genome.fa.s4.2.7.7.80.10.50.1000.50.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  50  of  198  ( 23681 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)
14957520--14957907	142	2.7	141	92	2	636	32	16	22	28	1.95
14958271--14958317	24	2.0	24	87	8	69	57	12	4	25	1.54
14965833--14966051	51	4.3	51	96	0	402	33	14	23	28	1.94
14966704--14966814	53	2.1	52	83	6	143	27	9	27	36	1.88
14967586--14968660	538	2.0	539	85	3	1466	34	14	19	32	1.91
14971416--14971450	7	5.1	7	96	3	63	71	0	0	28	0.86
14973358--14973405	4	12.0	4	86	0	69	52	0	20	27	1.47
14973358--14973403	16	2.9	16	96	0	83	52	0	19	28	1.47
14975984--14976066	33	2.5	33	76	7	87	30	19	16	33	1.94
14991011--14991101	3	30.3	3	73	20	75	61	2	4	31	1.28
14992711--14993144	44	9.8	44	69	12	269	29	22	16	31	1.96
15005952--15006000	22	2.2	22	96	0	89	8	22	32	36	1.84
15007865--15007899	3	11.7	3	100	0	70	34	0	34	31	1.58
15008806--15008885	39	2.0	40	80	2	90	42	30	2	25	1.68
15011755--15011784	2	15.0	2	100	0	60	50	0	0	50	1.00
15015792--15015825	18	1.9	18	94	5	61	38	2	17	41	1.65
15016405--15016464	28	2.1	28	100	0	120	46	21	6	25	1.75
15020282--15020434	25	6.2	25	69	15	104	16	28	18	36	1.93
15020302--15020432	50	2.7	49	77	13	135	17	26	19	36	1.94
15020464--15020530	25	2.7	25	83	0	80	22	28	22	26	1.99
15023628--15023683	28	2.0	28	100	0	112	21	28	17	32	1.96
15026029--15026272	50	4.8	50	85	1	290	27	21	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15029604--15029702	23	4.3	23	96	0	180	20	21	28	30	1.98
15030767--15030805	11	3.5	11	80	13	53	38	12	23	25	1.90
15030767--15030812	22	2.1	22	100	0	92	41	13	21	23	1.88
15031856--15031981	47	2.6	48	80	8	150	26	14	26	32	1.94
15031861--15031981	49	2.6	47	82	4	145	28	13	26	32	1.93
15040890--15041075	50	3.7	50	87	0	264	26	22	30	20	1.98
15045625--15045658	17	2.0	17	88	11	52	47	11	0	41	1.40
15046644--15046680	4	9.2	4	100	0	74	51	0	24	24	1.49
15065550--15066062	51	10.5	51	79	9	528	29	15	23	30	1.96
15065562--15066049	97	5.0	97	86	0	661	29	16	23	30	1.96
15066076--15066243	44	3.8	43	78	7	169	27	20	22	29	1.98
15066076--15066287	44	4.6	44	76	12	135	28	19	23	28	1.98
15065959--15066392	238	1.8	238	86	1	627	30	18	21	28	1.97
15066196--15066297	51	2.0	51	92	0	168	32	15	21	30	1.95
15072794--15072840	23	2.0	23	91	0	76	17	0	17	65	1.27
15072826--15072923	28	3.5	28	69	8	101	25	1	23	50	1.56
15076229--15076292	24	2.7	24	85	4	85	15	39	12	32	1.85
15084744--15084836	49	1.9	48	95	2	168	48	7	12	31	1.69
15088053--15088200	54	2.6	54	84	10	190	25	15	13	45	1.83
15089209--15089250	15	2.8	15	85	0	66	26	19	9	45	1.80
15097711--15097765	24	2.3	24	93	0	92	30	20	5	43	1.74
15098895--15098939	21	2.2	20	84	4	54	42	13	11	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15100810--15100957	74	2.0	74	94	0	260	39	8	14	37	1.78
15102441--15102523	42	2.0	42	92	0	139	33	9	21	34	1.86
15102483--15102547	26	2.5	26	74	0	76	36	9	21	32	1.85
15104389--15104466	27	2.9	27	77	7	86	16	26	21	34	1.95
15104363--15104466	54	1.9	54	82	3	129	18	27	18	35	1.94
15107290--15107327	18	2.1	19	85	5	51	81	5	13	0	0.85
15117689--15117744	27	2.1	27	100	0	112	21	23	10	44	1.83
15121164--15121207	19	2.3	20	84	7	56	27	20	11	40	1.86
15123081--15123124	17	2.6	17	100	0	88	27	22	0	50	1.50
15123868--15123916	17	2.9	17	77	22	66	79	10	0	10	0.93
15123868--15123923	19	3.2	19	85	14	84	78	10	0	10	0.96
15123871--15123923	8	6.4	8	76	23	56	77	11	0	11	1.00
15123879--15123923	8	5.0	9	80	20	58	77	11	0	11	0.99
15124755--15124784	11	2.6	11	94	5	51	83	0	10	6	0.81
15125980--15126835	88	9.8	88	86	4	1017	28	21	24	25	1.99
15126245--15126380	42	3.2	42	68	17	127	30	24	22	23	1.99
15125980--15126835	173	4.9	173	86	3	1037	28	21	24	25	1.99
15126830--15127272	44	10.1	44	68	12	189	30	19	23	27	1.98
15125980--15126944	264	3.7	264	81	6	821	28	21	24	25	1.99
15126849--15127322	175	2.7	174	91	1	734	30	18	22	28	1.97
15126938--15127234	87	3.4	86	72	11	255	28	20	22	28	1.98
15127327--15127557	43	4.8	51	68	18	165	30	17	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15127329--15127557	95	2.4	95	98	0	440	30	17	21	30	1.96
15128994--15129042	3	16.7	3	82	4	64	34	4	0	61	1.15
15129052--15129092	21	2.0	21	85	0	55	39	2	2	56	1.26
15129410--15129499	42	2.1	42	83	4	108	32	5	3	58	1.37
15133524--15133562	20	1.9	21	89	5	62	33	10	0	56	1.33
15133553--15133600	19	2.5	20	80	13	55	43	2	0	54	1.12
15133580--15133653	30	2.4	33	78	15	86	32	6	0	60	1.23
15134158--15134258	22	4.6	22	82	7	89	34	25	1	37	1.68
15134155--15134252	44	2.2	43	82	8	117	33	26	2	37	1.68
15134289--15134349	29	2.1	29	87	6	88	39	0	1	59	1.08
15134440--15134473	15	2.3	15	90	5	52	26	0	5	67	1.13
15136106--15136140	18	1.9	18	88	0	52	28	34	8	28	1.87
15136642--15137004	28	13.8	28	85	10	468	47	20	0	32	1.53
15136640--15137010	129	2.9	129	92	6	610	46	20	0	32	1.53
15140222--15140468	125	2.0	125	91	1	397	32	22	15	29	1.95
15140720--15140783	29	2.2	28	83	5	83	39	15	15	29	1.89
15143368--15143403	4	8.8	4	87	6	54	72	0	2	25	0.98
15143486--15143519	16	2.0	18	88	11	54	76	2	8	11	1.12
15143810--15143894	20	4.3	20	70	8	66	56	3	4	35	1.37
15145565--15145601	15	2.5	15	95	0	65	54	16	21	8	1.68
15152251--15152275	7	3.6	7	100	0	50	40	0	0	60	0.97
15154324--15154480	43	3.7	43	91	1	235	31	24	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15155899--15155950	17	3.1	17	80	2	61	80	0	17	1	0.80
15155899--15155955	22	2.7	21	86	5	78	78	0	19	1	0.83
15163723--15163776	24	2.4	23	82	14	69	59	16	14	9	1.60
15168191--15168320	51	2.5	51	88	3	181	29	28	13	28	1.95
15175162--15175246	43	2.0	44	90	2	136	29	25	16	28	1.97
15175382--15175409	2	14.0	2	100	0	56	50	0	0	50	1.00
15180050--15180090	21	1.9	22	85	5	57	68	4	9	17	1.35
15189792--15189816	10	2.5	10	100	0	50	72	8	0	20	1.10
15190418--15190449	17	1.9	17	93	6	57	3	15	0	81	0.82
15198127--15198172	23	2.1	22	92	8	76	58	4	6	30	1.43
15199586--15199828	128	1.9	128	83	5	312	28	21	18	30	1.97
15199667--15200047	44	8.8	44	67	15	168	28	23	19	28	1.98
15199889--15200132	128	1.9	127	86	2	346	27	21	21	29	1.99
15200142--15200539	88	4.5	88	92	0	645	21	24	26	27	1.99
15200211--15200524	44	7.2	44	61	7	154	20	25	28	25	1.99
15200142--15200531	175	2.2	176	92	0	638	21	25	27	26	1.99
15212385--15212440	20	2.8	20	76	10	60	75	5	3	16	1.13
15212771--15212816	23	2.1	22	92	8	76	58	4	6	30	1.43
15216905--15216948	20	2.3	19	84	4	52	45	47	4	2	1.35
15220826--15220857	9	3.6	9	100	0	64	34	9	0	56	1.32
15223561--15223596	16	2.2	17	90	5	56	22	8	2	66	1.31
15230232--15230264	17	1.9	17	93	0	57	24	24	9	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15242667--15242701	17	2.1	17	100	0	70	34	37	0	28	1.58
15248125--15248289	50	3.3	50	88	0	222	27	22	29	21	1.99
15248125--15248311	100	1.9	100	82	2	241	27	20	28	22	1.99
15251890--15251995	50	2.1	50	85	3	142	28	21	30	19	1.98
15251900--15252013	50	2.3	50	80	3	131	28	23	26	21	1.99
15255923--15255976	24	2.2	24	96	3	99	25	20	9	44	1.81
15259153--15259185	5	6.8	5	89	6	50	15	21	0	63	1.30
15262251--15262781	138	3.9	138	86	3	721	40	9	5	44	1.60
15270574--15270916	51	6.8	51	74	10	294	27	14	26	30	1.95
15270574--15270916	102	3.4	102	80	8	346	27	14	26	30	1.95

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