genome.fa.s8.2.7.7.80.10.50.1000.101.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  101  of  190  ( 22705 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)
30641438--30641474	9	4.1	9	89	0	56	45	10	10	32	1.74
30642445--30642470	5	5.2	5	100	0	52	19	19	19	42	1.90
30643649--30643686	17	2.3	16	83	16	51	73	0	0	26	0.83
30645410--30645450	18	2.2	19	91	4	66	58	0	0	41	0.98
30645418--30645450	5	7.0	5	86	13	52	60	0	0	39	0.97
30645418--30645450	9	3.5	10	88	12	52	60	0	0	39	0.97
30646166--30646198	15	2.1	16	88	11	50	60	0	6	33	1.21
30646453--30646520	24	2.9	24	72	16	61	52	1	0	45	1.09
30647318--30647385	35	2.0	35	86	8	97	19	0	13	67	1.22
30647462--30647538	26	3.0	26	100	0	154	58	0	23	18	1.39
30647559--30647731	82	2.1	82	86	4	233	22	5	12	58	1.55
30658444--30658680	46	5.1	46	87	4	334	41	17	13	27	1.87
30658444--30658708	92	2.8	93	87	5	358	41	17	13	26	1.87
30659398--30659534	41	3.4	40	85	3	175	31	26	16	25	1.97
30659399--30659555	41	3.9	40	81	5	149	31	26	15	26	1.96
30665881--30666161	46	6.1	46	89	2	429	41	17	14	26	1.88
30666840--30666963	41	3.0	40	83	5	151	33	28	15	23	1.95
30666844--30666979	40	3.4	42	82	5	147	32	27	15	25	1.95
30671497--30671528	9	3.6	9	95	0	55	50	0	3	46	1.17
30672182--30672266	44	1.9	44	90	4	136	43	2	3	50	1.32
30672183--30672265	23	3.7	23	68	14	64	43	2	3	50	1.32
30677151--30677182	16	2.0	16	93	0	55	31	0	9	59	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30680845--30680895	23	2.2	23	85	0	66	29	7	19	43	1.79
30686253--30686307	26	2.0	27	82	6	67	32	12	1	52	1.50
30693815--30693855	21	2.1	20	86	13	59	19	21	0	58	1.39
30709967--30709994	14	2.0	14	100	0	56	35	28	0	35	1.58
30711797--30711861	32	2.0	32	93	0	112	30	16	10	41	1.83
30721053--30721121	27	2.6	27	88	4	95	37	20	13	28	1.90
30732201--30732236	9	4.0	9	85	0	54	47	13	8	30	1.73
30732243--30732301	29	2.0	29	93	0	100	38	11	0	49	1.40
30737392--30737447	20	2.8	20	81	7	69	35	1	0	62	1.06
30737394--30737477	29	2.9	29	79	12	84	35	1	0	63	1.03
30737423--30737475	27	2.0	27	81	7	63	32	0	0	67	0.91
30737446--30737474	13	2.2	13	100	0	58	34	0	0	65	0.93
30737571--30737620	23	2.3	21	83	13	57	72	0	4	24	1.02
30737573--30737636	29	2.2	30	82	2	76	68	1	6	23	1.21
30738583--30738628	21	2.2	20	80	3	56	30	2	6	60	1.34
30738923--30738949	9	3.0	9	100	0	54	44	0	0	55	0.99
30739785--30739820	2	18.0	2	94	0	63	47	0	0	52	1.00
30740619--30740683	30	2.2	30	91	0	112	27	29	3	40	1.71
30742878--30742934	25	2.3	23	81	18	71	42	0	5	52	1.24
30745847--30746989	126	9.1	126	87	2	1597	28	17	17	37	1.92
30745847--30746989	376	3.0	375	89	2	1636	28	17	17	37	1.92
30747051--30747160	34	3.3	32	79	10	132	42	13	0	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30747357--30747459	36	2.8	37	83	2	145	21	29	26	23	1.99
30748699--30748827	29	4.5	29	73	12	99	31	18	23	27	1.98
30748756--30748860	29	3.7	29	80	2	115	30	19	20	30	1.96
30748847--30748901	29	2.0	27	82	7	65	30	20	21	27	1.98
30754489--30754547	20	3.0	20	80	5	66	10	30	18	40	1.84
30756433--30756468	18	2.0	18	88	0	54	41	16	5	36	1.72
30757068--30757097	14	2.1	14	100	0	60	20	6	0	73	1.05
30761892--30761933	21	2.0	22	90	4	68	28	2	4	64	1.26
30778260--30778302	16	2.6	17	78	17	54	41	2	0	55	1.12
30778262--30778306	22	2.0	22	87	8	65	40	2	0	57	1.11
30786848--30786880	12	2.8	12	90	0	57	30	42	18	9	1.81
30795223--30795262	21	1.9	21	89	0	62	17	32	15	35	1.91
30800642--30800745	55	1.9	54	82	5	129	24	23	32	20	1.98
30803903--30804007	52	2.0	52	94	0	183	34	11	24	29	1.91
30816697--30816927	50	4.5	50	87	3	300	27	21	29	22	1.99
30822051--30822220	50	3.3	50	78	6	153	28	20	27	23	1.99
30828790--30828831	22	2.0	22	95	4	77	9	45	0	45	1.36
30840916--30841223	45	6.8	45	80	5	300	39	14	19	26	1.90
30877971--30878048	38	2.1	38	90	0	120	37	25	6	30	1.81
30879494--30879721	69	3.3	69	87	4	327	25	8	23	42	1.83
30879534--30879751	69	3.2	66	74	14	203	27	10	24	38	1.87
30882912--30883098	101	1.8	102	90	3	306	23	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30882904--30883094	51	3.8	51	83	3	242	24	16	27	31	1.96
30883105--30883192	45	2.0	45	93	0	149	27	19	20	32	1.97
30886328--30886438	25	4.5	25	78	8	104	18	28	18	34	1.95
30886354--30886488	25	5.6	24	71	15	82	18	28	19	34	1.95
30886473--30886539	25	2.7	25	76	0	71	26	26	14	31	1.95
30889548--30889606	24	2.6	23	81	10	59	49	6	0	44	1.29
30898696--30898947	134	1.9	134	80	4	294	31	16	15	36	1.90
30901680--30901759	39	2.1	39	100	0	160	15	12	12	60	1.60
30905336--30905375	20	2.0	20	100	0	80	30	25	0	45	1.54
30908279--30908314	16	2.2	16	100	0	72	36	16	5	41	1.72
30912672--30912774	50	2.1	50	94	0	179	52	8	14	24	1.70
30912722--30913716	84	12.0	84	77	9	832	45	10	11	32	1.73
30912611--30912858	134	1.8	135	87	4	376	50	10	10	29	1.69
30912611--30912871	135	1.9	135	86	6	368	50	10	10	28	1.70
30912722--30913410	251	2.8	248	84	7	839	47	9	9	33	1.69
30913258--30913560	87	3.5	86	75	10	303	40	11	12	34	1.80
30923428--30923492	30	2.2	30	85	0	94	20	30	29	20	1.97
30930733--30930794	26	2.4	26	88	0	88	35	12	11	40	1.80
30933863--30935018	576	2.0	576	97	0	2177	23	18	26	31	1.97
30940899--30940941	21	2.0	21	90	0	68	53	6	0	39	1.28
30943321--30943363	22	2.0	22	90	0	68	9	18	27	44	1.80
30943406--30943607	43	4.7	43	90	3	293	26	32	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30943627--30943659	16	2.1	16	88	5	50	42	6	0	51	1.26
30943883--30943973	43	2.1	43	87	2	130	43	9	10	35	1.73
30944470--30944517	24	2.0	24	100	0	96	45	4	12	37	1.61
30947386--30947412	13	2.1	13	100	0	54	29	7	7	55	1.55
30947395--30947473	36	2.1	38	90	9	126	34	5	2	58	1.34
30947912--30947972	21	2.9	20	78	9	59	34	42	0	22	1.54
30947932--30947976	7	6.4	7	81	0	54	33	44	0	22	1.53
30948162--30948191	15	2.1	14	93	6	51	33	36	0	30	1.58
30948240--30948276	14	2.6	14	91	0	65	45	29	0	24	1.53
30948613--30948876	41	6.4	40	83	6	287	30	25	22	21	1.99
30948612--30948874	123	2.1	124	82	5	327	30	24	23	22	1.99
30948937--30949047	40	2.8	39	84	4	143	16	23	23	36	1.94
30955237--30955422	50	3.8	50	80	2	189	27	22	28	21	1.99
30959093--30959125	16	2.0	17	94	5	59	51	18	6	24	1.68
30959984--30960018	18	1.9	18	88	0	52	34	2	37	25	1.71
30967450--30967521	34	2.1	34	92	0	117	31	16	29	22	1.96
30980619--30980808	49	3.8	50	76	4	143	23	25	20	30	1.98
30984995--30985021	7	3.9	7	100	0	54	44	0	0	55	0.99
30985596--30985632	17	2.2	17	90	0	56	32	16	21	29	1.95
30997353--30997380	6	4.7	6	100	0	56	35	0	0	64	0.94
30997880--30997919	19	2.2	18	86	4	53	62	2	7	27	1.35
30997902--30997946	19	2.2	19	84	11	54	64	0	4	31	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30997920--30997972	19	2.9	18	78	16	65	60	0	9	30	1.28
31001151--31001179	13	2.1	14	93	6	51	62	0	0	37	0.96
31002445--31002470	12	2.2	12	100	0	52	15	15	0	69	1.20
31014418--31014452	17	2.0	18	88	5	54	54	0	0	45	0.99
31014505--31014570	23	2.8	23	72	11	62	66	0	3	30	1.06
31015172--31015228	21	2.7	21	76	10	71	33	15	14	36	1.88
31017732--31017890	44	3.5	44	79	5	160	44	13	18	23	1.85
31021702--31021776	37	2.0	37	89	0	114	44	13	4	38	1.62
31021908--31021981	38	1.9	39	94	2	132	18	2	25	52	1.59
31021970--31022003	17	1.9	18	88	5	52	17	0	41	41	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