genome.fa.s10.2.7.7.80.10.50.1000.136.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  136  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)
42259883--42259945	20	3.0	21	81	9	83	41	22	26	9	1.84
42261611--42261649	14	2.7	14	88	4	51	15	5	2	76	1.06
42268110--42268148	20	1.9	20	89	5	60	53	15	2	28	1.55
42270799--42270846	24	2.0	24	95	0	87	25	18	8	47	1.76
42272062--42272133	30	2.4	30	81	6	83	50	2	19	27	1.62
42279615--42279649	16	2.3	15	90	5	52	40	0	0	60	0.97
42279615--42279656	16	2.9	14	86	13	50	42	0	0	57	0.99
42280344--42280383	19	2.2	19	86	4	55	55	2	2	40	1.27
42287067--42287107	14	2.8	15	78	14	50	63	0	24	12	1.28
42288400--42289123	44	16.4	44	80	4	665	30	13	23	31	1.94
42288408--42289149	221	3.4	220	86	3	956	30	13	23	31	1.94
42289700--42289910	109	1.9	109	89	0	323	29	36	18	15	1.92
42292946--42293009	30	2.1	29	80	8	74	50	7	4	37	1.52
42296299--42296432	25	5.4	25	83	3	180	36	23	14	25	1.93
42296297--42296432	50	2.7	50	94	0	236	36	24	13	25	1.92
42299481--42299536	20	2.7	21	81	10	62	33	5	7	53	1.51
42299501--42299563	26	2.6	22	75	20	63	30	6	7	55	1.54
42302485--42302516	15	2.1	16	88	11	50	56	3	0	40	1.15
42305417--42305486	10	7.0	10	70	6	52	64	1	1	32	1.11
42305451--42305501	26	2.0	26	84	7	68	68	1	0	29	1.00
42306005--42306059	6	9.3	6	77	16	53	49	0	0	50	1.00
42305999--42306042	12	3.6	12	85	14	63	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42306005--42306059	24	2.3	24	82	11	69	49	0	0	50	1.00
42306041--42306109	20	3.3	20	80	11	86	43	0	0	56	0.99
42306025--42306115	41	2.2	40	84	7	112	46	0	0	53	1.00
42306041--42306135	22	4.5	21	76	17	74	41	0	1	57	1.05
42306041--42306123	41	2.0	40	88	6	123	39	0	1	59	1.05
42306989--42307074	9	9.4	9	85	7	111	22	10	26	40	1.86
42308843--42308975	39	3.4	39	94	2	223	27	48	12	11	1.76
42308938--42309001	27	2.4	27	89	5	94	26	51	10	10	1.70
42311437--42311464	11	2.5	11	100	0	56	39	28	0	32	1.57
42313958--42314132	30	6.0	29	78	12	151	15	1	30	53	1.50
42313958--42314133	29	6.0	30	78	12	159	15	1	30	53	1.49
42314004--42314133	59	2.2	60	85	6	169	14	0	28	56	1.44
42315078--42315174	48	2.0	48	85	0	131	26	1	42	29	1.62
42315126--42315275	81	1.9	81	90	2	239	23	1	46	29	1.61
42317667--42317978	158	2.0	157	87	0	453	39	16	12	31	1.86
42324015--42324176	5	32.8	5	96	2	283	38	19	0	41	1.52
42325806--42325891	41	2.1	42	93	2	147	23	27	22	26	1.99
42331825--42331873	25	2.0	25	83	0	62	34	18	12	34	1.88
42332217--42332254	18	2.1	18	85	9	51	34	10	5	50	1.59
42337396--42337689	51	5.8	51	75	9	262	27	14	27	29	1.96
42337396--42337677	102	2.8	102	86	3	372	28	14	27	29	1.96
42343849--42343881	13	2.7	13	90	9	52	36	12	15	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42344614--42344956	102	3.4	102	85	3	453	28	14	26	30	1.95
42344614--42344946	51	6.6	50	80	7	350	28	14	26	30	1.95
42349180--42349233	28	1.9	28	96	0	99	38	20	14	25	1.91
42356298--42356571	75	3.6	75	87	0	359	34	25	16	23	1.95
42364626--42365184	138	4.1	137	85	1	751	39	7	6	46	1.58
42364626--42365184	277	2.0	274	87	1	796	39	7	6	46	1.58
42375119--42375165	23	2.0	23	87	0	67	23	8	21	46	1.78
42375128--42375179	23	2.3	23	83	6	61	26	5	19	48	1.71
42383001--42383219	38	5.8	38	89	2	287	35	31	18	14	1.91
42390256--42390372	38	3.1	38	87	0	162	39	29	16	15	1.89
42394731--42394777	3	15.7	3	100	0	94	68	0	0	31	0.90
42398757--42398813	24	2.3	25	84	3	71	75	8	8	7	1.19
42399668--42399733	18	3.6	18	78	9	80	37	1	3	57	1.23
42400351--42400417	32	2.1	32	81	10	75	37	7	4	50	1.51
42400641--42400693	2	27.5	2	88	7	83	47	0	0	52	1.00
42400641--42400699	10	6.1	10	83	15	54	45	0	0	54	0.99
42401126--42401159	2	17.0	2	100	0	68	50	0	0	50	1.00
42401443--42401511	9	7.6	9	73	15	52	69	4	0	26	1.07
42401466--42401525	29	2.0	29	83	3	75	63	1	0	35	1.05
42402025--42402221	99	2.0	99	92	0	331	36	24	11	27	1.90
42403982--42404065	44	1.9	44	92	0	141	28	22	20	28	1.98
42404056--42404950	132	6.8	132	95	0	1493	24	24	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42416352--42416548	99	2.0	99	93	0	340	36	25	11	27	1.90
42417416--42417451	18	1.9	19	94	5	65	44	13	0	41	1.44
42418393--42418539	9	15.0	9	67	15	53	34	4	0	61	1.20
42418450--42418528	29	2.7	30	78	4	88	39	3	0	56	1.17
42418524--42418553	15	1.9	15	93	6	51	20	0	0	80	0.72
42424955--42424989	17	2.1	17	89	5	54	42	17	11	28	1.83
42425786--42425815	14	2.1	14	93	0	51	63	3	0	33	1.11
42426188--42426229	21	1.9	22	85	9	59	42	9	2	45	1.49
42430414--42430453	19	2.1	19	86	9	55	27	10	12	50	1.72
42432204--42432308	41	2.6	41	83	6	131	26	28	17	27	1.97
42440162--42440305	50	2.9	49	80	4	162	22	29	20	27	1.98
42443270--42443339	26	2.7	26	90	0	104	27	22	25	24	2.00
42444116--42444143	14	2.0	14	100	0	56	35	14	35	14	1.86
42447868--42447918	24	2.1	24	85	10	68	54	7	0	37	1.29
42448940--42449190	126	2.0	126	80	1	288	29	18	21	30	1.97
42449088--42449474	140	2.8	138	82	3	470	32	20	18	28	1.97
42449525--42449636	49	2.3	49	90	3	172	37	24	11	26	1.90
42451465--42451502	15	2.5	15	86	4	58	18	5	2	73	1.14
42452316--42452360	18	2.6	17	86	10	56	13	8	0	77	0.98
42454748--42454940	50	3.7	50	77	6	163	23	29	21	26	1.99
42460264--42460344	26	3.2	26	64	28	64	33	28	14	23	1.94
42460259--42460452	51	3.8	50	82	2	219	29	27	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42466325--42466349	12	2.1	12	100	0	50	40	0	0	60	0.97
42468981--42469020	20	2.0	21	90	5	64	67	7	17	7	1.38
42477178--42477316	23	5.6	24	69	15	79	60	5	2	31	1.33
42487722--42487820	50	2.0	50	85	0	135	26	25	29	19	1.98
42488538--42488569	15	2.1	15	100	0	64	56	6	12	25	1.59
42500299--42500612	41	7.7	41	84	2	208	21	21	26	29	1.99
42500400--42500591	41	4.7	41	85	1	215	21	23	27	26	1.99
42500708--42500766	26	2.3	26	85	5	84	59	3	10	27	1.46
42501074--42501127	21	2.5	21	80	14	65	24	0	40	35	1.55
42501131--42501308	87	2.0	89	89	2	270	26	2	28	42	1.67
42501286--42501326	21	1.9	22	85	5	57	9	0	51	39	1.35
42502290--42502343	20	2.5	23	76	14	69	31	46	1	20	1.61
42505676--42505993	43	7.4	43	84	1	359	22	16	27	32	1.96
42507927--42508018	26	3.5	27	77	4	107	19	26	25	29	1.99
42508427--42508460	17	1.9	18	88	5	52	41	0	14	44	1.45
42517508--42517537	2	15.0	2	100	0	60	50	0	0	50	1.00
42518622--42518802	51	3.6	51	78	9	208	32	27	16	23	1.96
42518610--42518794	101	1.8	102	88	3	284	31	25	17	24	1.97
42518605--42518818	101	2.1	102	81	4	263	31	26	16	26	1.96
42522869--42522995	59	2.2	59	82	0	146	49	9	10	30	1.68
42521326--42523634	471	4.9	469	89	1	3463	40	13	12	33	1.82
42521326--42523634	940	2.4	939	91	2	3759	40	13	12	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42523348--42523473	59	2.1	59	83	2	155	49	12	11	26	1.74
42538565--42538629	35	1.9	33	84	6	85	47	0	4	47	1.22
42538612--42538638	5	5.4	5	100	0	54	40	0	0	59	0.98
42539615--42539680	22	3.0	22	84	0	87	15	25	19	39	1.91
42543261--42543331	35	2.1	35	86	7	101	50	0	2	46	1.16
42544266--42544346	25	3.2	25	89	0	117	16	22	23	38	1.93
42546572--42546699	5	25.8	5	87	6	181	41	0	0	57	1.10
42552656--42552717	17	3.4	17	69	26	54	27	1	24	46	1.62
42552627--42552737	39	2.8	39	91	0	177	31	1	22	44	1.63
42552627--42552765	39	3.6	38	87	1	145	32	2	22	42	1.68

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