genome.fa.s17.2.7.7.80.10.50.1000.177.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  177  of  185  ( 22116 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)
53798722--53798755	17	2.0	17	88	0	50	58	5	0	35	1.22
53799234--53799275	21	2.0	21	81	9	50	40	2	0	57	1.12
53799654--53799690	3	12.3	3	100	0	74	67	0	0	32	0.91
53802784--53802847	9	6.8	10	75	20	50	32	1	3	62	1.20
53802793--53802848	9	6.2	9	80	11	62	32	1	1	64	1.14
53810675--53810716	20	2.3	17	84	15	57	28	2	14	54	1.52
53819199--53819226	13	2.2	13	100	0	56	28	7	32	32	1.84
53821372--53821427	21	2.7	21	82	0	67	28	5	33	32	1.80
53821636--53821703	33	2.0	34	85	2	93	52	1	0	45	1.09
53823529--53823589	29	2.1	29	85	11	81	29	8	0	62	1.24
53825599--53825632	16	2.2	15	94	5	59	67	5	2	23	1.26
53827090--53827116	14	1.9	14	100	0	54	66	11	0	22	1.22
53845823--53845884	19	3.3	19	62	0	52	43	3	11	41	1.56
53852477--53852517	21	2.0	21	90	0	64	19	29	21	29	1.98
53858204--53858269	31	2.1	31	94	0	114	42	12	12	33	1.79
53864832--53864989	79	2.0	79	94	0	280	36	10	23	29	1.89
53872193--53872229	19	2.0	19	89	5	58	27	18	0	54	1.44
53873024--53873089	31	2.1	31	94	0	114	42	12	12	33	1.79
53880440--53880480	16	2.6	16	82	14	50	43	4	14	36	1.67
53886044--53886131	39	2.3	39	86	5	117	17	30	19	32	1.94
53886594--53886634	19	2.2	19	90	0	64	58	0	2	39	1.11
53888930--53888983	23	2.4	23	84	6	67	57	7	3	31	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53888933--53889003	3	23.3	3	71	8	54	60	5	2	30	1.34
53889463--53889500	18	2.1	18	90	0	58	50	0	50	0	1.00
53889464--53889496	11	2.9	12	91	8	52	48	0	51	0	1.00
53890909--53890969	10	5.9	10	73	19	54	47	0	0	52	1.00
53890925--53890983	29	1.9	30	86	10	84	54	0	1	44	1.10
53896414--53896497	31	2.7	30	80	7	87	46	8	9	35	1.67
53904999--53905048	13	3.9	13	75	12	50	34	6	24	36	1.80
53904999--53905048	26	1.9	26	83	0	64	34	6	24	36	1.80
53905211--53905269	27	2.1	30	87	9	88	42	1	1	54	1.20
53909964--53910014	21	2.4	22	86	3	68	35	31	1	31	1.69
53911387--53911432	23	2.0	23	86	0	65	82	2	10	4	0.89
53916021--53916082	10	5.9	10	74	10	52	33	32	3	30	1.74
53916021--53916083	21	3.0	21	88	2	90	33	33	3	30	1.74
53918119--53918153	18	1.9	18	88	11	54	22	20	0	57	1.41
53919049--53919101	16	3.6	15	80	19	67	5	15	7	71	1.27
53919029--53919100	30	2.4	29	84	8	92	9	15	5	69	1.34
53919078--53919143	13	4.9	13	75	12	62	15	7	4	72	1.23
53919026--53919142	28	4.0	29	71	10	78	12	11	5	70	1.33
53920490--53920550	10	6.1	10	74	12	54	32	13	24	29	1.93
53920491--53920551	20	3.0	20	83	9	79	32	13	26	27	1.93
53922715--53922774	24	2.5	24	74	12	61	50	5	6	38	1.51
53922804--53922838	18	1.9	18	88	0	52	51	2	8	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53923206--53923255	3	16.7	3	79	8	57	62	2	6	30	1.31
53923211--53923254	12	3.7	12	85	11	63	61	0	6	31	1.22
53925352--53925387	17	2.1	18	94	5	65	11	22	16	50	1.77
53932091--53932144	29	1.9	28	85	7	74	29	9	11	50	1.69
53932298--53932342	23	1.9	23	81	4	54	35	2	11	51	1.50
53934675--53934723	23	2.2	22	82	10	55	65	4	0	30	1.11
53934760--53934796	16	2.2	17	90	4	58	72	2	0	24	0.97
53934805--53934846	6	7.0	6	100	0	84	50	0	0	50	1.00
53934805--53934851	18	2.7	18	93	3	69	53	0	0	46	1.00
53935224--53935263	9	4.4	9	90	0	62	40	25	10	25	1.86
53935224--53935263	18	2.2	18	100	0	80	40	25	10	25	1.86
53935303--53935361	6	9.8	6	100	0	118	16	0	16	66	1.26
53935407--53935431	13	1.9	13	100	0	50	12	0	48	40	1.40
53936507--53936555	25	2.0	25	100	0	98	20	24	4	51	1.65
53954164--53954233	31	2.3	31	80	5	88	41	7	12	38	1.71
53954175--53954318	31	4.8	29	73	13	107	45	5	11	37	1.64
53957774--53957814	15	2.6	16	78	21	50	56	2	4	36	1.34
53961314--53961369	25	2.3	24	79	11	69	44	0	3	51	1.18
53961319--53961366	25	1.9	25	87	8	71	37	0	4	58	1.18
53963944--53964341	126	3.2	124	84	3	503	28	16	17	37	1.92
53964410--53964527	34	3.4	34	75	13	125	45	17	0	36	1.49
53964569--53964603	15	2.2	16	90	5	54	54	37	0	8	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53968389--53968454	9	7.4	9	87	3	98	24	12	24	39	1.89
53970718--53970754	14	2.8	14	88	8	51	45	21	0	32	1.52
53971023--53971131	38	2.9	37	89	7	168	61	0	1	36	1.07
53971052--53971080	11	2.5	12	94	5	51	55	0	3	41	1.17
53971048--53971119	28	2.5	29	84	8	85	59	0	2	37	1.12
53976084--53976191	54	2.0	54	94	0	189	37	9	16	36	1.81
53990016--53990075	14	4.3	14	78	16	61	43	0	1	55	1.10
53990016--53990075	28	2.1	28	84	6	77	43	0	1	55	1.10
53991878--53991905	12	2.3	12	100	0	56	67	0	0	32	0.91
53992452--53992510	24	2.3	26	75	13	70	59	3	1	35	1.24
54001986--54002027	22	2.0	22	86	13	61	38	2	21	38	1.67
54019345--54019389	23	2.0	23	82	8	56	57	4	8	28	1.48
54023188--54023519	124	2.6	128	78	5	336	48	24	4	22	1.68
54023188--54023557	125	2.9	125	78	5	372	47	25	3	23	1.68
54024467--54024567	51	2.0	51	86	3	141	40	6	16	35	1.76
54024464--54024598	51	2.6	52	79	6	125	40	8	17	34	1.79
54027094--54027159	27	2.4	28	94	2	116	51	0	10	37	1.37
54029233--54029352	3	39.7	3	73	9	84	31	4	4	60	1.35
54029274--54029356	22	3.5	23	73	14	62	31	3	2	62	1.25
54029286--54029336	19	2.5	20	81	9	59	33	3	0	62	1.13
54030246--54030371	51	2.5	51	85	3	166	26	15	30	27	1.95
54031905--54031965	17	3.4	17	78	15	61	22	27	0	49	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54033489--54033527	6	6.5	6	87	0	51	35	0	10	53	1.35
54039083--54039216	51	2.6	52	77	6	132	40	6	14	38	1.73
54044077--54044120	23	1.9	23	81	9	54	38	2	2	56	1.24
54047624--54047675	18	2.9	17	83	13	61	28	3	0	67	1.08
54047628--54047676	9	5.4	9	80	0	53	26	4	0	69	1.06
54047628--54047692	18	3.5	18	81	8	60	27	4	0	67	1.10
54050490--54050658	91	1.9	90	81	3	205	29	18	17	34	1.94
54051824--54051865	17	2.5	17	77	14	50	42	11	2	42	1.54
54056294--54056325	17	1.9	16	93	6	55	9	18	6	65	1.42
54057323--54057432	55	2.0	55	98	0	211	26	7	25	40	1.81
54064870--54064912	20	2.2	20	91	0	68	53	0	16	30	1.43
54067497--54067526	4	7.5	4	100	0	60	50	23	0	26	1.50
54067632--54067674	12	3.6	12	77	0	50	32	0	18	48	1.48
54078829--54078885	23	2.5	23	91	0	87	24	24	29	21	1.99
54079411--54079530	59	2.0	59	98	0	231	23	24	16	35	1.95
54099571--54099622	23	2.1	26	82	13	65	63	9	7	19	1.48
54104223--54104251	15	1.9	15	100	0	58	27	17	0	55	1.42
54104258--54104315	28	2.0	31	86	10	86	36	3	3	56	1.33
54106662--54106756	49	1.9	49	95	0	172	17	29	18	33	1.95
54110779--54110805	14	1.9	14	100	0	54	29	3	0	66	1.09
54110755--54110810	17	3.3	17	80	5	69	32	7	1	58	1.35
54112644--54112686	4	10.8	4	94	0	77	27	0	25	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54113796--54113826	15	2.1	15	93	0	53	38	3	32	25	1.72
54118156--54118186	15	2.1	15	93	0	53	38	3	32	25	1.72
54119417--54119525	37	3.0	37	93	2	177	24	22	16	36	1.94
54119489--54119757	46	5.6	46	84	10	340	28	22	14	34	1.93
54119532--54119751	52	4.3	52	85	8	299	27	22	14	35	1.93
54119489--54119757	98	2.7	98	93	0	457	28	22	14	34	1.93
54125705--54125765	21	2.9	21	73	4	61	19	18	24	37	1.94
54128857--54128933	36	2.1	37	80	7	86	49	1	2	46	1.23
54129159--54129213	16	3.4	16	87	5	76	32	21	5	40	1.76
54133363--54133543	90	2.0	90	90	0	281	51	15	1	30	1.53

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