genome.fa.s22.2.7.7.80.10.50.1000.11.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: Gbar_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   

This is table  11  of  172  ( 20605 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)
3028769--3028833	18	3.3	19	77	18	62	67	3	0	29	1.05
3029188--3029224	19	1.9	19	89	10	58	29	5	5	59	1.42
3036475--3036514	20	2.1	19	90	4	62	22	27	0	50	1.50
3036511--3036565	27	2.0	27	100	0	110	43	21	0	34	1.53
3036511--3036580	27	2.7	27	89	6	92	41	20	0	38	1.52
3037810--3037848	3	13.0	3	94	0	69	33	2	0	64	1.08
3040298--3040335	20	1.9	20	94	0	67	65	7	7	18	1.43
3040303--3040354	20	2.6	19	84	6	59	67	7	9	15	1.41
3041108--3041138	3	10.3	3	92	0	53	32	3	0	64	1.09
3041135--3041161	6	4.5	6	100	0	54	33	0	0	66	0.92
3041108--3041156	12	4.1	12	78	21	50	32	2	0	65	1.04
3041109--3041161	18	3.0	17	82	17	56	33	1	0	64	1.05
3042494--3042575	30	2.7	30	80	0	92	25	14	20	39	1.91
3044744--3044804	30	2.0	30	96	0	113	26	22	22	27	1.99
3048002--3048043	15	2.9	14	83	16	50	45	11	0	42	1.41
3056794--3056848	20	2.8	20	75	25	62	41	3	10	43	1.57
3061031--3061071	17	2.4	17	79	0	55	34	29	17	19	1.94
3067419--3067487	21	3.5	21	66	22	67	44	0	2	52	1.16
3067409--3067492	38	2.2	39	95	2	152	47	0	2	50	1.14
3067823--3067867	23	2.0	23	95	0	81	15	4	40	40	1.67
3067856--3067925	28	2.4	30	83	9	92	17	1	28	52	1.53
3068211--3068266	21	2.8	19	87	10	85	39	10	14	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3068211--3068289	19	3.7	22	78	14	69	37	8	15	37	1.78
3068485--3068527	23	2.0	21	86	9	59	23	2	13	60	1.45
3068831--3068906	36	2.1	36	80	11	84	38	9	1	51	1.42
3068928--3069056	66	1.9	66	82	3	159	36	7	1	54	1.39
3069000--3069042	23	1.9	22	90	4	68	34	9	2	53	1.46
3068971--3069038	27	2.6	25	80	17	75	35	8	1	54	1.41
3073637--3073669	17	1.9	17	93	0	57	33	27	18	21	1.96
3073638--3073676	17	2.3	17	86	0	51	38	30	12	17	1.88
3078794--3078835	14	3.0	14	76	10	50	42	0	0	57	0.99
3078934--3078973	19	2.1	19	100	0	80	22	15	15	47	1.82
3079634--3079767	64	2.0	66	87	5	191	40	15	9	34	1.80
3081032--3081090	29	2.0	30	83	3	75	50	15	5	28	1.65
3085528--3085578	22	2.5	21	84	9	61	70	0	5	23	1.09
3089301--3089357	29	1.9	30	85	3	80	12	29	5	52	1.60
3089963--3090089	37	3.6	37	77	11	106	44	0	4	49	1.28
3090182--3090274	45	2.1	43	88	9	134	34	25	6	33	1.82
3090256--3090311	16	3.5	16	87	0	85	28	25	7	39	1.82
3090369--3090413	21	2.1	21	84	8	56	44	6	2	46	1.42
3090786--3090844	31	1.9	31	89	0	91	44	13	6	35	1.71
3091906--3091945	17	2.4	17	86	0	53	77	5	2	15	1.04
3093619--3093661	15	2.8	15	85	3	50	25	4	2	67	1.22
3093641--3093679	5	7.8	5	83	11	53	15	2	0	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3093636--3093679	16	2.9	16	93	6	74	15	4	0	79	0.89
3093641--3093680	20	2.0	21	90	5	64	15	2	0	82	0.77
3106061--3106169	42	2.6	42	83	2	139	32	10	28	29	1.90
3107254--3107357	44	2.3	44	88	1	136	32	16	25	25	1.96
3107278--3107362	44	1.9	44	95	0	152	31	18	24	24	1.98
3107662--3107737	9	8.4	9	89	0	116	42	21	10	26	1.85
3108136--3108427	44	6.7	44	77	9	206	31	19	22	26	1.98
3108239--3108622	195	2.0	195	93	1	653	30	17	23	27	1.97
3108528--3108801	44	6.2	44	75	10	229	31	20	24	24	1.98
3108447--3108798	174	2.0	174	93	1	607	29	19	24	26	1.98
3108434--3108866	44	9.9	44	70	9	190	30	19	23	26	1.98
3108504--3109001	218	2.3	217	77	8	490	29	21	23	25	1.99
3115299--3115609	126	2.5	123	83	3	347	38	23	12	25	1.90
3116526--3116550	13	1.9	13	100	0	50	32	0	8	60	1.26
3122196--3122252	24	2.4	24	96	0	105	26	15	15	42	1.87
3122196--3122260	24	2.7	24	90	4	87	26	13	15	44	1.84
3125806--3125831	13	2.0	13	100	0	52	38	15	7	38	1.76
3148014--3148051	18	2.2	18	85	4	51	44	0	2	52	1.14
3148602--3149423	434	1.9	421	86	4	1144	39	12	9	39	1.75
3156353--3156465	58	1.9	58	85	3	156	35	7	29	27	1.85
3157885--3157922	19	2.0	19	100	0	76	31	15	15	36	1.90
3161186--3161226	18	2.2	20	84	16	54	58	0	12	29	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3171363--3171407	18	2.5	18	85	7	56	66	11	20	2	1.33
3174361--3174434	2	39.5	2	70	12	50	54	1	4	40	1.28
3174350--3174397	23	2.1	22	84	3	60	62	2	4	31	1.26
3174371--3174422	15	3.4	16	76	12	56	57	1	0	40	1.10
3174563--3174595	3	11.0	3	100	0	66	66	0	0	33	0.92
3177205--3177229	13	1.9	13	100	0	50	64	0	4	32	1.12
3181801--3182033	97	2.3	100	82	9	257	31	16	23	28	1.96
3186893--3186929	3	12.3	3	100	0	74	67	0	0	32	0.91
3188631--3188663	13	2.4	14	85	10	50	60	6	9	24	1.49
3199730--3199795	29	2.2	30	83	2	89	42	16	6	34	1.73
3200838--3200896	20	3.0	20	80	9	68	52	3	0	44	1.17
3200866--3200906	20	2.0	20	85	0	55	51	0	0	48	1.00
3206405--3206469	4	17.0	4	73	20	59	23	1	1	73	1.00
3206406--3206469	7	9.0	7	86	8	85	23	1	1	73	1.01
3211490--3211594	34	3.1	32	82	10	102	36	32	15	16	1.90
3228396--3228459	31	2.1	31	100	0	128	31	9	12	46	1.73
3229002--3229049	21	2.3	20	93	6	87	70	12	16	0	1.16
3230201--3230386	36	4.9	36	85	12	246	30	19	12	37	1.89
3230175--3230355	82	2.2	81	96	1	326	30	19	14	34	1.92
3230201--3230423	118	1.9	118	94	0	392	30	20	12	37	1.89
3237411--3237444	5	7.2	5	96	3	54	41	14	0	44	1.45
3242277--3242571	133	2.2	132	90	1	466	27	18	22	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3242484--3242666	96	1.9	96	81	2	224	29	22	19	28	1.98
3250884--3250998	53	2.2	53	88	0	176	18	34	20	26	1.96
3251903--3252008	52	2.0	52	96	0	194	34	21	13	30	1.92
3258529--3258556	14	2.0	14	100	0	56	57	7	14	21	1.61
3267884--3268281	27	14.8	27	81	1	395	37	19	19	23	1.94
3268301--3268356	24	2.4	24	78	3	60	16	8	25	50	1.74
3268488--3268540	26	2.1	25	89	3	79	20	24	22	32	1.98
3268496--3268547	26	2.0	26	88	0	77	15	28	26	28	1.96
3268544--3268745	32	6.3	32	88	1	289	22	20	17	39	1.92
3268544--3268753	95	2.2	95	88	2	305	22	20	17	39	1.93
3268742--3268798	22	2.6	21	77	5	60	17	19	19	43	1.88
3269215--3269244	14	2.1	14	93	0	51	80	0	0	20	0.72
3269158--3269249	35	2.7	33	75	9	94	65	1	1	32	1.07
3280604--3280637	15	2.3	15	90	10	52	32	0	0	67	0.91
3280878--3280932	28	1.9	28	85	3	74	47	0	1	50	1.11
3282680--3282729	22	2.3	22	92	0	82	30	22	6	42	1.77
3290264--3290347	41	2.0	41	97	0	159	42	14	16	26	1.86
3290538--3290640	51	2.0	51	98	0	197	28	28	14	29	1.95
3294043--3294126	23	3.8	22	83	9	100	33	26	23	16	1.96
3294043--3294126	44	1.9	44	83	9	109	33	26	23	16	1.96
3294030--3294134	23	4.8	22	81	9	99	35	24	21	18	1.96
3294465--3294514	25	2.0	25	84	11	66	36	22	0	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3295303--3295337	12	3.0	11	91	8	52	0	22	0	77	0.78
3299243--3299331	32	2.7	32	74	6	90	38	8	10	42	1.70
3299455--3299600	43	3.5	42	75	11	129	29	16	27	26	1.97
3301602--3301653	20	2.5	20	81	3	59	44	34	0	21	1.52
3302339--3302542	43	4.7	42	88	3	282	22	25	22	30	1.99
3302339--3302587	43	5.8	44	84	7	228	21	24	21	32	1.98
3304667--3304728	25	2.4	26	89	2	90	40	1	14	43	1.55
3304667--3304738	17	4.2	17	72	13	58	40	1	13	44	1.53
3304896--3304943	9	5.4	9	82	5	62	31	0	20	47	1.50
3307409--3307478	17	4.5	16	74	12	74	32	45	0	21	1.52

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172