genome.fa.s17.2.7.7.80.10.50.1000.179.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  179  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)
54535419--54535468	26	2.0	26	88	4	75	56	4	8	32	1.47
54536226--54536338	19	5.8	19	85	4	163	35	15	9	39	1.80
54536226--54536337	40	2.8	40	91	2	183	35	14	9	40	1.79
54536219--54536338	59	2.1	56	86	6	161	35	15	9	40	1.79
54536552--54536886	44	7.7	43	74	13	256	26	23	20	29	1.98
54536541--54536987	217	2.1	217	91	1	718	26	22	19	30	1.98
54536600--54536983	44	8.9	43	71	15	163	27	22	20	30	1.98
54536980--54537854	132	6.6	132	91	0	1374	25	23	19	31	1.98
54537113--54537584	44	10.7	46	63	15	124	25	23	19	31	1.98
54539020--54539068	20	2.4	19	87	12	71	6	0	6	87	0.66
54539008--54539068	29	2.1	29	82	8	72	4	4	4	85	0.84
54542913--54543109	98	2.0	98	94	0	349	36	24	10	28	1.88
54543782--54543830	26	2.0	25	88	8	73	55	4	8	32	1.48
54544599--54544711	19	5.8	19	82	4	136	35	12	9	42	1.76
54544594--54544710	59	2.0	58	86	5	164	35	11	9	43	1.73
54544599--54544711	40	2.9	39	85	5	158	35	12	9	42	1.76
54545424--54545483	16	3.6	16	77	20	61	50	0	0	50	1.00
54569397--54569429	16	2.0	16	94	5	57	60	0	0	39	0.97
54573083--54573108	2	13.0	2	100	0	52	50	0	0	50	1.00
54574807--54574973	43	3.9	43	85	2	212	28	26	17	26	1.98
54576099--54576136	17	2.2	17	86	9	51	60	0	7	31	1.25
54576283--54576309	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54579054--54579092	4	10.0	4	94	5	71	51	0	0	48	1.00
54580703--54580771	31	2.2	31	86	0	93	43	7	13	36	1.71
54589250--54589293	19	2.2	19	84	8	52	38	2	2	56	1.24
54590362--54590401	20	2.0	20	85	0	53	62	2	0	35	1.09
54597869--54597925	27	2.1	27	83	9	71	56	1	1	40	1.20
54598859--54598884	11	2.4	11	100	0	52	50	7	42	0	1.31
54601539--54601578	17	2.4	17	87	4	55	47	2	0	50	1.14
54606765--54606931	83	2.0	83	98	0	325	21	23	14	40	1.90
54613278--54613382	43	2.4	44	84	4	124	29	14	28	27	1.95
54613571--54613608	19	2.0	19	85	10	51	47	0	15	36	1.46
54615957--54616090	40	3.3	40	80	9	164	22	14	29	33	1.94
54620040--54620075	4	8.8	4	93	6	63	75	0	0	25	0.81
54620247--54620275	13	2.1	14	93	6	51	62	0	0	37	0.96
54621189--54621226	13	2.7	15	88	8	53	7	2	13	76	1.11
54629759--54630428	114	5.9	116	72	17	565	39	14	14	32	1.86
54629759--54630370	329	1.9	316	88	6	920	40	13	13	32	1.84
54630429--54630734	117	2.6	118	87	7	415	34	13	12	39	1.82
54637368--54637396	3	9.7	3	100	0	58	0	31	0	68	0.89
54638632--54639053	109	3.9	109	85	4	570	33	17	17	31	1.93
54639172--54639216	18	2.4	18	85	10	56	73	6	0	20	1.05
54639565--54639593	14	2.0	15	93	6	51	62	6	0	31	1.22
54639811--54639918	3	36.3	3	70	12	71	61	2	5	30	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54641308--54641724	126	3.5	114	87	5	419	29	23	16	30	1.96
54641413--54641724	126	2.5	126	92	3	513	30	22	16	30	1.96
54641736--54642337	100	6.0	100	89	1	816	24	20	23	31	1.98
54641744--54642324	49	11.6	50	70	10	373	24	20	23	30	1.99
54652624--54652694	27	2.6	27	91	4	108	46	9	0	43	1.37
54653117--54653182	29	2.3	27	80	10	78	46	4	0	48	1.22
54653368--54653463	19	5.2	19	81	5	124	48	0	13	37	1.43
54653368--54653463	37	2.6	37	98	0	183	48	0	13	37	1.43
54654037--54654112	27	2.9	27	84	7	102	19	31	23	25	1.98
54654036--54654108	26	2.8	26	85	6	94	17	31	24	26	1.97
54654166--54654227	28	2.2	28	97	2	117	53	0	6	40	1.27
54658087--54658125	21	1.9	19	85	10	51	20	23	0	56	1.42
54663784--54663821	17	2.2	17	86	9	51	52	13	0	34	1.40
54666050--54667169	374	3.0	374	98	0	2159	33	15	24	27	1.95
54667682--54667722	21	2.0	21	90	0	64	29	21	29	19	1.98
54678194--54678569	90	4.3	87	73	11	259	53	18	10	17	1.72
54692566--54692613	23	2.1	23	100	0	96	16	20	16	45	1.85
54692625--54692680	23	2.4	24	82	11	71	41	1	1	55	1.21
54693192--54693231	21	1.9	21	89	0	62	30	20	22	27	1.98
54695282--54695355	29	2.5	29	82	4	85	27	14	12	45	1.80
54695562--54695601	18	2.3	18	95	4	73	15	17	10	57	1.64
54700777--54700803	13	2.1	13	100	0	54	48	0	7	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54700638--54700913	152	1.8	153	88	0	383	35	10	17	37	1.84
54704213--54704247	2	17.5	2	93	0	61	48	51	0	0	1.00
54711298--54711322	13	1.9	13	100	0	50	8	0	24	68	1.16
54712979--54713142	41	4.0	41	85	2	186	29	20	26	23	1.99
54720790--54721641	425	2.0	425	100	0	1704	28	17	21	33	1.95
54722169--54722207	18	2.2	18	90	0	60	64	2	20	12	1.40
54727746--54727885	30	4.7	29	76	8	104	33	22	4	40	1.73
54729506--54729538	3	11.0	3	93	0	57	63	0	3	33	1.10
54730205--54730248	20	2.2	20	84	8	54	79	0	13	6	0.92
54730936--54731047	44	2.7	40	73	15	118	24	17	24	33	1.96
54731051--54731659	174	3.5	173	86	3	645	25	22	22	29	1.99
54731239--54731958	130	5.5	129	88	3	683	26	23	21	28	1.99
54731055--54732046	46	22.8	44	74	9	387	26	22	21	29	1.99
54731066--54731914	304	2.8	304	93	1	1387	26	22	22	28	1.99
54731364--54731696	174	1.9	174	94	0	594	27	22	20	28	1.99
54731239--54732056	434	1.9	435	94	0	1460	27	22	21	29	1.99
54732113--54732241	44	2.9	44	70	13	120	27	24	22	25	2.00
54732051--54732663	86	7.1	85	89	4	734	25	24	22	27	2.00
54732253--54732645	43	9.1	43	66	14	209	25	23	22	28	1.99
54732054--54732663	259	2.3	258	84	5	793	25	24	22	27	2.00
54733891--54733924	13	2.7	12	86	13	50	11	5	0	82	0.83
54734783--54734817	17	1.9	17	88	11	52	14	0	8	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54735531--54735582	27	1.9	27	96	0	95	57	3	17	21	1.55
54738367--54738402	3	12.0	3	93	0	63	63	0	2	33	1.08
54739782--54739840	6	9.3	6	80	10	64	74	0	25	0	0.82
54739956--54740023	23	2.9	24	82	10	79	66	8	23	1	1.28
54740054--54740104	24	2.2	24	86	10	70	21	45	29	3	1.70
54740077--54740114	19	1.9	19	89	5	58	26	44	26	2	1.67
54740127--54740185	10	5.9	10	83	0	64	79	0	18	1	0.81
54740125--54740185	20	3.1	20	80	2	79	78	0	19	1	0.83
54740343--54740391	10	4.6	11	73	19	50	36	2	0	61	1.08
54740660--54740934	17	15.5	18	72	18	168	32	13	9	45	1.75
54740659--54740830	87	2.0	86	82	8	206	31	12	9	45	1.74
54740711--54740860	35	4.2	36	82	9	148	32	13	8	46	1.72
54740730--54740788	16	3.5	16	76	15	57	33	15	8	42	1.77
54740659--54740935	35	7.8	35	74	12	135	32	13	9	44	1.75
54740879--54740935	18	3.2	18	76	16	64	35	19	8	36	1.83
54740814--54740954	74	1.9	74	84	5	187	32	15	9	42	1.79
54740961--54741002	21	2.0	22	90	4	68	40	2	9	47	1.49
54740992--54741041	17	2.8	18	75	6	57	34	14	10	42	1.78
54740839--54741055	121	1.8	120	81	12	275	35	13	9	41	1.77
54740983--54741117	18	7.3	18	71	13	96	33	11	11	43	1.77
54744290--54744328	16	2.4	16	91	4	60	48	0	2	48	1.15
54744335--54744360	9	2.9	9	100	0	52	69	7	11	11	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54747416--54747502	36	2.4	36	90	0	129	28	28	16	26	1.97
54754583--54754756	89	2.0	89	97	0	330	40	21	20	17	1.91
54762759--54762802	18	2.4	18	88	0	61	13	2	43	40	1.57
54769544--54769568	9	2.8	9	100	0	50	64	0	12	24	1.27
54773020--54773214	93	2.1	92	88	4	286	44	4	4	47	1.41
54773247--54773280	17	2.0	17	94	0	59	44	5	0	50	1.26
54773247--54773285	17	2.4	16	87	8	53	43	5	0	51	1.24
54773251--54773290	17	2.3	18	83	12	57	47	5	0	47	1.24
54773370--54773421	15	3.6	15	80	12	56	44	0	1	53	1.11
54773246--54773537	120	2.4	120	91	5	459	41	2	5	50	1.40

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