genome.fa.s17.2.7.7.80.10.50.1000.111.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: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  111  of  173  ( 20651 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)
34436695--34436735	19	2.1	19	86	4	55	58	2	0	39	1.11
34438980--34439020	20	2.0	20	100	0	82	19	19	31	29	1.96
34451182--34451281	20	5.1	20	68	20	75	39	20	27	14	1.90
34453820--34453869	18	2.8	18	93	0	82	34	22	14	30	1.93
34454154--34454220	30	2.3	30	82	12	77	47	4	1	46	1.31
34454240--34454277	19	2.0	20	84	5	51	50	5	0	44	1.24
34455407--34455451	14	3.3	14	81	3	56	48	11	0	40	1.39
34458866--34458904	14	2.8	14	84	0	51	33	2	7	56	1.41
34463584--34464444	45	19.3	45	68	12	413	30	17	23	28	1.97
34463584--34464503	89	10.3	87	77	9	512	30	17	23	28	1.97
34463673--34463954	134	2.1	134	89	0	429	30	18	24	26	1.98
34464131--34464517	90	4.3	90	83	2	460	31	17	24	27	1.97
34464131--34464501	179	2.1	179	88	3	550	30	17	23	27	1.97
34466167--34466205	14	2.8	14	84	0	51	33	2	7	56	1.41
34468060--34468111	20	2.7	20	75	21	56	34	3	5	55	1.42
34470123--34470147	11	2.3	11	100	0	50	72	0	8	20	1.10
34470376--34470459	29	2.9	31	81	11	81	59	2	17	20	1.48
34471632--34471666	15	2.2	16	90	5	54	8	5	28	57	1.52
34471979--34472086	50	2.2	48	87	8	148	32	21	13	32	1.92
34472072--34472401	44	7.1	43	68	22	179	28	20	18	32	1.96
34471992--34472367	50	8.0	49	72	18	235	30	19	17	32	1.95
34472064--34472750	281	2.4	282	84	3	857	28	20	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34472544--34472692	44	3.2	44	72	17	140	28	23	16	31	1.96
34472511--34472661	50	3.1	50	71	18	138	27	22	20	29	1.99
34472061--34472750	94	7.4	94	87	2	830	28	21	18	32	1.96
34472490--34472799	94	3.3	94	82	2	230	30	20	17	31	1.96
34482637--34482685	20	2.5	20	78	15	57	55	6	26	12	1.60
34490069--34490252	78	2.3	81	85	6	243	25	27	22	24	2.00
34490050--34490252	40	5.1	40	84	7	245	24	27	22	25	2.00
34498010--34498194	41	4.6	39	84	7	230	25	27	22	24	2.00
34498010--34498195	79	2.3	81	87	5	254	25	27	22	24	2.00
34497991--34498195	40	5.1	40	85	7	256	25	27	22	24	2.00
34504146--34504180	16	2.2	16	94	0	61	17	22	5	54	1.64
34505893--34505967	20	3.8	20	89	0	105	24	30	0	45	1.53
34505907--34505939	15	2.1	16	88	5	50	21	27	0	51	1.48
34512231--34512280	25	2.0	25	96	0	91	50	12	18	20	1.78
34517124--34517170	11	4.3	11	86	0	67	21	34	2	42	1.65
34517128--34517186	22	2.7	23	82	10	61	27	27	1	44	1.64
34518336--34518361	7	3.7	7	100	0	52	26	0	15	57	1.38
34519292--34519338	21	2.2	21	88	7	69	34	31	23	10	1.89
34519599--34519648	15	3.5	15	69	20	52	44	34	0	22	1.53
34519600--34519655	28	2.0	28	100	0	112	42	35	0	21	1.53
34519621--34519676	22	2.6	21	91	5	94	42	33	0	23	1.54
34519600--34519682	28	3.2	26	76	23	95	42	34	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34519668--34519694	6	4.5	6	100	0	54	29	51	0	18	1.46
34522780--34523097	126	2.5	125	89	0	492	28	22	18	30	1.97
34523190--34523232	21	2.0	22	86	4	61	51	34	0	13	1.42
34528669--34528693	10	2.5	10	100	0	50	92	0	8	0	0.40
34528669--34528697	11	2.7	11	94	5	51	89	0	10	0	0.48
34531192--34531280	25	3.5	25	85	8	110	17	25	25	30	1.98
34531209--34531293	27	3.2	26	88	6	111	18	27	27	27	1.98
34531234--34531306	27	2.7	26	89	4	83	17	23	28	30	1.97
34538311--34538390	24	3.3	24	72	10	74	17	28	21	32	1.96
34543162--34543426	35	7.4	34	70	15	126	22	23	22	32	1.98
34543162--34543357	35	5.4	35	72	14	130	23	22	21	32	1.98
34543178--34543357	75	2.4	74	84	1	234	23	22	20	33	1.97
34547787--34547871	27	3.1	27	78	8	91	23	23	11	41	1.87
34553323--34553551	27	8.5	27	83	7	243	19	17	19	44	1.87
34553323--34553551	81	2.8	81	84	6	284	19	17	19	44	1.87
34563825--34563874	26	1.9	26	91	0	82	34	12	18	36	1.87
34571422--34571538	43	2.7	43	86	0	162	24	29	15	30	1.96
34571661--34571806	31	4.7	31	83	4	170	43	16	9	30	1.80
34573584--34573617	17	2.0	17	100	0	68	41	0	11	47	1.40
34574770--34574870	31	3.3	31	80	2	114	43	2	25	27	1.69
34577309--34577341	15	2.2	15	94	0	57	15	15	0	69	1.19
34580827--34580879	20	2.7	20	81	0	61	33	13	9	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34582503--34582549	14	3.5	13	83	11	51	40	2	4	53	1.32
34589577--34589623	23	2.0	23	84	8	60	25	31	8	34	1.86
34591317--34591341	7	3.6	7	100	0	50	36	0	0	64	0.94
34599563--34599601	17	2.2	18	86	4	53	33	0	7	58	1.26
34600735--34600883	20	7.4	20	67	11	81	13	30	18	38	1.89
34600728--34600916	40	4.7	40	82	1	200	14	30	17	37	1.90
34600776--34600970	20	9.7	20	67	13	78	14	30	17	36	1.90
34600855--34600962	40	2.7	39	80	8	103	12	33	19	34	1.90
34608915--34608959	10	4.5	10	83	8	56	64	8	0	26	1.23
34608915--34608977	20	3.2	19	82	10	65	66	6	0	26	1.15
34609014--34609077	16	3.7	17	71	15	51	67	1	3	28	1.15
34609013--34609078	17	3.8	17	70	18	55	68	1	3	27	1.13
34609012--34609085	17	4.3	16	68	20	51	68	1	4	25	1.15
34608993--34609094	44	2.4	42	79	12	109	67	0	5	25	1.19
34609201--34609254	20	2.7	20	79	2	54	72	1	5	20	1.14
34609219--34609278	10	6.2	10	75	11	54	71	1	1	25	1.04
34609182--34609276	28	3.4	28	72	15	79	69	1	4	25	1.13
34609220--34609264	11	4.4	11	78	16	51	71	2	0	26	0.98
34609227--34609274	19	2.6	18	77	9	51	70	2	2	25	1.09
34609604--34609640	17	2.1	18	90	5	58	32	5	0	62	1.18
34609649--34609830	19	9.4	19	68	17	81	31	3	3	60	1.30
34609752--34609829	30	2.6	29	78	6	93	33	2	2	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34614972--34615034	33	1.9	33	90	3	101	38	19	3	39	1.67
34624041--34624068	9	3.1	9	100	0	56	25	32	10	32	1.90
34626391--34626423	16	2.0	17	94	5	59	39	0	6	54	1.25
34626391--34626428	14	2.5	15	87	12	51	44	0	5	50	1.24
34632845--34632890	22	2.1	21	92	4	74	26	17	32	23	1.97
34633913--34633965	16	3.3	16	86	0	79	37	3	32	26	1.74
34633947--34634039	44	2.1	46	91	4	154	29	4	30	36	1.77
34633947--34634044	46	2.3	44	84	11	125	29	4	31	34	1.76
34634196--34634316	16	7.4	16	66	27	60	57	2	0	38	1.18
34634198--34634330	18	8.0	16	67	22	71	56	2	1	39	1.21
34634370--34634428	15	4.3	14	73	18	52	57	1	0	40	1.09
34650557--34650676	62	1.9	62	96	3	224	52	16	2	28	1.57
34651395--34651433	10	3.9	10	83	10	53	43	5	0	51	1.24
34651394--34651434	19	2.1	20	90	4	66	41	4	0	53	1.22
34657378--34657562	40	4.6	39	81	5	185	24	22	27	25	2.00
34657378--34657560	79	2.3	81	81	7	205	25	22	27	25	2.00
34657431--34657585	79	2.0	79	81	7	181	26	20	27	25	1.99
34668548--34668904	41	8.7	41	89	0	423	22	19	27	30	1.98
34668570--34668904	123	2.7	123	85	1	467	22	19	27	29	1.98
34669236--34669268	14	2.3	15	94	5	59	30	0	33	36	1.58
34672836--34672910	21	3.8	20	79	10	66	26	2	5	65	1.27
34672836--34672876	20	2.1	19	86	9	55	29	2	7	60	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34672824--34672902	21	3.8	19	77	12	68	27	2	6	63	1.32
34674185--34674362	43	4.2	42	79	5	171	21	17	26	34	1.96
34676152--34676185	17	2.0	17	94	0	59	38	41	8	11	1.73
34677870--34677920	27	1.9	26	84	4	66	21	15	5	56	1.60
34685395--34685431	9	4.1	9	85	0	56	48	13	8	29	1.71
34688496--34688626	50	2.6	52	83	8	178	33	15	12	38	1.84
34696882--34696947	30	2.2	31	97	2	125	34	9	9	46	1.67
34697242--34697269	14	2.0	14	100	0	56	21	14	0	64	1.29
34702360--34702401	20	2.1	20	100	0	84	28	14	14	42	1.84
34704783--34704821	20	2.0	20	89	0	60	46	15	10	28	1.78

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