genome.fa.s6.2.7.7.80.10.50.1000.126.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  126  of  168  ( 20060 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)
36638190--36638327	69	2.0	69	92	1	233	32	23	15	27	1.96
36641696--36641744	24	2.0	24	100	0	98	46	8	28	16	1.75
36642944--36642973	3	10.3	3	92	7	53	30	0	0	70	0.88
36648347--36648606	130	2.0	130	99	0	511	36	9	15	38	1.80
36649825--36649857	16	2.1	16	100	0	66	36	6	36	21	1.78
36649837--36649933	44	2.2	44	87	5	133	30	4	29	35	1.76
36650090--36650124	18	2.0	18	88	5	54	54	0	0	45	0.99
36650245--36650283	16	2.4	16	100	0	78	41	12	0	46	1.42
36651774--36651798	13	1.9	13	100	0	50	32	32	24	12	1.91
36663648--36663687	21	1.9	21	89	0	62	20	7	15	57	1.61
36665565--36665620	22	2.5	22	94	0	94	32	25	0	42	1.55
36665592--36665650	30	2.0	30	86	0	82	30	32	0	37	1.58
36665622--36665663	22	1.9	22	90	0	66	33	33	0	33	1.58
36665698--36665759	29	2.2	27	78	13	72	38	3	1	56	1.25
36665705--36665761	29	2.0	29	89	6	89	36	1	1	59	1.18
36665709--36665769	28	2.1	29	82	8	72	37	1	1	59	1.17
36665708--36665769	29	2.1	29	85	5	81	37	1	1	59	1.17
36665867--36665900	15	2.3	15	90	5	52	26	0	5	67	1.13
36668067--36668174	23	4.9	23	77	18	113	47	21	1	29	1.61
36668093--36668130	17	2.2	17	95	0	67	52	15	2	28	1.56
36668074--36668157	40	2.1	41	91	6	136	48	19	2	29	1.61
36671396--36671676	125	2.3	124	87	3	404	32	24	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36679954--36680010	29	2.0	29	82	0	69	28	1	3	66	1.18
36682654--36682734	17	4.6	17	69	20	60	38	2	3	55	1.31
36683376--36683438	26	2.4	26	89	0	90	36	15	9	38	1.81
36684544--36684638	47	2.0	47	97	0	181	27	18	26	27	1.98
36696215--36696244	13	2.3	13	94	0	51	50	6	0	43	1.28
36700204--36700237	15	2.2	16	89	5	52	41	0	14	44	1.45
36700599--36700854	87	2.9	87	91	2	399	25	8	29	36	1.86
36700886--36700910	4	6.2	4	100	0	50	24	0	0	76	0.80
36703264--36703288	3	8.3	3	100	0	50	32	0	0	68	0.90
36709233--36709293	24	2.5	24	72	15	63	32	24	22	19	1.97
36710140--36710192	19	2.8	18	75	11	52	43	18	0	37	1.51
36714316--36714345	13	2.3	13	94	0	51	40	40	0	20	1.52
36714485--36714561	9	8.4	9	80	8	75	25	9	24	40	1.85
36716659--36716723	11	6.4	11	76	18	61	36	1	0	61	1.05
36716642--36716733	38	2.4	39	91	8	147	34	1	0	64	1.01
36716706--36716744	20	2.0	20	89	0	60	38	2	0	58	1.12
36716705--36716762	20	2.8	20	80	17	57	41	1	3	53	1.28
36723405--36723443	19	2.1	19	90	4	62	58	5	0	35	1.20
36730581--36730643	29	2.2	29	85	5	83	41	20	6	31	1.77
36733654--36733685	17	1.9	16	93	6	55	43	9	0	46	1.35
36734273--36734302	13	2.4	12	94	5	51	53	0	0	46	1.00
36734652--36734693	21	2.0	21	85	0	57	61	0	2	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36734841--36734880	14	2.9	14	92	7	64	45	7	5	42	1.54
36735276--36735313	2	19.0	2	100	0	76	50	0	0	50	1.00
36736048--36736073	13	2.0	13	100	0	52	46	7	0	46	1.31
36737384--36737431	21	2.4	21	86	6	64	50	0	0	50	1.00
36740888--36740922	11	3.1	11	87	4	52	85	0	2	11	0.69
36751739--36751800	12	5.1	13	75	13	60	41	8	0	50	1.32
36751734--36751816	36	2.3	36	89	6	123	43	7	0	49	1.30
36751727--36751786	23	2.5	22	76	12	57	43	6	0	50	1.28
36755250--36755281	16	2.0	16	100	0	64	37	12	37	12	1.81
36756044--36756107	24	2.7	24	76	7	60	51	1	6	40	1.36
36756229--36756271	2	21.5	2	100	0	86	51	0	0	48	1.00
36757816--36757855	17	2.4	17	91	8	64	5	5	42	47	1.47
36759955--36760006	20	2.6	20	90	0	77	21	26	0	51	1.47
36760753--36760844	36	2.6	36	79	8	116	39	35	10	14	1.81
36760820--36760908	35	2.5	35	80	3	108	37	34	12	15	1.85
36770605--36770661	29	2.0	29	89	0	87	22	12	33	31	1.91
36771812--36771854	2	21.5	2	100	0	86	51	0	0	48	1.00
36772338--36772397	31	1.9	31	86	0	84	23	13	8	55	1.65
36773376--36773434	31	1.9	31	85	0	82	54	11	15	18	1.71
36774684--36774720	17	2.2	17	95	0	65	16	37	27	18	1.92
36781502--36781928	212	2.0	212	99	0	845	35	15	16	33	1.90
36782127--36782193	22	3.0	22	93	0	107	34	14	25	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36791605--36791645	22	1.9	21	85	5	55	26	21	9	41	1.84
36793110--36793239	40	3.2	40	91	6	210	63	0	3	33	1.10
36793097--36793189	11	8.9	11	70	18	65	60	0	2	37	1.09
36794182--36794269	31	2.9	29	75	8	86	46	12	5	35	1.65
36800958--36800993	17	2.1	17	89	0	54	61	8	2	27	1.39
36801051--36801143	22	4.3	22	71	11	75	31	0	5	63	1.17
36809334--36809453	44	2.8	43	79	11	129	22	24	20	32	1.98
36812105--36812387	111	2.6	110	89	2	417	29	15	21	33	1.95
36821806--36821936	21	6.3	21	79	1	122	16	18	16	48	1.81
36822168--36822194	8	3.4	8	100	0	54	37	0	14	48	1.45
36823888--36823975	10	8.9	10	74	17	60	38	3	1	56	1.23
36831772--36831822	13	4.0	12	78	19	50	39	0	1	58	1.09
36836289--36836674	141	2.8	136	81	8	442	51	11	12	24	1.73
36836289--36836693	138	2.9	136	79	8	430	50	12	12	23	1.74
36837256--36837324	31	2.2	31	84	5	86	53	13	11	21	1.70
36852672--36852697	3	8.7	3	100	0	52	69	0	0	30	0.89
36857611--36857653	22	2.0	22	90	0	68	25	13	16	44	1.85
36859895--36859959	27	2.4	26	87	7	94	32	4	0	63	1.15
36861041--36861085	21	2.1	21	100	0	90	33	24	13	28	1.93
36883107--36883432	169	1.9	171	87	3	487	27	11	24	35	1.90
36885323--36885513	101	1.9	101	97	0	364	24	14	16	45	1.84
36891501--36891543	21	2.0	23	81	9	54	44	9	11	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36891580--36891619	20	1.9	20	85	10	53	67	10	10	12	1.42
36894711--36894751	19	2.2	19	91	4	66	26	17	9	46	1.79
36894981--36895037	15	3.5	15	73	17	60	50	1	0	47	1.11
36896951--36897053	45	2.3	45	91	1	161	31	18	12	37	1.88
36898318--36898494	57	3.1	57	86	4	223	48	5	17	28	1.70
36900329--36900369	17	2.4	17	100	0	82	51	9	0	39	1.35
36903566--36903648	43	1.9	43	100	0	166	16	25	16	40	1.90
36919946--36920029	40	2.1	39	93	2	141	63	0	2	34	1.08
36919946--36920040	40	2.4	39	85	7	136	63	0	2	34	1.07
36920520--36920564	19	2.4	19	81	7	56	62	4	6	26	1.39
36920650--36920689	15	2.7	15	82	17	57	7	10	0	82	0.84
36920718--36920770	27	2.0	26	82	14	63	11	18	1	67	1.30
36923632--36923673	23	1.9	22	85	9	59	42	2	0	54	1.13
36923691--36923717	7	3.9	7	100	0	54	85	0	0	14	0.61
36928264--36928313	22	2.3	21	80	10	55	62	0	2	36	1.07
36931294--36931411	29	4.0	30	93	4	195	39	1	0	58	1.08
36931294--36931411	31	3.9	31	94	4	199	39	1	0	58	1.08
36931302--36931410	9	11.0	9	69	15	56	40	1	0	57	1.09
36931703--36931826	62	2.0	62	88	0	185	23	19	13	43	1.86
36932681--36932716	15	2.4	15	90	0	54	30	16	0	52	1.44
36932982--36933017	18	2.0	18	88	0	54	44	2	0	52	1.15
36933392--36933458	34	1.9	35	93	3	118	32	8	11	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36933439--36933523	32	2.6	31	76	9	89	25	10	18	44	1.82
36936205--36936272	25	2.6	27	86	13	97	38	7	27	26	1.83
36936493--36936596	52	2.0	52	94	0	181	38	6	16	38	1.75
36940407--36940449	21	2.0	21	95	0	77	37	25	4	32	1.77
36947265--36947352	38	2.3	38	100	0	176	14	9	39	36	1.78
36951869--36951919	25	2.0	25	84	0	66	11	29	1	56	1.46
36958063--36958133	24	2.9	25	85	10	69	38	21	23	16	1.93
36958080--36958133	24	2.2	24	93	6	92	37	20	25	16	1.93
36958856--36958887	2	16.0	2	100	0	64	50	0	0	50	1.00
36969146--36969187	15	2.7	16	82	14	52	52	2	0	45	1.13

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