genome.fa.s11.2.7.7.80.10.50.1000.138.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  138  of  210  ( 25152 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)
42105786--42105821	18	1.9	19	88	5	56	19	8	16	55	1.66
42105924--42105973	18	2.7	18	87	6	64	54	2	0	44	1.11
42105909--42105985	18	4.1	18	75	14	57	54	1	1	42	1.16
42109096--42109177	31	2.7	32	77	7	80	36	2	8	52	1.45
42110465--42110504	16	2.5	16	91	0	62	47	2	7	42	1.45
42110437--42110489	22	2.4	22	87	0	70	52	1	1	43	1.23
42110493--42110654	68	2.6	57	81	17	189	40	4	8	46	1.56
42110520--42110693	68	2.6	68	98	0	330	40	5	9	44	1.60
42110636--42110663	9	3.1	9	100	0	56	32	0	10	57	1.33
42110760--42110809	24	2.0	25	85	11	68	60	2	0	38	1.09
42117822--42117862	19	2.1	20	82	13	50	65	2	0	31	1.05
42120718--42120802	37	2.3	38	95	4	163	41	3	28	27	1.72
42124461--42124511	20	2.5	20	81	6	59	35	27	21	15	1.94
42124476--42124518	20	2.2	20	82	0	50	41	25	18	13	1.88
42131694--42132262	126	4.5	124	88	2	773	29	17	22	29	1.97
42131711--42132262	250	2.2	252	88	2	808	30	17	22	29	1.97
42135235--42135412	53	3.2	53	63	12	133	42	6	8	43	1.60
42135254--42135418	37	4.4	37	67	17	108	41	6	8	43	1.61
42135235--42135512	114	2.5	113	96	0	511	41	6	8	42	1.62
42135512--42136062	22	25.5	22	84	5	664	25	0	29	44	1.58
42135512--42136062	43	12.7	42	83	5	622	25	0	29	44	1.58
42135843--42135873	6	5.0	6	92	7	53	16	0	51	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42135844--42135871	13	2.2	13	100	0	56	14	0	57	28	1.38
42135992--42136045	27	2.0	27	88	0	81	24	0	33	42	1.55
42136590--42136624	18	1.9	18	94	0	61	42	11	28	17	1.83
42136895--42136929	16	2.2	16	89	0	52	22	34	22	20	1.97
42137477--42137514	20	1.9	20	84	10	51	55	7	2	34	1.43
42138446--42138546	51	2.0	50	80	9	114	46	2	21	28	1.66
42138536--42138578	11	3.9	11	87	0	50	48	2	25	23	1.62
42138527--42138584	22	2.6	22	78	13	64	44	1	29	24	1.63
42139856--42139890	5	7.0	5	93	0	52	20	25	20	34	1.96
42149330--42149384	29	1.9	28	88	3	83	43	0	10	45	1.39
42149332--42149399	29	2.4	27	79	11	73	45	0	13	41	1.43
42152195--42152470	49	5.6	49	94	0	435	42	1	8	47	1.44
42155659--42156311	125	5.2	124	92	0	1054	29	20	17	32	1.96
42155659--42156319	249	2.7	248	92	1	1081	29	20	17	32	1.95
42156502--42156543	22	2.0	22	85	4	59	50	35	0	14	1.43
42164609--42164677	6	11.5	6	75	17	54	78	0	15	5	0.94
42164603--42164671	22	3.2	22	76	11	72	78	0	17	4	0.91
42164609--42164677	28	2.5	28	84	9	90	78	0	15	5	0.94
42166064--42166125	31	2.0	31	96	0	115	32	11	16	40	1.83
42166680--42166721	23	1.9	22	85	9	59	80	7	9	2	0.97
42166703--42166735	13	2.6	13	95	4	59	75	12	12	0	1.04
42173575--42173907	44	7.5	44	76	7	341	27	27	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42173561--42173907	89	3.9	89	91	0	559	27	26	23	22	1.99
42173838--42173973	70	1.9	70	89	0	209	22	28	22	26	1.99
42173749--42174042	159	1.8	159	86	1	428	26	26	23	23	2.00
42174057--42174292	50	4.7	50	71	3	170	35	20	19	25	1.96
42174061--42174292	100	2.3	100	83	1	295	35	20	18	25	1.95
42174323--42174934	44	14.1	43	69	14	194	31	20	22	25	1.98
42174513--42174934	129	3.3	129	82	6	532	30	22	21	26	1.99
42178005--42178043	19	2.1	18	85	4	51	28	2	5	64	1.28
42178185--42178249	31	2.1	31	82	0	76	35	3	9	52	1.49
42178322--42178350	2	14.5	2	100	0	58	48	0	0	51	1.00
42180060--42180200	73	1.9	74	92	4	241	29	19	17	32	1.95
42181595--42181619	13	1.9	13	100	0	50	32	4	0	64	1.12
42181623--42181700	38	2.1	37	83	7	95	65	1	3	29	1.18
42183203--42183243	20	2.0	21	95	4	75	39	0	2	58	1.11
42183275--42183342	24	2.9	23	80	10	59	58	0	1	39	1.07
42185791--42185826	14	2.3	17	86	13	51	33	16	0	50	1.46
42192604--42192640	6	6.2	6	100	0	74	32	0	67	0	0.91
42195922--42196159	81	2.9	79	80	8	264	30	17	19	32	1.95
42195913--42196177	40	6.5	39	70	10	174	32	18	18	30	1.95
42196104--42196204	40	2.5	40	79	6	114	32	20	20	25	1.97
42198081--42198137	2	28.5	2	100	0	114	49	0	0	50	1.00
42201786--42201850	32	2.1	32	97	2	123	30	9	12	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42202699--42202763	32	2.1	32	97	2	123	47	12	9	30	1.72
42213675--42213796	44	2.8	43	77	11	122	31	24	18	26	1.97
42218870--42218942	37	1.9	38	88	2	112	32	4	2	60	1.30
42232279--42232311	2	16.5	2	100	0	66	51	0	0	48	1.00
42234717--42234794	28	2.7	30	82	4	88	37	24	21	16	1.94
42234850--42234895	19	2.5	19	92	3	76	36	4	13	45	1.63
42238605--42238927	107	3.1	105	87	4	456	33	17	18	30	1.95
42239253--42239281	2	14.5	2	100	0	58	48	0	0	51	1.00
42239691--42239721	15	2.1	15	93	0	53	58	0	9	32	1.31
42241365--42241992	44	14.9	43	75	12	379	22	20	23	32	1.98
42241453--42241984	40	12.8	40	80	10	405	23	20	24	31	1.98
42241370--42241984	127	4.9	126	86	4	737	23	20	23	31	1.98
42242224--42242545	44	7.3	44	79	9	250	27	26	15	30	1.96
42242252--42242573	87	3.7	88	77	10	329	29	26	16	28	1.97
42242314--42242573	44	5.9	44	77	11	246	28	25	16	29	1.97
42253920--42254336	115	3.8	112	84	8	527	31	17	18	31	1.95
42254140--42254336	107	1.8	107	94	0	349	30	17	18	32	1.95
42253920--42254336	222	1.9	220	88	1	636	31	17	18	31	1.95
42255105--42255135	15	2.1	15	93	0	53	58	0	9	32	1.31
42259813--42259874	31	2.1	30	82	17	76	29	17	8	45	1.77
42260027--42260132	25	4.3	25	74	18	96	30	20	21	27	1.98
42260052--42260150	49	2.0	50	94	2	173	32	19	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42260068--42260150	25	3.4	25	78	9	107	33	16	24	25	1.96
42263983--42264015	17	1.9	17	93	0	57	72	9	0	18	1.10
42263988--42264024	17	2.2	17	90	0	56	72	16	0	10	1.10
42274147--42274197	24	2.1	24	88	0	75	56	9	1	31	1.43
42278974--42279279	80	3.9	78	88	3	443	55	10	6	26	1.59
42278974--42279279	158	1.9	158	87	3	447	55	10	6	26	1.59
42280646--42280672	12	2.2	12	100	0	54	11	14	22	51	1.73
42281625--42281915	103	2.8	102	83	9	360	53	16	0	28	1.48
42281902--42281946	18	2.5	19	82	10	58	66	17	0	15	1.25
42282114--42282228	60	1.9	60	94	0	203	53	12	0	33	1.44
42282396--42282443	3	16.3	3	95	4	89	0	31	0	68	0.90
42297753--42297877	40	3.2	39	72	4	108	40	16	18	25	1.90
42297940--42298129	41	4.7	40	84	2	236	24	20	26	29	1.99
42297940--42298129	81	2.3	81	85	0	245	24	20	26	29	1.99
42300668--42300698	12	2.5	13	94	5	55	41	19	29	9	1.83
42302076--42302240	43	3.8	44	87	3	219	24	18	28	28	1.98
42302076--42302262	43	4.3	44	83	4	202	26	19	26	27	1.99
42302044--42302240	86	2.3	86	83	4	238	23	17	28	30	1.97
42302280--42302339	27	2.2	27	100	0	120	15	31	20	33	1.93
42302361--42302403	22	2.0	22	85	0	59	41	25	18	13	1.88
42308651--42308690	18	2.2	19	86	4	55	35	0	0	65	0.93
42313555--42313598	24	1.9	24	81	9	56	27	25	4	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42314350--42314400	7	7.1	7	90	2	75	25	0	41	33	1.56
42316808--42316847	21	1.9	21	89	0	62	37	7	0	55	1.29
42321677--42321764	45	1.9	46	90	2	142	25	18	23	32	1.97
42321674--42321771	23	4.3	23	76	12	96	25	18	23	32	1.97
42327654--42327682	15	2.0	15	93	6	51	34	0	10	55	1.34
42332463--42332500	3	12.7	3	100	0	76	34	0	0	65	0.93
42354189--42354230	15	2.7	15	88	3	57	47	19	16	16	1.83
42354189--42354238	16	3.2	15	85	5	64	42	20	20	18	1.90
42356170--42356216	18	2.6	18	77	12	51	48	4	4	42	1.42
42359312--42359380	25	2.8	25	84	0	84	20	28	21	28	1.98

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