genome.fa.s9.2.7.7.80.10.50.1000.133.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  133  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)
44496243--44497073	456	1.8	454	88	4	1280	39	11	11	36	1.79
44497045--44497100	20	2.8	20	74	12	62	58	1	0	39	1.08
44497281--44497340	18	3.5	17	84	10	79	71	0	3	25	1.01
44500491--44500549	13	4.5	13	81	8	75	38	27	6	27	1.81
44500778--44500876	10	10.0	9	70	18	54	43	3	2	51	1.28
44500778--44500878	20	5.1	19	74	17	73	43	2	1	51	1.28
44500782--44500875	30	3.1	30	77	10	86	40	3	2	54	1.28
44502013--44502052	20	2.0	20	85	9	55	32	5	22	40	1.76
44503093--44503120	2	14.0	2	100	0	56	50	0	0	50	1.00
44503366--44503485	6	19.5	6	75	4	60	66	10	8	15	1.43
44503371--44503467	12	8.4	12	76	8	76	68	11	6	14	1.39
44503377--44503420	9	4.9	9	91	0	70	68	9	4	18	1.34
44503377--44503488	9	12.6	9	81	1	64	67	8	8	15	1.40
44516444--44516479	19	1.9	18	88	5	54	72	2	8	16	1.21
44521746--44521774	6	4.8	6	100	0	58	86	0	13	0	0.58
44532054--44532086	16	2.1	16	94	5	59	33	0	24	42	1.55
44544325--44544353	12	2.3	13	94	5	51	65	6	6	20	1.40
44547210--44547247	6	5.9	7	90	9	55	60	0	23	15	1.35
44549567--44549665	28	3.5	28	87	5	146	37	12	3	47	1.56
44549851--44549921	37	1.9	37	91	0	115	42	7	0	50	1.29
44549846--44549916	19	3.8	19	83	3	90	39	7	0	53	1.28
44550229--44550269	19	2.1	19	86	4	55	53	0	9	36	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44550479--44550549	37	1.9	37	97	0	133	49	0	9	40	1.36
44550479--44550553	18	4.1	19	84	6	102	52	0	9	38	1.34
44550485--44550562	19	4.1	19	83	5	59	51	0	10	38	1.36
44550632--44550731	27	3.7	27	89	4	132	22	29	22	27	1.99
44550794--44550890	28	3.5	27	87	4	140	49	1	9	40	1.42
44555590--44555698	20	5.4	20	75	6	96	32	22	24	21	1.98
44555620--44555710	20	4.6	20	77	10	80	30	19	27	21	1.98
44555593--44555724	60	2.2	60	82	2	149	34	20	24	21	1.97
44560697--44560837	68	2.1	68	97	0	264	32	12	17	36	1.88
44562475--44562552	26	3.3	24	67	22	58	43	1	0	55	1.08
44562407--44562539	56	2.3	57	82	10	155	43	0	3	53	1.16
44562497--44562529	11	3.0	11	91	8	50	42	0	0	57	0.98
44562636--44562736	44	2.4	42	82	14	120	32	28	5	32	1.81
44562722--44562758	16	2.3	16	90	0	65	18	35	8	37	1.81
44569059--44569098	3	13.3	3	100	0	80	67	0	0	32	0.91
44576796--44576848	25	2.1	25	85	0	70	20	32	16	30	1.95
44577220--44577269	20	2.4	21	86	3	75	26	2	2	70	1.09
44579371--44579456	41	2.1	42	86	2	120	13	32	30	23	1.93
44582893--44583099	46	4.6	46	91	3	332	28	22	14	33	1.94
44582893--44583099	91	2.3	91	94	1	355	28	22	14	33	1.94
44593476--44593551	39	1.9	40	91	2	127	36	1	0	61	1.04
44593738--44593777	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44594095--44594137	21	2.0	21	82	8	52	37	0	6	55	1.27
44594430--44594469	16	2.5	16	91	0	71	27	32	5	35	1.79
44601847--44601885	2	19.5	2	100	0	78	48	0	0	51	1.00
44602731--44602758	8	3.5	8	100	0	56	39	0	10	50	1.37
44603488--44603613	41	3.1	41	85	0	153	28	18	24	28	1.98
44603818--44603895	40	2.0	40	82	5	95	39	7	10	42	1.68
44603848--44603912	32	2.1	31	91	2	103	38	7	12	41	1.71
44604652--44604791	40	3.5	39	79	6	147	37	22	20	20	1.94
44604824--44604999	41	4.3	40	83	6	203	21	24	25	28	1.99
44604824--44605004	81	2.2	82	82	7	226	20	23	24	30	1.99
44604824--44605017	40	4.8	41	77	12	188	22	23	25	28	1.99
44605332--44605365	14	2.4	14	90	0	50	29	0	23	47	1.52
44605341--44605377	14	2.6	14	91	0	56	24	0	32	43	1.55
44605426--44605458	14	2.3	15	94	5	59	30	0	33	36	1.58
44610185--44610418	42	5.5	42	88	4	319	19	18	28	33	1.96
44614656--44614756	31	3.3	31	84	0	130	29	18	4	46	1.70
44617693--44617722	7	4.1	7	95	4	51	56	0	0	43	0.99
44623541--44623571	15	2.1	14	94	5	53	51	0	0	48	1.00
44626788--44626902	7	16.7	7	67	15	53	33	24	11	30	1.90
44634361--44634397	20	1.9	18	89	10	56	75	5	5	13	1.15
44635711--44635774	11	5.7	11	94	3	110	43	1	0	54	1.09
44636482--44636515	6	5.7	6	100	0	68	32	0	67	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44643053--44643092	7	5.7	7	93	0	62	15	5	65	15	1.44
44643093--44643152	30	2.0	31	83	9	79	45	0	35	20	1.51
44643446--44643476	9	3.4	9	90	0	53	38	22	12	25	1.90
44643645--44643681	18	2.0	19	89	5	58	37	0	0	62	0.96
44648571--44648648	22	3.5	22	92	3	122	42	19	24	14	1.88
44648565--44648695	22	5.6	25	80	9	79	38	17	24	19	1.92
44649184--44649219	8	4.5	8	100	0	72	61	0	0	38	0.96
44653618--44653735	41	3.0	41	83	6	145	34	18	20	26	1.96
44655378--44655494	43	2.7	43	82	0	153	24	28	29	17	1.98
44656892--44656939	23	2.1	23	84	0	60	33	20	27	18	1.96
44661050--44661094	23	2.0	23	95	0	81	26	20	8	44	1.80
44661508--44661710	73	2.8	73	81	3	185	35	7	12	44	1.71
44661409--44661775	72	5.1	72	75	4	276	34	6	13	45	1.70
44662613--44662679	35	1.9	35	87	0	98	49	10	5	34	1.62
44662700--44662834	9	15.6	9	76	13	70	48	14	0	37	1.45
44662707--44662760	24	2.2	24	96	0	99	51	11	0	37	1.37
44662701--44662825	36	3.6	36	86	9	172	48	14	0	36	1.44
44662734--44662861	45	2.9	45	84	4	154	49	15	0	35	1.45
44662701--44662861	45	4.4	36	75	17	134	49	14	0	36	1.44
44668479--44668617	66	2.1	65	86	5	190	42	18	24	14	1.88
44668966--44669110	43	3.4	42	80	10	168	21	17	28	32	1.96
44672164--44672213	23	2.2	23	85	7	66	18	4	52	26	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44672718--44672775	18	3.3	18	82	4	73	41	8	13	36	1.76
44680651--44680685	6	5.8	6	100	0	70	82	0	0	17	0.66
44686218--44686294	37	2.1	37	95	0	136	20	31	24	23	1.98
44686168--44686334	87	1.9	87	85	2	228	22	26	23	26	2.00
44686255--44686389	56	2.6	51	82	12	168	25	28	20	25	1.99
44689019--44689063	22	2.0	22	100	0	90	31	20	22	26	1.98
44690297--44690542	27	9.1	27	89	3	336	43	19	19	18	1.89
44690902--44690995	28	3.4	28	80	2	100	20	27	24	27	1.99
44693738--44693771	17	2.0	17	94	0	59	47	26	0	26	1.53
44697407--44697437	11	2.8	11	90	0	53	32	0	0	67	0.91
44697559--44697616	29	2.0	30	89	3	91	55	13	3	27	1.55
44697598--44697651	25	2.3	23	83	6	63	68	12	0	18	1.21
44710120--44710453	27	12.4	27	81	6	342	20	16	19	44	1.87
44710149--44710453	80	3.8	81	84	4	384	19	16	19	44	1.86
44710413--44710470	27	2.2	26	82	14	66	17	12	18	51	1.75
44712482--44713660	598	2.0	593	89	1	1833	41	21	15	22	1.90
44720403--44720469	20	3.3	20	85	0	89	35	25	20	17	1.95
44721085--44723430	656	3.6	656	87	1	3326	24	13	20	41	1.89
44722935--44723903	485	2.0	486	84	1	1246	23	14	20	41	1.89
44723421--44725216	656	2.7	651	86	2	2364	24	13	19	41	1.88
44730564--44730615	26	2.0	26	100	0	104	38	11	7	42	1.70
44732668--44732909	50	4.7	50	76	4	182	27	22	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44734783--44734931	75	2.0	75	94	2	264	18	24	18	38	1.92
44734934--44734963	12	2.4	13	94	5	53	20	6	6	66	1.38
44739824--44739872	22	2.2	22	88	0	71	24	26	16	32	1.96
44739833--44739875	22	2.0	22	100	0	86	23	25	13	37	1.92
44741911--44741958	24	2.0	25	83	4	62	33	8	25	33	1.86
44743332--44743383	26	2.0	26	100	0	104	38	11	7	42	1.70
44744019--44744065	24	1.9	25	82	4	60	34	4	27	34	1.77
44745403--44745452	26	1.9	26	91	0	82	36	12	8	44	1.71
44747519--44747570	26	2.0	26	96	0	95	38	13	7	40	1.73
44753979--44754030	26	2.0	26	92	0	86	38	15	7	38	1.76

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