genome.fa.s117.2.7.7.80.10.50.1000.17.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2101 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)
2832661--2832731	27	2.6	27	84	4	81	43	15	11	29	1.81
2839170--2839218	25	1.9	26	87	4	73	48	0	2	48	1.12
2840284--2840323	21	1.9	21	94	0	71	40	10	25	25	1.86
2844966--2845100	68	2.0	68	95	0	243	24	9	27	38	1.86
2846002--2846028	2	13.5	2	100	0	54	0	48	0	51	1.00
2848572--2848610	21	1.9	21	84	5	53	33	5	5	56	1.43
2849151--2849255	54	1.9	54	82	3	131	39	21	12	26	1.89
2850261--2850314	11	4.8	11	75	11	56	62	0	1	35	1.06
2859115--2859160	21	2.1	22	84	4	58	30	19	30	19	1.97
2861041--2861107	27	2.7	26	79	9	77	22	8	19	49	1.76
2863148--2863282	68	2.0	68	97	0	252	25	7	29	37	1.83
2864795--2864832	19	2.0	20	84	5	51	63	0	7	28	1.23
2867087--2867125	21	1.9	21	84	5	53	33	5	5	56	1.43
2867474--2867518	22	2.0	22	86	0	63	24	0	0	75	0.80
2867475--2867521	15	3.1	15	79	14	51	27	0	0	72	0.85
2867646--2867808	54	3.0	54	75	10	145	33	28	15	23	1.95
2868123--2868163	19	2.2	19	86	8	57	21	2	0	75	0.92
2881970--2882025	19	2.9	19	84	10	71	12	82	0	5	0.83
2891172--2891203	15	2.0	17	88	11	50	0	34	3	62	1.11
2891806--2891845	21	1.9	21	89	0	62	22	2	0	75	0.93
2895550--2895589	18	2.2	19	86	4	55	42	15	22	20	1.88
2902079--2902111	15	2.1	17	88	11	52	51	24	18	6	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2975386--2975519	67	2.0	68	97	1	252	25	7	29	38	1.83
2977036--2977073	19	2.0	20	84	5	51	63	0	7	28	1.23
2977647--2977671	13	1.9	13	100	0	50	72	0	4	24	1.02
2979272--2979323	22	2.4	22	90	0	77	40	23	1	34	1.66
2984031--2984064	11	3.0	11	95	4	59	73	0	0	26	0.83
2986711--2986771	30	2.0	30	96	0	113	57	9	19	13	1.63
2993529--2993558	14	2.1	14	93	0	51	70	0	0	30	0.88
2994694--2994767	38	1.9	38	81	5	87	64	12	5	17	1.44
2996586--2996709	53	2.3	53	83	6	144	31	26	16	25	1.97
2997732--2997767	11	3.2	11	88	4	54	69	0	0	30	0.89
3008130--3008196	27	2.7	26	79	9	77	20	8	20	49	1.76
3010185--3010320	69	2.0	68	95	1	245	25	8	29	37	1.84
3011168--3011202	2	17.5	2	100	0	70	0	48	0	51	1.00
3011586--3011610	6	4.2	6	100	0	50	52	0	0	48	1.00
3014383--3014500	54	2.2	54	81	0	137	33	23	15	27	1.95
3014952--3015013	23	2.8	22	77	20	67	54	0	0	45	0.99
3015220--3015256	13	2.8	14	84	12	51	48	2	0	48	1.15
3015541--3015586	19	2.4	19	82	7	58	63	2	0	34	1.07
3015702--3015815	55	2.1	55	83	6	142	33	31	11	23	1.90
3016961--3016989	15	1.9	15	100	0	58	58	6	0	34	1.25
3022585--3022642	16	3.6	16	71	0	53	48	1	5	44	1.35
3022554--3022655	32	3.3	31	83	5	134	44	4	7	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3026134--3026163	14	2.1	14	93	0	51	60	0	0	40	0.97
3026129--3026182	26	2.1	26	82	6	65	57	0	0	42	0.98
3028181--3028244	22	2.9	21	86	11	76	65	0	0	34	0.93
3028197--3028244	11	4.2	12	82	17	59	66	0	0	33	0.92
3028234--3028300	26	2.6	25	84	9	82	50	0	0	49	1.00
3028198--3028271	8	9.4	8	72	22	50	62	0	0	37	0.96
3028234--3028298	27	2.6	25	83	11	71	50	0	0	49	1.00
3028185--3028322	17	8.9	15	68	20	54	57	0	0	41	1.03
3030129--3030265	70	2.0	70	97	0	256	32	5	8	53	1.54
3032157--3032190	2	17.0	2	100	0	68	0	50	0	50	1.00
3035284--3035313	1	30.0	1	100	0	60	100	0	0	0	0.00
3040585--3040610	2	13.0	2	100	0	52	0	50	0	50	1.00
3040872--3040931	17	3.1	19	70	18	52	50	0	1	48	1.11
3040883--3040917	18	1.9	18	88	11	54	45	0	0	54	0.99
3041829--3041876	18	2.4	21	76	20	57	41	0	0	58	0.98
3041839--3041890	19	2.7	19	82	14	54	36	0	0	63	0.95
3042458--3042484	11	2.5	11	100	0	54	92	0	7	0	0.38
3044541--3044582	22	1.9	22	90	9	68	38	0	0	61	0.96
3054356--3054393	16	2.3	17	86	4	51	47	0	0	52	1.00
3058675--3058753	39	2.0	39	87	0	113	36	27	11	24	1.90
3067786--3067810	9	2.8	9	100	0	50	76	0	0	24	0.80
3067790--3067824	17	2.1	16	89	5	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3068312--3068347	16	2.2	16	100	0	72	38	8	5	47	1.57
3068643--3068679	2	18.5	2	100	0	74	51	0	0	48	1.00
3069451--3069491	22	1.9	22	85	5	57	63	0	0	36	0.95
3070154--3070183	15	2.1	15	93	6	53	46	6	0	46	1.29
3076791--3076949	31	4.9	30	73	14	111	27	17	21	33	1.96
3076885--3076995	37	3.0	38	81	6	129	26	20	19	33	1.97
3081002--3081035	16	2.1	17	88	5	52	61	8	5	23	1.47
3081551--3081585	15	2.3	15	85	14	54	48	0	0	51	1.00
3082433--3082574	31	4.6	31	75	0	122	28	15	23	32	1.95
3082433--3082575	62	2.3	62	82	2	180	27	15	23	32	1.95
3082543--3082657	37	3.1	37	80	9	135	28	18	17	35	1.93
3083126--3083209	41	2.0	41	84	11	109	50	2	3	44	1.32
3084134--3084171	16	2.3	17	90	4	60	50	0	0	50	1.00
3085317--3085360	17	2.5	17	77	3	52	34	18	2	45	1.62
3086113--3086191	27	2.9	27	77	3	88	48	22	8	20	1.77
3104496--3104542	18	2.6	19	80	19	64	59	0	0	40	0.97
3104534--3104573	14	2.9	15	79	20	52	37	0	0	62	0.95
3104768--3104817	20	2.8	18	76	11	50	62	0	0	38	0.96
3104893--3104921	15	2.0	15	93	6	51	51	0	0	48	1.00
3105593--3105626	2	17.0	2	100	0	68	50	0	0	50	1.00
3106036--3106145	58	1.9	57	81	9	134	51	2	1	43	1.26
3115134--3115175	21	2.0	21	85	4	57	61	4	0	33	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3116609--3116642	2	17.0	2	87	0	50	52	0	44	2	1.16
3117282--3117337	27	2.1	27	96	0	103	44	0	16	39	1.47
3118707--3118774	30	2.2	32	84	10	88	45	0	2	51	1.16
3118825--3118870	21	2.1	21	84	4	56	41	0	0	58	0.98
3119750--3119823	27	2.7	26	83	12	87	60	4	0	35	1.15
3120240--3120277	20	2.0	20	89	5	60	42	0	0	57	0.98
3122085--3122122	20	1.9	20	89	10	60	65	0	0	34	0.93
3122710--3122747	20	1.9	20	88	0	58	28	0	2	68	1.03
3122742--3122807	29	2.2	30	78	10	73	50	0	0	50	1.00
3123514--3123576	31	2.1	31	85	8	85	34	0	0	65	0.93
3123728--3123783	18	3.0	18	72	23	53	30	0	0	69	0.89
3123786--3123835	14	3.5	14	82	15	66	64	0	0	36	0.94
3123793--3123836	8	5.9	8	75	24	51	61	0	0	38	0.96
3123773--3123836	29	2.1	31	88	5	96	59	0	0	40	0.97
3123778--3123854	29	2.6	28	82	11	84	58	0	0	41	0.98
3124092--3124126	2	17.5	2	93	0	61	48	2	0	48	1.16
3124576--3124627	27	2.0	27	81	7	63	13	13	1	71	1.24
3127149--3127184	16	2.2	16	90	0	54	52	0	0	47	1.00
3127221--3127274	28	2.0	27	88	3	81	46	0	0	53	1.00
3127257--3127316	12	4.8	12	76	13	50	53	1	1	43	1.20
3127566--3127613	24	2.0	24	92	8	80	60	0	0	39	0.97
3129125--3129187	22	2.8	22	72	13	56	14	14	11	60	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129801--3129835	17	2.2	15	90	10	52	51	0	0	48	1.00
3138091--3138124	5	6.8	5	93	0	59	55	0	0	44	0.99
3138115--3138155	15	2.7	16	81	7	50	43	0	0	56	0.99
3138151--3138197	10	4.5	10	75	19	51	36	0	0	63	0.94
3138159--3138209	21	2.4	21	86	3	75	37	0	0	62	0.95
3138159--3138204	22	2.1	22	92	4	76	39	0	0	60	0.97
3138124--3138220	16	6.0	16	71	13	65	41	1	0	57	1.05
3139267--3139292	2	13.0	2	100	0	52	50	0	0	50	1.00
3140817--3140856	10	4.3	10	78	18	50	70	0	0	30	0.88
3140823--3140856	17	1.9	18	94	5	61	73	0	0	26	0.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18