genome.fa.s5.2.7.7.80.10.50.1000.9.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  9  of  208  ( 24913 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)
2950913--2950956	20	2.1	21	95	4	81	59	11	0	29	1.32
2960381--2960406	13	2.0	13	100	0	52	30	7	30	30	1.85
2973402--2973456	26	2.1	26	89	0	83	38	30	10	20	1.87
2979802--2979835	13	2.6	13	90	0	50	79	2	0	17	0.86
2982065--2982105	20	2.0	20	86	9	57	12	2	2	82	0.86
2982729--2982779	2	25.5	2	92	7	86	47	1	0	50	1.12
2989808--2989832	13	1.9	13	100	0	50	24	8	0	68	1.16
2990531--2990599	22	3.1	22	78	17	72	26	8	2	62	1.39
2990888--2990982	38	2.5	37	78	13	97	37	12	0	49	1.41
2991452--2991652	106	1.9	106	98	0	393	30	19	18	30	1.96
2997738--2997779	20	2.1	20	95	0	75	40	4	0	54	1.21
3006751--3006775	13	1.9	13	100	0	50	36	8	0	56	1.29
3023187--3023222	3	12.0	3	100	0	72	66	0	0	33	0.92
3023560--3023654	44	2.2	44	92	0	163	35	30	4	29	1.77
3027264--3027347	32	2.6	32	83	10	118	29	8	15	46	1.75
3027515--3027687	48	3.6	48	84	3	240	30	18	22	28	1.97
3027638--3027771	42	3.1	42	77	7	144	27	15	24	32	1.96
3028626--3028740	57	2.0	57	94	0	203	39	8	19	33	1.82
3038010--3038044	15	2.4	15	90	4	54	48	0	8	42	1.33
3047358--3047445	42	2.1	42	82	4	106	39	15	25	19	1.91
3047373--3047532	42	3.8	41	76	8	137	43	17	20	18	1.88
3048988--3049360	188	2.0	189	96	0	685	35	10	24	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050703--3050753	3	17.0	3	100	0	102	66	0	0	33	0.92
3052360--3052400	20	2.0	20	90	0	64	34	39	14	12	1.84
3053561--3053655	46	2.1	46	97	0	181	31	21	14	32	1.93
3053995--3054044	22	2.2	23	89	3	75	48	8	10	34	1.66
3054006--3054052	22	2.1	22	84	0	58	53	12	6	27	1.63
3060906--3060962	19	3.0	19	75	10	62	54	5	3	36	1.40
3061673--3061748	38	2.0	39	84	2	100	59	2	0	38	1.12
3062613--3062655	20	2.1	21	86	4	61	39	0	4	55	1.20
3077926--3077979	25	2.1	26	83	10	67	57	3	16	22	1.55
3079372--3079563	97	2.0	96	83	2	240	30	17	24	28	1.97
3079935--3079970	18	2.0	18	89	10	56	25	0	5	69	1.10
3080911--3080973	7	8.9	7	82	3	81	3	1	49	46	1.27
3080911--3080985	14	5.3	14	83	4	80	4	1	45	49	1.29
3080924--3080985	21	3.0	21	80	0	79	3	0	46	50	1.17
3080911--3080973	28	2.2	29	88	2	92	3	1	49	46	1.27
3083606--3083640	17	2.1	17	88	0	52	45	14	0	40	1.45
3083642--3083700	13	4.5	13	87	8	75	40	10	1	47	1.47
3083986--3084031	13	3.6	12	85	11	56	41	10	2	45	1.51
3083457--3084152	344	2.1	330	91	4	1126	40	8	2	48	1.47
3084271--3084370	39	2.6	37	81	9	130	48	14	2	36	1.55
3084344--3084474	9	15.0	9	69	12	85	45	19	3	32	1.66
3084390--3084447	25	2.3	25	84	0	80	46	18	1	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090003--3090060	21	2.8	21	94	0	98	29	22	46	1	1.62
3090456--3090502	24	2.0	24	86	0	67	74	0	25	0	0.82
3090464--3090514	22	2.2	24	89	6	79	72	0	27	0	0.85
3090863--3092063	152	7.9	150	80	9	1234	51	7	10	30	1.62
3091044--3091091	13	3.8	13	77	5	53	64	8	4	22	1.38
3091508--3091540	16	1.9	18	88	11	52	69	0	0	30	0.88
3093197--3093240	13	3.2	13	77	22	54	29	11	22	36	1.89
3094105--3094253	77	1.9	76	93	1	253	40	9	10	40	1.71
3095421--3095464	19	2.3	19	88	0	61	56	27	2	13	1.49
3096998--3097056	29	2.0	29	96	0	109	54	0	8	37	1.31
3097061--3097098	9	4.2	9	93	0	67	28	10	13	47	1.76
3098629--3098672	3	14.7	3	95	0	79	65	0	2	31	1.05
3100760--3100806	3	15.7	3	100	0	94	34	0	0	65	0.93
3100977--3101005	12	2.4	12	100	0	58	41	10	0	48	1.37
3102947--3102988	19	2.2	19	83	8	50	28	21	9	40	1.84
3103866--3103971	27	4.1	27	82	11	141	34	0	13	50	1.47
3103822--3103950	65	1.9	67	89	4	199	33	0	13	52	1.45
3103847--3104014	49	3.6	46	83	8	187	33	0	14	51	1.48
3103828--3103895	19	3.6	19	89	0	109	35	0	13	51	1.41
3104071--3104149	27	2.9	27	96	0	140	24	39	20	16	1.92
3106576--3106624	13	3.6	14	78	8	57	59	0	22	18	1.38
3107925--3108387	132	3.5	132	93	0	764	29	19	23	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3108406--3109049	89	7.2	89	91	0	1047	30	16	24	28	1.97
3109087--3109328	44	5.5	44	79	8	305	33	19	22	25	1.97
3109084--3109369	88	3.3	88	95	1	520	32	19	20	26	1.97
3109084--3109378	44	6.7	44	78	8	298	33	19	21	25	1.97
3110817--3110883	3	22.3	3	96	0	98	32	5	0	61	1.20
3111072--3111100	12	2.4	12	100	0	58	41	10	0	48	1.37
3113008--3113415	77	5.3	77	98	0	780	38	10	11	39	1.76
3115733--3116471	153	5.0	139	72	17	502	30	10	7	51	1.63
3115527--3116581	305	3.5	304	87	6	1515	30	10	7	51	1.63
3116914--3117021	38	3.0	34	75	19	105	0	35	0	64	0.94
3116933--3116985	13	4.0	14	74	18	51	0	33	0	66	0.92
3116941--3117008	27	2.6	27	84	11	79	0	33	0	66	0.92
3116931--3117014	19	4.3	19	72	15	64	0	36	0	63	0.95
3116901--3116997	45	2.2	44	80	12	108	1	31	0	67	0.98
3116916--3117023	11	10.3	11	69	22	54	0	37	0	62	0.95
3123701--3123743	14	3.1	14	77	12	52	58	4	0	37	1.19
3126061--3126103	20	2.1	21	86	4	61	39	0	4	55	1.20
3126813--3126880	30	2.3	29	80	10	75	50	1	16	32	1.54
3129473--3129528	20	2.8	20	78	13	69	37	14	1	46	1.55
3130782--3130825	18	2.3	19	85	14	56	61	2	2	34	1.21
3134059--3134089	13	2.4	13	94	0	53	54	0	0	45	0.99
3138318--3138379	22	2.7	22	90	5	88	48	1	1	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3138353--3138409	16	3.6	16	90	0	87	47	3	3	45	1.37
3138455--3138631	93	2.0	90	87	7	263	40	5	6	47	1.54
3145032--3145134	44	2.3	45	85	5	129	25	28	20	26	1.99
3145032--3145331	45	6.7	44	70	12	146	28	22	18	31	1.97
3146398--3146442	20	2.4	19	85	7	56	66	4	2	26	1.22
3146516--3146569	25	2.2	25	100	0	108	33	3	14	48	1.62
3146524--3146579	25	2.2	25	90	0	85	41	3	8	46	1.52
3159447--3159507	30	2.0	31	90	3	97	19	44	0	36	1.51
3159612--3159671	30	2.0	31	90	3	95	20	36	0	43	1.52
3159754--3159785	16	2.0	16	93	0	55	28	28	0	43	1.55
3159773--3159817	20	2.2	21	84	11	58	22	33	0	44	1.53
3159928--3159974	17	2.8	17	79	20	62	36	2	6	55	1.37
3160068--3160113	17	2.5	19	76	23	53	43	6	0	50	1.28
3160924--3160963	17	2.4	17	91	8	64	47	12	10	30	1.74
3163331--3163357	13	2.1	13	100	0	54	40	37	0	22	1.54
3165050--3165114	18	3.6	18	69	21	55	33	0	0	66	0.92
3165045--3165108	25	2.5	25	90	10	94	29	0	0	70	0.88
3165045--3165114	26	2.7	26	86	6	97	31	0	0	68	0.90
3165638--3165882	123	2.0	123	86	3	341	30	14	10	44	1.78
3171278--3171347	35	2.0	35	91	0	113	41	2	4	51	1.36
3171275--3171337	17	3.6	17	77	12	65	42	1	3	52	1.27
3171874--3171988	38	3.0	38	81	7	135	23	20	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3171927--3172039	38	3.0	38	80	7	106	25	23	20	30	1.99
3177560--3177627	33	2.1	33	100	0	136	23	19	20	36	1.95
3179792--3179840	18	2.6	18	80	6	53	30	6	22	40	1.78
3181453--3181533	35	2.3	36	81	8	96	49	2	11	37	1.52
3181772--3181820	5	9.2	5	78	12	53	59	2	2	36	1.21
3181871--3181904	3	11.3	3	93	0	59	67	2	0	29	1.05
3181871--3181908	9	4.2	9	93	0	58	65	5	0	28	1.14
3182449--3182488	16	2.3	18	80	20	50	70	5	5	20	1.26
3183888--3183972	42	2.0	41	88	2	125	41	14	5	38	1.70
3186745--3186800	28	2.0	28	92	0	94	37	8	5	48	1.58

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208