genome.fa.s11.2.7.7.80.10.50.1000.209.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  209  of  210  ( 25152 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)
62103557--62103590	2	17.0	2	87	0	50	2	0	44	52	1.16
62104929--62104985	28	2.0	28	100	0	114	28	10	12	49	1.73
62104929--62105002	28	2.7	28	87	6	71	31	12	10	45	1.76
62109567--62109625	29	2.0	29	100	0	118	38	20	13	27	1.90
62110514--62110656	62	2.3	62	97	1	270	30	4	20	44	1.71
62112781--62112838	28	2.1	28	87	6	82	51	3	12	32	1.56
62114006--62114111	36	2.9	36	75	0	122	41	7	22	28	1.81
62113959--62114123	72	2.3	72	87	0	222	41	7	22	29	1.80
62117984--62118242	81	3.2	81	80	3	272	33	27	15	23	1.95
62121421--62121544	62	2.0	61	98	1	239	33	16	28	22	1.95
62122340--62122368	12	2.4	12	100	0	58	55	0	0	44	0.99
62123647--62123932	121	2.3	121	89	5	421	29	12	22	35	1.91
62123857--62124196	147	2.3	147	89	0	511	27	15	21	35	1.94
62125773--62125812	16	2.3	18	87	8	57	35	0	0	65	0.93
62126181--62126218	19	2.1	19	90	5	60	57	2	0	39	1.12
62128359--62128439	42	1.9	42	89	0	126	38	13	32	16	1.87
62129152--62129193	21	1.9	23	85	9	61	11	28	19	40	1.87
62133048--62133109	31	2.0	32	87	9	92	59	1	1	37	1.17
62133074--62133139	11	6.4	11	74	10	50	56	1	6	36	1.34
62133048--62133227	39	4.5	40	85	6	240	58	0	3	36	1.20
62133061--62133230	78	2.2	78	92	1	277	60	0	4	34	1.20
62137513--62137571	17	3.3	18	83	6	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62154203--62154273	29	2.4	29	90	0	106	28	11	15	45	1.80
62155398--62155422	12	2.1	12	100	0	50	52	8	8	32	1.60
62157474--62157509	17	2.1	18	89	5	56	50	0	2	47	1.15
62157605--62157643	21	1.9	21	89	5	62	25	2	0	71	0.98
62157585--62157643	13	5.2	11	82	15	59	27	3	0	69	1.04
62157591--62157625	13	2.7	13	100	0	70	28	5	0	65	1.15
62157602--62157650	20	2.4	21	79	3	64	30	2	0	67	1.02
62158030--62158064	2	17.5	2	100	0	70	51	0	0	48	1.00
62159211--62159256	21	2.2	21	84	7	58	39	0	17	43	1.49
62159697--62159747	26	1.9	27	88	4	77	19	23	19	37	1.94
62159826--62159871	24	1.9	24	86	0	65	15	21	23	39	1.92
62160669--62160717	19	2.6	19	96	0	89	20	4	26	48	1.67
62172752--62172809	30	2.0	30	83	10	75	50	5	6	37	1.52
62172762--62172839	29	2.6	30	81	6	77	46	7	8	37	1.64
62176597--62176638	10	4.3	10	80	17	52	19	2	7	71	1.20
62176597--62176638	19	2.2	19	86	0	57	19	2	7	71	1.20
62182324--62182368	22	2.0	22	86	0	63	46	2	0	51	1.13
62184524--62184558	16	2.1	16	89	5	52	48	14	5	31	1.67
62192562--62192857	148	2.0	145	92	4	495	41	8	11	39	1.71
62194227--62194251	12	2.1	12	100	0	50	16	20	8	56	1.65
62195648--62195724	34	2.3	35	81	6	95	42	11	10	35	1.76
62202327--62202397	30	2.4	30	81	9	83	45	8	22	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62203903--62203955	2	26.5	2	100	0	106	50	0	0	49	1.00
62211605--62211660	29	1.9	29	89	7	87	23	16	19	41	1.90
62211894--62211983	42	2.2	42	78	7	96	23	28	27	20	1.99
62211594--62212037	223	2.0	222	93	0	762	25	21	22	30	1.99
62213993--62214037	20	2.3	19	84	3	54	71	2	22	4	1.15
62214903--62215038	40	3.5	39	73	9	116	26	17	24	31	1.97
62216413--62216490	34	2.4	33	80	16	76	55	2	3	38	1.32
62216469--62216516	13	3.7	13	76	18	55	60	0	6	33	1.22
62217398--62217501	37	2.7	40	80	8	115	26	17	24	31	1.97
62218130--62218247	58	2.0	58	98	0	227	31	4	18	45	1.69
62230953--62231218	130	2.0	130	100	0	532	40	12	16	30	1.85
62233634--62233676	14	2.9	15	86	6	61	62	2	0	34	1.08
62233637--62233667	7	4.6	7	96	4	55	64	0	0	35	0.94
62233886--62234038	31	5.1	31	72	9	127	34	15	15	34	1.89
62233886--62234014	29	4.3	29	73	13	100	34	14	15	35	1.88
62233892--62234038	60	2.5	60	88	0	213	34	14	15	34	1.89
62236652--62236830	48	3.8	48	72	10	143	30	32	10	26	1.90
62241447--62241479	17	1.9	17	93	0	57	51	12	3	33	1.54
62242562--62242588	2	13.5	2	100	0	54	48	0	0	51	1.00
62243811--62243842	2	16.0	2	100	0	64	50	0	0	50	1.00
62250212--62250244	4	8.2	4	100	0	66	48	0	0	51	1.00
62250825--62250863	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62251129--62251154	3	8.7	3	100	0	52	34	0	65	0	0.93
62251357--62251395	4	9.8	4	100	0	78	51	23	0	25	1.49
62253212--62253242	2	15.5	2	100	0	62	51	0	0	48	1.00
62255097--62255135	19	2.1	19	95	0	69	41	10	10	38	1.73
62267994--62268246	129	2.0	129	91	0	416	32	12	20	34	1.90
62269182--62269265	35	2.3	35	87	6	114	30	8	1	59	1.34
62269198--62269276	35	2.2	35	84	6	97	34	8	2	54	1.45
62271377--62271420	23	1.9	23	86	9	63	25	9	15	50	1.74
62276681--62276712	16	1.9	17	93	6	57	59	0	0	40	0.97
62276919--62277013	47	2.0	47	97	0	181	36	6	13	43	1.70
62279080--62279229	74	2.0	74	100	0	300	42	22	16	18	1.88
62286154--62286198	2	24.5	2	82	17	62	51	0	0	48	1.00
62286978--62287004	2	13.5	2	100	0	54	51	0	0	48	1.00
62289152--62289196	23	1.9	24	82	13	58	22	2	11	64	1.36
62301099--62301249	62	2.4	61	77	7	135	39	13	4	42	1.65
62305613--62305650	20	1.9	19	89	5	58	39	2	2	55	1.28
62308053--62308127	29	2.6	29	78	2	78	40	6	10	42	1.66
62310426--62310661	53	4.5	52	81	4	215	30	14	6	48	1.69
62310439--62310640	106	1.9	105	82	2	253	29	12	6	50	1.65
62310436--62310660	105	2.1	104	79	5	247	30	14	6	48	1.69
62317562--62317606	22	2.0	22	91	4	72	31	6	4	57	1.44
62325343--62325425	41	2.0	41	100	0	166	33	19	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62332178--62332213	2	18.0	2	94	0	63	50	2	0	47	1.15
62349209--62349435	118	1.9	119	89	4	352	41	17	15	25	1.88
62357935--62357986	24	2.2	24	85	0	68	53	9	3	32	1.51
62359902--62359953	24	2.2	24	85	0	68	53	9	3	32	1.51
62360832--62361137	110	2.7	114	85	8	378	26	12	21	39	1.89
62361199--62361973	194	3.9	199	91	5	1209	31	18	17	32	1.94
62362211--62362256	23	2.0	23	82	4	56	21	4	2	71	1.14
62379237--62379274	14	2.5	15	83	8	51	13	5	2	78	1.02
62382688--62382980	108	2.7	108	88	4	414	28	27	22	21	1.99
62389814--62389861	24	2.0	24	83	0	60	4	16	29	50	1.64
62397859--62397893	18	1.9	18	88	0	52	8	14	25	51	1.70
62398975--62399016	8	5.2	8	77	11	50	38	2	0	59	1.10
62405353--62405401	23	2.1	24	84	3	64	8	38	2	51	1.43
62405765--62405846	40	2.1	39	81	6	94	19	32	7	40	1.79
62413296--62413334	20	2.0	20	89	0	60	25	5	20	48	1.70
62418068--62418108	20	2.0	20	100	0	82	56	19	0	24	1.42
62419540--62419577	2	19.0	2	100	0	76	50	0	0	50	1.00
62425753--62425792	6	6.7	6	86	11	55	0	30	22	47	1.52
62425753--62425792	18	2.2	18	95	0	71	0	30	22	47	1.52
62427090--62427166	29	2.8	28	77	12	81	58	3	0	37	1.17
62427718--62427749	16	1.9	17	93	6	57	31	0	0	68	0.90
62427718--62427755	17	2.2	17	86	9	51	34	0	2	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62431091--62431138	3	16.0	3	100	0	96	33	0	0	66	0.92
62431684--62431717	3	11.3	3	87	0	50	32	0	32	35	1.58
62435323--62435367	2	22.5	2	100	0	90	48	0	0	51	1.00
62439044--62439096	26	2.1	26	85	3	72	43	1	15	39	1.57
62445744--62445801	28	2.0	29	83	12	75	50	6	0	43	1.29
62447790--62447850	30	2.0	31	90	3	97	40	3	6	49	1.45
62449484--62449510	2	13.5	2	100	0	54	51	0	0	48	1.00
62450081--62450416	173	1.9	174	87	3	489	36	21	11	30	1.89
62450706--62450767	19	3.5	18	77	14	58	64	1	1	32	1.13
62450705--62450767	8	7.1	9	73	21	53	63	1	1	33	1.13

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   
          209   210