genome.fa.s10.2.7.7.80.10.50.1000.153.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  153  of  202  ( 24201 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)
47618804--47618835	16	1.9	17	93	6	57	37	21	0	40	1.54
47618995--47619108	41	2.7	42	81	9	126	30	28	17	22	1.97
47618997--47619155	84	1.9	84	82	10	200	31	28	17	22	1.96
47618997--47619152	43	3.7	42	74	14	151	30	29	17	22	1.97
47620880--47620914	15	2.4	15	95	4	63	28	5	14	51	1.65
47631587--47631622	15	2.4	15	95	0	63	30	8	25	36	1.85
47636427--47636476	22	2.3	22	89	0	82	38	8	28	26	1.84
47650018--47650098	26	3.1	25	79	10	74	16	18	22	43	1.88
47650078--47650218	24	5.8	24	72	9	81	19	27	21	31	1.97
47650038--47650231	24	7.9	23	70	13	79	18	25	22	34	1.96
47660535--47660569	16	2.2	16	89	0	52	37	28	20	14	1.91
47664557--47664646	39	2.3	39	98	0	171	30	16	15	37	1.90
47664675--47664729	16	3.4	16	68	26	53	21	30	1	45	1.62
47664656--47664730	32	2.3	32	95	0	132	22	28	2	46	1.65
47666602--47666760	28	5.7	28	90	0	210	33	25	20	19	1.96
47666878--47666953	26	2.9	26	90	0	107	36	26	21	15	1.93
47667091--47667153	27	2.3	27	81	5	74	23	12	23	39	1.89
47667105--47667771	27	25.2	27	73	13	163	18	18	19	42	1.89
47667270--47667771	27	18.6	27	79	6	311	18	18	20	42	1.90
47667214--47667771	54	10.4	53	79	6	423	18	18	20	42	1.89
47667247--47667771	81	6.5	81	78	6	415	19	18	19	42	1.89
47672069--47672111	22	2.0	22	100	0	86	37	13	25	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47672179--47672233	16	3.4	16	74	18	60	23	30	0	45	1.53
47672176--47672250	32	2.3	32	97	0	141	25	29	0	45	1.54
47672195--47672249	16	3.4	16	72	18	60	23	30	0	45	1.53
47676178--47676205	1	28.0	1	100	0	56	100	0	0	0	0.00
47677313--47677361	16	2.8	18	78	15	57	59	4	0	36	1.17
47677349--47677373	7	3.6	7	100	0	50	64	12	0	24	1.27
47680286--47680346	22	2.8	22	87	0	86	31	34	14	19	1.92
47688605--47688629	13	1.9	13	100	0	50	72	0	4	24	1.02
47702349--47702404	28	2.0	28	92	0	94	26	33	26	12	1.92
47703271--47703372	30	3.4	30	76	0	87	21	24	12	41	1.88
47707264--47707298	11	3.2	11	91	0	52	5	20	0	74	1.02
47709398--47709472	31	2.6	29	79	14	82	24	6	1	68	1.22
47709400--47709480	19	4.1	20	70	19	62	25	6	2	65	1.29
47712006--47712115	30	3.8	28	69	19	82	23	19	10	47	1.79
47712226--47712255	7	4.3	7	100	0	60	30	13	30	26	1.94
47712539--47712690	59	2.6	59	80	7	166	52	9	13	23	1.70
47714631--47714673	16	2.6	17	82	7	54	53	4	0	41	1.21
47715191--47715225	3	11.7	3	100	0	70	65	0	0	34	0.93
47718384--47718558	23	7.6	23	80	0	143	45	21	13	18	1.84
47718386--47718557	69	2.5	69	79	0	182	45	22	13	18	1.84
47720917--47720973	23	2.4	24	74	11	64	73	0	22	3	0.98
47725444--47725831	194	2.0	194	100	0	776	45	11	9	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47730250--47730933	50	13.7	50	71	4	392	25	22	22	29	1.99
47730250--47730529	151	1.9	150	91	0	461	24	23	23	27	2.00
47730349--47730946	100	6.0	101	81	5	682	25	22	22	30	1.99
47730360--47730945	199	2.9	198	92	1	985	24	22	22	30	1.99
47742191--47742224	16	2.1	16	94	0	59	41	2	5	50	1.42
47742295--47742342	25	1.9	25	100	0	96	47	8	4	39	1.53
47742413--47742437	8	3.1	8	100	0	50	24	12	0	64	1.27
47743010--47743108	24	4.1	24	73	17	105	43	22	0	34	1.53
47745087--47745137	27	1.9	26	88	11	77	21	9	11	56	1.63
47746991--47747040	25	2.0	25	96	0	91	28	38	12	22	1.89
47751423--47751466	19	2.2	20	88	4	63	25	2	4	68	1.20
47751575--47751615	21	2.0	22	90	9	68	24	2	0	73	0.96
47751578--47751623	20	2.2	21	81	14	51	26	2	2	69	1.11
47765076--47765108	14	2.4	14	100	0	66	48	6	30	15	1.69
47769702--47769798	25	3.9	25	77	10	117	35	21	25	17	1.95
47769707--47769821	50	2.3	50	83	5	151	36	20	24	19	1.95
47769796--47769986	94	2.0	94	97	0	364	30	21	20	27	1.98
47784749--47784837	31	3.2	31	73	26	115	34	21	2	41	1.66
47784763--47784814	22	2.4	22	96	0	95	32	23	1	42	1.65
47786119--47786194	35	2.1	36	90	2	118	44	27	13	14	1.82
47795093--47795126	15	2.3	15	89	0	50	8	44	2	44	1.50
47802240--47802373	57	2.3	56	83	7	153	51	4	0	43	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47815102--47815126	11	2.3	11	100	0	50	56	0	0	44	0.99
47815700--47815771	20	3.7	19	83	7	83	34	2	6	55	1.41
47817272--47817396	60	2.1	60	81	0	142	33	5	17	43	1.73
47818380--47818412	16	2.1	16	88	5	50	69	0	0	30	0.88
47818075--47818605	192	2.7	192	77	5	557	42	9	16	31	1.80
47828727--47828776	20	2.5	20	90	0	73	18	24	34	24	1.96
47828853--47828901	25	2.0	25	83	0	62	18	36	20	24	1.94
47830003--47830064	26	2.4	26	80	0	70	25	24	24	25	2.00
47832698--47832893	69	2.8	71	83	5	247	28	17	22	31	1.97
47847114--47847352	31	7.7	31	92	0	381	44	18	8	28	1.80
47850910--47851001	27	3.4	27	84	0	121	17	16	21	44	1.86
47860089--47860131	24	2.0	22	82	17	54	51	6	2	39	1.42
47860635--47860733	22	4.5	22	88	0	126	32	14	27	26	1.94
47861465--47861629	31	5.3	31	87	0	231	44	15	9	30	1.78
47865453--47865523	34	2.1	34	94	0	124	33	14	5	46	1.67
47867129--47867285	77	2.0	77	91	0	251	30	15	7	45	1.74
47867525--47867570	23	2.0	23	100	0	92	30	17	8	43	1.79
47871133--47871176	22	2.0	23	82	13	56	2	20	4	72	1.13
47876179--47876250	27	2.6	27	76	12	74	50	16	2	30	1.60
47876179--47876271	29	3.3	29	75	19	88	48	19	2	30	1.61
47876819--47876860	20	2.3	19	88	12	61	28	0	4	66	1.12
47879309--47879373	18	3.6	19	78	17	59	27	1	0	70	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47879296--47879371	33	2.3	32	82	10	91	26	2	1	69	1.09
47879311--47879371	15	3.9	14	73	26	52	29	1	0	68	0.99
47896245--47896652	135	3.0	135	98	0	798	36	11	10	41	1.75
47901404--47901469	28	2.4	29	77	7	75	18	27	18	36	1.94
47901405--47901478	29	2.7	27	73	10	69	20	25	17	36	1.94
47917740--47917775	10	3.5	10	88	7	54	0	41	0	58	0.98
47922831--47922918	42	2.1	42	100	0	176	36	9	11	43	1.72
47922838--47922906	22	3.2	22	69	22	74	36	7	14	42	1.73
47927581--47927627	19	2.3	21	86	13	64	38	4	4	53	1.40
47939841--47940299	44	10.5	44	67	10	242	31	20	23	24	1.98
47939835--47940391	132	4.2	132	92	2	872	30	20	23	24	1.99
47957409--47957437	12	2.3	13	94	5	51	65	6	6	20	1.40
47965059--47965092	17	1.9	18	94	5	61	11	44	32	11	1.77
47985713--47985783	33	2.2	33	92	5	117	28	4	29	38	1.76
47991293--47991347	19	2.8	19	75	2	56	60	1	0	38	1.08
48006430--48006577	43	3.5	43	83	8	185	27	27	16	28	1.97
48009787--48009831	19	2.3	20	82	17	60	37	2	0	60	1.09
48012554--48012581	14	2.0	14	100	0	56	57	0	0	42	0.99
48018186--48018224	15	2.6	15	100	0	78	17	46	0	35	1.49
48022692--48022719	14	2.0	14	100	0	56	57	0	7	35	1.26
48023797--48024361	283	2.0	283	98	0	1103	41	16	13	27	1.87
48028953--48029390	27	16.3	27	84	4	501	44	19	18	17	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48029540--48029639	26	3.8	26	82	2	103	17	24	23	36	1.95
48029739--48029803	28	2.4	28	92	2	105	24	24	24	26	2.00
48029736--48029811	28	2.4	32	75	20	88	25	23	23	27	2.00
48029736--48029823	28	2.8	32	72	22	87	23	22	26	27	2.00
48032064--48032177	43	2.7	43	86	4	151	30	27	16	25	1.97
48034263--48034334	21	3.5	19	80	14	81	58	0	0	41	0.98
48034276--48034345	7	10.3	7	93	6	110	58	0	0	41	0.98
48045864--48045903	20	2.0	21	95	5	73	37	0	0	62	0.95
48045865--48045911	20	2.3	20	88	0	67	34	0	4	61	1.15
48048507--48048562	28	2.0	28	100	0	112	14	32	17	35	1.90

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