genome.fa.s13.2.7.7.80.10.50.1000.153.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  153  of  199  ( 23770 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)
45770379--45770513	41	3.5	40	73	14	111	31	23	18	26	1.98
45770989--45771234	42	5.7	42	84	2	258	26	27	17	29	1.98
45775790--45775830	21	2.0	21	95	0	73	29	43	0	26	1.55
45776028--45776074	24	1.9	25	91	4	78	65	0	0	34	0.93
45776141--45776190	23	2.2	23	86	13	68	38	48	0	14	1.44
45776154--45776187	15	2.3	15	89	0	50	35	50	0	14	1.44
45776141--45776211	23	3.2	22	75	20	67	38	43	0	18	1.50
45776203--45776243	14	2.9	15	78	10	50	39	34	0	26	1.57
45776214--45776252	15	2.7	15	84	4	53	38	33	0	28	1.57
45776182--45776259	22	3.6	22	70	14	65	38	35	0	25	1.56
45776477--45776592	41	2.8	41	89	5	173	27	32	19	19	1.97
45776628--45776704	39	1.9	39	89	2	118	23	18	16	41	1.90
45776628--45776781	40	3.8	39	73	7	139	22	21	18	37	1.94
45776893--45776921	5	5.8	5	100	0	58	58	0	0	41	0.98
45781464--45781536	30	2.5	29	82	10	87	39	5	5	49	1.49
45786990--45787045	29	2.0	28	92	3	94	10	39	14	35	1.81
45787477--45787520	15	3.1	15	74	12	56	13	22	9	54	1.67
45790325--45790390	18	3.7	18	87	0	96	33	12	15	39	1.84
45790842--45790980	67	2.1	67	84	9	178	25	5	15	53	1.64
45792963--45792987	13	1.9	13	100	0	50	40	28	8	24	1.83
45796882--45796907	5	5.2	5	100	0	52	19	19	42	19	1.90
45797435--45802805	971	5.5	971	93	1	8736	34	18	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45804999--45805028	7	4.3	7	100	0	60	13	30	26	30	1.94
45805039--45805063	6	4.2	6	100	0	50	0	0	16	84	0.63
45806444--45806496	22	2.3	23	84	15	74	73	0	3	22	0.99
45815029--45815053	13	1.9	13	100	0	50	8	0	8	84	0.79
45816187--45816237	10	5.0	10	77	13	50	72	1	1	23	1.05
45826087--45826152	31	2.1	31	85	0	87	46	18	7	27	1.75
45826240--45826282	18	2.4	19	76	11	54	46	2	4	46	1.36
45827823--45827855	15	2.1	16	88	5	50	42	3	6	48	1.43
45828901--45829010	37	3.0	37	92	2	170	25	22	15	36	1.94
45836854--45836942	43	2.1	43	100	0	178	30	13	11	44	1.78
45837231--45837266	18	2.0	18	88	0	54	38	0	0	61	0.96
45854251--45854334	31	2.9	27	82	15	80	30	8	15	45	1.76
45858481--45858547	26	2.6	25	77	13	73	44	7	0	47	1.31
45859754--45859787	17	1.9	18	94	5	61	47	11	0	41	1.40
45867141--45867181	13	3.1	14	89	6	59	53	14	12	19	1.72
45867750--45867775	5	5.2	5	100	0	52	19	19	19	42	1.90
45881669--45881763	17	5.6	17	68	16	63	43	3	3	50	1.34
45881739--45881854	58	1.9	58	86	6	160	42	2	3	51	1.32
45881819--45881867	15	3.2	15	80	5	53	42	0	6	51	1.27
45881784--45881858	11	6.5	11	68	29	50	44	1	2	52	1.23
45889344--45889513	43	4.0	43	80	13	208	22	18	28	30	1.97
45889356--45889513	84	1.9	84	85	7	223	22	18	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45894462--45894625	71	2.3	72	81	4	190	29	20	15	33	1.94
45896005--45896072	25	2.6	26	86	11	95	20	8	10	60	1.56
45896016--45896072	25	2.3	25	90	0	96	24	7	10	57	1.56
45896268--45896297	7	4.3	7	95	0	51	23	3	0	73	0.98
45896637--45896690	19	2.8	19	91	5	83	83	0	3	12	0.78
45897648--45897682	17	2.0	18	88	5	54	48	0	2	48	1.16
45900719--45900812	47	2.0	47	89	0	143	31	22	14	30	1.94
45909224--45909307	31	2.7	31	88	0	123	21	39	25	14	1.91
45909458--45909621	35	4.6	35	84	3	193	42	17	14	25	1.87
45911919--45911994	36	2.1	36	92	0	125	39	28	13	18	1.88
45913324--45913448	61	2.0	61	90	1	196	36	11	29	22	1.89
45917313--45917343	16	1.9	16	93	0	53	38	6	19	35	1.77
45917869--45917909	21	1.9	22	85	5	57	36	34	4	24	1.77
45918421--45918486	3	22.0	3	93	0	114	68	1	0	30	0.99
45922813--45922882	20	3.8	19	72	18	58	61	2	0	35	1.11
45923138--45923182	20	2.2	21	84	7	58	37	6	0	55	1.26
45923912--45923954	16	2.5	17	88	7	61	27	0	11	60	1.31
45925426--45925495	29	2.5	26	77	18	70	42	1	1	54	1.18
45925444--45925493	13	3.2	16	70	18	52	48	0	0	52	1.00
45925436--45925493	29	2.0	30	83	10	75	44	1	1	51	1.21
45925563--45925619	15	3.5	15	69	17	51	49	1	1	47	1.22
45934985--45935025	19	2.2	19	95	0	73	21	29	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45935584--45935627	23	2.0	21	82	8	52	22	9	11	56	1.62
45936037--45936098	30	2.1	30	93	0	106	32	1	8	58	1.37
45946202--45946343	71	2.0	72	84	1	187	27	19	23	29	1.98
45946092--45946455	185	2.0	184	87	3	527	28	19	23	27	1.98
45946274--45946786	114	4.5	113	82	5	588	30	17	24	27	1.98
45946274--45946786	230	2.2	224	85	5	679	30	17	24	27	1.98
45946718--45946861	74	1.9	74	84	6	193	29	17	23	29	1.97
45946608--45946976	188	2.0	189	85	4	512	29	18	22	28	1.97
45947310--45947379	7	10.0	7	76	6	61	15	0	38	45	1.47
45947310--45947379	35	2.0	35	82	0	86	15	0	38	45	1.47
45949223--45949253	15	2.1	15	100	0	62	19	12	22	45	1.84
45949580--45949616	13	2.8	13	91	4	56	37	2	2	56	1.28
45949663--45949752	13	6.8	13	73	7	74	41	8	4	45	1.55
45950504--45951087	9	66.7	9	68	19	251	46	20	2	31	1.63
45950509--45950583	32	2.3	31	77	8	78	49	17	2	30	1.60
45950613--45950678	16	3.9	16	80	9	69	51	19	0	28	1.47
45950660--45950721	30	2.0	31	90	3	99	46	16	0	37	1.47
45950650--45950934	77	3.6	76	86	10	307	45	21	2	31	1.63
45950647--45950942	86	3.6	82	88	9	449	45	20	2	31	1.62
45950769--45950884	38	3.1	34	65	23	90	46	18	1	32	1.60
45950813--45951087	25	11.6	25	72	18	130	46	20	1	32	1.58
45950755--45950937	77	2.4	77	100	0	366	45	21	2	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45950755--45951011	77	3.5	77	87	7	286	46	21	1	30	1.60
45950890--45951021	34	3.9	34	93	0	219	48	22	0	28	1.51
45951017--45951087	23	3.0	23	91	2	115	42	16	1	39	1.57
45954967--45955017	13	3.9	13	72	10	50	31	5	23	39	1.79
45961522--45961557	2	18.0	2	100	0	72	50	0	0	50	1.00
45961603--45961647	22	2.0	22	86	8	63	35	0	2	62	1.08
45965475--45965505	7	4.4	7	91	0	53	19	0	35	45	1.51
45967792--45967859	19	3.6	18	75	13	64	63	1	0	35	1.04
45976455--45976480	2	13.0	2	100	0	52	50	0	0	50	1.00
45976956--45976991	16	2.2	16	90	9	56	55	5	22	16	1.62
45985368--45985463	23	4.2	23	94	0	174	32	25	20	21	1.98
45985689--45985727	18	2.2	17	86	13	53	46	20	0	33	1.51
45988547--45988584	15	2.5	15	100	0	76	7	31	31	28	1.86
45991440--45991566	44	2.9	43	78	13	152	31	27	17	23	1.97
45999292--45999347	2	28.0	2	100	0	112	50	0	0	50	1.00
46006517--46006564	21	2.2	23	81	11	64	66	10	2	20	1.32
46006525--46006566	22	2.0	21	95	4	75	66	9	2	21	1.32
46018603--46018656	24	2.2	24	93	0	99	7	46	33	12	1.70
46028412--46028463	20	2.7	19	85	5	77	59	3	0	36	1.16
46028428--46028506	8	9.0	8	72	16	50	56	2	0	40	1.12
46028419--46028481	19	3.2	20	82	6	76	57	3	0	39	1.15
46028411--46028463	19	2.7	19	85	2	70	60	3	0	35	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46030074--46030111	20	1.9	20	84	10	51	50	2	15	31	1.58
46030568--46030625	3	18.3	3	89	7	80	62	0	6	31	1.22
46033097--46033292	72	2.7	73	84	3	223	27	16	19	36	1.94
46037248--46037311	31	2.1	31	85	5	85	21	14	1	62	1.40
46042423--46042447	13	1.9	13	100	0	50	32	4	0	64	1.12
46042453--46042494	17	2.5	17	88	0	66	30	7	7	54	1.54
46044405--46044452	24	2.0	24	95	0	87	29	27	16	27	1.97
46051395--46051434	2	20.0	2	100	0	80	50	0	0	50	1.00
46051798--46051842	3	15.3	3	82	13	58	66	0	2	31	1.04
46051798--46051861	26	2.4	26	84	7	76	67	3	1	28	1.15

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