genome.fa.s9.2.7.7.80.10.50.1000.130.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  130  of  226  ( 27023 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)
43612225--43612382	85	1.8	86	86	4	230	17	29	32	20	1.96
43616126--43617729	85	18.9	85	78	4	1353	17	25	34	21	1.95
43616126--43617741	212	7.6	211	77	5	1366	17	25	34	21	1.95
43616126--43617692	297	5.3	295	79	5	1408	17	25	34	21	1.95
43619565--43619997	42	10.2	42	76	7	356	17	26	35	21	1.95
43619565--43619997	85	5.1	85	74	6	342	17	26	35	21	1.95
43619565--43619997	127	3.4	124	74	8	354	17	26	35	21	1.95
43620683--43622358	85	19.8	85	78	5	1392	16	27	34	20	1.95
43620618--43622358	127	13.7	126	75	7	1306	17	27	34	20	1.95
43620676--43622358	212	7.9	212	77	5	1386	16	27	34	20	1.95
43620683--43622362	169	9.9	167	75	8	918	16	27	34	20	1.95
43622842--43622993	42	3.6	41	83	10	182	19	30	31	18	1.96
43622829--43622986	85	1.8	86	86	4	230	17	29	32	20	1.96
43626454--43626515	23	2.7	23	82	2	79	8	40	30	20	1.82
43626618--43627256	85	7.5	84	84	4	761	16	28	35	19	1.93
43626617--43627228	297	2.1	298	88	4	907	15	28	35	19	1.93
43631340--43631417	24	3.3	24	83	7	97	8	41	32	17	1.81
43631517--43631940	42	10.0	42	84	4	503	16	29	33	20	1.95
43631517--43631940	85	5.0	84	82	4	469	16	29	33	20	1.95
43631521--43631937	127	3.3	123	83	5	469	16	29	33	20	1.95
43632201--43632266	23	2.8	23	88	2	87	9	36	31	22	1.86
43632369--43632922	85	6.5	85	82	5	692	16	28	35	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43633839--43633915	24	3.2	24	79	3	84	10	36	31	22	1.88
43634019--43634166	42	3.5	41	80	8	172	16	29	32	21	1.96
43636853--43636902	24	2.1	24	88	0	73	12	36	28	24	1.91
43637025--43638079	43	24.8	42	82	3	1227	15	26	37	20	1.93
43637025--43638079	85	12.4	85	85	2	1316	15	26	37	20	1.93
43645414--43645585	43	4.0	43	82	1	184	15	30	36	17	1.91
43645457--43645566	42	2.6	43	82	2	123	15	30	34	19	1.93
43646057--43646181	43	2.9	42	84	7	171	18	31	32	18	1.95
43646530--43647585	85	12.4	85	84	2	1282	16	26	35	20	1.94
43646530--43647585	43	24.8	42	82	3	1193	16	26	35	20	1.94
43654101--43654210	42	2.6	43	83	1	141	20	29	32	18	1.96
43668362--43668481	43	2.8	43	82	1	143	17	30	36	15	1.90
43668916--43669082	42	3.9	42	84	5	210	17	29	32	19	1.95
43668918--43669082	85	1.9	86	83	3	217	18	29	32	20	1.96
43669291--43669347	24	2.4	24	84	0	87	8	38	29	22	1.85
43669446--43670069	43	14.6	43	81	3	654	15	26	36	21	1.93
43669441--43670069	85	7.4	85	81	2	710	15	26	36	21	1.93
43669441--43670069	128	4.9	127	81	2	704	15	26	36	21	1.93
43669452--43670041	213	2.8	213	84	3	767	15	26	36	21	1.93
43679793--43679960	43	3.9	43	80	3	187	14	32	35	16	1.90
43680451--43680555	42	2.5	43	85	1	131	19	30	31	19	1.96
43686162--43686322	42	3.8	41	83	5	180	16	29	32	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43686955--43687031	24	3.2	24	85	3	111	7	40	32	19	1.80
43687131--43688139	85	11.9	84	85	2	1230	15	26	37	20	1.93
43687127--43688139	297	3.4	296	86	2	1350	15	26	37	20	1.93
43693164--43693331	43	3.9	43	84	3	196	14	32	36	16	1.90
43694850--43695185	42	7.9	43	85	2	441	15	28	34	20	1.94
43694850--43695185	85	4.0	85	89	2	480	15	28	34	20	1.94
43694849--43695185	127	2.6	127	84	3	437	15	28	35	20	1.93
43695311--43695371	25	2.4	25	91	5	97	21	27	14	36	1.93
43702736--43702816	25	3.2	25	83	0	108	28	23	19	28	1.98
43706580--43706622	16	2.8	16	89	3	61	60	4	13	20	1.51
43720711--43720753	21	2.0	21	86	0	59	34	6	34	23	1.82
43723463--43723581	44	2.7	45	76	17	115	26	20	26	27	1.99
43727517--43727621	29	3.6	29	79	7	90	23	24	13	38	1.91
43727572--43727641	29	2.4	29	92	0	113	27	25	10	37	1.88
43730052--43731169	371	3.0	371	92	0	1828	30	10	21	37	1.88
43736164--43736320	70	2.2	70	82	2	208	24	21	22	31	1.98
43737223--43737348	55	2.3	53	78	8	128	25	26	34	14	1.94
43740273--43740673	150	2.6	155	84	9	486	43	3	10	42	1.57
43744057--43744100	23	1.9	23	86	9	63	70	4	6	18	1.27
43744070--43744108	17	2.2	18	86	4	53	69	5	10	15	1.34
43744512--43744555	23	1.9	24	90	9	74	54	0	20	25	1.45
43750408--43750598	51	3.8	51	82	6	235	32	27	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43750400--43750593	102	1.9	102	86	3	275	32	27	17	23	1.96
43758000--43758040	17	2.3	18	87	4	57	63	4	14	17	1.47
43758467--43758543	14	5.0	15	70	20	52	33	9	15	41	1.79
43758697--43758747	26	2.2	24	78	21	56	60	7	0	31	1.25
43762322--43762369	23	2.1	21	82	17	53	47	4	20	27	1.68
43765042--43765210	27	6.3	27	84	5	200	32	13	27	26	1.94
43765168--43765222	27	2.0	27	82	0	65	36	14	25	23	1.93
43771901--43772057	83	1.9	83	86	5	228	47	19	14	19	1.83
43773494--43773520	14	1.9	14	100	0	54	7	14	25	51	1.68
43775103--43775155	18	2.7	21	75	16	60	58	0	3	37	1.16
43775232--43775298	34	1.9	35	90	3	109	47	11	8	31	1.71
43778078--43778114	18	2.1	18	94	0	65	45	13	32	8	1.73
43781197--43781295	20	5.1	20	81	3	121	6	27	22	44	1.76
43781196--43781295	39	2.6	39	88	0	155	7	27	22	44	1.78
43783495--43783535	19	2.2	18	86	4	55	34	17	0	48	1.47
43785838--43785914	25	3.0	26	74	10	70	19	24	22	33	1.97
43785951--43785998	25	1.9	25	91	0	78	18	29	22	29	1.98
43785953--43786012	25	2.3	25	82	5	66	20	28	26	25	1.99
43789704--43789772	26	2.7	26	93	0	111	24	28	21	24	1.99
43796371--43796526	42	3.7	42	72	19	128	24	16	26	32	1.96
43796825--43796869	17	2.6	18	76	16	51	44	0	20	35	1.51
43799031--43799058	14	2.0	14	100	0	56	21	28	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43804722--43804776	23	2.4	23	90	0	83	38	1	12	47	1.52
43807993--43808042	23	2.2	23	100	0	100	34	12	4	50	1.58
43808747--43808794	20	2.4	19	80	10	60	43	0	0	56	0.99
43810485--43810562	20	3.7	20	68	13	50	42	0	2	55	1.13
43822239--43822265	13	2.1	13	100	0	54	55	22	0	22	1.44
43822277--43822312	18	2.1	17	89	5	54	75	0	2	22	0.94
43824265--43824305	19	2.3	19	87	8	59	24	17	2	56	1.53
43830096--43830168	24	3.0	24	85	0	110	13	45	5	35	1.67
43834743--43834784	20	2.1	20	100	0	84	28	9	11	50	1.70
43835076--43835142	34	1.9	35	84	3	91	46	13	8	31	1.74
43835721--43835752	14	2.2	15	94	5	57	50	0	0	50	1.00
43836589--43836624	13	2.8	13	87	4	56	91	0	8	0	0.41
43836591--43836621	16	1.9	16	100	0	62	90	0	9	0	0.46
43836589--43836627	18	2.1	19	90	4	62	89	0	10	0	0.48
43836589--43836631	22	2.0	22	95	0	77	88	0	11	0	0.52
43858166--43858267	40	2.5	40	83	0	123	21	19	20	38	1.94
43858166--43858274	20	5.4	20	79	0	101	20	20	20	39	1.93
43865121--43865145	12	2.1	12	100	0	50	24	8	16	52	1.70
43876576--43876659	42	2.0	42	95	0	150	51	10	5	32	1.61
43894784--43894840	18	3.2	17	78	14	53	45	3	14	36	1.61
43901535--43901691	41	3.8	42	88	3	214	33	27	19	19	1.96
43902851--43902882	16	1.9	17	93	6	57	37	21	0	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43903044--43903198	41	3.7	41	78	7	127	29	28	19	23	1.98
43915491--43916238	44	17.0	44	90	1	1117	30	14	25	29	1.95
43916228--43916366	44	3.2	44	73	5	120	32	16	23	28	1.96
43917757--43917798	21	2.0	21	90	4	66	33	7	0	59	1.25
43925067--43925111	23	1.9	24	86	4	65	20	2	51	26	1.59
43928538--43928635	42	2.3	42	83	0	124	27	15	19	37	1.92
43929529--43929645	56	2.1	56	98	0	225	31	14	11	41	1.82
43934581--43934680	51	2.0	51	86	4	139	26	26	3	45	1.68
43937842--43937916	24	3.1	24	70	0	78	33	12	18	36	1.88
43937803--43937936	48	2.8	48	83	0	169	34	10	17	38	1.84

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226