genome.fa.s10.2.7.7.80.10.50.1000.43.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  43  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)
12840807--12840839	14	2.3	15	89	5	50	24	33	15	27	1.95
12844781--12844809	4	7.2	4	100	0	58	75	0	0	24	0.80
12845072--12845120	23	2.2	20	80	16	53	59	0	0	40	0.98
12845039--12845200	29	5.6	29	70	16	106	59	2	1	35	1.21
12848695--12848831	67	2.0	67	98	0	265	33	33	10	22	1.88
12852997--12853021	6	4.2	6	100	0	50	16	0	0	84	0.63
12857155--12857207	26	2.0	26	92	0	88	33	18	0	47	1.49
12859574--12859624	25	2.0	25	100	0	102	41	15	11	31	1.83
12864376--12864503	67	1.9	67	90	0	202	20	26	27	25	1.99
12866228--12866771	272	2.0	272	98	0	1043	33	21	12	31	1.91
12870871--12870950	30	2.7	29	84	1	106	16	32	0	51	1.45
12872511--12872552	17	2.5	17	75	17	52	50	0	19	30	1.48
12877678--12877715	19	2.0	19	94	0	67	31	7	26	34	1.85
12879289--12879336	25	2.0	24	88	8	71	39	12	12	35	1.81
12879875--12879907	12	2.6	13	95	4	59	36	0	3	60	1.12
12885695--12885723	8	3.6	8	100	0	58	37	0	48	13	1.43
12893332--12893382	18	2.8	18	80	11	50	25	5	3	64	1.33
12893303--12893360	28	2.1	27	81	12	64	32	3	5	58	1.37
12893389--12893452	26	2.4	29	77	15	75	35	1	3	59	1.23
12896219--12896256	18	2.1	18	100	0	76	57	10	10	21	1.61
12896478--12896519	22	2.0	22	86	13	61	45	14	2	38	1.58
12897704--12897745	7	5.9	7	94	5	75	14	0	42	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12897704--12897745	15	2.9	14	93	6	75	14	0	42	42	1.45
12897704--12897745	22	1.9	22	100	0	84	14	0	42	42	1.45
12899784--12899922	45	3.1	45	84	0	188	35	26	16	20	1.94
12915161--12915264	25	3.9	25	82	14	136	0	24	27	47	1.58
12915174--12915242	31	2.2	31	94	0	120	0	21	33	44	1.53
12915236--12915274	19	2.1	19	95	0	69	0	25	23	51	1.49
12916883--12917064	43	4.3	43	91	7	291	58	2	28	10	1.45
12918383--12918448	18	3.7	18	93	0	114	33	15	12	39	1.84
12918871--12919043	72	2.4	72	82	5	233	26	6	12	54	1.62
12921087--12921150	13	4.9	13	84	0	83	37	26	4	31	1.77
12921773--12921812	21	2.0	21	85	5	55	0	25	0	75	0.81
12923149--12923174	12	2.2	12	100	0	52	30	0	23	46	1.53
12928122--12928164	22	1.9	22	85	4	59	20	37	0	41	1.53
12928300--12928359	30	2.0	31	93	3	104	20	36	0	43	1.52
12928473--12928511	19	2.0	19	85	5	51	17	33	0	48	1.48
12929120--12929145	5	5.2	5	100	0	52	19	19	19	42	1.90
12934617--12934650	16	2.1	16	88	0	50	52	11	17	17	1.73
12944726--12944756	2	15.5	2	100	0	62	48	0	0	51	1.00
12947216--12947880	61	10.9	59	72	12	294	44	17	7	30	1.76
12947291--12947882	31	19.3	31	71	12	205	43	18	6	31	1.76
12947295--12947912	92	6.7	91	92	2	841	43	17	7	31	1.76
12947300--12947912	275	2.2	276	88	3	896	43	18	7	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12947887--12947936	25	2.0	26	84	4	66	48	16	10	26	1.77
12956263--12956766	31	16.4	31	72	10	214	44	17	6	32	1.74
12956269--12956881	61	10.0	58	75	11	268	44	16	6	31	1.75
12956319--12956778	154	3.0	153	87	4	590	43	17	5	33	1.73
12956260--12956881	92	6.8	92	83	6	491	44	16	6	32	1.74
12956319--12956837	246	2.1	245	89	2	806	44	16	6	32	1.73
12956886--12956936	25	2.0	25	84	3	66	49	13	11	25	1.76
12962044--12962088	2	22.5	2	100	0	90	51	0	0	48	1.00
12968149--12968178	13	2.3	13	94	0	51	53	3	6	36	1.44
12968353--12968463	33	3.5	31	73	25	92	50	0	2	46	1.15
12968353--12968419	24	2.9	23	77	6	64	50	0	2	46	1.16
12968378--12968473	33	2.9	32	73	17	90	48	1	2	47	1.20
12968425--12968492	21	3.3	19	78	15	64	50	1	2	45	1.26
12973401--12973442	20	2.1	20	86	0	57	47	0	7	45	1.30
12983431--12983485	27	2.0	27	100	0	110	34	18	10	36	1.86
12985039--12985081	22	2.0	22	86	13	63	55	0	0	44	0.99
12985714--12985744	11	2.8	11	100	0	62	35	0	0	64	0.94
12985866--12985928	30	2.1	30	96	0	117	57	15	3	23	1.53
12988176--12988235	23	2.8	22	80	9	70	58	6	5	30	1.45
12988278--12988316	18	2.2	18	90	0	60	66	0	5	28	1.12
12988272--12988311	12	3.3	12	85	0	53	72	0	2	25	0.97
12988791--12988862	19	3.8	19	83	0	99	40	15	8	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13000049--13000143	9	10.4	9	88	6	138	38	28	10	22	1.87
13000283--13000312	13	2.3	13	100	0	60	16	0	43	40	1.48
13005879--13005921	16	2.8	17	80	20	58	30	6	2	60	1.35
13009920--13009958	18	2.2	18	100	0	78	30	20	5	43	1.73
13016641--13016667	14	1.9	14	100	0	54	25	0	14	59	1.36
13022898--13023566	332	2.0	332	99	0	1320	40	5	18	35	1.75
13023893--13023980	25	3.5	25	80	9	99	18	23	22	35	1.96
13023942--13024059	25	4.8	25	69	7	71	22	25	18	33	1.97
13026136--13026196	24	2.5	25	81	5	72	21	24	19	34	1.96
13033350--13033425	24	3.1	24	83	5	91	15	25	23	35	1.94
13038317--13038344	12	2.3	12	100	0	56	50	39	0	10	1.37
13045354--13045445	48	1.9	48	93	0	157	43	21	15	19	1.87
13045469--13045510	11	3.8	11	84	6	50	59	14	23	2	1.47
13045663--13045726	17	3.6	17	74	15	67	46	14	12	26	1.79
13045664--13045734	36	2.0	36	94	0	124	46	14	12	26	1.80
13051453--13051510	30	1.9	30	85	0	80	43	3	22	31	1.70
13051848--13052146	50	5.8	50	88	2	382	26	23	30	20	1.98
13053660--13053705	17	2.8	17	77	12	51	50	0	10	39	1.38
13074415--13074467	15	3.6	15	80	7	56	47	5	0	47	1.26
13075367--13075463	33	2.8	35	72	20	89	44	3	1	51	1.24
13075647--13075712	26	2.6	25	70	15	62	34	18	7	39	1.79
13075645--13075708	13	4.9	13	72	14	51	35	20	7	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13078708--13078742	11	3.0	12	83	8	54	65	0	0	34	0.93
13091868--13091916	26	1.9	26	87	4	73	53	16	18	12	1.73
13108413--13108447	19	1.9	17	88	11	52	28	11	20	40	1.87
13111165--13111190	13	2.0	13	100	0	52	23	7	7	61	1.49
13114614--13114648	18	1.9	18	88	11	54	37	0	0	62	0.95
13121902--13121932	2	15.5	2	100	0	62	48	0	0	51	1.00
13122741--13122833	46	2.0	46	97	0	177	29	46	6	18	1.74
13127341--13127379	3	13.0	3	86	0	51	33	5	2	58	1.33
13129134--13129331	51	4.0	48	77	7	189	24	17	27	30	1.97
13129140--13129324	101	1.8	102	88	3	284	24	17	27	31	1.97
13129328--13129424	44	2.2	42	81	15	108	23	19	24	31	1.98
13129548--13129579	16	2.0	16	93	0	55	59	0	15	25	1.36
13131758--13131789	16	2.0	16	93	0	55	25	15	0	59	1.36
13132008--13132207	51	3.9	51	79	8	237	30	28	17	24	1.97
13132015--13132199	101	1.8	102	90	3	302	30	27	17	23	1.97
13137256--13137282	2	13.5	2	100	0	54	51	48	0	0	1.00
13154137--13154202	35	1.9	35	84	9	91	66	3	24	6	1.28
13154735--13154776	22	2.0	21	85	4	57	76	4	16	2	1.07
13155190--13155495	42	7.3	42	84	3	364	21	17	22	38	1.93
13155931--13156041	3	36.7	3	87	1	114	34	7	1	56	1.37
13156154--13156179	3	8.7	3	100	0	52	69	30	0	0	0.89
13156511--13156579	23	3.0	23	71	14	61	44	0	13	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13156397--13156699	149	2.0	148	89	1	455	37	4	11	45	1.61
13156400--13156635	52	4.7	51	68	13	157	41	3	11	42	1.59
13156395--13156731	149	2.3	147	85	6	443	39	4	11	43	1.62
13161925--13161964	17	2.3	18	86	4	55	57	0	7	35	1.27
13166273--13166322	20	2.5	20	83	6	66	28	12	16	44	1.83
13168070--13168108	13	3.0	13	85	7	53	48	5	0	46	1.24
13171856--13171893	20	1.9	20	84	10	51	63	7	5	23	1.42
13172581--13172627	21	2.2	21	85	7	60	46	0	10	42	1.38
13172575--13172617	21	2.0	21	100	0	86	48	0	4	46	1.22
13181560--13181585	8	3.2	8	100	0	52	15	0	23	61	1.33

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