genome.fa.s89.2.7.7.80.10.50.1000.19.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  19  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)
3150038--3150117	7	11.9	7	70	17	53	37	0	0	62	0.95
3150028--3150156	51	2.5	52	80	6	140	37	0	0	62	0.96
3150021--3150112	45	2.0	47	83	8	118	39	0	0	60	0.97
3150077--3150144	26	2.6	27	86	6	95	41	0	0	58	0.98
3150457--3150530	32	2.3	31	81	6	85	41	1	1	55	1.17
3155969--3156004	16	2.3	16	90	4	56	88	0	11	0	0.50
3155969--3156004	11	3.3	11	92	7	56	88	0	11	0	0.50
3157316--3157365	15	3.2	16	77	8	50	44	0	0	56	0.99
3158068--3158103	16	2.2	16	90	0	54	52	0	0	47	1.00
3162374--3162414	16	2.5	17	84	11	59	46	0	0	53	1.00
3163439--3163483	18	2.5	19	79	10	51	68	6	2	22	1.24
3163855--3163892	20	1.9	20	89	10	60	57	2	10	28	1.45
3165536--3165562	2	13.5	2	100	0	54	51	0	0	48	1.00
3166879--3166923	21	2.1	21	84	8	56	33	0	4	62	1.15
3168166--3168199	13	2.5	13	90	4	50	52	0	0	47	1.00
3170458--3170512	2	27.5	2	92	0	92	49	3	0	47	1.19
3173798--3173826	14	2.1	14	93	6	51	51	0	6	41	1.28
3175054--3175079	2	13.0	2	100	0	52	50	0	0	50	1.00
3178091--3178182	12	7.7	12	71	3	60	30	39	19	10	1.86
3178100--3178184	24	3.5	24	76	9	84	30	38	20	10	1.86
3179485--3179567	40	2.1	40	86	0	112	53	16	16	13	1.74
3181389--3181433	2	22.0	2	82	13	56	48	6	0	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3181389--3181445	29	2.0	29	92	0	96	47	8	0	43	1.34
3182492--3182535	22	2.0	22	86	8	63	50	0	9	40	1.34
3182528--3182570	10	4.1	10	82	8	50	48	0	2	48	1.14
3182688--3182714	3	9.0	3	100	0	54	66	0	0	33	0.92
3183104--3183139	15	2.3	16	95	4	65	38	0	0	61	0.96
3183114--3183148	15	2.3	15	90	0	52	40	0	0	60	0.97
3183388--3183435	24	1.9	26	87	8	73	37	6	0	56	1.25
3188849--3188893	2	22.5	2	100	0	90	0	51	0	48	1.00
3188893--3188918	2	13.0	2	100	0	52	50	50	0	0	1.00
3189455--3189490	6	6.0	6	93	0	63	50	2	0	47	1.15
3194983--3195065	21	4.3	20	73	22	70	54	1	0	44	1.08
3195151--3195213	18	3.4	19	77	18	71	58	0	0	41	0.98
3195173--3195214	21	2.1	21	86	8	61	57	0	0	42	0.99
3196064--3196103	19	2.1	19	85	0	53	67	0	5	27	1.11
3196060--3196154	32	3.0	32	78	6	106	55	0	3	41	1.15
3199454--3199507	22	2.7	20	78	18	58	38	0	1	59	1.08
3199537--3199589	26	2.0	26	88	0	79	54	7	0	37	1.29
3199547--3199590	12	3.5	12	79	11	52	56	9	0	34	1.31
3203516--3203547	16	2.0	16	100	0	64	25	12	12	50	1.75
3205140--3205172	6	5.3	6	96	3	57	69	0	0	30	0.88
3207025--3207059	17	2.0	18	88	5	54	34	0	0	65	0.93
3212387--3212417	2	15.5	2	93	0	53	0	45	3	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212894--3212950	23	2.5	24	80	11	66	57	0	0	42	0.98
3212894--3212959	23	2.9	23	79	2	62	57	0	1	40	1.08
3214653--3214711	22	2.8	22	78	14	54	40	0	0	59	0.97
3214648--3214733	32	2.7	31	77	10	84	38	1	1	59	1.13
3215702--3215743	21	2.0	21	85	4	57	40	4	0	54	1.21
3215694--3215782	22	3.9	22	72	13	65	40	2	0	57	1.11
3217482--3217531	19	2.7	18	77	22	59	56	0	0	44	0.99
3217487--3217526	19	2.0	19	90	9	62	57	0	0	42	0.98
3217472--3217536	24	3.0	22	76	15	64	53	0	0	46	1.00
3220762--3220793	2	16.0	2	100	0	64	50	0	0	50	1.00
3223890--3223924	16	2.1	17	89	5	54	45	0	0	54	0.99
3224030--3224095	10	6.4	10	73	18	55	59	1	1	37	1.16
3224492--3224518	2	13.5	2	100	0	54	51	0	0	48	1.00
3225838--3225903	14	4.2	16	72	16	50	37	1	0	60	1.06
3225784--3225866	33	2.5	32	78	7	87	44	2	0	53	1.13
3225862--3225911	20	2.4	22	77	12	61	36	0	0	64	0.94
3225747--3225911	32	5.5	31	66	21	84	40	1	0	58	1.06
3225888--3225956	17	4.0	17	70	14	52	59	1	0	39	1.06
3225891--3225960	19	3.3	21	69	18	56	61	1	0	37	1.05
3226262--3226336	5	14.4	5	74	18	55	60	0	2	37	1.11
3226282--3226398	16	7.2	17	71	14	68	58	0	0	41	1.04
3226262--3226324	23	2.6	24	83	16	69	63	0	3	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3226262--3226398	26	5.4	25	69	16	86	59	0	1	39	1.07
3226830--3226887	27	2.2	26	81	9	64	36	13	5	44	1.66
3236691--3236725	2	17.5	2	93	0	61	51	0	0	48	1.00
3243846--3243885	2	20.0	2	100	0	80	50	0	0	50	1.00
3244162--3244248	30	2.9	30	81	8	97	40	2	10	47	1.50
3244232--3244315	32	2.6	33	84	1	116	50	2	2	45	1.27
3248857--3248890	17	1.9	17	88	5	50	23	2	2	70	1.15
3249017--3249054	18	2.2	18	85	4	51	65	2	7	23	1.32
3250369--3250422	2	26.5	2	78	10	56	48	7	1	42	1.42
3251967--3251999	17	1.9	17	88	11	50	48	0	0	51	1.00
3253395--3253441	2	24.0	2	82	4	60	46	2	4	46	1.34
3253971--3254086	57	2.1	56	96	1	214	43	8	5	42	1.57
3254072--3254121	22	2.3	20	80	10	55	50	0	0	50	1.00
3261142--3261167	2	13.0	2	100	0	52	50	0	50	0	1.00
3262718--3262749	13	2.4	14	94	5	57	37	3	0	59	1.13
3264278--3264342	21	3.0	20	73	22	51	66	0	1	32	1.01
3264290--3264331	16	2.6	16	81	11	50	69	0	0	30	0.89
3268127--3268168	16	2.6	16	88	0	57	35	0	2	61	1.09
3270154--3270250	18	6.2	18	71	23	69	46	1	0	52	1.07
3270176--3270322	30	4.9	30	74	14	117	46	4	0	48	1.26
3270176--3270278	30	3.5	30	85	9	124	47	2	0	49	1.16
3270222--3270275	24	2.2	26	84	15	71	46	3	0	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3270399--3270439	22	1.9	21	90	5	64	36	0	0	63	0.95
3270496--3270556	22	2.7	23	85	7	72	70	0	3	26	1.02
3270511--3270556	23	2.0	24	87	8	69	71	0	4	23	1.03
3283909--3284039	62	2.1	65	84	7	171	35	11	7	45	1.69
3294468--3294507	2	20.0	2	100	0	80	50	0	0	50	1.00
3304936--3304969	5	6.8	5	89	0	50	58	0	2	38	1.13
3305083--3305121	20	2.1	18	85	9	51	56	0	0	43	0.99
3305065--3305112	21	2.4	20	79	6	53	62	2	0	35	1.07
3305096--3305196	18	5.6	18	71	11	71	37	1	0	60	1.08
3305113--3305166	9	5.5	10	76	10	58	29	1	0	68	1.00
3305168--3305226	29	2.0	30	83	9	77	40	1	0	57	1.09
3305184--3305226	16	2.9	14	78	21	52	39	0	0	60	0.97
3305566--3305602	18	2.0	19	89	5	58	35	8	13	43	1.74
3306620--3306645	2	13.0	2	100	0	52	50	0	0	50	1.00
3308562--3308620	26	2.3	25	83	16	68	49	0	0	50	1.00
3308645--3308701	17	3.4	16	75	15	53	49	0	0	50	1.00
3309627--3309659	2	16.5	2	93	0	57	51	3	0	45	1.16
3310615--3310670	28	2.0	27	86	10	78	26	3	1	67	1.16
3310598--3310671	11	6.5	12	71	20	52	29	2	1	66	1.14
3311073--3311144	20	3.5	21	73	17	71	47	0	0	52	1.00
3311073--3311114	15	2.8	15	85	10	59	47	0	0	52	1.00
3311073--3311141	5	13.6	5	71	14	52	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3311104--3311152	26	1.9	26	87	4	73	44	2	0	53	1.12
3311633--3311658	4	6.5	4	100	0	52	26	0	23	50	1.50
3314959--3314988	2	15.0	2	100	0	60	50	0	0	50	1.00
3316377--3316408	2	16.0	2	93	0	55	46	0	0	53	1.00
3324664--3324721	25	2.3	27	88	11	88	50	0	0	50	1.00
3324803--3324904	16	6.1	17	66	29	60	65	1	0	31	1.10
3324803--3324903	11	9.5	11	68	16	61	66	1	0	30	1.09
3324815--3324927	24	4.6	24	69	18	72	65	1	0	31	1.09
3324801--3324903	27	3.8	27	73	21	83	66	1	0	31	1.09
3324906--3324950	14	3.0	16	75	18	60	57	4	0	37	1.19

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