	13	52	62	1	0	35	1.06
3660507--3660537	2	15.5	2	100	0	62	51	0	0	48	1.00
3660706--3660757	25	2.0	25	82	10	61	55	5	5	32	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3662759--3662804	14	3.1	15	81	12	51	47	2	0	50	1.13
3663251--3663275	3	8.3	3	100	0	50	0	0	32	68	0.90
3664046--3664078	16	2.1	16	100	0	66	33	18	12	36	1.88
3670702--3670772	33	2.2	33	87	9	103	59	0	1	39	1.06
3670702--3670773	17	4.5	17	73	25	59	58	0	1	40	1.07
3670724--3670767	20	2.2	20	83	0	52	65	0	0	34	0.93
3672005--3672047	22	2.0	22	85	0	59	41	2	4	51	1.35
3672385--3672426	14	3.0	15	86	13	63	54	0	0	45	0.99
3674012--3674059	18	2.8	18	85	14	59	62	0	0	37	0.95
3674034--3674070	15	2.5	15	91	4	58	70	0	0	29	0.88
3674175--3674227	17	3.5	15	80	17	56	43	0	3	52	1.19
3674150--3674213	29	2.2	30	86	5	87	51	0	1	46	1.10
3674182--3674214	13	2.5	13	90	9	50	45	0	0	54	0.99
3674518--3674550	16	2.0	17	88	5	50	60	3	0	36	1.12
3674539--3674588	13	3.6	14	75	15	50	52	0	0	48	1.00
3674546--3674601	14	3.8	14	74	19	51	51	0	0	48	1.00
3674575--3674653	17	4.8	17	69	21	53	56	1	0	41	1.07
3674566--3674652	27	3.1	28	80	9	90	56	1	0	42	1.07
3674539--3674609	32	2.3	29	86	11	90	54	0	0	45	0.99
3674571--3674653	8	9.4	8	71	21	51	56	1	0	42	1.07
3679356--3679409	7	6.9	8	74	19	51	75	0	12	11	1.04
3679479--3679514	16	2.2	16	90	5	54	27	2	5	63	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3679763--3679802	15	2.5	16	88	8	55	55	0	2	42	1.13
3680363--3680401	19	2.1	19	90	0	60	33	0	0	66	0.92
3680448--3680499	14	3.7	14	72	10	52	23	1	7	67	1.27
3680595--3680630	6	6.0	6	87	12	56	30	0	0	69	0.89
3680586--3680623	6	5.6	7	90	9	53	26	0	0	73	0.83
3680595--3680630	13	3.0	12	88	11	56	30	0	0	69	0.89
3680587--3680630	19	2.3	19	92	7	72	29	0	0	70	0.88
3680723--3680764	15	2.6	16	77	7	50	38	0	9	52	1.34
3681406--3681472	28	2.3	28	82	10	73	50	0	0	49	1.00
3681857--3681905	17	3.1	17	74	8	50	26	2	2	69	1.10
3682247--3682348	31	3.4	31	70	17	88	43	0	0	56	0.99
3682335--3682360	11	2.4	11	100	0	52	38	0	0	61	0.96
3701269--3701309	15	2.6	16	84	11	57	63	2	0	34	1.08
3704409--3704448	13	3.2	12	86	13	55	62	0	0	37	0.95
3704983--3705008	2	13.0	2	100	0	52	50	0	0	50	1.00
3707341--3707382	2	21.0	2	95	0	75	47	0	0	52	1.00
3712034--3712063	15	2.0	15	100	0	60	53	13	6	26	1.64
3713988--3714060	33	2.2	32	81	16	87	35	0	0	64	0.94
3714055--3714102	25	1.9	25	100	0	96	43	0	6	50	1.27
3714903--3714929	2	13.5	2	100	0	54	51	48	0	0	1.00
3717220--3717289	29	2.4	28	77	15	72	51	0	2	45	1.16
3717345--3717456	36	3.2	35	80	12	99	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3717406--3717457	17	3.0	17	78	13	61	53	0	0	46	1.00
3724106--3724133	2	14.0	2	100	0	56	50	0	50	0	1.00
3724822--3724854	2	16.5	2	100	0	66	48	0	51	0	1.00
3730831--3730861	2	15.5	2	100	0	62	51	0	0	48	1.00
3731376--3731430	26	2.2	25	93	3	92	58	1	0	40	1.09
3733390--3733431	21	2.0	21	86	9	59	47	0	0	52	1.00
3737867--3737892	3	8.7	3	100	0	52	69	0	30	0	0.89
3741700--3741741	15	2.8	15	85	0	57	45	16	0	38	1.48
3744546--3744593	22	2.2	21	88	3	69	31	2	4	62	1.26
3744553--3744593	22	1.9	22	95	5	75	29	2	4	63	1.28
3744710--3744739	13	2.3	13	94	0	51	33	0	0	66	0.92
3748835--3748923	23	3.8	24	71	12	60	47	0	2	50	1.13
3748865--3748899	18	2.0	17	88	5	52	48	0	5	45	1.26
3749375--3749403	7	4.1	7	100	0	58	0	58	0	41	0.98
3761191--3761215	11	2.3	11	100	0	50	16	8	0	76	1.02
3762393--3762428	10	3.7	10	88	7	56	58	8	2	30	1.42
3764815--3765181	122	3.0	122	86	1	511	37	18	18	25	1.94
3775134--3775164	2	15.5	2	100	0	62	48	0	0	51	1.00
3779707--3779762	26	2.2	25	84	9	69	53	5	0	41	1.24
3779944--3779975	2	16.5	2	93	6	57	50	0	0	50	1.00
3786923--3787006	29	2.9	28	79	10	82	50	0	2	47	1.14
3786926--3787006	28	2.9	28	80	10	94	50	0	2	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3791477--3791521	14	3.2	14	87	0	63	22	33	0	44	1.53
3792069--3792154	39	2.1	41	89	4	131	29	12	19	38	1.89
3796834--3796859	2	13.0	2	100	0	52	50	0	0	50	1.00
3797608--3797649	2	21.0	2	100	0	84	50	0	0	50	1.00
3798786--3798828	8	5.4	8	88	0	50	46	9	2	41	1.48
3799365--3799390	13	2.0	13	100	0	52	76	0	0	23	0.78
3800413--3800887	239	2.0	235	84	6	618	40	8	6	44	1.61
3802882--3802934	27	2.0	27	85	7	72	39	0	5	54	1.24
3803108--3803151	21	2.2	20	83	4	52	50	0	4	45	1.22
3803036--3803306	95	2.9	93	79	9	309	43	4	9	42	1.59

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