genome.fa.s10.2.7.7.80.10.50.1000.160.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  160  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)
50117357--50117444	43	2.1	40	76	15	97	28	28	26	17	1.97
50117389--50117834	129	3.5	129	83	4	506	25	30	19	24	1.98
50117367--50117768	43	9.3	43	89	3	526	27	31	18	22	1.97
50117432--50117810	43	8.8	41	83	6	184	25	31	18	24	1.97
50118160--50118251	21	4.4	21	80	0	103	5	40	16	38	1.71
50118213--50118392	66	2.7	65	85	5	227	12	27	20	39	1.89
50124044--50124142	9	11.2	9	72	16	82	30	1	20	48	1.56
50124053--50124142	25	3.8	25	75	12	100	30	1	20	48	1.56
50124076--50124136	20	2.8	21	75	22	70	31	0	19	49	1.49
50124207--50124294	45	2.0	45	88	4	133	38	10	17	34	1.83
50124429--50124509	18	4.6	18	79	14	105	43	0	11	45	1.39
50124439--50124618	13	13.4	13	67	17	66	42	1	11	45	1.47
50124426--50124535	53	2.1	54	94	1	195	43	0	11	44	1.41
50124431--50124544	35	3.5	32	77	15	103	43	0	12	43	1.41
50124464--50124539	9	8.6	9	70	13	59	43	0	14	42	1.45
50124653--50124685	10	3.1	11	86	8	50	36	21	9	33	1.85
50125813--50125843	12	2.6	12	94	0	53	67	16	9	6	1.39
50126259--50126319	16	3.8	16	82	4	86	59	13	4	22	1.53
50126258--50126322	33	2.0	33	100	0	130	58	12	6	23	1.56
50127279--50128104	431	1.9	437	86	5	1189	33	18	16	30	1.93
50146512--50146826	27	11.7	27	81	2	222	33	16	20	29	1.94
50146515--50146814	54	5.6	54	78	3	280	34	16	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50146512--50146761	81	3.1	81	77	3	261	34	16	20	29	1.94
50149480--50149544	31	2.1	32	85	8	89	16	4	20	58	1.56
50150053--50150368	27	11.7	27	81	2	294	36	17	18	27	1.93
50150053--50150368	81	3.9	81	82	1	346	36	17	18	27	1.93
50152681--50152910	124	1.9	123	88	0	352	34	16	15	33	1.91
50154606--50154662	19	3.0	18	82	7	60	40	1	10	47	1.48
50155582--50155636	22	2.5	22	81	0	65	20	25	14	40	1.90
50156403--50156445	18	2.3	19	84	4	52	53	13	4	27	1.60
50160251--50160325	25	3.0	25	96	0	132	33	37	14	14	1.87
50177347--50177441	35	2.7	35	77	11	95	42	1	4	52	1.27
50179243--50179277	16	2.3	15	90	5	52	68	0	28	2	1.04
50183635--50183717	43	1.9	43	92	0	139	21	14	24	39	1.91
50184689--50184772	30	2.8	30	96	0	150	21	38	0	40	1.53
50184849--50184908	30	2.0	31	83	9	79	20	38	0	41	1.52
50187145--50187195	24	2.1	24	85	0	66	31	11	11	45	1.77
50187859--50188045	35	5.4	35	76	3	137	22	21	18	37	1.94
50195317--50195371	17	3.3	15	82	14	56	54	3	3	38	1.36
50197667--50197726	24	2.5	24	89	2	86	25	11	20	43	1.85
50202954--50202992	13	3.2	12	86	10	53	56	0	0	43	0.99
50206115--50206139	9	2.8	9	100	0	50	24	0	0	76	0.80
50206133--50206170	10	3.7	10	86	6	58	47	0	0	52	1.00
50211050--50211114	29	2.2	29	97	0	121	10	12	4	72	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50211968--50212019	25	2.1	25	92	7	88	25	26	9	38	1.86
50214605--50214649	14	3.1	14	80	3	54	42	17	8	31	1.80
50217849--50217881	15	2.3	15	94	5	59	51	3	0	45	1.16
50217890--50217929	16	2.5	16	87	0	53	42	0	0	57	0.98
50218059--50218134	32	2.4	31	89	8	118	28	2	2	65	1.19
50218458--50218664	103	2.0	103	97	0	387	32	11	25	30	1.90
50220930--50220966	9	4.1	9	92	0	65	29	10	13	45	1.77
50221788--50221856	28	2.6	26	80	11	77	1	24	2	71	1.09
50224022--50224074	23	2.3	23	93	0	97	20	20	26	32	1.98
50225918--50225955	2	19.5	2	89	5	60	44	0	0	55	0.99
50231691--50231733	22	2.0	22	90	0	68	16	20	25	37	1.93
50231769--50232148	43	8.8	43	90	2	568	25	31	19	23	1.98
50232539--50232630	21	4.4	21	84	0	121	5	43	16	34	1.71
50232592--50232771	66	2.7	65	86	5	218	12	28	20	38	1.89
50236028--50236063	16	2.2	16	95	0	63	33	0	19	47	1.50
50236037--50236143	53	2.0	54	94	1	189	31	1	18	47	1.59
50236067--50236136	20	3.2	20	74	18	68	31	1	17	50	1.55
50236348--50236447	44	2.4	41	88	8	141	50	8	6	36	1.57
50236348--50236436	44	2.0	44	100	0	178	50	8	6	33	1.60
50236463--50236554	18	4.6	19	77	22	100	42	0	11	45	1.41
50236470--50236541	22	3.2	23	74	18	80	41	0	13	44	1.44
50236537--50236663	13	9.4	13	69	19	64	41	1	11	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50236462--50236635	62	2.7	62	83	9	181	42	0	12	44	1.45
50241044--50241237	41	4.7	40	83	3	208	30	28	20	20	1.97
50241058--50241237	83	2.2	84	85	7	244	32	28	19	19	1.96
50241917--50241977	21	3.0	20	80	7	77	36	26	22	14	1.93
50242983--50243020	3	12.7	3	83	10	51	60	0	0	39	0.97
50243178--50243209	16	2.1	16	94	5	57	40	0	0	59	0.97
50243165--50243217	27	2.1	26	86	10	74	43	0	0	56	0.99
50265222--50265252	12	2.6	12	94	0	53	67	16	9	6	1.39
50265666--50265726	16	3.8	16	82	4	86	59	13	4	22	1.53
50265665--50265729	33	2.0	33	100	0	130	58	12	6	23	1.56
50266317--50266521	83	2.5	84	73	10	195	35	18	17	28	1.94
50267457--50267497	21	2.0	20	85	4	55	39	41	0	19	1.52
50268399--50268484	42	2.1	41	93	2	145	29	31	18	20	1.97
50268484--50268633	41	3.5	42	84	7	189	35	27	20	16	1.94
50269560--50269628	21	3.2	21	77	10	68	72	0	24	2	0.98
50269567--50269618	20	2.5	20	81	9	61	71	0	25	3	1.03
50270183--50270318	68	2.1	65	84	9	172	34	13	7	44	1.72
50276355--50276394	16	2.5	16	83	0	53	40	35	2	22	1.68
50276937--50276981	3	15.0	3	100	0	90	33	0	0	66	0.92
50277132--50277165	4	9.0	4	87	12	54	52	0	0	47	1.00
50277448--50277517	9	7.6	9	84	6	95	24	8	31	35	1.85
50283802--50283831	7	4.3	7	100	0	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50288105--50288290	50	3.7	50	82	5	198	28	22	29	20	1.98
50294672--50294958	145	1.9	152	81	9	349	31	0	14	53	1.44
50294666--50294988	145	2.2	152	77	8	342	29	0	16	54	1.45
50303374--50303400	7	3.9	7	100	0	54	44	0	0	55	0.99
50314614--50314692	34	2.3	34	91	4	124	41	0	36	21	1.53
50314630--50314692	19	3.5	19	66	16	53	42	0	36	20	1.52
50323138--50323170	16	2.0	17	88	5	50	9	12	0	78	0.95
50324145--50324198	5	10.8	5	79	18	51	83	5	0	11	0.80
50324141--50324200	20	3.0	19	79	18	68	83	5	0	11	0.80
50324145--50324200	10	5.7	9	82	14	58	83	5	0	10	0.78
50324141--50324226	35	2.5	35	81	9	97	77	4	1	16	0.99
50329735--50329770	16	2.3	16	90	4	56	75	0	0	25	0.81
50336672--50336715	21	2.1	21	83	8	54	34	0	13	52	1.41
50341354--50341554	108	1.9	106	84	4	267	37	14	14	33	1.87
50343989--50344026	2	19.0	2	100	0	76	50	0	0	50	1.00
50346712--50347161	227	2.0	227	94	0	792	24	23	28	23	1.99
50354925--50354970	23	2.0	23	100	0	92	56	8	0	34	1.30
50361091--50361359	126	2.1	127	87	2	382	30	16	15	37	1.90
50361446--50361527	34	2.6	31	76	12	85	41	12	0	46	1.41
50361463--50361567	34	3.2	33	80	6	124	44	17	0	38	1.49
50362160--50362191	2	16.0	2	100	0	64	50	0	0	50	1.00
50366852--50366902	21	2.2	24	80	13	63	54	9	31	3	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50368386--50368482	35	2.8	34	73	13	90	43	1	11	44	1.47
50368590--50369238	126	5.1	127	85	2	842	38	15	16	28	1.89
50368589--50369238	251	2.6	252	85	2	860	38	15	16	28	1.89
50369618--50369650	16	2.1	16	100	0	66	27	30	12	30	1.92
50378657--50378711	27	2.0	27	82	10	67	47	1	9	41	1.46
50385245--50385446	45	4.5	44	80	6	219	47	13	19	19	1.83
50385250--50385423	89	1.9	90	85	5	237	48	12	18	20	1.80
50385251--50385446	89	2.2	90	81	5	227	47	13	19	19	1.82
50386328--50386459	54	2.4	54	78	0	129	23	24	23	28	1.99
50388423--50388459	16	2.3	16	90	0	65	21	0	29	48	1.50

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