genome.fa.s412.2.7.7.80.10.50.1000.22.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  22  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)
3015607--3015680	20	3.7	20	73	20	64	44	10	13	31	1.78
3015607--3015714	40	2.7	40	91	0	162	44	12	13	29	1.80
3015627--3015718	20	4.6	20	81	8	107	43	13	15	28	1.83
3015736--3015765	13	2.3	13	94	0	51	40	10	16	33	1.82
3015749--3015803	20	2.8	20	91	0	92	49	14	12	23	1.78
3016412--3016436	13	1.9	13	100	0	50	36	16	16	32	1.90
3028917--3029436	42	12.3	42	72	9	321	17	28	18	35	1.94
3028918--3029436	167	3.1	168	79	5	487	17	28	18	35	1.94
3029202--3029437	43	5.5	43	79	5	221	16	28	18	36	1.93
3028906--3029436	85	6.3	84	79	6	527	17	28	18	35	1.94
3030480--3030516	16	2.3	16	95	0	65	35	21	29	13	1.92
3030842--3031052	30	7.0	30	78	8	198	41	32	19	6	1.77
3030842--3031043	60	3.3	60	80	7	223	41	33	18	6	1.78
3037230--3037282	23	2.3	23	96	0	97	58	0	20	20	1.39
3038962--3039007	14	3.3	14	78	0	56	30	17	17	34	1.93
3038962--3039020	28	2.1	28	81	6	66	27	18	16	37	1.93
3039345--3039387	17	2.6	17	86	13	63	41	0	0	58	0.98
3043792--3043921	44	3.0	43	87	4	188	23	13	26	37	1.91
3047208--3047283	2	39.0	2	92	5	129	0	48	1	50	1.09
3047649--3047676	2	14.0	2	100	0	56	0	50	0	50	1.00
3047879--3047914	6	5.7	6	90	9	54	13	2	0	83	0.76
3049323--3049362	20	2.0	20	90	9	64	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3049646--3049690	7	6.6	7	82	14	58	60	0	0	40	0.97
3049647--3049698	20	2.5	20	81	12	61	57	0	0	42	0.98
3049670--3049696	14	1.9	14	100	0	54	62	0	0	37	0.95
3050899--3050962	28	2.4	27	80	12	69	60	0	0	39	0.97
3050921--3050960	22	1.9	22	90	10	66	62	0	0	37	0.95
3050943--3051027	35	2.5	34	81	9	86	60	3	3	32	1.31
3051178--3051202	13	1.9	13	100	0	50	48	0	8	44	1.32
3051040--3051428	213	1.8	214	83	0	519	52	4	7	34	1.50
3051774--3051821	22	2.1	23	84	7	62	41	0	4	54	1.20
3053700--3053744	17	2.6	18	80	20	51	40	2	0	57	1.11
3054166--3054215	22	2.3	22	80	13	59	58	0	4	38	1.17
3053880--3054451	200	2.8	198	87	5	810	52	4	5	37	1.46
3054392--3054429	19	1.9	21	89	10	62	57	0	0	42	0.98
3054482--3054544	8	7.8	8	75	8	56	49	1	9	39	1.45
3054492--3054544	24	2.2	24	83	6	63	50	1	9	37	1.46
3056608--3056639	2	16.0	2	100	0	64	50	0	0	50	1.00
3059507--3059541	17	2.1	17	100	0	70	40	11	11	37	1.77
3060216--3060255	16	2.5	16	87	0	62	50	7	7	35	1.59
3067842--3067918	12	6.9	12	71	21	53	42	0	41	15	1.47
3067824--3067951	42	3.0	41	89	4	184	43	0	40	15	1.47
3076353--3076407	24	2.3	25	93	6	96	49	7	18	25	1.73
3078243--3078322	39	2.1	39	100	0	160	47	10	2	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3079638--3080130	260	1.9	260	97	0	932	43	9	8	39	1.67
3081925--3081955	3	10.3	3	100	0	62	32	0	0	67	0.91
3082854--3082897	3	14.7	3	95	0	79	31	2	0	65	1.05
3090346--3090386	2	21.0	2	95	5	75	51	0	48	0	1.00
3090632--3090712	40	2.1	36	84	8	99	53	1	3	41	1.27
3090916--3090963	3	16.0	3	100	0	96	33	0	0	66	0.92
3091889--3091946	24	2.4	24	80	13	66	36	5	3	55	1.39
3091092--3092130	500	2.0	505	93	4	1767	41	6	6	46	1.54
3091129--3092127	502	2.0	493	94	4	1685	41	6	6	46	1.54
3093290--3093443	73	2.1	74	82	8	181	42	8	5	42	1.59
3093993--3094038	21	2.1	23	84	8	60	58	0	0	41	0.98
3094007--3094044	19	2.0	19	89	0	58	57	0	0	42	0.98
3094998--3095026	2	14.5	2	100	0	58	48	0	0	51	1.00
3096314--3096370	19	2.9	19	73	5	60	64	0	1	33	1.04
3096315--3096369	5	11.4	5	75	21	55	63	0	1	34	1.05
3096305--3096451	31	4.7	31	68	22	85	53	0	0	44	1.10
3096312--3096369	29	2.0	29	87	12	84	62	0	1	36	1.06
3096413--3096480	20	3.6	19	75	11	61	61	0	0	38	0.96
3096781--3096809	5	5.8	5	100	0	58	0	0	41	58	0.98
3097139--3097224	36	2.5	35	81	11	106	41	0	2	55	1.12
3097289--3097334	16	2.9	16	84	15	69	71	0	0	28	0.86
3097292--3097340	14	3.3	14	86	11	62	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)
3099144--3099191	14	3.5	13	86	8	60	45	0	2	52	1.12
3099144--3099185	13	3.2	13	90	6	66	47	0	0	52	1.00
3099217--3099298	28	3.3	26	77	17	93	47	0	0	52	1.00
3100373--3100431	21	3.0	20	74	18	70	59	0	0	40	0.97
3100368--3100424	22	2.6	21	78	15	71	57	1	0	40	1.09
3100394--3100455	16	3.8	16	77	10	63	51	1	1	45	1.20
3102733--3102757	2	12.5	2	100	0	50	52	0	0	48	1.00
3104069--3104131	17	4.3	15	75	22	62	11	11	0	77	0.99
3104066--3104133	27	2.6	26	90	6	102	10	10	0	79	0.94
3106031--3106420	58	6.8	57	73	7	214	42	18	11	27	1.84
3106202--3106414	116	1.8	115	81	7	261	42	17	13	27	1.86
3107286--3107343	17	3.4	17	73	17	50	0	15	3	81	0.83
3110727--3110783	19	3.0	19	84	5	71	29	10	14	45	1.78
3110822--3110846	13	1.9	13	100	0	50	32	16	16	36	1.90
3110835--3110983	52	2.9	50	87	6	208	33	17	17	31	1.93
3123905--3123982	20	3.8	20	77	9	86	34	11	12	41	1.80
3128108--3128161	20	2.7	20	88	2	72	37	7	18	37	1.79
3131785--3131918	58	2.3	58	79	5	146	50	11	8	28	1.69
3132322--3132434	58	1.9	59	81	10	135	46	11	9	31	1.72
3135388--3135461	20	3.7	20	77	10	78	31	14	14	39	1.87
3135378--3135461	20	4.1	21	74	10	75	29	15	15	39	1.88
3135378--3135461	41	2.0	41	93	0	141	29	15	15	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3135498--3135525	13	2.2	13	100	0	56	39	17	14	28	1.89
3135588--3135612	13	1.9	13	100	0	50	32	16	16	36	1.90
3136427--3136700	52	4.8	62	83	7	179	35	14	25	24	1.93
3136655--3136978	43	7.1	44	81	11	393	30	18	26	25	1.98
3136602--3136978	92	4.1	92	93	1	628	30	17	26	24	1.97
3136994--3137222	65	3.7	63	81	11	242	29	13	35	21	1.92
3137012--3137693	62	11.0	60	73	18	333	30	13	34	20	1.92
3137013--3137777	27	24.5	31	73	16	524	30	13	35	20	1.92
3137200--3137783	62	9.4	62	78	12	542	30	13	34	21	1.92
3137040--3137694	158	4.2	151	76	14	599	30	13	34	21	1.92
3137075--3137752	125	5.5	122	74	17	444	30	13	34	21	1.92
3137079--3137721	189	3.5	191	87	7	871	30	13	34	21	1.92
3137378--3137829	155	2.9	153	78	13	454	30	14	34	20	1.92
3137949--3137986	16	2.3	17	86	4	51	26	5	23	44	1.74
3138795--3138842	17	2.8	17	90	0	69	0	8	10	81	0.88
3143952--3143983	16	2.0	16	93	0	55	34	18	28	18	1.95
3146067--3146191	52	2.4	52	95	0	223	28	17	18	36	1.94
3146067--3146211	52	2.8	52	89	4	204	30	17	17	34	1.93
3146197--3146224	13	2.2	13	100	0	56	39	17	14	28	1.89
3146266--3146290	13	1.9	13	100	0	50	32	16	16	36	1.90
3147032--3147067	19	1.9	19	88	5	56	22	5	19	52	1.66
3147029--3147167	52	2.7	52	81	7	169	28	11	14	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3147029--3147166	51	2.7	50	80	9	154	28	11	14	45	1.80
3147586--3147610	12	2.1	12	100	0	50	32	32	0	36	1.58
3148747--3148800	25	2.2	25	100	0	108	27	11	22	38	1.88
3155126--3155770	79	8.2	78	80	3	607	33	12	24	28	1.92
3155124--3155770	158	4.1	157	81	4	678	33	12	24	28	1.92
3155141--3155770	237	2.7	236	84	3	770	33	12	25	28	1.93
3157671--3157724	20	2.7	20	94	0	90	44	11	14	29	1.80
3158564--3159057	61	8.2	58	80	6	382	28	18	26	26	1.98
3158564--3158957	117	3.3	118	78	7	357	27	20	25	26	1.99
3158564--3159057	59	8.2	60	81	5	446	28	18	26	26	1.98

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