genome.fa.s16.2.7.7.80.10.50.1000.92.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  92  of  175  ( 20966 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)
29437156--29437235	20	4.0	20	86	3	106	7	26	25	41	1.81
29437163--29437244	20	4.0	21	82	4	96	8	25	25	40	1.84
29437163--29437244	41	2.0	41	85	0	110	8	25	25	40	1.84
29437156--29437254	41	2.4	41	81	5	103	9	26	24	40	1.84
29438358--29438442	42	2.0	41	82	6	100	32	24	15	27	1.95
29450115--29450139	6	4.2	6	100	0	50	16	0	0	84	0.63
29461236--29461287	23	2.3	23	100	0	104	25	7	21	46	1.77
29461934--29462060	43	3.0	42	75	14	134	25	18	24	31	1.97
29464701--29464777	41	1.9	40	89	2	118	29	20	18	31	1.96
29465329--29465389	7	8.6	7	77	10	52	45	32	0	21	1.52
29465325--29465406	20	4.0	20	73	9	67	47	30	0	21	1.51
29465350--29465414	28	2.3	29	94	5	116	49	33	0	16	1.47
29465428--29465463	15	2.5	15	86	4	56	47	25	2	25	1.65
29465955--29466338	40	9.6	40	68	9	208	26	23	20	29	1.99
29465929--29466162	126	1.9	126	98	0	450	22	23	22	32	1.98
29466155--29466489	75	4.4	75	72	6	314	28	21	19	30	1.98
29466055--29466410	155	2.3	155	92	0	588	26	21	20	31	1.98
29473183--29473296	59	1.9	58	87	1	165	34	14	16	35	1.89
29474642--29474680	19	2.0	21	90	10	64	23	10	10	56	1.63
29476547--29476661	25	4.6	25	78	6	117	31	20	23	24	1.98
29481484--29481747	138	1.9	138	93	0	456	39	6	7	46	1.57
29485130--29485236	29	3.7	27	81	10	106	45	0	17	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29485143--29485236	32	3.1	30	83	10	111	46	1	17	35	1.55
29485330--29485625	125	2.4	123	88	4	434	39	17	16	26	1.90
29485585--29485653	28	2.5	28	82	0	93	49	10	13	27	1.73
29489236--29489271	18	2.0	18	88	0	54	41	0	25	33	1.55
29492047--29492103	25	2.3	25	93	3	98	28	19	22	29	1.98
29493174--29493219	24	2.0	22	87	8	65	69	6	2	21	1.22
29493209--29493254	10	4.7	10	74	15	51	67	2	2	28	1.14
29493199--29493255	29	2.0	28	86	10	80	66	5	1	26	1.22
29493775--29493817	9	4.4	9	85	11	50	30	2	0	67	1.03
29497560--29497601	19	2.3	19	83	4	50	38	9	7	45	1.64
29498935--29498995	21	2.9	21	72	15	63	42	3	1	52	1.27
29500186--29500556	196	1.9	197	83	3	480	42	9	16	31	1.81
29502727--29502772	23	2.0	23	83	8	58	28	19	8	43	1.80
29508892--29508954	30	2.1	30	93	0	108	25	3	14	57	1.52
29509037--29509075	18	2.2	18	86	9	53	20	0	12	66	1.24
29509076--29509109	12	2.9	12	95	4	61	64	0	0	35	0.94
29509622--29509687	30	2.2	31	83	8	82	50	9	15	25	1.73
29510852--29510903	23	2.3	23	83	12	63	26	11	3	57	1.51
29518950--29518986	14	2.7	14	88	12	51	0	24	2	72	0.97
29519744--29519818	33	2.3	33	85	0	96	26	24	14	34	1.94
29521476--29521589	52	2.2	53	91	3	185	9	14	21	54	1.68
29525822--29525850	14	2.1	14	93	6	51	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29534474--29534527	20	2.6	20	75	13	56	62	0	9	27	1.25
29534915--29534940	11	2.4	11	100	0	52	38	7	0	53	1.30
29535383--29535417	17	2.0	18	94	5	63	42	0	0	57	0.99
29535384--29535423	17	2.2	18	86	8	55	42	2	0	55	1.13
29559865--29559903	5	7.6	5	82	5	51	41	0	17	41	1.50
29571383--29571424	20	2.1	20	100	0	84	30	23	16	28	1.96
29579964--29579991	11	2.5	11	100	0	56	39	28	0	32	1.57
29580560--29580597	19	2.0	20	84	5	51	42	2	2	52	1.29
29592493--29592560	28	2.4	28	77	18	79	39	0	7	52	1.29
29601096--29601170	29	2.6	29	82	0	96	32	17	18	32	1.94
29601071--29601223	26	5.6	29	81	4	108	27	16	24	32	1.96
29606600--29606675	26	2.9	26	74	0	71	44	7	17	30	1.77
29617311--29617349	14	2.8	13	85	11	51	35	12	7	43	1.72
29621648--29621703	20	2.7	21	81	13	53	69	7	12	10	1.36
29621659--29621703	21	2.1	23	88	12	69	68	8	8	13	1.38
29624513--29624702	32	5.8	29	84	9	128	40	17	24	18	1.91
29624514--29624742	35	6.8	35	86	6	262	40	17	23	18	1.91
29624504--29624742	67	3.5	68	82	8	260	41	17	22	18	1.90
29624504--29624742	102	2.4	99	90	2	361	41	17	22	18	1.90
29624989--29625026	14	2.8	13	88	7	58	36	13	5	44	1.66
29633684--29633838	68	2.2	72	88	5	228	27	19	18	34	1.95
29647098--29647393	50	5.8	50	81	4	283	27	20	28	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29649401--29649451	26	2.0	25	88	3	75	50	3	0	45	1.20
29649616--29649657	16	2.6	16	84	0	57	30	28	2	38	1.70
29651004--29651153	53	2.7	55	80	6	178	30	8	16	46	1.75
29658559--29658635	31	2.5	31	84	0	100	40	3	5	50	1.43
29660674--29660847	48	3.6	48	86	3	235	24	12	27	35	1.92
29661886--29662059	48	3.6	48	86	3	235	24	12	27	35	1.92
29664658--29664687	15	1.9	16	93	6	53	56	0	0	43	0.99
29664658--29664712	20	3.0	20	80	17	57	49	1	3	45	1.30
29670889--29671017	25	5.2	24	77	6	89	32	18	28	20	1.96
29670976--29671127	25	6.2	25	68	11	75	34	19	26	19	1.96
29683188--29683321	45	3.0	44	89	4	196	37	26	14	22	1.92
29692408--29692453	23	2.0	23	100	0	92	30	43	17	8	1.79
29693580--29693674	25	3.8	24	79	8	93	33	23	25	17	1.96
29693581--29693685	49	2.1	50	82	8	126	34	22	25	17	1.96
29693609--29693685	25	3.1	23	82	12	91	32	23	27	16	1.96
29693617--29693695	25	3.2	24	84	8	97	31	20	29	18	1.97
29693759--29693805	25	1.9	25	86	4	69	40	21	23	14	1.90
29697015--29697052	20	1.9	20	100	0	76	44	5	18	31	1.72
29704247--29704397	45	3.4	44	84	3	178	20	21	18	39	1.93
29709731--29709783	27	2.0	27	96	0	97	30	1	15	52	1.53
29720495--29720585	44	2.1	44	83	4	112	49	10	7	31	1.66
29725625--29725655	16	1.9	16	93	0	53	0	19	3	77	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29725622--29725673	27	1.9	27	85	14	72	0	17	1	80	0.80
29725651--29725683	16	2.1	16	94	0	57	0	18	3	78	0.87
29726756--29726784	13	2.1	14	93	6	51	58	27	0	13	1.36
29732352--29732399	23	2.1	23	88	3	71	2	18	2	77	0.97
29734774--29734804	9	3.4	9	90	0	53	25	12	22	38	1.90
29735097--29735156	30	2.0	31	86	3	86	20	40	0	40	1.52
29737844--29737886	3	14.3	3	100	0	86	32	0	0	67	0.91
29753253--29753399	42	3.5	42	93	0	240	25	21	21	32	1.98
29753725--29753791	21	3.2	21	83	8	73	4	44	17	32	1.69
29753736--29753795	21	2.9	21	87	9	95	3	45	21	30	1.68
29759301--29759518	9	24.9	9	78	7	207	31	1	21	45	1.60
29759530--29759568	20	2.0	20	100	0	78	43	5	5	46	1.48
29759550--29759913	37	9.7	37	76	9	326	38	5	8	47	1.59
29759679--29759794	20	5.9	20	78	9	123	43	6	6	44	1.53
29759589--29759774	57	3.3	57	87	3	286	39	4	8	47	1.56
29759849--29759983	56	2.4	57	89	2	209	38	4	8	48	1.53
29762451--29762494	19	2.3	19	85	14	63	27	0	43	29	1.55
29762451--29762494	20	2.2	20	88	11	65	27	0	43	29	1.55
29763555--29763631	21	3.6	21	71	10	57	48	41	1	9	1.43
29763520--29763629	55	1.9	57	89	5	170	46	42	1	9	1.46
29764533--29764886	114	3.1	112	80	5	363	27	24	22	25	2.00
29764555--29764886	113	2.9	113	80	7	325	27	23	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29764902--29764986	40	2.2	39	79	8	91	15	21	25	37	1.92
29764913--29764991	40	2.0	41	85	7	108	13	18	27	39	1.89
29776009--29776038	15	2.0	15	100	0	60	40	6	20	33	1.78
29782334--29782366	12	2.6	13	90	9	59	30	6	0	63	1.18
29783422--29783470	20	2.5	18	78	18	53	18	16	10	55	1.69
29787022--29787061	13	3.2	12	83	16	55	82	5	12	0	0.82
29787007--29787061	17	3.2	17	78	16	60	80	3	14	1	0.94
29787943--29788209	143	1.9	143	89	1	419	28	20	21	28	1.98
29788265--29788294	14	2.1	14	100	0	60	20	23	40	16	1.91
29789939--29789963	12	2.1	12	100	0	50	24	0	0	76	0.80

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