genome.fa.s13.2.7.7.80.10.50.1000.105.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  105  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)
32027492--32027530	19	2.0	21	85	10	55	15	10	5	69	1.34
32028175--32028214	2	20.0	2	94	0	71	47	0	0	52	1.00
32034357--32034727	88	4.2	88	85	0	508	26	27	23	21	1.99
32034357--32034727	176	2.1	176	89	0	562	26	27	23	21	1.99
32036233--32036354	57	2.1	57	86	3	165	28	25	26	19	1.99
32036167--32036438	145	1.9	144	89	0	427	27	28	25	19	1.99
32036290--32036560	88	3.1	88	91	1	418	28	27	24	19	1.99
32036574--32036949	44	8.7	44	83	6	448	27	18	25	28	1.98
32036613--32036949	126	2.6	129	90	5	504	27	18	25	28	1.98
32036574--32036949	170	2.2	170	85	8	510	27	18	25	28	1.98
32037747--32037840	19	4.8	19	92	5	152	38	9	14	37	1.79
32037747--32037847	40	2.7	38	88	8	152	38	8	15	36	1.79
32037831--32037873	22	1.9	23	85	4	61	34	4	13	46	1.65
32038038--32038076	19	2.0	21	85	10	55	15	10	5	69	1.34
32038281--32038324	3	15.0	3	86	13	65	34	0	0	65	0.93
32042717--32042748	2	16.0	2	100	0	64	50	0	0	50	1.00
32045564--32045607	23	1.9	23	81	9	54	47	13	25	13	1.79
32048767--32048814	23	2.1	23	84	7	62	52	37	0	10	1.36
32049953--32050032	3	26.3	3	73	7	63	31	7	1	60	1.33
32054947--32055029	39	2.1	39	95	0	148	27	18	18	36	1.94
32057039--32057077	20	2.0	20	84	0	51	56	0	10	33	1.33
32056911--32057305	145	2.7	148	85	7	529	44	4	10	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32057165--32057424	118	2.2	119	85	9	347	45	3	11	40	1.57
32060436--32060513	3	25.7	3	73	7	59	58	1	7	32	1.34
32060436--32060499	15	4.3	15	78	7	67	56	1	9	32	1.41
32062007--32062342	50	6.8	49	68	9	200	25	19	23	31	1.98
32061982--32062544	98	5.7	100	83	6	633	25	20	22	31	1.98
32062013--32062544	50	10.7	51	67	6	153	24	20	22	32	1.98
32067862--32067996	30	4.4	30	80	10	123	43	16	8	31	1.78
32067882--32068005	30	4.1	30	91	0	194	41	16	9	32	1.80
32074347--32074604	23	11.0	22	70	14	115	44	15	15	24	1.86
32074319--32074607	71	4.1	70	84	6	330	42	16	15	25	1.87
32075343--32075412	28	2.5	28	88	0	95	30	25	12	31	1.93
32080069--32080188	27	4.4	27	77	4	134	25	18	18	37	1.93
32080059--32080188	54	2.4	54	81	10	158	25	18	20	36	1.95
32080069--32080212	27	5.4	27	76	4	121	25	18	20	36	1.95
32085261--32085336	28	2.9	28	79	15	90	15	11	18	53	1.71
32086208--32086259	21	2.6	19	85	11	68	34	11	15	38	1.83
32086208--32086262	20	2.7	19	81	13	65	32	10	14	41	1.81
32087761--32087797	19	2.0	19	89	5	58	56	10	2	29	1.47
32089971--32090206	50	4.8	50	81	10	256	25	21	30	22	1.99
32092394--32092430	18	2.1	18	94	0	65	56	8	21	13	1.63
32092558--32092596	18	2.3	16	86	8	51	35	7	20	35	1.81
32095001--32095033	8	4.1	8	88	11	50	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32095531--32095560	15	1.9	16	93	6	53	76	0	0	23	0.78
32095543--32095644	10	10.1	10	70	15	59	57	2	1	37	1.25
32095523--32095655	9	14.3	9	72	18	87	60	3	1	34	1.21
32095544--32095655	19	5.8	20	66	22	69	58	2	1	36	1.22
32098645--32098707	31	2.0	31	100	0	126	55	6	19	19	1.63
32100701--32100751	24	2.1	25	82	10	61	45	0	1	52	1.12
32116002--32116047	11	4.5	11	78	13	53	67	0	0	32	0.91
32116003--32116048	20	2.3	20	88	7	67	65	0	0	34	0.93
32123990--32124198	85	2.4	87	82	10	268	43	11	11	34	1.76
32124192--32124225	14	2.2	16	90	10	54	47	0	0	52	1.00
32127557--32127586	15	1.9	16	93	6	53	33	0	3	63	1.11
32128052--32128077	7	3.7	7	100	0	52	23	0	0	76	0.78
32128249--32128311	30	2.1	29	82	8	74	60	6	6	26	1.45
32131598--32131685	44	2.1	43	83	10	110	35	11	4	48	1.59
32137074--32137105	2	16.0	2	100	0	64	50	0	0	50	1.00
32142303--32142336	3	11.3	3	100	0	68	32	0	0	67	0.91
32154754--32154859	39	2.8	38	87	5	151	12	17	29	40	1.86
32154754--32154867	38	3.0	38	87	5	158	12	17	29	40	1.86
32165930--32165971	11	3.8	11	78	12	50	2	11	4	80	0.95
32165932--32165984	22	2.5	22	84	3	63	5	13	3	77	1.09
32168906--32168967	32	2.0	31	81	9	72	25	19	29	25	1.99
32169867--32169921	27	2.0	27	100	0	110	18	21	10	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32169867--32169912	15	3.3	15	70	17	53	21	23	8	45	1.80
32170119--32170172	26	2.1	26	100	0	108	29	7	22	40	1.81
32174485--32174520	18	2.0	18	100	0	72	22	22	22	33	1.97
32182262--32182292	16	1.9	16	93	0	53	61	3	0	35	1.12
32183862--32183957	44	2.2	44	86	3	131	33	18	16	31	1.94
32183879--32184052	44	3.9	44	79	6	154	29	18	19	32	1.96
32183743--32184863	287	3.9	287	89	2	1725	30	20	18	30	1.96
32184149--32184328	44	4.1	44	88	0	216	31	21	16	30	1.96
32183691--32184858	573	2.0	573	92	0	1917	30	20	18	30	1.96
32184745--32184858	44	2.6	44	91	2	176	32	22	16	28	1.96
32184504--32185105	242	2.5	242	88	1	841	29	20	18	30	1.97
32184947--32185146	44	4.6	44	72	10	124	29	21	19	30	1.97
32183691--32185100	573	2.5	566	84	6	1585	30	20	18	30	1.96
32184987--32185146	88	1.8	87	86	6	234	28	21	19	30	1.98
32185313--32185355	21	2.1	21	86	4	61	18	27	13	39	1.89
32185193--32185334	51	2.8	51	84	0	194	29	22	16	30	1.96
32185597--32186061	88	5.3	88	89	0	653	27	22	19	30	1.98
32185774--32186004	44	5.2	44	63	8	128	29	22	18	29	1.98
32187333--32187387	6	9.0	6	74	18	51	0	20	0	80	0.72
32187333--32187381	9	5.3	9	79	13	55	0	20	0	79	0.73
32192675--32192739	23	2.8	23	83	4	78	47	1	12	38	1.50
32200701--32200753	26	2.0	26	82	7	63	71	1	20	5	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32203111--32203153	20	2.2	20	100	0	86	39	9	0	51	1.34
32203202--32203246	23	2.0	23	86	8	65	46	2	2	48	1.26
32203464--32203507	16	2.6	16	82	13	52	31	2	0	65	1.05
32203466--32203504	17	2.2	19	86	9	55	28	2	0	69	1.02
32203499--32203541	20	2.1	21	87	12	63	53	0	0	46	1.00
32204448--32204672	94	2.4	93	82	2	265	35	19	7	38	1.80
32204731--32204986	96	2.7	94	81	3	289	35	14	8	41	1.78
32208562--32208591	15	2.0	15	93	0	51	63	0	6	30	1.20
32210789--32210835	20	2.4	20	83	13	62	40	4	4	51	1.41
32217902--32218659	130	5.9	130	84	2	875	32	16	12	39	1.85
32218006--32218212	67	3.2	66	64	13	165	30	16	11	41	1.84
32217909--32218636	258	2.8	261	83	2	892	32	16	11	38	1.85
32217909--32218640	388	1.9	388	85	2	1022	32	16	11	38	1.85
32222012--32222040	14	2.0	15	93	6	51	3	20	0	75	0.94
32222120--32222267	73	2.0	73	96	0	269	41	8	19	29	1.82
32231112--32231180	31	2.2	31	81	0	84	44	11	11	31	1.77
32235566--32235636	29	2.6	27	80	6	70	63	5	4	26	1.35
32237273--32237995	44	16.7	45	69	15	190	27	23	20	28	1.99
32237145--32237779	216	2.9	215	91	1	1002	28	23	19	28	1.98
32237481--32237947	172	2.7	172	85	4	527	28	22	19	29	1.98
32237581--32237857	83	3.3	83	73	7	259	30	22	19	27	1.98
32237234--32237993	89	8.8	87	67	15	287	28	23	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32254270--32254298	8	3.6	8	100	0	58	72	0	0	27	0.85
32254509--32254552	3	14.3	3	81	13	54	65	0	4	29	1.12
32256242--32256440	66	3.0	66	84	2	240	50	13	24	12	1.75
32257342--32257790	44	10.2	44	64	9	151	26	23	19	30	1.98
32257254--32257990	133	5.6	133	90	1	1099	26	23	19	30	1.98
32257254--32257990	265	2.8	264	89	2	1104	26	23	19	30	1.98
32257254--32257990	398	1.9	396	88	2	1136	26	23	19	30	1.98
32259289--32259337	13	3.6	14	81	13	57	14	20	2	63	1.40
32259299--32259341	7	6.1	7	84	10	52	13	18	2	65	1.38
32259299--32259340	15	2.9	15	82	13	52	14	19	2	64	1.39

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