genome.fa.s71.2.7.7.80.10.50.1000.19.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   
          33   

This is table  19  of  33  ( 3929 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)
3007249--3007296	5	10.4	5	79	20	52	66	0	0	33	0.92
3007248--3007390	19	7.8	17	69	13	61	58	1	1	38	1.15
3007227--3007293	28	2.4	28	87	9	93	67	1	0	31	1.00
3007908--3007976	24	2.8	24	80	10	68	33	0	1	65	1.02
3008629--3008756	50	2.6	48	71	20	129	43	2	3	50	1.33
3015527--3015573	21	2.1	21	84	7	58	36	10	4	48	1.57
3015548--3015777	105	2.2	105	97	0	433	28	6	12	52	1.65
3015757--3015830	21	3.5	22	81	7	91	33	5	10	50	1.60
3015548--3015803	105	2.4	105	92	1	379	29	6	12	51	1.65
3016093--3016151	21	2.8	21	86	0	73	33	5	6	54	1.49
3016204--3016285	21	3.8	20	68	27	53	35	4	6	53	1.47
3016434--3016584	21	7.2	21	73	13	98	34	6	5	52	1.52
3016449--3016720	42	6.2	42	67	13	138	38	6	7	47	1.59
3016566--3016614	21	2.3	21	85	3	62	38	6	4	51	1.46
3020905--3020969	24	2.9	23	71	24	57	60	1	0	38	1.07
3022378--3022411	13	2.6	13	85	0	50	61	2	0	35	1.11
3022712--3022737	13	2.0	13	100	0	52	23	0	15	61	1.33
3025451--3025508	27	2.1	27	100	0	116	29	12	29	29	1.93
3031500--3031570	37	1.9	37	91	5	117	38	7	21	33	1.80
3037089--3037121	15	2.1	16	88	5	50	45	6	3	45	1.43
3037715--3037750	16	2.2	16	95	0	63	58	2	0	38	1.13
3039054--3039088	2	18.0	2	88	5	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3043065--3043115	12	4.2	12	73	9	50	23	0	5	70	1.09
3043061--3043116	24	2.4	23	87	3	76	23	0	7	69	1.12
3043178--3043248	36	2.0	36	88	5	108	47	8	1	42	1.42
3044691--3044753	28	2.2	28	78	10	67	44	4	6	44	1.50
3044561--3044841	147	1.9	148	89	4	442	47	8	8	35	1.64
3045653--3045793	74	2.0	73	84	6	191	45	2	4	46	1.39
3045915--3045968	22	2.3	23	84	6	65	61	0	3	35	1.14
3045970--3046025	24	2.3	24	79	14	62	50	0	3	46	1.19
3046209--3046235	2	13.5	2	100	0	54	51	0	48	0	1.00
3047778--3047831	26	2.1	26	86	6	74	44	1	0	53	1.11
3049249--3049306	30	1.9	31	92	3	100	32	24	8	34	1.86
3050647--3050677	2	16.0	2	93	6	55	48	0	0	51	1.00
3051074--3051116	19	2.2	20	88	8	63	46	0	0	53	1.00
3051349--3051410	26	2.3	26	83	2	70	37	1	3	58	1.24
3051401--3051439	17	2.2	18	90	4	62	28	0	2	69	1.02
3051671--3051727	18	3.0	19	80	16	57	28	0	1	70	0.98
3051694--3051740	21	2.2	22	84	3	60	36	0	0	63	0.94
3051696--3051739	18	2.4	19	80	3	54	36	0	0	63	0.95
3052837--3052887	18	2.7	20	90	6	79	58	0	3	37	1.16
3052837--3052889	19	2.8	19	86	8	72	58	0	3	37	1.16
3052840--3052887	20	2.5	20	90	6	64	60	0	2	37	1.09
3053209--3053279	32	2.3	31	83	14	92	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3053227--3053293	27	2.4	29	78	14	79	46	0	0	53	1.00
3054016--3054064	17	2.8	17	81	3	62	46	0	0	53	1.00
3056407--3056453	3	15.7	3	95	0	76	38	31	29	0	1.58
3056397--3056453	15	3.8	15	92	0	69	40	31	28	0	1.57
3056394--3056449	18	3.1	18	89	0	67	42	32	25	0	1.55
3074778--3074821	2	22.0	2	95	0	79	0	52	0	47	1.00
3074817--3074841	12	2.1	12	100	0	50	0	76	0	24	0.80
3075028--3075074	19	2.6	18	78	15	53	53	0	0	46	1.00
3075501--3075575	32	2.4	31	82	4	96	46	1	0	52	1.09
3075501--3075566	32	2.1	32	88	2	98	50	1	0	48	1.10
3075710--3075753	18	2.3	19	88	7	63	52	6	4	36	1.49
3075920--3075972	17	2.8	18	81	15	63	47	3	0	49	1.19
3076319--3076352	3	11.3	3	100	0	68	67	0	0	32	0.91
3076318--3076371	12	4.1	15	86	11	50	62	0	3	33	1.12
3076532--3076569	3	12.7	3	100	0	76	34	0	0	65	0.93
3077120--3077158	19	1.9	19	90	10	60	33	0	0	66	0.92
3078976--3079045	33	2.0	38	83	13	96	32	0	1	65	1.01
3082004--3082036	2	16.5	2	100	0	66	48	0	0	51	1.00
3083273--3083307	18	2.0	17	88	5	52	65	0	5	28	1.15
3084968--3085018	19	2.6	19	84	9	68	49	0	0	50	1.00
3085877--3085938	14	4.4	14	76	15	56	61	0	0	38	0.96
3092896--3092927	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3093777--3093823	24	2.0	24	82	0	58	53	0	0	46	1.00
3095417--3095474	31	1.9	29	82	6	71	55	0	0	44	0.99
3095553--3095604	26	2.2	22	83	13	59	40	1	5	51	1.37
3095587--3095642	28	2.0	28	83	13	71	50	1	0	48	1.11
3101955--3101987	2	16.5	2	100	0	66	51	0	48	0	1.00
3103081--3103106	3	8.7	3	100	0	52	0	30	0	69	0.89
3107008--3107041	5	7.0	5	90	6	52	0	23	0	76	0.79
3107008--3107041	14	2.4	14	90	5	50	0	23	0	76	0.79
3110260--3110310	2	25.5	2	84	7	59	43	0	7	49	1.32
3117327--3117360	15	2.2	16	89	5	52	58	0	2	38	1.13
3117863--3117889	2	13.5	2	100	0	54	48	0	0	51	1.00
3118550--3118594	12	4.1	12	75	21	53	31	8	0	60	1.28
3118553--3118591	20	1.9	21	89	5	62	30	7	0	61	1.24
3119473--3119523	24	2.2	23	85	3	66	54	0	0	45	0.99
3120967--3121013	24	1.9	25	83	12	62	29	4	12	53	1.58
3121614--3121660	14	3.4	14	74	11	51	46	2	10	40	1.50
3121822--3121855	2	17.0	2	100	0	68	50	0	0	50	1.00
3122107--3122150	3	14.3	3	90	4	70	65	2	0	31	1.05
3122719--3122758	2	20.0	2	100	0	80	50	0	0	50	1.00
3127798--3127881	37	2.2	38	81	8	100	48	1	0	50	1.08
3127802--3127880	39	2.0	39	81	13	92	48	1	0	50	1.08
3128286--3128324	13	2.9	13	88	3	60	43	2	0	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3128464--3128508	22	2.0	22	100	0	90	40	0	17	42	1.50
3128616--3128642	2	13.5	2	100	0	54	51	0	0	48	1.00
3131122--3131185	23	2.6	26	76	18	66	51	0	1	46	1.10
3131211--3131236	2	13.0	2	100	0	52	50	0	0	50	1.00
3133128--3133166	21	1.9	20	89	5	60	33	0	0	66	0.92
3133161--3133241	36	2.3	35	89	4	119	43	0	6	50	1.27
3133223--3133295	30	2.4	30	90	0	119	50	1	8	39	1.41
3133382--3133451	33	2.1	34	84	10	90	51	1	10	37	1.44
3133834--3133876	22	2.0	22	86	9	61	65	2	0	32	1.06
3133836--3133928	5	18.0	5	69	13	55	56	3	1	38	1.22
3133832--3133912	27	2.9	28	77	14	78	54	2	1	41	1.21
3135169--3135201	16	2.0	17	88	5	50	45	0	0	54	0.99
3135291--3135329	19	2.0	19	85	5	51	53	7	12	25	1.65
3135776--3135809	17	1.9	18	94	5	61	88	2	5	2	0.70
3136254--3136279	2	13.0	2	100	0	52	50	0	0	50	1.00
3137634--3137691	23	2.6	21	73	21	64	48	0	0	51	1.00
3138278--3138352	35	2.2	33	86	6	98	52	0	0	48	1.00
3138528--3138566	15	2.5	15	87	4	51	51	7	2	38	1.44
3139850--3139883	9	3.7	9	96	4	59	44	0	2	52	1.16
3141191--3141216	3	8.7	3	100	0	52	30	0	0	69	0.89
3143168--3143196	13	2.2	13	100	0	58	44	13	10	31	1.78
3144800--3144980	64	2.9	62	90	4	283	35	8	9	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3148394--3148432	13	3.0	13	85	7	53	43	0	2	53	1.14
3148391--3148430	9	4.4	9	84	9	55	42	0	2	55	1.13
3148393--3148432	22	1.9	20	90	10	62	42	0	2	55	1.13
3148494--3148566	21	3.3	21	73	11	58	52	0	1	46	1.09
3149075--3149211	73	1.9	74	81	7	172	35	10	10	43	1.74
3149971--3150023	26	2.0	28	85	14	76	35	3	7	52	1.48
3150052--3150145	47	2.0	48	85	6	129	41	2	1	55	1.19
3150058--3150135	23	3.3	23	77	8	86	38	1	1	58	1.14
3150071--3150144	24	3.2	22	72	14	60	44	0	1	54	1.08
3150775--3150841	26	2.3	29	82	12	77	49	0	1	49	1.10

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   
          33