genome.fa.s10.2.7.7.80.10.50.1000.157.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  157  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)
49021914--49022027	40	2.8	41	89	8	169	35	27	17	19	1.94
49027292--49027392	44	2.2	46	85	3	143	12	34	8	43	1.74
49027374--49027410	18	2.1	18	94	0	65	8	40	5	45	1.56
49031720--49031757	13	2.9	13	100	0	76	55	5	0	39	1.23
49031759--49031825	35	1.9	35	93	0	116	44	11	5	37	1.66
49031847--49031941	45	2.1	45	92	0	154	46	15	2	35	1.58
49033522--49033621	49	2.0	49	96	0	182	22	9	32	37	1.85
49042741--49042783	13	3.1	14	84	12	54	60	0	0	39	0.97
49045529--49045596	23	2.8	25	80	11	77	55	1	1	41	1.18
49045577--49045609	16	2.1	16	94	0	57	60	0	0	39	0.97
49049358--49049397	21	2.0	21	85	5	55	37	12	7	42	1.71
49050234--49050288	28	2.0	28	81	0	65	32	16	10	40	1.83
49074145--49074247	34	3.0	34	81	8	95	43	18	7	30	1.78
49074157--49074247	17	5.4	17	79	7	78	45	19	6	28	1.76
49074199--49074260	17	3.7	16	80	4	52	45	24	4	25	1.73
49074191--49074260	34	2.1	34	83	5	88	45	22	5	25	1.74
49075202--49075267	35	1.9	33	82	11	80	46	13	3	36	1.59
49077997--49078030	5	7.0	5	86	6	52	79	2	17	0	0.86
49077997--49078030	14	2.3	15	90	5	52	79	2	17	0	0.86
49080119--49080214	42	2.3	42	83	0	120	22	22	31	22	1.99
49090729--49090873	68	2.1	69	81	6	170	51	3	5	39	1.42
49105082--49105124	10	4.0	10	82	11	50	23	30	0	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49105082--49105141	11	5.5	11	84	5	68	25	26	1	46	1.62
49107242--49107289	21	2.3	22	82	17	66	31	41	18	8	1.80
49107422--49107591	49	3.5	49	96	0	313	44	3	8	44	1.51
49107425--49107679	49	5.5	43	80	9	147	44	5	7	42	1.55
49108341--49108385	20	2.2	20	100	0	90	26	44	8	20	1.80
49109687--49109806	59	2.0	59	96	0	222	30	15	19	35	1.92
49110859--49111145	125	2.3	124	92	0	475	28	21	18	31	1.96
49111308--49111358	9	6.3	9	76	19	51	56	33	0	9	1.32
49111322--49111364	22	2.0	22	95	4	79	51	39	0	9	1.34
49118351--49118409	31	1.9	31	89	0	91	49	5	5	40	1.47
49126530--49126938	108	3.8	108	94	1	667	33	18	17	30	1.94
49127517--49127551	3	11.7	3	100	0	70	68	0	0	31	0.90
49151895--49152091	38	5.1	38	78	1	169	15	20	28	34	1.94
49151895--49152054	76	2.1	76	87	1	223	15	20	28	35	1.94
49152028--49152114	41	2.1	41	84	0	120	17	21	26	34	1.95
49153649--49153688	19	2.1	19	86	9	55	55	7	5	32	1.50
49159409--49159434	9	2.9	9	100	0	52	34	0	34	30	1.58
49163331--49163366	16	2.2	16	90	0	54	11	2	5	80	0.98
49180628--49180738	19	5.8	19	88	4	170	39	9	14	36	1.79
49187537--49188560	132	7.8	132	92	1	1664	28	18	23	29	1.98
49187605--49187785	44	4.1	44	62	16	104	29	20	20	28	1.98
49188890--49188932	19	2.3	19	95	0	77	39	9	13	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49188891--49188938	19	2.5	19	89	0	60	41	10	10	37	1.74
49195304--49195353	16	2.9	18	77	17	61	10	4	14	72	1.26
49207053--49207118	32	2.0	33	85	8	89	60	6	9	24	1.49
49221148--49221194	17	2.8	17	80	0	58	25	17	23	34	1.96
49224530--49224590	3	20.3	3	100	0	122	65	0	0	34	0.93
49224530--49224651	21	5.3	23	83	9	108	65	3	2	28	1.21
49224534--49224632	12	8.2	12	82	6	92	64	2	3	30	1.20
49225075--49225103	5	5.8	5	100	0	58	82	0	0	17	0.66
49226318--49227301	128	7.7	128	87	2	1373	25	23	18	32	1.97
49226318--49227301	257	3.8	257	88	1	1436	25	23	18	32	1.97
49226318--49227301	385	2.6	386	91	1	1589	25	23	18	32	1.97
49228542--49228578	15	2.4	16	78	13	51	16	13	0	70	1.17
49229415--49229439	8	3.1	8	100	0	50	0	24	0	76	0.80
49229447--49229521	6	12.7	6	80	8	64	14	5	9	70	1.31
49229466--49229526	29	2.1	29	84	0	77	13	1	9	75	1.12
49229494--49229528	12	2.9	12	86	0	52	8	0	14	77	0.99
49229706--49229896	3	63.7	3	93	0	319	67	3	0	29	1.08
49230342--49230372	16	1.9	16	100	0	62	83	0	3	12	0.75
49235842--49235913	35	2.1	35	100	0	144	20	19	11	48	1.79
49238389--49238428	20	2.0	20	85	0	53	50	15	10	25	1.74
49245214--49245264	13	3.9	13	86	0	66	31	5	29	33	1.81
49247295--49247533	72	3.3	72	89	1	374	55	15	5	24	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49247962--49248009	18	2.7	18	96	0	87	39	12	12	35	1.81
49250830--49250854	12	2.1	12	100	0	50	52	16	16	16	1.76
49253441--49253508	3	23.3	3	94	5	122	66	0	0	33	0.92
49253511--49253583	3	24.3	3	100	0	146	34	0	32	32	1.58
49253954--49253997	23	1.9	23	85	0	61	31	4	6	56	1.46
49254477--49254582	53	2.0	53	96	0	194	40	6	19	33	1.78
49263111--49263298	51	3.7	50	80	3	218	27	15	25	31	1.96
49270401--49270634	117	2.0	116	97	0	441	37	17	19	26	1.93
49271006--49271041	17	2.1	17	94	0	63	25	22	2	50	1.63
49275847--49275896	25	2.0	25	96	3	93	46	12	24	18	1.82
49276597--49276657	29	2.1	29	84	6	79	14	4	8	72	1.26
49281627--49281850	33	6.4	33	69	22	136	31	28	20	19	1.97
49281652--49281853	102	2.0	102	96	0	368	31	28	20	20	1.97
49281756--49281897	42	3.6	42	75	16	176	30	28	17	22	1.97
49281729--49281894	75	2.3	69	88	9	244	30	29	19	20	1.97
49282225--49282281	30	1.9	30	85	7	80	29	17	7	45	1.75
49289184--49289385	102	2.0	102	93	1	343	31	27	20	19	1.97
49289287--49289423	42	3.5	42	76	17	175	32	28	18	20	1.97
49289285--49289460	75	2.3	75	95	0	307	31	27	19	21	1.97
49289149--49289486	177	1.9	177	93	1	588	31	27	20	20	1.97
49296150--49296316	85	2.0	86	91	1	273	25	13	19	41	1.87
49298707--49298849	49	2.9	49	84	2	198	30	14	9	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49303228--49303353	49	2.6	48	88	6	182	30	10	11	47	1.73
49304296--49304330	17	2.1	17	88	0	52	65	11	5	17	1.43
49305961--49306031	14	4.9	15	86	8	103	26	18	25	29	1.98
49305961--49306033	29	2.5	30	89	10	109	27	17	24	30	1.97
49309578--49309629	6	8.7	6	100	0	104	34	17	17	30	1.93
49311384--49311413	14	2.1	14	100	0	60	16	13	33	36	1.88
49311467--49311508	20	2.0	20	86	9	57	38	4	21	35	1.75
49312278--49312314	19	1.9	19	94	0	65	16	21	27	35	1.94
49312287--49312348	19	3.3	19	86	0	79	22	29	24	24	1.99
49314371--49314487	62	1.9	59	86	5	162	43	5	2	48	1.38
49316577--49316640	32	2.0	32	96	0	119	31	29	15	23	1.95
49320438--49320466	15	1.9	15	100	0	58	13	10	6	68	1.37
49332120--49332180	25	2.4	25	78	10	63	37	3	1	57	1.25
49333548--49333602	27	2.0	27	100	0	110	32	21	29	16	1.95
49343082--49343139	13	4.2	13	74	20	55	22	5	0	72	1.04
49343087--49343146	22	2.9	21	85	11	72	21	6	0	71	1.08
49343081--49343138	12	5.2	11	79	20	59	20	5	0	74	1.01
49343082--49343145	7	9.3	7	75	20	55	21	6	0	71	1.07
49347669--49347712	17	2.6	17	85	7	54	38	22	4	34	1.75
49349221--49349263	20	2.2	20	87	4	61	30	13	0	55	1.39
49349281--49349329	21	2.3	21	83	13	57	34	6	6	53	1.51
49349321--49349364	17	2.6	16	82	10	52	25	2	2	70	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49349338--49349374	15	2.3	17	86	9	51	21	5	5	67	1.31
49349401--49349441	9	4.4	9	84	6	55	21	2	4	70	1.18
49349401--49349451	19	2.8	18	87	3	66	25	1	3	68	1.17
49349860--49349909	19	2.4	21	90	9	77	20	0	14	66	1.26
49349850--49349887	13	2.9	13	96	0	67	21	0	15	63	1.31
49349885--49349918	16	2.1	16	100	0	68	17	0	11	70	1.16
49365485--49365658	50	3.5	50	84	1	215	17	28	24	28	1.98
49365485--49365712	100	2.2	103	80	6	239	20	27	23	28	1.99
49369212--49369257	20	2.3	20	96	0	83	30	2	6	60	1.34
49375528--49375556	15	1.9	15	100	0	58	34	31	6	27	1.83

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