genome.fa.s412.2.7.7.80.10.50.1000.23.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  23  of  32  ( 3728 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)
3160033--3160070	19	2.0	20	94	5	69	0	0	15	84	0.63
3171008--3171214	79	2.6	79	82	1	236	28	17	29	24	1.97
3171166--3171237	28	2.6	28	88	0	99	23	19	34	22	1.96
3171226--3171395	52	3.3	51	80	4	171	31	12	25	30	1.92
3171195--3171537	185	1.9	185	88	1	519	32	12	25	29	1.92
3171414--3171532	51	2.3	53	85	7	154	35	11	21	31	1.89
3171282--3171528	133	1.9	132	81	9	306	33	13	24	28	1.93
3173874--3173938	21	3.1	21	85	8	89	40	18	10	30	1.85
3173924--3173949	13	2.0	13	100	0	52	38	15	15	30	1.88
3173903--3173969	33	2.0	33	88	0	98	43	16	14	25	1.86
3173989--3174056	19	3.9	18	76	23	83	38	14	11	35	1.83
3174011--3174035	13	1.9	13	100	0	50	32	16	16	36	1.90
3173992--3174054	32	2.0	32	96	0	117	36	15	12	34	1.86
3176522--3176597	39	2.0	38	89	2	116	40	11	15	31	1.84
3176526--3176598	20	3.7	20	79	3	85	42	10	15	31	1.81
3181230--3181263	17	2.0	17	88	0	50	52	0	0	47	1.00
3193908--3194070	75	2.2	76	83	9	201	31	27	12	28	1.93
3197972--3198102	65	2.0	65	96	0	244	23	22	24	29	1.99
3208584--3208611	14	2.0	14	100	0	56	42	14	21	21	1.88
3216004--3216051	2	24.0	2	95	0	87	50	2	0	47	1.12
3224659--3224908	39	6.4	39	75	13	189	41	13	13	32	1.83
3224659--3224908	78	3.2	77	79	9	251	41	13	13	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3224660--3224908	117	2.1	117	81	8	292	41	12	13	32	1.82
3232197--3232228	7	4.6	7	92	0	55	84	0	15	0	0.63
3233194--3233377	61	3.0	60	92	3	296	24	28	20	27	1.99
3233802--3233857	20	2.8	20	94	0	94	28	10	14	46	1.78
3236224--3236404	79	2.3	79	88	1	256	30	18	12	38	1.88
3236265--3236541	130	2.1	131	83	4	337	31	22	11	35	1.89
3236345--3236462	51	2.3	50	86	2	155	30	21	10	38	1.86
3236205--3236620	209	2.0	209	82	2	514	31	22	10	35	1.89
3236397--3236735	79	4.3	79	82	5	400	30	26	10	31	1.91
3240747--3240784	6	6.3	6	82	11	51	71	0	0	28	0.87
3241699--3241847	82	1.8	80	88	5	228	37	9	18	34	1.83
3243678--3243829	79	1.9	79	84	5	200	39	13	18	28	1.88
3243786--3243855	28	2.5	27	86	9	88	27	20	28	24	1.99
3243881--3243934	27	2.0	28	88	3	83	42	16	20	20	1.89
3243813--3244030	78	2.8	78	82	7	271	37	13	22	27	1.91
3246414--3246439	13	2.0	13	100	0	52	30	15	15	38	1.88
3247541--3247914	198	1.9	198	97	0	703	36	10	10	43	1.72
3249609--3249754	50	2.9	51	86	2	213	27	15	11	45	1.81
3253335--3253373	19	2.1	19	100	0	78	35	10	15	38	1.81
3254884--3254934	20	2.5	20	87	0	66	35	15	15	33	1.90
3254920--3254948	13	2.2	13	100	0	58	31	17	13	37	1.89
3254936--3254984	20	2.4	20	86	3	62	38	14	18	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3258315--3258341	13	2.1	13	100	0	54	40	14	14	29	1.86
3258297--3258361	33	2.0	33	90	3	105	40	15	12	32	1.84
3259219--3259613	49	8.2	47	79	8	379	30	16	27	25	1.97
3259221--3259613	98	4.1	96	82	5	438	30	17	27	25	1.97
3259221--3259613	147	2.7	147	89	2	591	30	17	27	25	1.97
3259608--3259765	34	4.6	34	88	3	192	35	13	31	20	1.91
3259772--3259914	30	5.1	27	80	9	153	17	14	31	36	1.90
3259772--3259922	57	2.6	58	86	2	198	18	13	32	35	1.90
3259801--3259922	58	2.1	57	89	1	181	19	13	33	32	1.91
3261350--3261405	15	3.7	15	86	11	78	0	0	16	83	0.64
3274536--3274664	52	2.5	52	98	0	249	28	17	17	35	1.93
3274724--3274750	13	2.1	13	100	0	54	40	14	14	29	1.86
3274706--3274770	32	2.0	33	90	3	105	36	16	13	32	1.89
3276409--3276442	3	11.3	3	93	0	59	35	0	35	29	1.58
3280895--3280935	22	2.0	21	86	13	59	31	21	4	41	1.74
3281176--3281227	20	2.4	21	87	9	70	19	50	26	3	1.65
3282579--3282620	21	2.0	21	100	0	84	33	0	38	28	1.58
3283130--3283186	20	2.8	20	81	0	60	40	14	14	31	1.85
3283188--3283236	20	2.4	20	86	3	62	38	14	18	28	1.90
3285173--3285197	13	1.9	13	100	0	50	40	12	16	32	1.84
3285251--3285300	19	2.6	19	96	0	91	38	18	12	32	1.87
3285289--3285313	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291254--3291301	17	2.7	18	81	12	55	41	0	0	58	0.98
3291248--3291297	19	2.8	17	76	11	55	40	0	2	58	1.10
3294508--3294678	87	2.0	87	87	6	249	39	16	8	35	1.80
3299012--3299046	17	2.1	17	100	0	70	22	34	0	42	1.54
3299273--3299297	2	12.5	2	100	0	50	0	0	48	52	1.00
3301088--3301129	23	1.9	21	85	9	57	54	0	0	45	0.99
3300889--3301190	155	1.9	155	95	0	550	51	5	2	40	1.38
3303596--3303621	13	2.0	13	100	0	52	30	15	15	38	1.88
3303576--3303639	33	2.0	32	90	3	101	26	14	20	39	1.90
3303754--3303792	20	2.0	20	90	5	62	30	7	20	41	1.80
3312166--3312227	33	1.9	33	90	3	99	29	14	17	38	1.89
3312258--3312310	20	2.6	21	82	8	65	30	16	15	37	1.90
3312298--3312322	13	1.9	13	100	0	50	36	16	16	32	1.90
3312332--3312370	20	2.0	20	90	5	62	30	7	20	41	1.80
3322886--3322911	13	2.0	13	100	0	52	38	15	15	30	1.88
3327256--3327384	52	2.5	52	96	0	240	27	20	17	34	1.95
3327393--3327417	13	1.9	13	100	0	50	36	16	16	32	1.90
3327465--3327526	13	4.3	13	78	21	70	33	16	12	37	1.87
3327483--3327547	19	3.8	18	75	24	77	36	16	12	33	1.87
3327470--3327545	32	2.4	32	95	4	136	34	17	13	35	1.88
3328709--3328786	20	3.8	20	73	6	75	39	14	11	34	1.82
3333508--3333532	13	1.9	13	100	0	50	24	16	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3333490--3333559	33	2.1	33	86	0	95	32	11	18	37	1.87
3339711--3339740	13	2.3	13	100	0	60	30	13	16	40	1.87
3341631--3341717	43	2.0	44	93	2	149	45	2	24	27	1.65
3341977--3342092	57	2.0	57	93	0	196	37	6	17	38	1.76
3342349--3342387	20	1.9	21	94	5	71	41	20	17	20	1.91
3352661--3352742	25	3.3	24	83	10	94	82	12	0	4	0.81
3352657--3352741	12	7.0	12	75	20	63	82	12	0	4	0.82
3352658--3352742	18	4.6	17	75	18	64	83	11	0	4	0.79
3354275--3354358	32	2.6	32	90	0	132	32	29	15	22	1.95
3354275--3354414	64	2.2	64	81	6	160	30	30	16	22	1.96
3354403--3354502	52	1.9	53	87	6	150	20	28	17	35	1.94
3354418--3354654	52	4.4	52	72	16	160	21	25	16	36	1.94
3354588--3354828	52	4.6	51	75	10	195	25	23	14	35	1.94
3354455--3354668	113	1.9	113	84	1	286	22	24	16	36	1.94
3354765--3354901	61	2.2	61	84	5	179	25	27	9	37	1.87
3359605--3359714	58	1.9	58	94	0	193	32	17	15	34	1.91
3362689--3362756	19	3.9	18	75	23	74	35	13	16	35	1.87
3362710--3362734	13	1.9	13	100	0	50	36	16	16	32	1.90
3362691--3362753	32	2.0	32	93	0	108	34	14	17	33	1.90
3362796--3362821	13	2.0	13	100	0	52	30	15	15	38	1.88
3362776--3362842	34	2.0	33	91	2	107	25	16	13	44	1.84
3363354--3363384	11	2.8	11	90	0	53	80	19	0	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3363354--3363387	12	3.0	12	87	12	54	76	23	0	0	0.79
3365195--3365580	52	7.4	52	71	11	191	29	25	12	32	1.92
3365304--3365375	27	2.7	26	87	10	92	23	31	20	23	1.98
3365359--3365581	52	4.3	51	78	6	198	29	26	12	32	1.92
3365569--3365640	28	2.6	28	84	8	85	23	36	18	22	1.95
3372459--3372610	16	9.4	16	71	4	108	41	29	14	14	1.85
3372459--3372610	81	1.9	80	81	6	182	41	29	14	14	1.85
3388622--3388706	37	2.3	37	100	0	170	25	15	15	43	1.86
3389047--3389378	28	11.6	28	77	9	323	33	30	16	19	1.94
3389046--3389397	86	4.1	85	79	10	333	32	30	16	20	1.95

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