genome.fa.s8.2.7.7.80.10.50.1000.126.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: 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  126  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)
37577425--37577478	24	2.2	24	90	6	81	1	1	9	87	0.71
37582864--37582918	24	2.1	27	80	12	62	52	1	3	41	1.29
37597611--37597729	45	2.6	45	78	12	136	29	20	24	26	1.99
37597811--37598143	45	7.6	45	67	15	126	29	19	22	27	1.98
37597897--37598191	44	6.8	44	73	9	196	29	20	21	27	1.98
37597899--37598137	129	1.9	128	81	6	295	29	21	20	27	1.98
37597880--37598322	173	2.5	175	85	3	563	29	21	22	26	1.99
37597894--37598359	175	2.7	174	84	5	462	29	22	21	26	1.99
37600353--37600549	98	2.0	98	93	0	340	29	10	23	37	1.88
37602704--37602737	14	2.5	13	90	4	50	79	0	0	20	0.73
37616107--37616167	30	2.0	30	93	6	106	27	8	9	54	1.62
37625081--37625161	37	2.2	37	88	2	119	40	14	16	28	1.88
37631326--37631407	23	3.4	23	83	8	85	20	25	23	30	1.99
37639060--37639119	26	2.4	25	81	10	68	51	3	15	30	1.59
37642429--37642470	15	2.8	15	79	13	50	59	0	11	28	1.33
37643958--37644080	44	2.8	43	80	3	131	27	23	19	29	1.98
37644255--37644433	95	1.9	90	84	7	234	30	15	15	39	1.88
37644194--37644610	135	3.1	135	79	5	412	29	17	16	36	1.92
37644449--37644882	222	1.9	223	83	1	548	30	20	15	33	1.94
37644584--37645007	89	4.7	90	74	9	290	29	21	16	32	1.95
37643999--37645007	44	22.4	44	71	5	433	29	19	16	33	1.94
37654091--37654125	15	2.4	15	90	4	54	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)
37656235--37656404	81	2.1	81	92	0	277	17	24	12	45	1.83
37656488--37656529	22	2.0	21	81	13	50	9	30	7	52	1.61
37659675--37659761	26	3.2	26	74	6	66	62	1	4	32	1.23
37661901--37661962	27	2.3	27	79	15	67	33	0	1	64	1.03
37663101--37663150	21	2.5	20	84	12	68	0	32	2	66	1.03
37663124--37663169	21	2.1	22	84	4	58	0	34	2	63	1.07
37666906--37666962	29	1.9	30	92	3	98	21	33	31	14	1.92
37675505--37675558	19	2.7	21	72	8	51	35	40	7	16	1.77
37676717--37676915	109	1.8	109	93	0	344	33	18	15	33	1.92
37677420--37677455	16	2.2	16	90	0	54	52	2	8	36	1.46
37684138--37684180	21	2.0	21	100	0	86	18	9	32	39	1.83
37684202--37684432	10	23.0	10	70	19	117	55	0	4	39	1.23
37684240--37684432	61	3.1	60	75	14	153	54	0	4	40	1.23
37684202--37684432	20	11.5	19	73	13	144	55	0	4	39	1.23
37684268--37684435	21	8.1	22	74	14	119	54	0	3	41	1.22
37684481--37684595	61	1.9	59	84	7	151	39	4	1	54	1.30
37684508--37684638	51	2.6	50	75	13	131	36	6	0	56	1.30
37684453--37684619	10	16.5	10	68	10	81	36	4	2	56	1.31
37684475--37684576	41	2.5	39	81	12	116	40	3	1	53	1.30
37684475--37684588	41	2.8	39	79	11	104	39	4	1	54	1.31
37684447--37684596	20	7.5	19	73	12	115	38	4	3	54	1.38
37684566--37684638	30	2.4	30	84	6	85	31	8	0	60	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37684718--37684757	21	1.9	21	84	0	53	27	5	2	65	1.27
37686087--37686194	51	2.1	52	89	1	164	44	7	19	28	1.77
37688773--37688856	16	5.5	16	73	23	74	53	3	1	41	1.26
37689624--37689678	16	3.4	16	84	0	74	40	5	23	30	1.77
37689855--37689978	58	2.1	58	88	2	178	52	4	0	43	1.20
37689931--37689993	33	2.0	32	81	12	76	53	1	1	42	1.19
37697934--37697969	16	2.2	16	100	0	72	25	0	36	38	1.56
37698205--37698239	18	2.0	17	88	5	52	54	0	0	45	0.99
37698346--37698382	13	2.8	13	88	11	58	54	0	0	45	1.00
37698346--37698394	18	2.7	18	80	3	53	55	0	0	44	0.99
37698092--37698408	156	2.0	158	88	6	475	43	3	5	47	1.41
37698389--37698599	66	3.4	64	69	20	203	48	6	3	41	1.46
37698461--37698512	15	3.6	15	80	12	56	53	1	0	44	1.11
37698377--37698630	120	2.1	120	92	5	424	48	5	3	42	1.42
37698678--37698725	26	1.9	25	84	16	64	52	2	0	45	1.12
37698634--37698861	92	2.5	92	82	8	234	47	3	3	45	1.37
37704657--37704710	26	2.1	26	86	6	74	44	0	7	48	1.31
37707234--37707373	46	3.0	46	93	2	228	29	27	9	34	1.88
37708598--37708645	17	2.9	17	87	3	71	50	20	2	27	1.60
37708799--37708913	44	2.6	44	80	9	119	24	17	27	30	1.97
37715271--37715313	22	2.0	22	90	0	68	11	16	25	46	1.80
37715371--37715598	43	5.3	43	85	1	287	31	28	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37716773--37716857	40	2.1	40	84	4	109	49	14	5	30	1.66
37716923--37717202	86	3.2	85	88	2	389	42	17	8	31	1.79
37719394--37719422	15	1.9	15	100	0	58	34	37	0	27	1.57
37719467--37719520	7	7.7	7	80	0	63	46	33	0	20	1.51
37719418--37719520	14	7.2	14	74	8	73	44	33	0	21	1.59
37719387--37719525	21	6.5	21	70	8	66	43	30	0	24	1.59
37719570--37719640	23	3.3	21	83	11	81	49	33	0	16	1.47
37719571--37719710	7	19.6	7	71	12	70	47	31	0	20	1.55
37719571--37719768	14	13.9	14	70	13	100	47	30	1	20	1.59
37719571--37719733	86	1.9	86	80	9	190	47	30	1	20	1.61
37720075--37720185	41	2.7	41	80	1	134	31	25	18	24	1.98
37725529--37725563	18	1.9	18	94	0	61	20	25	31	22	1.98
37725515--37725579	30	2.2	30	82	0	76	24	26	24	24	2.00
37725565--37725599	6	5.8	6	100	0	70	34	31	17	17	1.93
37727672--37727707	18	1.9	19	88	5	56	75	2	2	19	1.06
37735547--37735633	18	4.8	18	72	10	70	37	27	18	16	1.92
37735645--37735686	21	2.0	22	95	4	77	35	28	26	9	1.88
37742086--37742158	34	2.1	34	97	0	137	43	24	10	20	1.84
37747250--37747291	9	4.4	10	82	8	52	28	0	4	66	1.12
37748172--37748209	18	2.1	19	85	5	51	36	13	0	50	1.42
37755438--37755551	58	1.9	59	87	5	169	42	16	14	26	1.87
37756604--37756632	6	4.8	6	100	0	58	51	17	13	17	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37759967--37759996	12	2.5	12	100	0	60	36	0	0	63	0.95
37762536--37762641	41	2.6	41	89	1	160	26	19	21	32	1.97
37763163--37763214	17	3.1	17	97	0	95	25	21	11	42	1.86
37763589--37763622	17	2.0	17	88	0	50	70	0	2	26	1.01
37765141--37765182	2	21.0	2	100	0	84	50	0	0	50	1.00
37765597--37765634	15	2.5	15	83	12	51	47	0	0	52	1.00
37767870--37767903	17	1.9	18	88	5	52	2	26	0	70	1.01
37775483--37775554	21	3.4	21	64	7	56	45	16	25	12	1.82
37777418--37777451	4	8.0	4	87	12	50	76	0	0	23	0.79
37777418--37777453	9	4.1	9	96	3	65	75	0	0	25	0.81
37777418--37777451	13	2.7	12	86	13	50	76	0	0	23	0.79
37777558--37777589	16	2.0	16	93	0	55	43	3	9	43	1.52
37777607--37777687	27	3.0	27	79	13	94	48	1	9	40	1.44
37777607--37777688	29	3.0	29	77	10	91	48	1	9	40	1.44
37779757--37780144	51	7.7	50	83	4	465	29	26	15	29	1.96
37779750--37780144	102	3.9	101	91	1	524	29	25	15	29	1.96
37782943--37783059	43	2.7	43	82	2	137	28	25	18	27	1.98
37783063--37783331	88	3.1	88	87	1	405	26	24	20	28	1.99
37783610--37783668	24	2.4	24	94	2	100	27	25	13	33	1.93
37784599--37784715	40	3.0	40	79	13	118	17	23	17	41	1.89
37795618--37795645	4	7.0	4	100	0	56	75	0	0	25	0.81
37795619--37795656	8	4.4	9	93	3	53	73	0	2	23	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37795650--37795851	47	4.3	47	75	13	186	55	0	7	36	1.28
37795765--37795794	12	2.5	12	94	0	51	46	0	10	43	1.37
37798680--37798713	17	1.9	18	94	5	61	0	29	0	70	0.87
37798676--37798723	21	2.3	21	82	10	62	0	31	0	68	0.90
37801098--37801124	3	9.0	3	100	0	54	33	0	0	66	0.92
37808846--37808887	21	2.0	21	85	4	57	35	4	0	59	1.19
37808879--37808936	29	2.0	30	90	6	93	46	0	5	48	1.24
37808886--37808944	28	2.1	28	81	6	66	49	0	5	45	1.24
37812072--37812142	32	2.2	31	82	7	88	43	18	12	25	1.85
37816992--37817041	22	2.4	21	83	9	66	30	10	6	54	1.58

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