genome.fa.s1.2.7.7.80.10.50.1000.151.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  151  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)
44994165--44994211	23	2.0	23	88	12	69	44	2	2	51	1.25
45003156--45003227	27	2.7	27	78	2	83	61	2	0	36	1.11
45006691--45006737	12	4.2	12	76	15	55	31	2	19	46	1.61
45006684--45006753	9	7.1	9	73	17	50	30	2	20	47	1.64
45006684--45006739	21	2.7	21	91	0	85	32	1	19	46	1.61
45006644--45006840	91	2.2	88	80	9	218	35	2	17	45	1.60
45006857--45006902	9	5.1	9	97	0	83	34	2	21	41	1.66
45006894--45006969	39	1.9	40	91	2	127	39	9	14	36	1.78
45006967--45007064	9	10.7	9	70	22	53	32	0	17	50	1.47
45006961--45007073	27	4.4	27	76	17	125	31	0	19	48	1.49
45006962--45007052	47	1.9	47	100	0	182	32	0	17	49	1.47
45006976--45007073	18	5.3	18	73	18	85	31	0	19	48	1.49
45007032--45007079	9	5.3	9	82	9	62	27	0	25	47	1.52
45007836--45007870	18	2.1	18	89	10	56	65	5	0	28	1.15
45010081--45010167	7	12.4	7	76	13	54	36	43	0	19	1.51
45010078--45010152	20	3.6	21	80	7	80	36	45	0	18	1.50
45010076--45010192	14	8.3	14	72	11	78	36	41	0	22	1.54
45010078--45010171	42	2.2	42	82	1	116	38	42	0	19	1.51
45010332--45010366	13	2.7	13	90	0	52	34	48	0	17	1.47
45010358--45010407	22	2.3	22	86	6	66	38	38	0	24	1.56
45012515--45012561	24	2.0	24	82	0	58	61	2	2	34	1.20
45013212--45013254	21	2.0	21	86	8	61	65	11	4	18	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45013732--45013770	9	4.3	9	80	0	51	53	10	2	33	1.48
45013856--45013922	20	3.4	19	80	15	75	52	5	0	41	1.26
45014418--45014456	6	6.2	6	88	5	51	87	0	12	0	0.55
45014418--45014456	7	6.0	7	85	14	57	87	0	12	0	0.55
45014418--45014456	19	2.0	20	95	5	71	87	0	12	0	0.55
45014691--45014746	23	2.5	23	80	8	62	73	1	8	16	1.17
45015154--45015201	20	2.3	20	82	3	60	27	14	6	52	1.66
45017442--45017488	18	2.5	19	89	3	78	40	0	2	57	1.11
45025305--45025368	21	2.9	22	74	21	62	54	3	1	40	1.25
45025934--45026022	10	9.4	9	70	17	56	32	1	4	61	1.23
45025891--45025990	18	5.4	19	69	20	61	32	2	6	60	1.32
45025942--45025978	19	1.9	19	89	10	58	27	0	8	64	1.21
45025915--45025992	27	2.9	26	78	16	79	32	1	6	60	1.30
45025965--45026005	19	2.1	19	86	4	55	41	2	4	51	1.36
45034636--45034684	18	2.7	18	78	12	55	32	4	12	51	1.58
45040600--45040644	7	6.4	7	100	0	90	60	13	0	26	1.34
45040646--45040689	7	6.3	7	83	0	52	40	0	27	31	1.56
45040588--45040685	21	4.7	21	81	0	70	50	7	13	29	1.68
45045686--45045710	10	2.5	10	100	0	50	48	0	8	44	1.32
45045694--45045874	55	3.3	55	96	0	344	44	6	12	37	1.66
45045869--45046031	29	5.6	29	91	8	276	27	0	27	44	1.59
45045869--45046031	59	2.8	58	93	6	276	27	0	27	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45046001--45046053	23	2.7	18	85	14	61	28	0	20	50	1.48
45046052--45046236	71	2.6	71	91	0	307	43	13	3	39	1.60
45046638--45046672	18	1.9	18	88	0	52	31	8	34	25	1.86
45047324--45047348	7	3.6	7	100	0	50	60	12	0	28	1.32
45048429--45048481	11	5.1	10	77	8	52	71	0	0	28	0.86
45048429--45048494	32	2.1	32	94	2	116	68	0	0	31	0.90
45048496--45048610	51	2.3	51	95	0	203	42	0	30	26	1.56
45049155--45049199	18	2.6	17	83	13	56	55	2	2	40	1.24
45049158--45049207	18	2.8	18	74	14	50	60	2	2	36	1.20
45053261--45053285	5	5.0	5	100	0	50	0	20	0	80	0.72
45055981--45056015	2	17.5	2	100	0	70	48	0	0	51	1.00
45056655--45056681	14	1.9	14	100	0	54	81	0	18	0	0.69
45074970--45074998	13	2.1	14	93	6	51	41	0	0	58	0.98
45077758--45077802	17	2.6	17	96	0	81	37	15	17	28	1.91
45078847--45078897	24	2.1	25	85	3	68	52	1	5	39	1.37
45079337--45079386	20	2.7	19	80	20	61	42	2	2	54	1.23
45079365--45079484	62	1.9	62	80	12	140	39	3	5	52	1.40
45086656--45086705	24	2.1	24	92	0	82	40	4	24	32	1.73
45090935--45090984	24	2.1	24	96	0	91	42	4	22	32	1.72
45098859--45098900	20	2.1	20	100	0	84	19	16	19	45	1.86
45100889--45100951	30	2.1	30	96	0	117	26	9	12	50	1.71
45104820--45104863	22	2.0	22	95	0	79	31	29	9	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45105275--45105305	15	2.1	15	100	0	62	38	38	6	16	1.74
45105748--45105778	16	1.9	16	100	0	62	64	0	16	19	1.29
45106759--45106801	12	3.6	12	87	6	61	30	13	16	39	1.87
45108127--45108167	22	1.9	21	90	5	64	65	0	7	26	1.18
45115310--45115356	23	2.0	23	84	16	60	23	4	0	72	1.02
45115309--45115361	23	2.4	20	77	20	52	20	3	0	75	0.96
45116435--45116508	30	2.4	31	80	8	80	52	8	28	10	1.64
45119894--45119936	3	14.3	3	100	0	86	34	0	0	65	0.93
45119937--45119987	3	16.7	3	95	4	93	0	0	33	66	0.92
45120020--45120047	2	14.0	2	100	0	56	50	0	0	50	1.00
45121417--45121522	41	2.6	41	87	0	131	31	22	16	29	1.96
45129928--45129955	2	14.0	2	100	0	56	50	0	0	50	1.00
45136937--45136978	22	2.0	20	86	9	57	26	11	4	57	1.54
45142222--45142256	16	2.1	17	89	5	54	42	8	0	48	1.33
45150915--45150955	19	2.3	18	84	12	57	17	4	7	70	1.28
45151700--45151754	11	4.8	12	78	14	55	25	29	0	45	1.54
45151699--45151754	22	2.5	23	82	11	71	25	28	0	46	1.53
45154401--45154483	26	3.2	26	67	16	73	31	27	13	27	1.94
45154295--45154636	102	3.4	102	87	2	449	30	26	14	28	1.95
45154296--45154637	153	2.2	151	86	3	445	30	27	14	27	1.95
45154297--45154640	51	6.8	51	80	6	367	30	27	14	27	1.95
45157279--45157318	18	2.2	18	90	0	62	20	30	7	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45157560--45157606	21	2.2	21	85	7	60	38	38	17	6	1.75
45157573--45157614	21	2.0	21	85	0	57	38	45	14	2	1.58
45157901--45158215	22	14.0	22	77	11	291	47	34	0	17	1.54
45157901--45158215	43	7.0	44	78	12	277	47	34	0	17	1.54
45157937--45158031	50	1.9	50	84	2	129	49	33	2	14	1.56
45157912--45158181	93	2.9	93	81	9	250	47	34	1	17	1.55
45157936--45158047	50	2.2	51	79	7	122	47	35	1	15	1.56
45161224--45161596	125	3.0	124	86	1	548	30	23	16	29	1.96
45163068--45163134	32	2.1	32	97	0	125	46	13	7	32	1.71
45163589--45163624	18	1.9	18	88	5	54	58	2	0	38	1.13
45167162--45167353	96	2.0	96	98	0	375	35	18	13	32	1.90
45168937--45168968	2	16.0	2	100	0	64	50	0	0	50	1.00
45169708--45169741	9	3.6	10	88	11	54	70	0	0	29	0.87
45169698--45169741	18	2.4	17	88	11	61	68	0	0	31	0.90
45171165--45171204	17	2.6	16	88	11	57	0	12	5	82	0.82
45172083--45172287	43	4.8	42	92	2	347	33	22	21	22	1.98
45181414--45181618	42	4.8	42	88	7	315	22	21	22	33	1.97
45181414--45181630	85	2.5	85	87	6	314	22	21	22	33	1.97
45184318--45184351	9	3.7	9	92	4	50	38	0	8	52	1.33
45184358--45184412	21	2.8	21	79	17	64	36	0	3	60	1.15
45189703--45189733	14	2.2	14	94	0	53	41	0	9	48	1.36
45190814--45190848	17	2.1	18	89	10	56	48	0	8	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45191440--45191508	29	2.3	29	80	5	75	44	5	1	47	1.35
45192008--45192046	9	4.3	9	87	12	62	35	0	0	64	0.94
45199286--45199341	2	28.0	2	100	0	112	50	0	0	50	1.00
45199347--45199375	4	7.2	4	100	0	58	48	0	0	51	1.00
45210796--45210838	23	1.9	22	85	4	59	9	20	0	69	1.15
45212000--45212574	30	19.2	30	86	0	713	30	10	16	42	1.82
45219670--45219711	15	2.6	16	81	11	50	45	0	0	54	0.99
45221220--45221356	68	2.0	68	95	0	247	32	13	16	37	1.88
45223161--45223253	44	2.1	46	89	4	145	36	31	4	27	1.76
45223235--45223287	16	3.3	16	91	0	88	24	33	3	37	1.74

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