genome.fa.s10.2.7.7.80.10.50.1000.200.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  200  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)
61142441--61142478	2	19.0	2	100	0	76	50	0	0	50	1.00
61147032--61147064	16	2.0	17	88	5	50	6	27	3	63	1.32
61147160--61147193	14	2.5	14	95	4	61	50	35	0	14	1.44
61151426--61151505	31	2.7	30	78	16	78	45	10	8	36	1.69
61158332--61158384	24	2.3	24	80	6	65	26	9	7	56	1.57
61160388--61160425	19	2.0	19	85	10	51	34	5	2	57	1.35
61160969--61161177	105	2.0	105	87	0	301	31	21	10	36	1.87
61165961--61166009	27	1.9	26	84	12	66	22	10	8	59	1.56
61167632--61167665	11	2.8	12	91	8	52	20	0	5	73	1.04
61172105--61172139	7	5.0	7	96	0	61	82	2	0	14	0.77
61175105--61175142	15	2.5	15	87	12	51	28	2	2	65	1.19
61182622--61182678	30	2.1	26	81	15	62	49	7	1	42	1.40
61205491--61205531	18	2.3	18	83	8	57	19	4	0	75	0.98
61207834--61207904	31	2.3	31	87	0	106	45	8	11	35	1.70
61207920--61207944	10	2.5	10	100	0	50	0	8	0	92	0.40
61211278--61211318	22	1.9	21	85	14	57	58	0	2	39	1.11
61215311--61215360	15	3.3	15	88	0	73	20	38	0	42	1.52
61218323--61218398	31	2.4	32	86	6	86	53	9	14	22	1.68
61218334--61218398	31	2.1	31	94	0	112	52	10	15	21	1.73
61221745--61221798	24	2.2	24	93	0	90	46	5	25	22	1.73
61229335--61229360	5	5.2	5	100	0	52	42	19	19	19	1.90
61230383--61230428	9	5.1	9	94	0	74	28	10	15	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61235861--61235923	27	2.3	27	81	10	67	33	9	0	57	1.31
61237909--61237948	19	2.0	20	85	4	55	25	20	7	47	1.75
61239880--61239917	19	2.0	19	90	10	60	15	21	5	57	1.57
61241263--61241287	13	1.9	13	100	0	50	12	24	8	56	1.62
61242036--61243082	132	8.0	131	90	2	1555	28	19	24	28	1.98
61242512--61242693	44	4.1	44	68	17	126	29	18	25	26	1.98
61242045--61243082	393	2.6	393	90	2	1600	28	19	24	28	1.98
61242908--61243082	44	4.0	44	69	11	124	29	17	24	28	1.97
61243095--61243200	45	2.4	45	84	10	130	26	17	32	23	1.97
61243169--61243299	44	3.0	44	86	4	176	30	21	21	26	1.98
61243313--61243356	3	14.7	3	90	0	70	34	4	0	61	1.16
61245384--61245423	19	2.0	20	85	4	55	25	20	7	47	1.75
61247320--61247357	19	2.0	19	89	0	58	18	15	7	57	1.62
61248302--61248333	14	2.4	14	94	5	57	68	0	18	12	1.20
61248706--61248730	13	1.9	13	100	0	50	12	24	8	56	1.62
61249478--61250525	132	8.0	131	90	2	1584	28	19	24	28	1.98
61249954--61250135	44	4.1	44	68	17	126	29	18	25	26	1.98
61249910--61250498	44	13.4	43	63	13	119	29	19	24	26	1.98
61249487--61250525	393	2.6	392	91	2	1620	28	19	24	28	1.98
61250536--61250641	45	2.4	45	84	10	130	26	17	32	23	1.97
61250610--61250835	44	5.2	44	71	9	153	29	22	22	26	1.99
61252199--61252243	3	15.0	3	100	0	90	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61252381--61252443	27	2.4	27	81	7	76	33	7	0	58	1.27
61256558--61256583	13	2.0	13	100	0	52	61	15	0	23	1.33
61256715--61256755	2	20.5	2	94	0	73	48	0	0	51	1.00
61257970--61258006	19	2.0	19	89	5	58	8	21	45	24	1.78
61258838--61258900	26	2.4	26	94	5	110	44	7	0	47	1.32
61262091--61262125	3	11.7	3	100	0	70	65	0	0	34	0.93
61262439--61262521	27	3.1	27	76	0	85	14	42	20	22	1.88
61262575--61262642	27	2.6	26	82	13	86	52	0	5	41	1.25
61262575--61262642	28	2.5	28	86	13	99	52	0	5	41	1.25
61268636--61268688	22	2.5	21	73	11	54	28	5	3	62	1.35
61268726--61268755	14	2.1	14	93	0	51	40	3	0	56	1.16
61272017--61272075	17	3.4	17	68	32	52	27	0	13	59	1.35
61272022--61272082	21	3.2	21	60	26	53	26	0	13	60	1.33
61272012--61272085	36	2.1	36	100	0	148	27	0	14	58	1.37
61272242--61272470	42	5.4	42	82	8	259	30	21	21	26	1.99
61272247--61272470	85	2.6	84	83	9	260	30	21	22	25	1.99
61272918--61272986	21	3.3	21	87	0	93	2	43	18	34	1.65
61275244--61275327	9	9.3	9	89	0	123	33	0	15	51	1.44
61275244--61275327	27	3.1	27	94	0	141	33	0	15	51	1.44
61276305--61276380	36	2.1	36	100	0	152	38	13	10	38	1.79
61276654--61276752	52	1.9	52	97	0	189	32	18	5	44	1.71
61276661--61276743	25	3.2	26	63	13	71	32	21	4	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61278650--61278696	14	3.4	14	81	0	58	46	27	2	23	1.63
61278614--61278696	35	2.3	35	79	2	94	44	26	2	26	1.66
61279009--61279195	99	1.9	96	85	5	259	26	23	21	28	1.99
61290485--61290525	21	2.0	20	90	4	64	56	9	12	21	1.65
61294143--61294167	11	2.3	11	100	0	50	16	0	0	84	0.63
61295342--61296034	344	2.0	344	99	0	1368	33	8	21	36	1.84
61307033--61307065	17	2.0	17	88	5	50	21	3	6	69	1.24
61312770--61312831	31	2.0	31	87	0	88	19	27	6	46	1.74
61317002--61317027	7	3.7	7	100	0	52	11	0	0	88	0.52
61344022--61344063	20	2.1	20	86	0	57	47	0	7	45	1.30
61350302--61350342	19	2.1	20	90	4	66	24	14	9	51	1.72
61359087--61359131	14	3.1	14	83	6	54	51	4	4	40	1.42
61359336--61359374	16	2.5	16	84	15	55	58	0	2	38	1.12
61359771--61359799	13	2.1	14	93	6	51	48	0	3	48	1.18
61369188--61369253	30	2.2	29	83	2	78	33	7	9	50	1.62
61369383--61369474	29	3.1	29	77	10	96	44	8	10	35	1.70
61369434--61369498	29	2.2	28	84	10	78	44	9	7	38	1.65
61370308--61370357	18	2.8	18	71	14	50	68	4	0	28	1.08
61370400--61370437	20	1.9	20	89	10	60	36	0	0	63	0.95
61372503--61372541	16	2.4	16	86	0	51	28	23	10	38	1.87
61390376--61390412	15	2.4	16	82	8	51	64	8	0	27	1.21
61395293--61395445	60	2.6	58	79	8	184	39	18	14	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61397369--61397907	266	2.0	266	88	5	807	31	13	12	42	1.82
61397893--61397949	29	2.0	28	83	10	71	8	15	3	71	1.24
61399286--61399331	16	3.0	16	81	6	51	52	0	6	41	1.27
61400083--61400141	22	2.6	23	84	7	77	25	6	6	61	1.46
61402518--61402550	2	16.5	2	93	0	57	48	0	3	48	1.17
61414761--61414797	11	3.4	11	96	0	65	51	0	5	43	1.24
61415876--61415918	2	21.5	2	95	0	77	48	0	2	48	1.14
61416791--61416859	27	2.5	28	90	6	106	40	10	0	49	1.37
61416859--61416894	10	3.6	10	88	0	54	88	2	5	2	0.67
61416935--61417001	27	2.5	27	87	0	89	20	28	34	16	1.95
61417778--61417817	18	2.3	17	91	8	71	67	0	5	27	1.11
61417814--61417845	14	2.3	15	89	10	50	84	6	3	6	0.86
61417978--61418043	3	21.3	3	73	17	55	63	0	0	36	0.95
61417980--61418043	34	2.0	32	85	14	87	64	0	0	35	0.94
61418849--61418893	22	2.0	23	83	12	58	15	22	51	11	1.75
61421927--61421965	14	2.7	15	84	8	53	61	5	5	28	1.39
61421939--61421967	14	2.1	14	100	0	58	55	0	6	37	1.27
61424956--61425013	27	2.2	28	87	9	86	50	0	5	44	1.24
61424956--61425025	27	2.7	27	82	8	74	50	1	4	44	1.30
61428301--61428367	31	2.1	31	83	5	80	49	10	13	26	1.74
61453598--61453651	28	2.0	28	92	3	92	27	1	0	70	0.98
61453592--61453633	22	2.0	22	90	4	68	30	2	0	66	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61454047--61454077	14	2.2	14	94	0	53	61	9	0	29	1.28
61454850--61454927	31	2.6	30	82	10	88	43	12	8	34	1.74
61466300--61466326	7	3.9	7	100	0	54	29	44	11	14	1.80
61466386--61466456	7	9.4	7	72	14	52	42	43	1	12	1.51
61466393--61466434	16	2.6	16	92	0	75	42	45	0	11	1.41
61466291--61466446	14	10.6	14	75	8	64	41	45	5	8	1.56
61466474--61466543	32	2.2	32	82	5	88	38	15	25	20	1.92
61476367--61476500	31	4.3	31	94	1	216	32	21	30	15	1.95
61476383--61476497	16	7.4	16	68	5	92	33	19	33	14	1.92
61476514--61476581	21	3.2	21	93	2	109	44	33	16	5	1.72

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