genome.fa.s2.2.7.7.80.10.50.1000.140.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  140  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)
42851830--42851970	53	2.7	53	97	0	264	47	6	12	33	1.67
42854519--42854554	18	2.0	18	88	0	54	13	11	11	63	1.51
42857333--42857366	5	6.6	5	86	6	50	79	2	0	17	0.86
42857333--42857363	16	1.9	16	93	0	53	80	3	0	16	0.83
42858116--42858361	50	4.9	50	69	3	172	24	21	23	30	1.99
42858112--42858368	100	2.6	100	89	2	392	24	21	23	30	1.99
42858225--42858380	50	3.1	49	68	10	127	25	21	23	30	1.99
42858475--42858977	44	10.8	44	67	17	237	27	22	18	31	1.97
42858424--42858977	142	3.9	142	93	0	946	27	22	18	31	1.97
42860420--42860466	7	6.9	7	81	18	55	14	17	0	68	1.22
42860416--42860460	21	2.1	21	91	4	72	13	17	0	68	1.20
42861316--42861420	46	2.1	52	79	13	114	8	14	2	74	1.17
42866840--42866880	19	2.0	21	90	9	68	51	9	4	34	1.56
42866869--42866907	18	2.2	18	90	0	60	61	0	2	35	1.10
42867287--42867335	23	2.2	23	85	3	64	20	2	10	67	1.30
42871239--42871859	71	8.8	70	79	4	523	24	16	23	35	1.95
42871236--42871847	142	4.3	141	81	2	636	24	16	23	35	1.95
42871239--42871847	213	2.9	212	81	2	657	24	16	23	35	1.95
42875929--42875970	21	2.0	21	100	0	84	19	0	19	61	1.34
42880532--42880631	42	2.4	42	86	3	139	36	15	29	20	1.92
42882534--42882575	20	2.2	19	83	12	50	42	2	11	42	1.54
42886182--42886231	26	1.9	26	91	0	82	18	20	34	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42886141--42886272	67	2.0	68	84	4	178	24	18	28	29	1.98
42886208--42886313	43	2.5	41	81	6	113	22	13	25	38	1.90
42889995--42890182	65	2.9	65	97	0	349	48	19	10	22	1.78
42894845--42894930	32	2.7	32	77	8	88	24	34	12	27	1.92
42895703--42895750	17	2.7	18	75	18	55	62	4	8	25	1.41
42898671--42898858	50	3.6	50	76	5	153	27	20	28	23	1.99
42899114--42899162	20	2.5	20	78	15	57	57	8	24	10	1.59
42900807--42900906	49	2.0	49	98	0	191	49	8	25	18	1.74
42914077--42914116	18	2.3	17	84	16	55	50	0	22	27	1.50
42919203--42919474	42	6.5	42	84	2	325	30	18	18	31	1.95
42919198--42919474	84	3.3	84	88	1	387	30	18	18	32	1.95
42927389--42927656	42	6.4	42	85	2	333	31	20	17	29	1.96
42927386--42927656	84	3.2	83	88	2	391	31	20	17	29	1.96
42934360--42934420	28	2.2	28	100	0	122	31	19	9	39	1.84
42938133--42938265	41	3.2	41	89	2	185	36	22	10	30	1.88
42941548--42941589	15	2.7	16	82	14	52	45	0	2	52	1.13
42941539--42941580	15	2.9	15	82	10	52	47	0	0	52	1.00
42941734--42941823	45	2.0	44	87	6	128	34	28	5	31	1.80
42941803--42941835	16	2.1	16	94	0	57	24	36	6	33	1.80
42944011--42944042	15	2.1	15	94	0	55	15	6	9	68	1.36
42950761--42950804	18	2.4	19	88	3	63	27	20	18	34	1.96
42964506--42964552	17	2.8	16	84	9	58	27	0	14	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42965391--42965483	46	2.0	46	91	4	152	35	9	24	30	1.88
42980157--42980196	22	1.9	21	85	10	55	20	2	50	27	1.61
42981098--42981267	68	2.5	67	81	6	182	41	6	16	35	1.74
42984932--42984994	25	2.6	24	79	18	69	53	3	1	41	1.26
42986978--42987019	19	2.2	20	82	4	50	28	4	9	57	1.51
42993382--42993425	2	22.0	2	86	9	63	45	0	2	52	1.13
42998777--42998837	31	2.0	31	100	0	122	29	9	18	42	1.82
43007680--43008830	44	26.7	45	69	15	433	27	21	19	30	1.98
43007600--43008834	170	7.2	170	92	2	1918	27	21	19	30	1.98
43007600--43008835	514	2.4	515	94	0	2132	27	21	19	30	1.98
43010890--43010919	14	2.1	14	93	0	51	0	16	0	83	0.65
43017498--43017557	30	2.1	27	81	9	66	26	6	0	66	1.16
43025754--43025800	24	2.0	24	86	0	67	25	21	23	29	1.99
43042707--43042774	26	2.6	26	80	0	73	36	4	19	39	1.71
43045709--43045851	27	5.3	27	91	1	216	44	20	16	17	1.86
43045709--43045850	53	2.6	54	93	1	232	45	20	16	17	1.86
43045706--43045878	80	2.1	83	81	7	221	43	20	17	19	1.88
43048162--43048205	21	2.1	21	87	8	63	29	18	15	36	1.92
43051040--43051077	20	1.9	20	100	0	76	44	2	15	36	1.61
43051041--43051090	20	2.5	20	90	0	73	50	2	12	36	1.51
43061856--43062038	50	3.6	50	78	7	181	29	23	18	28	1.98
43061857--43062038	101	1.8	101	86	0	265	29	23	18	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43078803--43078971	75	2.3	75	77	4	162	28	24	20	27	1.99
43081139--43081205	26	2.6	26	90	0	98	31	28	20	19	1.97
43089882--43089942	30	2.0	30	93	0	104	52	18	6	22	1.68
43091149--43091197	20	2.5	20	90	6	73	22	28	0	48	1.50
43092190--43092233	20	2.3	19	80	7	52	40	13	6	38	1.71
43110789--43110828	21	1.9	21	85	10	55	40	5	0	55	1.22
43113258--43113290	2	16.5	2	100	0	66	51	0	0	48	1.00
43119631--43119661	16	1.9	16	93	0	53	45	22	22	9	1.81
43122526--43122586	21	2.9	21	82	4	77	24	19	26	29	1.99
43122678--43122743	22	3.0	23	77	14	59	51	0	3	45	1.16
43140491--43140759	136	2.0	136	88	2	398	23	24	17	34	1.96
43144188--43144235	20	2.4	20	96	0	87	22	27	0	50	1.50
43145993--43146028	19	1.9	18	94	5	63	27	11	0	61	1.30
43153214--43153258	20	2.2	20	84	7	56	48	13	6	31	1.68
43156204--43156272	26	2.7	26	82	8	79	23	21	28	26	1.99
43158975--43159080	53	2.0	54	88	1	160	35	13	20	30	1.91
43160326--43160537	30	7.1	30	78	11	170	41	14	23	21	1.89
43160416--43160484	29	2.4	29	97	0	129	43	14	28	13	1.83
43160430--43160537	29	3.7	29	82	6	110	41	17	23	17	1.90
43161900--43161952	27	2.0	27	92	0	88	35	13	20	30	1.91
43162098--43162149	27	1.9	27	84	0	68	42	9	25	23	1.84
43167114--43167147	6	5.3	6	86	13	50	67	0	17	14	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43167050--43167188	63	2.2	65	84	6	178	48	5	17	28	1.69
43173324--43173465	50	2.8	50	84	0	176	25	22	29	22	1.99
43177683--43177826	40	3.6	40	80	6	159	33	18	29	19	1.95
43177663--43177826	80	2.1	79	83	3	204	33	17	28	20	1.96
43183988--43184017	15	2.1	15	93	6	53	76	13	0	10	1.01
43192226--43192682	231	2.0	231	86	3	643	29	18	17	34	1.94
43193712--43193785	26	2.8	26	79	8	87	24	14	27	33	1.94
43193967--43194023	27	2.1	27	90	0	87	45	10	22	21	1.82
43204104--43204199	35	2.6	37	77	12	99	25	17	18	38	1.93
43213836--43214004	27	6.3	27	81	2	187	41	17	18	22	1.90
43213836--43214004	54	3.1	54	83	3	232	41	17	18	22	1.90
43213847--43214061	27	8.0	27	78	5	184	40	19	19	20	1.92
43213836--43214036	54	3.7	54	79	6	210	40	18	18	22	1.92
43213875--43214031	81	1.9	81	85	0	215	40	18	19	22	1.92
43214021--43214089	27	2.6	27	90	0	102	33	17	26	23	1.96
43214021--43214110	27	3.3	27	84	0	72	32	17	24	25	1.97
43214106--43214203	24	4.1	24	82	0	97	30	7	19	42	1.78
43214279--43214344	27	2.5	27	80	9	82	19	21	22	36	1.95
43214390--43214576	32	5.8	31	83	3	203	23	18	19	38	1.93
43214405--43214575	64	2.7	64	85	0	243	24	19	18	37	1.94
43214396--43214589	96	2.0	95	86	1	271	22	19	18	39	1.92
43217367--43218141	387	2.0	388	94	0	1345	34	11	22	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43220446--43220499	20	2.8	19	82	2	72	38	0	11	50	1.38
43220448--43220499	19	2.7	19	82	11	70	40	0	9	50	1.35
43226114--43226166	20	2.6	21	90	6	90	32	5	5	56	1.46
43227176--43227338	27	6.0	27	83	5	159	27	21	14	36	1.93
43227181--43227340	54	3.0	54	81	7	191	26	21	15	36	1.93
43229991--43230030	20	2.0	20	90	0	62	42	22	27	7	1.80
43233002--43233040	20	2.0	20	89	0	60	41	17	30	10	1.83
43233007--43233047	20	2.0	20	85	0	55	43	17	29	9	1.80
43252118--43252149	8	4.0	8	91	0	55	0	15	0	84	0.63
43252195--43252245	3	17.0	3	88	8	50	39	1	0	58	1.09

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