genome.fa.s127.2.7.7.80.10.50.1000.19.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  19  of  26  ( 3103 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)
3004968--3005012	15	3.1	15	84	12	51	35	2	0	62	1.08
3004976--3005014	15	2.6	15	88	8	53	41	2	0	56	1.13
3006076--3006109	7	4.7	7	92	3	50	50	0	0	50	1.00
3007386--3007419	2	17.0	2	100	0	68	50	0	0	50	1.00
3007636--3007669	15	2.3	15	94	0	59	58	0	0	41	0.98
3008245--3008312	32	2.1	32	94	0	118	29	19	14	36	1.91
3008593--3008631	5	7.6	5	88	11	53	56	0	0	43	0.99
3008593--3008633	16	2.6	17	88	11	61	56	0	0	43	0.99
3020993--3021031	2	19.5	2	100	0	78	48	0	0	51	1.00
3021200--3021231	2	16.0	2	100	0	64	50	0	0	50	1.00
3022161--3022191	16	1.9	16	93	0	53	64	0	0	35	0.94
3023065--3023106	15	2.7	15	88	3	66	50	0	2	47	1.14
3023693--3023741	19	2.7	18	87	9	73	55	0	0	44	0.99
3023753--3023831	27	2.9	27	71	19	74	55	0	2	41	1.13
3023781--3023819	13	2.8	14	80	11	53	61	0	2	35	1.10
3023742--3023833	35	2.7	33	72	18	80	55	0	2	42	1.12
3024670--3024724	2	27.0	2	96	3	101	49	1	0	49	1.11
3025025--3025129	23	4.5	23	72	13	72	56	0	0	43	0.99
3030126--3030199	20	3.8	19	84	8	87	29	16	17	36	1.92
3030227--3030296	33	2.1	34	89	7	108	34	12	18	34	1.89
3036692--3036775	42	2.0	42	97	0	159	33	25	4	36	1.77
3038934--3039005	20	3.7	20	90	1	101	27	16	13	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3038973--3039026	20	2.8	19	86	10	74	31	16	16	35	1.92
3039055--3039124	34	2.1	33	86	7	97	30	12	24	32	1.93
3041471--3041601	40	3.4	41	76	13	168	45	0	1	52	1.10
3041477--3041625	76	2.0	75	92	7	254	44	0	2	53	1.15
3041490--3041660	76	2.2	76	85	4	220	44	2	2	50	1.27
3043180--3043236	18	3.4	17	80	9	62	54	0	0	45	0.99
3043182--3043244	24	2.7	23	80	9	56	53	0	0	46	1.00
3043269--3043293	13	1.9	13	100	0	50	56	0	4	40	1.18
3043203--3043307	15	7.3	14	70	24	60	57	0	1	40	1.16
3043317--3043375	31	1.9	31	86	6	84	40	0	1	57	1.09
3043352--3043390	19	2.1	19	90	4	62	41	0	0	58	0.98
3043825--3043883	17	3.5	17	76	0	64	49	0	5	45	1.24
3043822--3043888	34	1.9	35	87	3	100	49	0	5	44	1.27
3043928--3043954	2	13.5	2	100	0	54	48	0	0	51	1.00
3044303--3044353	20	2.5	21	76	20	63	68	0	0	31	0.90
3050172--3050258	42	2.1	42	88	0	129	17	11	49	21	1.78
3051204--3051236	5	6.6	5	89	10	50	18	0	3	78	0.87
3052146--3052181	16	2.2	16	90	0	54	41	5	5	47	1.50
3052452--3052493	16	2.6	16	77	7	50	30	14	7	47	1.71
3057322--3057351	11	2.6	12	94	5	53	46	0	3	50	1.18
3057309--3057422	30	3.9	29	86	7	151	47	0	0	50	1.13
3057309--3057422	59	1.9	60	87	8	171	47	0	0	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3057318--3057441	29	4.2	29	82	8	99	46	0	0	51	1.12
3057425--3057475	17	2.9	17	72	13	50	41	0	1	56	1.10
3057703--3057780	5	16.0	5	70	21	51	58	0	0	41	0.98
3057705--3057782	20	4.1	19	77	14	79	56	0	0	43	0.99
3057719--3057790	20	3.4	20	79	12	65	59	0	0	40	0.97
3059419--3059456	16	2.3	17	86	4	51	57	0	0	42	0.98
3062366--3062392	14	1.9	14	100	0	54	14	37	7	40	1.74
3062363--3062397	14	2.8	12	84	16	52	14	37	8	40	1.76
3062476--3062502	6	4.5	6	100	0	54	51	0	0	48	1.00
3063376--3063402	6	4.5	6	100	0	54	33	18	14	33	1.92
3064752--3064813	22	2.7	23	78	16	67	41	1	0	56	1.09
3064754--3064807	21	2.5	22	80	19	69	38	1	0	59	1.08
3064747--3064820	21	3.6	22	74	16	61	44	1	0	54	1.08
3072208--3072254	17	2.9	16	78	12	51	48	2	2	46	1.25
3072757--3072815	10	5.8	11	73	18	56	47	0	1	50	1.11
3072752--3072814	19	3.2	19	77	6	63	47	0	1	50	1.10
3073575--3073620	24	1.9	25	86	8	69	45	0	0	54	0.99
3075237--3075261	12	2.1	12	100	0	50	60	0	0	40	0.97
3076028--3076131	17	6.0	17	66	26	58	47	0	0	50	1.14
3076109--3076174	34	2.1	34	86	11	95	50	1	0	48	1.10
3076023--3076163	66	2.1	69	80	12	159	48	1	0	49	1.15
3076655--3076726	30	2.4	30	90	0	108	44	2	0	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3077003--3077054	27	1.9	27	88	7	79	57	3	11	26	1.51
3088544--3088599	24	2.4	24	84	3	69	42	0	3	53	1.18
3093548--3093574	6	4.5	6	100	0	54	37	33	0	29	1.58
3093775--3093801	2	13.5	2	100	0	54	51	0	0	48	1.00
3100352--3100386	4	8.8	4	100	0	70	51	22	0	25	1.48
3101861--3101900	17	2.4	17	100	0	80	35	10	30	25	1.88
3104954--3104992	22	1.9	20	85	15	53	43	7	10	38	1.67
3112929--3112964	18	2.1	18	89	5	56	38	16	22	22	1.93
3113987--3114022	18	2.1	18	89	5	56	38	16	22	22	1.93
3115821--3115845	13	1.9	13	100	0	50	36	16	16	32	1.90
3115801--3115865	33	2.0	33	85	11	89	35	15	16	32	1.91
3122157--3122206	21	2.4	22	83	9	61	32	20	0	48	1.50
3124531--3124586	19	2.8	20	86	5	78	33	16	16	33	1.91
3126867--3126899	16	2.1	16	94	0	57	51	6	21	21	1.69
3132696--3132743	21	2.3	21	85	7	62	35	18	6	39	1.76
3134818--3134860	20	2.0	22	86	8	63	18	13	20	46	1.83
3142068--3142126	26	2.3	26	82	11	68	35	0	6	57	1.25
3142525--3142597	6	13.6	5	80	13	51	56	1	1	41	1.16
3142566--3142595	6	5.2	6	92	8	53	46	0	0	53	1.00
3142560--3142595	11	3.1	11	88	11	54	47	0	0	52	1.00
3143544--3143590	2	23.5	2	95	0	85	2	46	0	51	1.13
3143590--3143623	2	16.5	2	93	6	59	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3144656--3144821	54	3.1	54	77	1	172	29	21	31	16	1.96
3144671--3144822	27	5.6	27	74	9	114	28	22	32	16	1.96
3149037--3149129	38	2.5	37	85	5	116	37	3	0	59	1.14
3149051--3149129	38	2.1	38	88	6	117	43	3	0	53	1.19
3152196--3152229	14	2.4	14	95	0	59	29	8	38	23	1.85
3153956--3154017	29	2.2	27	80	5	70	62	6	1	29	1.29
3154136--3154194	29	2.0	29	90	6	93	47	18	5	28	1.70
3158766--3158799	14	2.4	14	86	13	52	41	2	0	55	1.15
3159020--3159060	13	3.2	13	86	3	57	34	0	0	65	0.93
3159905--3159938	12	2.8	12	90	4	50	70	2	0	26	1.01
3160068--3160094	7	3.9	7	100	0	54	44	0	0	55	0.99
3160484--3160524	22	2.0	20	90	9	64	31	0	0	68	0.90
3160484--3160523	21	2.0	20	90	5	62	32	0	0	67	0.91
3160940--3160972	16	2.1	16	94	0	57	27	27	27	18	1.98
3162870--3162917	7	6.7	7	81	13	53	62	2	0	35	1.07
3162884--3162916	16	2.1	16	94	0	57	63	3	0	33	1.10
3163449--3163514	15	4.1	18	67	23	56	45	0	1	53	1.09
3163514--3163560	19	2.7	17	81	15	60	31	0	0	68	0.90
3163508--3163571	23	2.7	23	85	7	76	37	0	0	62	0.95
3164232--3164275	18	2.4	18	78	14	54	47	0	0	52	1.00
3165791--3165843	22	2.3	22	84	12	63	49	0	1	49	1.12
3165763--3165893	42	3.1	42	76	14	112	48	2	3	45	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165937--3166064	29	4.5	30	73	19	98	44	2	3	50	1.30
3165987--3166021	11	3.0	12	83	8	54	42	0	2	54	1.15
3166993--3167050	18	3.3	18	75	20	61	51	0	0	48	1.00
3166983--3167030	19	2.6	19	83	3	62	43	0	0	56	0.99
3167010--3167061	14	3.6	14	75	10	52	55	0	0	44	0.99
3167407--3167459	22	2.4	23	84	9	74	28	0	3	67	1.07
3169200--3169239	2	20.0	2	100	0	80	50	0	0	50	1.00
3169554--3169597	16	2.8	16	86	6	54	29	2	0	68	1.02
3169593--3169650	18	3.3	18	79	11	68	37	0	1	60	1.07
3169553--3169621	23	3.0	22	81	12	77	28	1	0	69	0.97

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