genome.fa.s10.2.7.7.80.10.50.1000.169.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  169  of  202  ( 24201 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)
52811837--52811901	26	2.5	26	97	2	123	43	0	0	56	0.99
52811837--52811901	15	5.3	11	73	26	51	43	0	0	56	0.99
52814512--52814539	4	7.0	4	100	0	56	75	0	0	25	0.81
52816992--52817025	18	2.0	16	88	11	50	41	0	0	58	0.98
52819028--52819064	18	2.1	19	85	10	51	72	0	0	27	0.84
52819980--52820335	45	7.9	45	81	6	197	41	16	18	23	1.90
52820034--52820379	90	3.9	90	84	1	381	40	17	18	23	1.91
52820073--52820423	45	7.8	45	85	3	386	40	17	19	22	1.92
52829365--52829459	43	2.2	43	96	0	172	41	18	13	26	1.88
52834168--52834345	52	3.5	51	89	4	245	27	29	15	26	1.96
52839121--52839160	21	1.9	21	84	0	53	32	20	22	25	1.98
52851472--52851497	11	2.4	11	100	0	52	53	0	0	46	1.00
52861898--52861933	6	6.0	6	86	0	54	33	16	2	47	1.61
52865343--52865651	153	2.0	153	98	0	600	26	22	18	31	1.97
52873364--52873392	9	3.0	10	90	10	51	58	0	20	20	1.39
52873479--52873531	6	8.7	6	91	2	70	60	0	22	16	1.36
52873479--52873531	18	2.9	18	91	2	79	60	0	22	16	1.36
52876503--52876810	46	6.3	48	84	11	335	35	14	22	27	1.93
52876774--52876986	37	6.0	37	89	7	318	38	16	20	24	1.93
52876773--52876969	68	2.8	69	92	5	308	38	17	18	25	1.92
52876473--52876836	203	1.8	197	88	5	529	35	15	21	27	1.93
52879040--52879153	57	2.0	58	84	5	151	28	17	7	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52880324--52880375	6	8.5	6	91	2	50	28	1	34	34	1.69
52880347--52880377	6	5.2	6	96	0	53	22	0	32	45	1.53
52894177--52894650	50	9.5	50	71	7	329	31	24	21	22	1.98
52894165--52894703	100	5.4	99	83	3	654	31	23	20	23	1.98
52896498--52896538	20	2.1	21	86	13	61	24	12	4	58	1.53
52898525--52898567	22	2.0	22	86	9	61	60	11	9	18	1.57
52901527--52901570	6	7.3	6	84	0	52	20	2	68	9	1.28
52902006--52902037	6	5.3	6	96	0	55	18	0	68	12	1.20
52902195--52902238	3	14.7	3	80	0	52	4	2	70	22	1.17
52902186--52902235	6	8.2	6	86	2	55	8	2	70	20	1.23
52902192--52902238	12	3.9	12	85	0	67	6	2	70	21	1.20
52902355--52902390	18	2.0	18	88	0	54	22	2	63	11	1.39
52915859--52916041	41	4.5	41	88	2	165	22	27	19	30	1.98
52915894--52916055	41	4.0	41	91	1	236	22	28	20	27	1.99
52915900--52916073	82	2.1	82	85	4	226	23	27	20	28	1.99
52920720--52920881	41	4.0	41	91	1	245	22	28	20	28	1.99
52920726--52920899	82	2.1	82	86	4	235	23	27	20	28	1.99
52928506--52928666	41	4.0	41	90	4	229	21	29	20	27	1.98
52928512--52928684	82	2.1	81	83	7	208	23	28	19	28	1.98
52929158--52929186	2	14.5	2	100	0	58	48	0	0	51	1.00
52935183--52935245	22	2.9	21	76	7	54	53	0	3	42	1.16
52935725--52935763	17	2.3	17	95	0	69	46	2	0	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52936068--52936099	15	2.2	15	94	5	57	37	3	6	53	1.42
52936194--52936225	15	2.2	15	94	5	57	37	3	6	53	1.42
52936001--52936238	126	1.9	126	97	0	449	36	15	7	39	1.77
52937155--52937179	13	1.9	13	100	0	50	8	0	24	68	1.16
52938833--52938994	41	4.0	41	91	1	245	29	20	27	22	1.99
52938834--52939029	41	4.8	41	88	1	232	30	20	26	22	1.98
52945483--52945545	3	21.0	3	76	12	58	30	3	3	63	1.25
52945823--52945879	2	29.0	2	96	3	107	50	0	0	49	1.00
52945885--52945962	33	2.4	33	93	0	129	29	7	6	56	1.52
52945948--52945981	17	2.0	16	88	11	50	32	5	2	58	1.37
52949172--52949247	35	2.2	34	84	9	93	46	14	15	23	1.83
52949439--52949487	19	2.7	19	84	9	59	32	16	6	44	1.72
52949464--52949502	15	2.6	16	88	12	64	41	5	5	48	1.47
52949596--52949627	15	2.2	15	94	5	57	37	3	6	53	1.42
52949405--52949653	126	2.0	126	97	0	471	38	16	6	38	1.75
52949682--52949747	16	3.9	18	66	15	52	51	3	3	42	1.32
52949785--52949815	8	3.9	8	95	0	53	64	6	0	29	1.18
52955060--52955118	14	3.7	16	82	13	68	50	1	1	45	1.21
52955825--52955873	25	2.0	25	92	8	82	30	2	4	63	1.24
52957183--52957275	44	2.1	46	86	8	129	33	5	24	36	1.78
52960248--52960374	67	1.9	68	85	6	177	55	3	0	39	1.24
52967494--52967589	40	2.4	40	91	0	156	31	27	13	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52968870--52969116	32	7.7	32	82	1	257	35	23	21	19	1.96
52968870--52969086	96	2.3	96	86	3	303	35	24	21	18	1.96
52968877--52969116	96	2.5	96	82	6	299	36	24	20	19	1.95
52969122--52969172	26	2.0	26	92	0	84	35	23	23	17	1.95
52969160--52969219	27	2.2	27	85	11	79	31	23	25	20	1.98
52969368--52969799	27	16.1	27	80	4	329	23	20	20	35	1.96
52972905--52972964	9	6.4	9	86	7	84	36	26	10	26	1.88
52972972--52973032	17	3.4	17	70	12	59	50	14	3	31	1.59
52972967--52973037	37	1.9	37	100	0	142	46	16	4	32	1.67
52972970--52973054	37	2.3	37	90	8	129	48	15	4	31	1.65
52974901--52975366	235	2.0	234	93	2	803	31	24	11	31	1.91
52985469--52985523	25	2.2	25	86	0	74	32	16	27	23	1.96
52985825--52985850	5	5.2	5	100	0	52	42	19	0	38	1.51
52987688--52987743	28	2.0	28	92	0	94	32	17	17	32	1.94
52989467--52989492	8	3.2	8	100	0	52	76	11	0	11	1.01
52991817--52991881	31	2.0	33	85	11	91	38	9	10	41	1.72
52993428--52993467	21	1.9	21	85	10	55	25	7	0	67	1.16
52993659--52993683	2	12.5	2	100	0	50	48	0	0	52	1.00
52993937--52993962	2	13.0	2	100	0	52	50	0	0	50	1.00
53001258--53001485	90	2.5	91	82	4	291	25	15	25	34	1.94
53017389--53017510	43	2.8	43	86	3	174	36	26	18	18	1.94
53026814--53026852	5	7.6	5	85	5	51	51	0	2	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53026814--53026859	15	2.9	16	83	6	58	50	0	4	45	1.21
53030763--53031228	209	2.3	198	84	5	549	29	10	14	45	1.77
53030763--53031228	199	2.3	203	83	7	559	29	10	14	45	1.77
53034991--53035021	16	1.9	16	93	0	53	41	9	0	48	1.36
53049814--53049913	49	2.0	49	98	0	191	54	7	12	27	1.63
53051309--53051346	16	2.3	17	86	9	60	71	13	0	15	1.16
53054519--53054564	24	1.9	24	86	8	67	65	0	2	32	1.05
53054543--53054572	15	2.1	14	93	6	51	70	0	0	30	0.88
53055074--53055103	14	2.1	14	100	0	60	36	6	16	40	1.75
53055867--53055927	30	2.0	30	87	6	88	32	0	45	21	1.52
53056269--53056306	20	1.9	20	84	10	51	31	0	0	68	0.90
53056828--53056878	19	2.7	19	80	14	54	50	0	1	47	1.12
53056837--53056888	26	2.0	27	88	11	81	53	0	1	44	1.11
53056841--53056897	26	2.1	28	84	12	75	54	1	1	42	1.21
53059834--53059868	15	2.3	15	90	0	52	28	2	8	60	1.41
53061199--53061257	25	2.4	25	82	2	66	33	11	23	30	1.91
53067179--53067219	20	2.0	20	85	9	55	31	17	31	19	1.95
53068552--53068714	71	2.3	71	81	7	172	39	11	9	39	1.74
53068579--53068714	71	1.9	71	83	5	177	39	9	8	42	1.67
53075582--53075612	15	2.0	16	93	6	55	48	0	19	32	1.49
53077715--53077758	22	2.0	22	100	0	88	45	4	0	50	1.22
53077712--53077781	22	3.0	22	85	10	79	45	7	1	45	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53079896--53079939	23	1.9	22	82	17	54	36	25	0	38	1.56
53079984--53080077	45	2.1	45	91	0	152	30	23	19	26	1.98
53085290--53085342	14	3.8	14	80	7	63	35	22	11	30	1.89
53085290--53085350	14	4.4	14	80	0	59	34	22	11	31	1.90
53094967--53095027	26	2.3	26	94	0	104	27	37	3	31	1.73
53096640--53096754	44	2.6	44	84	10	139	27	15	17	39	1.90
53098640--53098674	17	2.0	17	88	5	52	14	45	28	11	1.79
53098708--53098745	17	2.2	18	90	4	60	18	34	23	23	1.96
53108696--53108745	21	2.4	21	96	3	93	62	4	0	34	1.14
53109606--53109630	9	2.8	9	100	0	50	24	0	0	76	0.80

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