genome.fa.s2.2.7.7.80.10.50.1000.43.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  43  of  206  ( 24623 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)
12300195--12300251	29	2.0	28	86	6	80	38	1	0	59	1.08
12309192--12309257	18	3.6	17	75	15	53	21	28	1	48	1.59
12312822--12312902	33	2.7	28	72	17	72	29	22	23	24	1.99
12313066--12313130	27	2.4	27	85	9	89	33	23	24	18	1.96
12313287--12313367	26	3.0	27	82	8	94	24	18	18	38	1.93
12313299--12313678	26	14.6	26	85	6	371	24	15	20	40	1.91
12313299--12313678	52	7.3	52	82	5	428	24	15	20	40	1.91
12313299--12313678	78	4.9	78	81	4	410	24	15	20	40	1.91
12315391--12315446	25	2.2	25	78	6	60	35	25	21	17	1.95
12315561--12315636	25	3.0	25	75	5	82	39	19	21	19	1.93
12315540--12315636	50	1.9	50	88	12	146	37	21	23	17	1.94
12317689--12317726	14	2.9	13	85	11	51	65	0	7	26	1.19
12323207--12323249	19	2.2	20	83	8	52	30	23	2	44	1.66
12327849--12327891	19	2.2	20	83	8	52	30	23	2	44	1.66
12330065--12330102	19	2.0	19	100	0	76	31	26	10	31	1.90
12333681--12333718	18	2.2	18	85	4	51	18	10	5	65	1.41
12336092--12336170	36	2.2	36	88	4	115	17	12	27	41	1.86
12338885--12339035	43	3.5	43	86	0	205	23	29	18	28	1.98
12338884--12339044	86	1.9	86	87	3	236	22	29	18	29	1.97
12339759--12339802	21	2.1	21	87	8	63	34	2	15	47	1.58
12339775--12339799	12	2.1	12	100	0	50	32	0	16	52	1.44
12339927--12339982	17	3.1	18	76	21	55	53	0	5	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12340477--12340506	14	2.1	14	93	0	51	53	10	13	23	1.69
12341493--12341543	16	3.2	16	74	0	57	29	15	43	11	1.82
12342013--12342245	41	5.6	41	92	2	360	23	21	26	28	1.99
12342344--12342394	26	2.0	26	84	0	66	58	5	11	23	1.55
12343844--12343890	19	2.5	19	92	0	85	42	10	8	38	1.70
12344308--12344332	8	3.1	8	100	0	50	36	0	24	40	1.55
12347306--12347567	43	6.3	43	78	7	263	22	18	31	28	1.97
12347346--12347567	79	2.7	81	81	8	254	22	18	31	27	1.97
12348005--12348110	47	2.2	48	93	5	187	45	0	7	47	1.31
12348096--12348148	25	2.1	26	85	3	72	16	3	5	73	1.17
12348841--12348897	22	2.6	22	78	10	64	35	33	1	29	1.68
12348927--12348964	15	2.7	14	84	8	51	42	26	0	31	1.56
12349255--12349309	16	3.8	15	77	11	53	50	3	3	41	1.37
12349336--12349711	41	9.2	40	78	6	265	33	27	18	19	1.96
12349336--12349711	82	4.6	81	80	7	359	33	27	18	19	1.96
12349336--12349731	123	3.2	122	80	5	406	34	28	18	19	1.95
12361296--12361350	28	1.9	29	85	3	76	36	9	1	52	1.44
12361327--12361351	3	8.3	3	100	0	50	32	0	0	68	0.90
12361366--12361390	7	3.6	7	100	0	50	36	0	0	64	0.94
12361653--12361689	15	2.5	15	87	12	51	40	2	0	56	1.13
12361735--12361767	2	16.5	2	93	0	57	48	3	0	48	1.17
12361978--12363074	109	10.1	109	94	0	1919	31	17	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12367037--12367083	25	1.9	24	82	4	58	55	21	4	19	1.60
12367707--12368106	77	5.2	77	77	7	382	47	9	10	32	1.70
12367730--12368106	154	2.4	154	81	3	438	48	9	9	32	1.69
12368007--12368049	19	2.3	19	83	0	50	53	6	2	37	1.41
12368061--12368151	27	3.2	27	69	19	76	47	9	13	29	1.75
12368494--12368638	41	3.5	41	72	9	98	33	26	22	17	1.96
12372562--12372720	24	7.0	23	76	16	127	50	3	8	37	1.48
12372643--12372751	46	2.4	44	84	13	134	54	3	4	37	1.39
12385383--12385420	18	2.1	19	90	5	60	21	21	5	52	1.66
12390131--12390198	29	2.3	29	80	7	75	63	5	1	29	1.27
12395177--12395468	146	2.0	146	95	0	530	39	14	19	26	1.90
12398522--12398640	36	3.3	35	81	11	134	40	31	14	14	1.85
12401151--12401179	14	2.1	14	100	0	58	65	6	0	27	1.18
12401162--12401201	18	2.2	18	86	4	53	57	10	2	30	1.45
12402668--12402710	21	2.0	21	82	8	52	55	9	4	30	1.52
12404621--12404658	19	2.0	19	100	0	76	31	10	26	31	1.90
12411718--12411770	18	2.9	18	77	2	52	41	43	5	9	1.61
12413102--12413159	9	6.4	9	79	0	71	29	8	18	43	1.80
12413102--12413159	27	2.1	27	87	0	80	29	8	18	43	1.80
12415587--12415618	16	2.0	16	100	0	64	43	31	18	6	1.75
12418677--12418732	25	2.2	26	93	3	96	39	19	12	28	1.88
12419973--12420082	41	2.7	41	88	1	168	18	21	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12420545--12420581	19	1.9	19	89	10	58	32	8	13	45	1.73
12420393--12420618	77	3.0	77	78	7	253	31	12	10	45	1.75
12420597--12420645	26	1.9	25	91	4	80	44	10	6	38	1.63
12420873--12420905	16	2.1	16	100	0	66	18	0	12	69	1.18
12421005--12421035	13	2.3	14	94	5	55	19	0	12	67	1.22
12421227--12421271	18	2.5	18	100	0	90	57	6	4	31	1.44
12421302--12421340	16	2.4	16	91	0	60	56	7	0	35	1.28
12421410--12421459	23	2.2	23	85	3	66	42	6	2	50	1.38
12421319--12421452	66	2.0	68	84	11	179	46	8	3	41	1.51
12421639--12421963	77	4.2	76	78	7	314	32	11	9	46	1.73
12421639--12421963	154	2.1	154	80	5	361	32	11	9	46	1.73
12423402--12423439	12	3.2	12	88	7	51	52	0	0	47	1.00
12425261--12425314	14	3.9	14	80	4	65	24	0	29	46	1.53
12434982--12435022	9	4.6	9	85	8	57	46	0	31	21	1.52
12435897--12435948	24	2.2	24	89	0	77	36	3	9	50	1.54
12439107--12440212	497	2.2	497	97	0	2079	38	20	8	32	1.83
12441896--12442042	42	3.4	43	78	11	126	29	27	19	23	1.98
12446302--12446350	24	2.0	24	88	0	71	38	4	10	46	1.57
12449332--12449374	18	2.4	17	85	11	59	41	0	16	41	1.48
12459403--12459525	40	3.1	40	85	3	169	35	20	21	22	1.96
12459543--12459823	41	6.9	41	90	2	449	19	24	26	29	1.99
12460572--12460615	18	2.4	20	71	21	51	36	0	13	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12460710--12460739	14	2.1	14	100	0	60	13	0	46	40	1.43
12460713--12460743	14	2.2	14	94	0	53	16	0	41	41	1.48
12461951--12462018	23	2.9	23	71	4	64	42	8	4	44	1.55
12461887--12462074	107	1.8	105	83	8	258	39	11	7	40	1.71
12466207--12466250	23	2.0	22	86	4	61	31	0	13	54	1.39
12466401--12466795	43	9.2	43	86	0	504	25	17	29	26	1.97
12466898--12466994	49	2.0	49	100	0	194	30	17	26	24	1.97
12471227--12471259	13	2.6	13	90	4	50	30	6	9	54	1.56
12486177--12486441	40	6.5	41	94	4	443	27	20	27	24	1.99
12493081--12493118	2	19.0	2	100	0	76	50	0	0	50	1.00
12494178--12494402	41	5.5	41	93	2	375	28	19	27	24	1.99
12499545--12499589	22	2.0	22	83	8	56	40	4	0	55	1.20
12516780--12516964	33	5.5	33	73	17	166	20	18	28	33	1.96
12516775--12517122	75	4.8	75	78	10	384	21	18	26	32	1.97
12516915--12517122	76	2.8	75	87	0	290	22	19	25	33	1.97
12520877--12520905	14	2.1	14	100	0	58	17	27	13	41	1.87
12522953--12523034	41	2.0	41	97	0	155	21	24	13	40	1.89
12524879--12524905	2	13.5	2	100	0	54	51	0	0	48	1.00
12532172--12532231	2	30.0	2	100	0	120	0	0	50	50	1.00
12546345--12546369	4	6.2	4	100	0	50	52	24	0	24	1.48
12548259--12548585	73	4.5	72	75	7	232	36	21	12	29	1.90
12548311--12548590	73	3.8	72	79	5	274	35	21	12	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12548308--12548584	147	1.9	147	82	3	351	35	21	12	30	1.91
12553281--12553336	20	2.8	20	81	2	69	55	3	0	41	1.17
12553293--12553366	20	4.2	19	68	28	65	58	4	0	37	1.17
12572105--12572145	13	2.9	15	82	17	61	68	7	12	12	1.39
12572111--12572143	12	2.7	12	95	4	57	72	6	9	12	1.26
12579868--12579926	31	1.9	30	89	3	91	40	6	1	50	1.39
12584434--12584485	15	3.6	15	80	12	56	44	0	1	53	1.11
12584379--12584721	120	2.9	120	96	0	641	42	2	6	48	1.42
12584683--12584724	15	2.7	16	82	14	52	45	0	2	52	1.13
12584674--12584715	15	2.9	15	82	10	52	47	0	0	52	1.00

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