genome.fa.s1.2.7.7.80.10.50.1000.154.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  154  of  187  ( 22383 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)
45784190--45784339	45	3.3	45	92	1	248	42	21	18	18	1.90
45785755--45785788	11	2.8	12	86	13	52	0	23	0	76	0.79
45789500--45789589	46	2.0	46	85	8	123	40	25	3	31	1.72
45789568--45789618	16	3.2	16	85	0	66	31	29	3	35	1.76
45793061--45793389	166	2.0	166	92	0	541	42	17	8	31	1.79
45796465--45796544	32	2.4	32	82	14	92	57	1	5	36	1.28
45796465--45796545	30	2.6	30	79	16	85	56	1	4	37	1.29
45796954--45797021	9	7.2	9	75	16	50	69	1	1	27	1.06
45796954--45797011	20	2.9	21	79	10	75	67	1	1	29	1.11
45796954--45797016	19	3.2	20	82	8	76	69	1	1	26	1.06
45797818--45797855	20	1.9	20	94	0	67	71	13	5	10	1.30
45798722--45798779	28	2.1	27	81	9	64	29	3	3	63	1.27
45804532--45804597	20	3.1	21	82	8	89	50	12	13	24	1.76
45804515--45804619	42	2.5	42	87	0	165	50	14	12	22	1.76
45804530--45804599	22	3.3	22	82	8	99	50	11	14	24	1.75
45810375--45810412	10	3.8	10	86	10	51	78	0	21	0	0.74
45814333--45814389	28	2.0	28	89	3	87	29	24	22	22	1.99
45814361--45814585	42	5.3	43	91	3	341	32	23	21	22	1.98
45814381--45814586	43	4.9	42	90	3	252	33	23	20	21	1.97
45814992--45815037	21	2.2	21	92	7	76	0	47	19	32	1.50
45820584--45820668	9	9.9	9	80	8	88	30	2	22	44	1.65
45820573--45820660	43	2.0	43	82	0	104	31	3	21	43	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45820593--45820672	34	2.4	34	89	0	124	30	3	21	45	1.69
45820584--45820655	25	2.7	27	82	8	94	30	2	22	44	1.67
45820735--45820780	16	2.9	16	83	0	56	30	4	19	45	1.70
45820595--45820955	138	2.6	136	92	5	569	30	9	18	41	1.81
45820837--45821031	9	22.8	9	67	14	74	28	4	20	47	1.68
45820884--45820956	34	2.1	34	94	0	128	27	5	21	45	1.74
45820845--45820930	25	3.5	25	73	7	77	27	5	19	46	1.73
45820942--45821012	37	1.9	37	100	0	142	29	2	16	50	1.60
45821028--45821805	212	3.7	212	97	0	1457	41	9	10	38	1.71
45825652--45825739	36	2.5	34	75	12	88	42	7	5	44	1.57
45829857--45829932	18	4.2	18	94	0	134	36	26	11	25	1.90
45829857--45829932	9	8.4	9	83	0	98	36	26	11	25	1.90
45829964--45830006	13	3.4	13	80	6	52	20	4	11	62	1.46
45829964--45830006	19	2.3	19	88	8	61	20	4	11	62	1.46
45829956--45830006	25	2.0	27	84	7	70	21	5	11	60	1.52
45832572--45832601	15	2.0	15	93	0	51	30	6	16	46	1.73
45836892--45836967	13	4.7	16	69	23	52	32	5	6	55	1.48
45836892--45836935	13	3.1	14	83	9	54	34	2	9	54	1.44
45837373--45837431	29	2.0	29	96	0	109	37	8	0	54	1.31
45837724--45838056	111	3.0	112	89	5	489	29	20	24	26	1.99
45838616--45838659	17	2.7	17	89	6	65	29	0	27	43	1.55
45839478--45839579	47	2.1	47	90	1	159	47	7	0	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45843485--45843514	15	2.0	15	93	0	51	50	0	33	16	1.46
45843749--45843782	16	2.1	16	88	0	50	35	0	8	55	1.31
45843837--45843958	43	2.8	44	81	3	140	25	16	28	29	1.97
45846132--45846179	5	9.4	5	84	8	53	20	25	14	39	1.91
45846242--45846267	5	5.2	5	100	0	52	19	19	19	42	1.90
45848408--45848435	13	2.2	13	100	0	56	46	21	0	32	1.52
45848426--45848730	24	13.2	22	65	21	108	44	21	7	25	1.78
45848421--45848730	69	4.5	69	92	0	494	44	21	7	26	1.78
45848601--45848700	22	4.4	23	73	5	87	44	20	11	25	1.84
45848518--45848716	45	4.3	46	72	8	154	46	21	7	24	1.77
45848855--45849355	69	7.3	69	96	0	921	45	20	8	25	1.80
45850115--45850271	41	3.8	41	87	0	215	33	27	19	19	1.96
45850647--45850705	28	2.0	30	81	15	70	42	11	1	44	1.51
45858016--45858068	26	2.0	27	85	3	72	24	20	22	32	1.98
45858402--45858482	35	2.3	35	82	2	92	24	20	23	30	1.99
45859351--45859437	25	3.4	25	78	10	81	68	2	26	2	1.13
45860296--45860402	37	2.8	38	72	12	101	27	13	23	36	1.92
45866480--45866760	44	6.1	44	68	11	168	33	16	19	30	1.94
45866520--45866752	95	2.5	95	87	1	351	33	15	19	31	1.93
45866520--45866784	95	2.8	95	81	4	232	33	16	19	30	1.94
45868442--45868502	3	20.0	3	77	9	61	27	4	3	63	1.30
45874160--45874205	23	2.1	22	84	8	58	30	13	13	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45880886--45880938	22	2.5	21	73	11	54	41	5	11	41	1.64
45882282--45882524	50	4.8	50	91	0	387	20	30	23	25	1.98
45882619--45882649	13	2.4	13	94	0	53	54	12	0	32	1.38
45885308--45885408	38	2.7	38	90	3	159	4	24	10	59	1.51
45893764--45893809	16	2.9	16	93	0	74	26	32	2	39	1.68
45899811--45899835	2	12.5	2	100	0	50	48	0	0	52	1.00
45900423--45901348	132	7.0	132	93	0	1570	27	26	19	26	1.99
45902098--45902134	19	1.9	19	88	0	56	27	8	0	64	1.21
45903099--45903149	14	3.6	14	84	5	66	33	0	1	64	1.05
45904239--45904288	24	2.1	24	85	7	66	46	4	32	18	1.67
45904535--45904866	75	4.5	74	83	5	390	40	9	8	41	1.67
45904995--45905063	34	2.0	34	100	0	138	28	27	11	31	1.92
45905839--45905880	15	2.7	15	79	13	50	54	0	11	33	1.37
45907125--45907174	25	2.0	25	100	0	100	48	24	8	20	1.76
45921616--45926255	918	5.0	915	79	6	4348	29	17	16	36	1.92
45934878--45934914	18	2.0	19	89	5	58	16	35	5	43	1.71
45937322--45937386	26	2.5	26	83	11	80	49	0	0	50	1.00
45937493--45937542	25	1.9	27	84	8	68	42	4	10	44	1.56
45943165--45943205	18	2.2	19	87	12	59	39	0	0	60	0.96
45943197--45943236	20	2.0	21	85	14	57	70	7	0	22	1.12
45943655--45943694	16	2.5	16	87	0	62	42	5	30	22	1.75
45943671--45943768	44	2.2	47	83	9	132	33	4	25	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45943951--45943980	15	1.9	16	93	6	53	50	6	0	43	1.28
45943943--45944161	102	2.2	102	93	0	368	50	4	2	42	1.35
45944317--45944351	18	1.9	18	100	0	70	62	0	0	37	0.95
45944361--45944502	44	3.2	44	71	20	148	46	3	3	46	1.37
45944405--45944549	47	3.2	45	71	20	138	48	4	2	44	1.36
45944310--45944563	91	2.8	91	93	1	420	48	3	3	45	1.35
45945036--45945066	10	3.1	10	95	0	53	58	19	12	9	1.62
45945048--45945138	25	3.6	25	82	8	112	60	15	7	16	1.57
45960599--45960676	6	12.5	6	75	12	50	15	2	6	75	1.11
45960610--45960676	25	2.6	25	77	9	64	16	1	7	74	1.11
45963153--45963177	13	1.9	13	100	0	50	32	12	24	32	1.91
45967036--45967133	42	2.3	42	87	3	135	31	20	18	29	1.96
45968909--45968964	21	2.8	20	71	10	51	41	5	16	37	1.71
45984401--45984468	35	1.9	35	100	0	136	44	11	8	35	1.72
45987615--45987651	19	1.9	19	88	0	56	10	2	8	78	1.06
45993119--45993157	6	6.7	6	88	2	53	69	10	5	15	1.34
45995283--45995835	129	4.3	129	92	1	903	31	18	23	25	1.97
45995283--45995875	257	2.3	258	89	2	861	31	17	23	26	1.97
45995905--45996027	44	2.8	44	78	2	140	29	21	26	21	1.99
45995996--45996116	44	2.8	44	83	7	156	29	17	22	30	1.96
45997568--45997593	11	2.4	11	100	0	52	46	0	0	53	1.00
46004166--46004273	32	3.4	32	87	1	146	37	16	21	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46004279--46004327	25	1.9	26	91	4	82	36	24	22	16	1.94
46004316--46004379	27	2.4	27	80	14	80	32	21	25	20	1.97
46004455--46004600	24	6.1	24	86	0	175	45	21	6	25	1.76
46004618--46004758	27	5.3	26	78	9	115	24	22	18	34	1.96
46004637--46004761	27	4.6	27	83	0	169	25	22	18	33	1.96
46005112--46005153	17	2.5	17	88	0	66	26	45	21	7	1.77
46011346--46011459	33	3.4	33	86	2	147	41	37	7	13	1.73
46012383--46012424	21	2.0	21	90	9	68	23	9	4	61	1.45
46023749--46023794	18	2.5	19	80	16	53	76	2	8	13	1.11
46024412--46024451	18	2.1	19	86	13	55	10	17	2	70	1.27

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