genome.fa.s4.2.7.7.80.10.50.1000.165.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  165  of  198  ( 23681 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)
51893855--51894361	128	4.0	128	91	0	789	31	19	25	24	1.98
51894302--51894540	130	1.8	129	82	7	304	31	20	23	24	1.98
51894591--51894689	44	2.2	44	83	3	128	28	18	27	26	1.98
51895814--51895839	13	2.0	13	100	0	52	15	0	7	76	0.99
51896298--51896326	3	9.7	3	100	0	58	31	0	0	68	0.89
51898898--51898947	11	4.6	11	82	2	57	22	26	0	52	1.48
51898958--51899015	28	2.1	27	81	9	64	39	1	0	58	1.08
51900797--51900834	18	2.1	18	90	0	58	21	26	10	42	1.85
51904492--51904776	126	2.3	126	94	0	498	25	21	20	32	1.97
51907226--51907259	2	17.0	2	93	0	59	47	0	2	50	1.16
51907421--51907480	13	4.5	13	74	10	50	40	3	0	56	1.16
51907431--51907491	20	3.2	20	77	13	65	37	4	0	57	1.20
51907385--51907510	40	3.2	40	76	11	129	37	8	0	53	1.38
51920748--51920939	48	4.0	48	95	0	348	30	13	28	27	1.94
51927011--51927040	16	1.9	16	93	6	53	56	3	0	40	1.16
51927293--51927343	21	2.4	21	80	0	57	29	33	7	29	1.85
51928818--51928856	20	2.0	20	84	0	51	33	0	7	58	1.26
51930545--51930574	7	4.3	7	100	0	60	13	13	13	60	1.60
51932694--51932756	27	2.2	29	81	10	69	60	0	1	38	1.07
51932693--51932749	18	3.4	17	73	7	53	63	0	1	35	1.05
51934825--51934869	22	2.0	22	82	0	54	31	0	6	62	1.21
51938269--51938306	19	2.0	20	89	5	60	23	7	0	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51938292--51938331	20	2.0	20	90	4	64	40	0	0	60	0.97
51938299--51938372	11	7.7	9	69	19	51	41	1	4	52	1.28
51938301--51938371	20	3.6	20	77	7	74	42	1	4	52	1.29
51938360--51938384	12	2.1	12	100	0	50	32	0	0	68	0.90
51940114--51940156	17	2.5	17	96	0	77	53	0	2	44	1.13
51947088--51947336	66	3.5	69	82	9	243	42	12	6	38	1.68
51947194--51947431	82	3.0	79	88	4	329	44	11	6	36	1.68
51958953--51959105	22	7.0	22	90	0	225	32	14	26	26	1.94
51962116--51962401	93	3.1	92	97	1	547	40	6	4	48	1.49
51965106--51965276	66	2.6	65	84	4	209	40	18	28	12	1.88
51965247--51965355	21	5.2	21	82	0	83	35	16	41	6	1.74
51965675--51966002	43	7.7	43	75	5	209	25	20	27	27	1.99
51965688--51965978	86	3.4	86	77	4	239	24	21	28	25	1.99
51965688--51965978	129	2.3	129	81	3	327	24	21	28	25	1.99
51965688--51966002	128	2.4	128	78	3	312	25	20	26	26	1.99
51966074--51966116	22	2.0	22	95	0	77	41	27	20	9	1.83
51966702--51967654	489	1.9	489	94	0	1681	37	15	13	32	1.87
51969424--51969471	22	2.2	22	100	0	96	25	33	0	41	1.55
51969446--51969558	51	2.2	51	93	0	190	28	28	1	41	1.66
51969666--51969738	25	3.1	26	74	16	70	31	0	4	64	1.12
51970674--51970698	7	3.6	7	100	0	50	28	0	12	60	1.32
51971350--51971384	18	1.9	18	88	0	52	25	34	8	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51971385--51971623	132	1.8	132	88	1	372	21	24	28	25	1.99
51973651--51973877	125	1.8	125	94	1	402	33	22	15	28	1.95
51974472--51974811	153	2.2	151	89	4	524	52	7	12	28	1.66
51974977--51975015	2	19.5	2	94	0	69	51	0	0	48	1.00
51979498--51979917	138	3.1	138	90	2	675	45	5	8	41	1.57
51979891--51980037	75	2.0	75	93	2	251	32	10	10	46	1.73
51984891--51984970	27	3.0	27	94	0	133	27	28	30	13	1.94
51987416--51987511	27	3.6	27	97	0	174	16	30	30	22	1.96
51987579--51987646	27	2.5	26	92	4	109	48	1	8	41	1.43
51989138--51989164	2	13.5	2	100	0	54	51	0	0	48	1.00
52006588--52006660	17	4.4	17	76	19	66	53	1	1	43	1.17
52013718--52013773	24	2.3	25	75	9	62	33	5	12	48	1.64
52014462--52014506	22	2.0	22	100	0	90	46	13	8	31	1.74
52015451--52015489	2	19.5	2	100	0	78	51	0	48	0	1.00
52018743--52018782	15	2.7	15	92	0	62	57	7	17	17	1.62
52027436--52027474	18	2.2	18	90	9	62	66	2	0	30	1.05
52028048--52028096	17	2.9	17	72	21	50	24	2	2	71	1.07
52030576--52030627	10	5.1	10	73	13	52	53	0	0	46	1.00
52030623--52030744	9	12.6	9	66	17	50	64	0	3	31	1.15
52030613--52030683	28	2.5	29	93	4	119	64	1	2	30	1.16
52030576--52030716	69	2.0	69	90	5	223	60	0	2	36	1.14
52030637--52030747	40	2.8	39	87	5	168	63	0	3	31	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52030591--52030722	68	2.0	67	90	4	212	63	0	3	32	1.15
52042803--52042860	21	2.8	21	81	2	73	24	17	17	41	1.90
52042804--52042905	42	2.4	42	85	4	127	24	19	14	41	1.89
52043963--52044009	5	9.2	5	80	13	51	36	14	25	23	1.93
52044351--52044391	17	2.4	16	81	14	55	53	7	7	31	1.56
52044811--52044835	9	2.8	9	100	0	50	32	12	12	44	1.78
52046821--52046866	22	2.1	22	84	8	58	43	0	23	32	1.54
52050547--52050584	18	2.0	19	90	10	60	26	15	18	39	1.91
52056335--52056369	16	2.1	17	94	5	63	37	2	11	48	1.54
52058193--52058240	23	2.1	22	84	3	60	27	0	4	68	1.07
52059571--52059615	23	2.0	24	86	8	67	24	0	11	64	1.26
52059748--52059791	14	3.1	14	83	0	52	18	11	0	70	1.16
52062390--52062418	12	2.3	13	94	5	51	37	0	0	62	0.96
52066637--52066704	34	2.0	34	85	2	93	39	8	2	48	1.49
52066751--52066779	12	2.4	12	100	0	58	31	6	0	62	1.22
52067113--52067252	72	1.9	72	85	2	192	29	17	17	35	1.93
52068435--52068714	142	2.0	142	96	0	515	37	17	22	22	1.94
52070268--52070346	32	2.5	32	97	0	149	25	15	5	54	1.61
52071287--52071331	19	2.3	19	88	7	63	80	0	20	0	0.72
52071284--52071332	6	7.8	6	80	14	55	79	0	20	0	0.73
52072654--52073005	44	7.9	44	76	6	334	30	25	20	23	1.98
52072627--52072986	89	4.0	89	85	0	495	30	25	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52073023--52073433	100	4.1	100	86	2	531	32	22	21	23	1.98
52073023--52073433	50	8.2	50	72	1	277	32	22	21	23	1.98
52073421--52073608	44	4.1	44	74	11	180	30	18	22	28	1.97
52074250--52074298	20	2.4	21	80	13	57	10	14	6	69	1.35
52075165--52075237	34	2.2	33	80	9	85	38	8	2	50	1.47
52075645--52075784	72	1.9	72	86	2	201	30	17	17	35	1.93
52079312--52079379	31	2.3	29	78	11	75	38	8	11	41	1.73
52079320--52079379	31	2.0	30	86	3	84	38	10	13	38	1.78
52079637--52079690	20	2.8	20	97	2	101	64	0	3	31	1.11
52079798--52079849	21	2.5	21	87	0	77	30	30	7	30	1.85
52084941--52084995	26	2.1	26	90	6	85	29	0	1	69	0.99
52084946--52084995	16	3.1	16	80	8	57	28	0	2	70	0.99
52095209--52095242	2	17.0	2	87	0	50	52	2	0	44	1.16
52099019--52099055	18	2.2	16	90	9	56	70	2	0	27	1.01
52101768--52101835	31	2.2	31	86	0	91	42	5	16	35	1.72
52105128--52105179	3	17.0	3	88	4	68	59	0	5	34	1.21
52108077--52108539	179	2.6	178	85	0	620	21	23	22	32	1.98
52108006--52108522	268	1.9	268	84	1	687	22	23	22	31	1.98
52108006--52108532	89	5.9	89	83	1	574	22	23	22	31	1.98
52108723--52108760	16	2.5	15	87	8	58	31	2	21	44	1.66
52109428--52109714	93	3.0	93	94	2	484	49	8	15	26	1.73
52113045--52113896	440	1.9	432	81	6	1018	34	19	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52115348--52115411	3	21.0	3	90	3	101	62	0	3	34	1.11
52118187--52118418	41	5.7	40	75	6	198	25	21	20	31	1.98
52118205--52118418	82	2.6	80	81	3	223	25	21	21	32	1.98
52118667--52118912	43	5.8	42	76	7	174	20	20	30	28	1.98
52118993--52119035	22	2.0	22	90	0	68	39	27	23	9	1.85
52126743--52126781	18	2.2	17	86	13	53	33	0	20	46	1.51
52126886--52126914	8	3.6	8	100	0	58	24	13	27	34	1.93
52127001--52127076	23	3.3	23	96	0	143	21	21	26	31	1.98
52132183--52132257	2	41.0	2	82	17	101	45	0	54	0	0.99
52132208--52132350	3	47.0	3	89	10	204	36	0	63	0	0.95

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