genome.fa.s2.2.7.7.80.10.50.1000.202.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  202  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)
61135769--61135808	15	2.7	16	85	11	50	77	2	20	0	0.88
61135884--61135939	4	14.2	4	78	14	55	71	0	28	0	0.86
61135887--61135982	18	4.9	20	69	19	69	71	0	27	1	0.92
61136880--61136922	18	2.4	18	96	0	77	20	13	13	51	1.76
61146068--61147126	74	14.0	73	87	7	1130	26	16	20	37	1.93
61146068--61147126	147	7.0	146	85	7	1128	26	16	20	37	1.93
61146068--61147119	221	4.6	223	85	7	1189	26	16	20	36	1.93
61147290--61147374	29	3.0	28	77	3	100	34	20	3	42	1.69
61147724--61147787	22	3.0	21	84	11	76	75	6	15	3	1.14
61147754--61147793	15	2.7	16	85	11	50	77	2	20	0	0.88
61147870--61147924	4	14.0	4	78	14	53	70	0	29	0	0.87
61147870--61147966	24	4.5	22	72	22	75	71	0	27	1	0.93
61147887--61147967	21	3.9	21	75	3	65	72	0	25	1	0.92
61148295--61148338	14	2.9	16	83	13	65	81	0	18	0	0.68
61148829--61148912	18	4.8	18	77	11	84	32	11	10	45	1.75
61151005--61151202	42	4.7	42	89	0	270	32	23	21	23	1.98
61151005--61151244	84	2.9	84	82	1	275	30	22	21	25	1.98
61154005--61154105	36	2.8	36	83	3	112	40	8	19	30	1.82
61154043--61154134	31	2.8	33	85	8	107	39	8	20	31	1.83
61154117--61154141	7	3.6	7	100	0	50	52	0	16	32	1.44
61154089--61154169	38	2.1	38	90	4	128	40	4	22	32	1.75
61154388--61154502	60	1.9	59	82	1	140	33	24	25	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61156023--61156110	35	2.5	34	78	8	97	19	27	28	25	1.99
61158484--61158519	18	2.0	18	88	0	54	19	8	19	52	1.70
61158766--61158809	20	2.3	18	84	7	52	36	0	4	59	1.18
61158869--61158895	2	13.5	2	100	0	54	51	0	0	48	1.00
61158776--61158927	81	1.9	81	81	8	186	31	3	5	58	1.40
61159613--61159667	21	2.5	22	79	2	76	67	14	9	9	1.42
61160483--61160528	19	2.4	18	79	10	56	15	13	0	71	1.14
61161400--61161428	2	14.5	2	100	0	58	0	0	48	51	1.00
61166042--61166078	14	2.6	14	86	0	56	51	13	18	16	1.76
61170673--61170709	14	2.6	14	86	0	56	51	13	18	16	1.76
61177725--61177750	11	2.4	11	100	0	52	34	0	7	57	1.27
61178004--61178034	4	7.8	4	100	0	62	51	22	0	25	1.48
61178028--61178069	16	2.7	15	79	13	50	35	7	0	57	1.26
61182529--61182565	18	2.1	17	90	5	56	8	54	16	21	1.68
61185186--61185248	23	2.7	23	92	2	99	34	26	3	34	1.73
61194635--61194664	15	2.0	15	100	0	60	46	13	20	20	1.83
61196476--61196501	11	2.4	11	100	0	52	26	0	7	65	1.20
61196439--61196761	161	2.0	162	96	0	603	28	14	23	32	1.95
61198500--61198545	23	2.0	23	82	0	56	17	17	17	47	1.83
61203651--61203717	23	2.9	23	76	10	66	61	0	0	38	0.96
61216861--61216910	21	2.5	20	78	21	59	64	6	0	30	1.18
61222627--61222697	31	2.3	32	76	11	76	54	18	4	22	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61227357--61227400	17	2.6	16	79	10	52	75	0	18	6	1.02
61234348--61234379	5	6.4	5	100	0	64	0	18	40	40	1.51
61241518--61241546	15	2.0	15	93	6	51	0	17	6	75	1.01
61249162--61249203	22	1.9	22	85	9	59	40	0	0	59	0.97
61250736--61250770	17	2.1	17	94	0	61	42	14	5	37	1.69
61260240--61260280	21	1.9	22	85	5	57	48	2	4	43	1.37
61269820--61269870	24	2.1	24	88	0	75	39	0	7	52	1.30
61269844--61269881	19	2.1	19	90	5	60	31	0	7	60	1.25
61272479--61272508	7	4.3	7	100	0	60	83	0	0	16	0.65
61275940--61275976	3	12.3	3	100	0	74	32	0	0	67	0.91
61291120--61291187	22	3.3	20	81	16	86	63	1	4	30	1.23
61291303--61291356	20	2.7	20	80	8	65	50	0	1	48	1.11
61291303--61291349	10	4.7	10	84	10	60	44	0	2	53	1.12
61293397--61293435	14	2.9	13	80	3	51	48	2	0	48	1.15
61303177--61303262	27	3.2	27	77	0	100	17	24	32	25	1.97
61304930--61304972	6	6.8	6	86	7	59	48	16	13	20	1.80
61304930--61304973	18	2.3	20	84	11	65	47	15	13	22	1.81
61304950--61305191	45	5.4	45	93	0	412	41	21	18	19	1.90
61304956--61305218	45	6.2	39	86	8	206	40	21	19	19	1.92
61305395--61305479	40	2.2	40	78	6	93	41	18	5	34	1.75
61308069--61308144	23	3.3	23	96	0	143	31	26	21	21	1.98
61309337--61309373	19	1.9	19	88	0	56	5	24	0	70	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61314475--61314503	12	2.5	12	94	5	51	37	0	20	41	1.53
61318727--61318759	16	2.1	16	94	0	57	39	0	6	54	1.25
61320772--61320813	13	3.3	13	75	18	52	54	2	2	40	1.26
61326269--61326315	19	2.4	20	85	3	60	55	0	2	42	1.12
61327036--61327073	19	2.0	19	89	0	58	36	0	2	60	1.11
61330135--61330184	18	2.7	18	81	3	64	36	2	2	60	1.20
61330135--61330185	19	2.7	20	79	11	63	37	1	1	58	1.20
61337947--61337990	19	2.5	17	85	7	52	38	15	0	45	1.47
61337952--61337990	17	2.2	19	86	9	55	38	15	0	46	1.46
61345961--61345993	2	16.5	2	100	0	66	51	0	0	48	1.00
61347365--61347445	31	2.7	29	84	5	90	30	6	14	48	1.69
61351826--61351867	21	2.0	21	81	9	50	14	7	26	52	1.67
61358940--61358979	16	2.5	16	91	0	62	47	2	7	42	1.45
61358912--61358964	22	2.4	22	87	0	70	52	1	1	43	1.23
61358990--61359129	59	2.4	59	98	0	271	39	4	9	47	1.55
61359111--61359138	9	3.1	9	100	0	56	32	0	10	57	1.33
61359235--61359281	24	1.9	25	87	12	71	61	2	0	36	1.08
61362573--61362628	22	2.5	23	82	2	69	51	1	1	44	1.22
61362604--61362643	16	2.5	16	91	0	62	47	2	7	42	1.45
61362654--61362793	59	2.4	59	98	0	271	39	4	9	47	1.55
61362775--61362802	9	3.1	9	100	0	56	32	0	10	57	1.33
61362899--61362942	24	1.9	24	90	9	74	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61367516--61367574	29	2.0	29	84	12	77	40	10	10	38	1.73
61369042--61369256	114	1.9	112	88	1	322	21	20	15	42	1.88
61370868--61370907	22	1.9	21	90	10	64	55	5	0	40	1.22
61371818--61371918	30	3.6	30	70	22	83	45	11	17	24	1.82
61380363--61380409	21	2.3	20	80	20	53	57	0	2	40	1.11
61381524--61381563	3	13.3	3	100	0	80	67	0	0	32	0.91
61384158--61384182	2	12.5	2	100	0	50	48	0	0	52	1.00
61385569--61385624	29	1.9	29	92	0	94	35	12	8	42	1.74
61385570--61385641	29	2.4	29	83	2	90	40	12	8	38	1.73
61385820--61385875	29	1.9	29	88	0	85	41	8	14	35	1.77
61400450--61400514	6	10.8	6	98	0	121	16	49	0	33	1.47
61402270--61402334	3	21.7	3	100	0	130	66	0	0	33	0.92
61405582--61405672	45	2.0	44	95	2	164	31	9	26	31	1.89
61406039--61406096	21	2.8	20	75	17	64	58	13	18	8	1.61
61410291--61410324	4	8.5	4	93	0	59	26	2	23	47	1.66
61421002--61421043	2	21.0	2	100	0	84	50	0	0	50	1.00
61434566--61434601	17	2.0	19	89	10	58	41	27	5	25	1.77
61453755--61453789	6	5.8	6	100	0	70	85	0	0	14	0.59
61453755--61453797	18	2.4	18	92	0	68	81	2	0	16	0.79
61454442--61454478	3	12.3	3	100	0	74	67	0	0	32	0.91
61456663--61456949	112	2.6	112	80	6	285	34	18	21	25	1.96
61456884--61457024	75	1.9	75	87	0	210	34	17	21	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61456978--61457405	114	3.8	112	76	11	379	30	19	24	26	1.98
61456975--61457573	115	5.2	112	72	10	405	30	19	22	27	1.98
61456975--61457525	114	4.8	113	73	8	370	30	18	23	27	1.98
61456975--61457545	229	2.5	227	80	4	614	30	18	23	27	1.98
61458297--61458369	24	3.0	24	78	13	62	49	2	0	47	1.15
61459078--61459391	111	2.8	110	92	1	495	34	20	16	28	1.94
61460010--61460060	3	17.0	3	83	0	66	60	3	3	31	1.33
61463340--61463401	17	3.7	17	70	18	58	32	6	0	61	1.21
61463327--61463448	35	3.5	34	95	3	217	31	4	0	62	1.22
61463468--61463545	9	8.7	9	73	16	63	44	15	1	38	1.55

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