genome.fa.s2.2.7.7.80.10.50.1000.130.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  130  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)
39311962--39312025	21	3.0	21	83	0	83	26	35	17	20	1.94
39314172--39314247	36	2.1	36	83	9	93	46	0	19	34	1.51
39314200--39314257	17	3.3	17	71	17	55	39	0	24	36	1.55
39314187--39314260	36	2.0	37	94	2	132	39	0	22	37	1.55
39314248--39314293	21	2.2	21	92	3	76	34	2	26	36	1.69
39314373--39314500	40	3.3	40	68	12	115	21	21	22	34	1.97
39314320--39314534	75	2.9	75	88	2	317	23	20	22	33	1.98
39314344--39314534	35	5.2	35	68	13	105	23	21	23	32	1.98
39344233--39344276	21	2.1	21	95	0	79	40	9	13	36	1.76
39344232--39344287	21	2.8	19	79	10	67	39	10	16	33	1.83
39344266--39344310	23	2.0	23	86	4	65	37	6	17	37	1.76
39344276--39344320	23	2.0	23	82	4	56	33	6	15	44	1.73
39351350--39351493	44	3.3	44	66	7	112	23	31	24	20	1.98
39351257--39351834	88	6.6	88	89	0	807	26	27	24	21	1.99
39351834--39352165	44	7.7	44	81	7	367	28	18	25	27	1.98
39351918--39351995	38	2.1	38	87	0	111	33	19	23	24	1.97
39351834--39352165	126	2.6	130	83	5	406	28	18	25	27	1.98
39352946--39353029	19	4.4	18	81	8	71	38	9	17	34	1.83
39352948--39353022	19	3.8	19	89	6	114	37	10	16	36	1.83
39352949--39353011	21	3.1	21	95	4	112	38	9	14	38	1.78
39353001--39353045	23	2.0	23	86	4	65	37	6	17	37	1.76
39353011--39353055	23	2.0	23	82	4	56	33	6	15	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39353469--39353511	3	14.3	3	80	9	52	30	0	0	69	0.88
39356929--39356955	2	13.5	2	100	0	54	51	0	0	48	1.00
39363080--39363169	46	2.0	44	85	8	119	32	25	17	24	1.97
39368904--39368935	16	2.0	16	93	0	55	25	15	0	59	1.36
39369168--39369346	51	3.5	51	74	15	181	32	27	15	24	1.95
39370916--39370948	17	1.9	17	88	11	50	24	0	18	57	1.40
39372048--39372096	20	2.5	19	78	15	55	44	8	8	38	1.64
39377251--39377453	42	4.8	42	80	11	195	31	24	16	28	1.96
39382628--39382719	41	2.2	41	100	0	184	19	19	26	34	1.96
39401595--39401630	18	2.1	18	89	5	56	13	16	0	69	1.19
39401666--39401718	21	2.4	24	76	20	62	5	16	5	71	1.25
39406734--39406795	29	2.1	29	87	0	88	22	35	22	19	1.96
39407043--39407093	23	2.2	23	100	0	102	45	13	17	23	1.84
39411456--39411495	11	3.3	12	82	10	55	35	0	0	65	0.93
39444648--39444689	19	2.2	19	87	8	59	57	7	0	35	1.26
39445278--39445325	25	1.9	25	83	8	62	41	10	4	43	1.58
39451155--39451252	49	2.0	49	100	0	196	53	16	12	18	1.73
39452711--39452860	75	2.0	75	92	0	246	33	18	14	33	1.91
39456915--39456970	25	2.2	24	87	6	76	37	16	26	19	1.92
39458115--39458157	23	2.0	22	86	9	61	41	4	9	44	1.57
39458252--39458308	26	2.1	27	84	9	73	66	0	29	3	1.08
39459190--39459245	19	2.8	19	86	5	76	35	8	17	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39459203--39459268	23	3.0	23	81	12	68	36	7	18	37	1.79
39459222--39459268	23	2.0	24	87	4	69	38	6	17	38	1.75
39459453--39459497	23	2.0	23	81	0	54	22	0	15	62	1.33
39459765--39459830	23	3.0	21	75	16	55	33	3	7	56	1.43
39459948--39460001	2	27.5	2	96	3	101	50	0	0	50	1.00
39461771--39462017	50	4.8	50	79	4	201	27	21	27	23	1.99
39464141--39464274	39	3.4	38	71	15	105	24	20	26	27	1.99
39471079--39471154	35	2.1	36	95	2	136	38	3	17	40	1.68
39471163--39471206	14	3.1	14	83	0	61	70	0	29	0	0.88
39471907--39471958	26	2.0	26	100	0	104	42	15	11	30	1.82
39472297--39472332	3	12.0	3	93	0	63	0	30	0	69	0.89
39472915--39472974	27	2.2	26	78	18	61	63	3	3	30	1.27
39472925--39473020	44	2.2	44	85	9	124	59	1	3	36	1.20
39472936--39473027	45	2.1	43	82	8	105	60	2	3	33	1.25
39472989--39473073	21	4.3	20	72	16	79	61	3	1	34	1.21
39473066--39473110	20	2.2	20	84	0	54	64	4	4	26	1.32
39473582--39473623	19	2.2	20	86	4	59	21	4	0	73	1.01
39473700--39473827	27	5.0	26	71	22	92	32	0	2	64	1.11
39473707--39473802	19	5.4	18	71	14	76	32	1	2	64	1.12
39475343--39475433	27	3.4	27	73	3	85	16	16	27	39	1.90
39480897--39480923	14	1.9	14	100	0	54	37	14	18	29	1.91
39485099--39485148	25	2.0	25	100	0	100	40	24	20	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39486024--39486055	16	2.0	16	100	0	64	6	12	37	43	1.68
39486224--39486272	9	5.4	9	95	0	89	42	22	10	24	1.84
39486292--39486339	14	3.7	13	80	8	53	20	2	10	66	1.32
39487231--39487295	27	2.4	27	97	0	121	30	24	32	12	1.92
39487291--39487407	19	5.8	19	69	23	80	31	0	13	54	1.39
39487364--39487450	21	3.5	26	87	10	121	31	0	13	55	1.39
39487701--39487822	60	2.0	60	85	3	165	31	0	13	54	1.45
39487855--39487936	38	2.2	38	97	0	155	54	3	2	39	1.31
39487973--39488014	16	2.7	15	85	7	57	38	2	2	57	1.25
39488164--39488214	8	6.1	8	76	14	50	50	11	0	37	1.39
39488151--39488254	27	4.1	27	88	8	141	52	12	0	34	1.39
39488150--39488264	19	6.2	19	73	19	100	53	13	0	33	1.39
39488218--39488263	21	2.2	21	100	0	92	60	13	0	26	1.32
39488297--39488334	19	1.9	19	89	5	58	57	7	0	34	1.28
39488445--39488474	10	3.0	10	90	0	51	73	0	0	26	0.84
39490766--39490974	44	4.8	44	69	13	151	27	27	18	26	1.98
39490704--39490982	132	2.1	132	95	1	506	29	25	19	25	1.99
39490981--39491380	44	9.0	44	76	3	372	28	24	17	29	1.97
39490984--39491380	89	4.5	89	92	0	607	28	24	17	29	1.97
39491366--39491408	22	2.0	22	90	0	68	30	13	23	32	1.93
39491323--39491456	66	2.0	66	97	0	250	28	20	19	31	1.97
39491234--39491543	155	2.0	155	93	0	530	27	22	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39491388--39491541	44	3.5	44	74	5	166	26	23	20	29	1.98
39499602--39499641	20	2.0	20	90	0	62	32	12	22	32	1.91
39505690--39505759	29	2.3	29	80	4	77	30	11	10	48	1.72
39505752--39506163	203	2.0	204	97	0	781	24	14	11	49	1.76
39511036--39511075	17	2.4	17	95	0	71	40	10	10	40	1.72
39512627--39512665	20	2.0	20	85	10	53	43	10	10	35	1.73
39518446--39518517	27	2.7	27	71	0	72	30	25	18	26	1.98
39523953--39523991	14	2.8	14	96	0	69	61	0	2	35	1.10
39523952--39523991	17	2.4	17	87	8	55	62	0	2	35	1.09
39524569--39524618	23	2.3	20	83	12	64	72	6	18	4	1.22
39525041--39525075	13	2.5	15	86	13	56	28	0	0	71	0.86
39536787--39536858	36	2.0	36	94	5	128	22	30	13	33	1.93
39538861--39538889	10	2.9	10	100	0	58	27	20	10	41	1.85
39546975--39547007	13	2.7	13	90	9	52	36	12	15	36	1.84
39547675--39547730	28	1.9	30	82	7	71	39	7	23	30	1.81
39548200--39548537	51	6.7	51	83	5	391	28	15	27	29	1.96
39548200--39548543	102	3.4	101	90	2	503	28	15	27	29	1.96
39550418--39550459	22	1.9	22	90	0	66	14	19	9	57	1.64
39555593--39555640	6	7.7	6	86	9	69	79	2	16	2	0.93
39563192--39563379	51	3.7	50	82	3	207	29	27	16	26	1.97
39566814--39566885	35	2.1	35	97	0	135	16	29	16	37	1.91
39570682--39570865	51	3.6	51	83	4	194	33	25	14	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39577506--39577599	33	2.6	37	83	8	115	34	19	20	26	1.96
39577401--39577602	19	10.9	19	68	7	101	38	20	17	23	1.93
39585750--39585774	11	2.3	11	100	0	50	48	8	0	44	1.32
39597639--39597712	37	2.0	37	100	0	148	32	21	5	40	1.76
39599503--39599568	20	3.3	20	76	0	60	19	16	21	42	1.89
39599511--39599575	20	3.2	20	73	0	67	16	18	23	41	1.90
39603728--39603864	27	5.1	26	80	3	130	36	17	20	25	1.94
39613438--39613492	16	3.6	16	73	14	53	38	18	18	25	1.93
39613412--39613514	29	3.6	29	83	0	116	36	22	16	24	1.94
39625709--39625763	27	2.0	27	96	0	101	30	20	16	32	1.94

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