genome.fa.s2.2.7.7.80.10.50.1000.181.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  181  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)
55164482--55164513	9	3.4	10	91	8	50	68	9	0	21	1.17
55164480--55164527	18	2.7	18	78	12	62	68	8	0	22	1.16
55166067--55166375	45	7.0	45	67	12	181	24	24	23	26	2.00
55166040--55166360	177	1.8	177	88	1	500	24	23	23	28	2.00
55166252--55166393	45	3.2	45	73	6	144	26	24	23	25	2.00
55166040--55166397	89	4.0	88	82	3	396	24	24	24	26	2.00
55167652--55167698	15	3.1	15	82	11	60	12	17	0	70	1.17
55167655--55167713	30	1.9	29	83	10	73	13	13	0	72	1.11
55168179--55168287	17	6.4	17	68	12	62	0	15	5	78	0.92
55168179--55168273	9	10.8	8	71	23	50	0	14	6	78	0.93
55168178--55168240	29	2.2	29	76	18	69	0	17	4	77	0.93
55168231--55168255	13	1.9	13	100	0	50	0	0	20	80	0.72
55168181--55168288	11	9.9	10	69	17	56	0	15	5	78	0.92
55173270--55173300	9	3.4	9	100	0	62	67	9	0	22	1.19
55173266--55173297	9	3.4	10	91	8	50	68	9	0	21	1.17
55173264--55173311	18	2.7	18	78	12	62	68	8	0	22	1.16
55176397--55176452	21	2.7	20	83	8	76	12	19	19	48	1.80
55184908--55184943	16	2.2	17	90	5	56	25	2	5	66	1.27
55185895--55186091	98	2.0	98	97	0	376	27	14	14	43	1.84
55186301--55186413	54	2.1	55	95	3	203	37	15	11	35	1.84
55195589--55195850	127	2.1	127	97	0	488	32	20	21	24	1.98
55200176--55200202	10	2.7	10	100	0	54	74	0	7	18	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55201270--55201324	24	2.3	25	81	6	69	36	0	3	60	1.15
55208478--55208519	20	2.1	20	86	0	57	47	0	7	45	1.30
55210536--55210575	13	2.9	14	82	17	57	67	5	5	22	1.30
55210866--55210931	9	7.2	9	86	10	98	21	10	30	37	1.87
55210866--55210931	20	3.6	18	87	8	98	21	10	30	37	1.87
55211677--55211731	23	2.4	23	77	17	60	63	1	1	32	1.15
55212092--55212187	19	4.7	21	79	10	74	40	17	6	35	1.75
55212092--55212149	22	2.6	22	81	7	64	41	17	5	36	1.72
55212128--55212200	19	3.8	19	92	0	128	36	17	9	35	1.83
55215886--55216169	144	2.0	144	94	1	498	35	16	9	38	1.81
55221602--55221840	119	2.0	119	91	1	390	26	11	25	35	1.91
55222443--55222483	20	2.0	21	86	9	59	34	4	17	43	1.70
55224467--55224560	41	2.3	42	87	5	138	19	23	15	41	1.90
55224486--55224549	21	3.1	21	67	10	60	18	21	15	43	1.87
55224541--55224581	21	2.0	21	100	0	82	19	29	17	34	1.94
55228467--55228524	3	19.3	3	74	0	53	31	1	5	62	1.27
55234294--55234334	19	2.3	17	87	8	55	26	4	2	65	1.25
55234411--55234459	19	2.5	20	80	9	57	38	2	0	59	1.09
55252801--55252842	20	2.1	20	86	0	57	47	0	7	45	1.30
55257180--55257221	22	1.9	22	90	9	68	71	7	2	19	1.20
55259924--55259953	2	15.5	2	93	6	53	50	0	0	50	1.00
55267197--55267242	23	2.0	23	86	0	65	34	28	26	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55271683--55271728	23	2.0	23	91	0	74	32	28	28	10	1.91
55275017--55275070	20	2.7	20	83	13	67	38	0	3	57	1.17
55289785--55289848	24	2.7	24	87	2	94	25	42	12	20	1.87
55290852--55290886	15	2.3	15	100	0	70	51	5	20	22	1.68
55303436--55303481	24	2.0	24	86	4	67	47	4	21	26	1.69
55303658--55303777	36	3.3	36	90	0	195	45	25	10	18	1.80
55303710--55303772	20	3.3	20	65	24	55	47	23	7	20	1.76
55307024--55307109	42	2.1	41	93	2	145	20	18	19	40	1.91
55311271--55311300	9	3.3	9	95	0	51	40	10	10	40	1.72
55326855--55326924	27	2.7	25	78	8	68	32	20	25	21	1.97
55326855--55326946	25	3.6	25	77	8	78	31	20	26	21	1.98
55326986--55327046	24	2.5	25	81	2	79	36	21	24	18	1.95
55326998--55327044	25	1.9	24	91	4	76	40	21	23	14	1.90
55329193--55329268	26	2.9	26	82	7	91	30	18	11	39	1.87
55331992--55332021	15	2.0	15	100	0	60	66	6	0	26	1.16
55333168--55333201	14	2.3	15	90	5	52	8	17	32	41	1.80
55333537--55334054	267	1.9	267	86	1	743	27	23	20	28	1.99
55334131--55334266	44	3.1	44	71	12	134	27	26	19	26	1.99
55346227--55346275	13	3.6	13	79	17	55	71	4	2	22	1.13
55346816--55346848	16	2.1	16	100	0	66	66	6	0	27	1.15
55347998--55348031	14	2.3	15	90	5	52	8	17	32	41	1.80
55355491--55355523	16	2.0	17	88	5	50	48	6	9	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55368658--55368695	20	1.9	20	94	0	67	36	26	26	10	1.89
55369474--55369536	21	3.2	18	78	17	56	71	0	7	20	1.11
55370462--55370580	39	3.0	39	83	2	139	16	16	26	39	1.90
55375516--55375568	12	4.2	12	77	13	52	45	3	7	43	1.50
55376354--55376492	41	3.4	41	91	2	201	24	22	28	25	2.00
55382248--55382330	11	7.5	11	78	8	96	3	1	33	61	1.21
55382250--55382332	35	2.5	31	84	9	103	3	2	32	61	1.26
55382251--55382330	21	3.6	22	85	8	117	3	1	32	62	1.21
55382371--55382461	41	2.2	42	78	5	105	18	2	12	67	1.33
55382782--55382824	22	2.0	22	86	9	61	30	4	4	60	1.37
55386634--55386732	49	2.0	49	100	0	198	55	8	14	22	1.65
55390688--55390844	71	2.2	71	96	0	287	36	16	9	36	1.81
55404432--55404458	14	1.9	14	100	0	54	14	0	3	81	0.82
55415076--55415107	2	16.0	2	93	0	55	50	3	0	46	1.17
55416941--55416970	2	15.0	2	92	0	51	46	0	3	50	1.18
55419638--55419671	2	17.0	2	100	0	68	50	0	0	50	1.00
55437461--55437794	100	3.3	101	84	3	408	29	17	25	27	1.97
55437461--55437794	51	6.6	50	76	7	300	29	17	25	27	1.97
55437461--55437828	202	1.8	202	79	5	431	29	16	25	27	1.97
55440501--55440797	50	5.8	50	79	5	240	23	26	21	28	1.99
55444388--55444422	18	1.9	18	88	0	52	42	20	0	37	1.52
55446632--55446723	29	3.2	29	83	6	98	19	30	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55447608--55447676	36	1.9	36	82	5	86	21	17	21	39	1.93
55451312--55451391	30	2.6	30	80	11	83	48	1	5	45	1.32
55474884--55474922	20	1.9	21	84	5	53	61	20	17	0	1.34
55477295--55477320	12	2.2	12	100	0	52	61	0	0	38	0.96
55480258--55480288	15	2.1	15	93	0	53	29	29	6	35	1.82
55480977--55481008	2	16.0	2	100	0	64	50	0	0	50	1.00
55480906--55481065	88	1.9	83	89	6	248	37	11	8	43	1.70
55485998--55486055	27	2.1	28	83	3	73	65	3	0	31	1.09
55485996--55486057	18	3.4	19	82	8	76	62	3	0	33	1.11
55485997--55486046	17	2.9	17	84	3	55	66	4	0	30	1.10
55485998--55486071	37	2.1	35	82	12	89	67	4	0	28	1.09
55486011--55486055	10	4.8	10	78	13	51	64	2	0	33	1.06
55485996--55486064	27	2.6	26	71	15	68	65	4	0	30	1.12
55485992--55486071	9	9.4	8	74	12	54	67	3	0	28	1.08
55486164--55486193	11	2.7	11	89	0	51	33	0	10	56	1.32
55488585--55488627	22	1.9	23	90	4	70	41	4	23	30	1.74
55489013--55489073	29	2.1	29	85	11	81	60	0	3	36	1.13
55492874--55492949	9	8.4	9	79	0	89	26	14	21	38	1.91
55492889--55492949	27	2.3	27	94	0	104	24	14	22	37	1.92
55494550--55494617	25	2.6	27	86	13	97	26	27	7	38	1.83
55497072--55497119	15	3.1	15	96	3	87	14	18	6	60	1.55
55497071--55497116	8	5.9	8	77	12	51	15	21	6	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55498612--55498683	27	2.6	27	84	8	92	22	2	23	51	1.61
55498651--55498719	35	1.9	36	97	2	131	26	2	18	52	1.60
55499658--55499800	71	2.0	72	95	1	261	27	9	20	42	1.82
55500026--55500110	32	2.6	33	77	5	93	44	18	10	25	1.82
55500087--55500163	14	5.0	15	71	20	52	42	15	9	32	1.78
55500103--55500142	20	2.0	20	90	0	62	50	12	10	27	1.72
55500091--55500157	34	1.9	35	90	3	109	46	13	8	31	1.74
55500126--55500165	14	2.9	14	84	0	53	42	17	7	32	1.77
55516988--55517034	20	2.3	21	78	14	53	46	2	4	46	1.34
55525280--55525363	35	2.4	35	85	0	114	36	33	13	16	1.87

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