genome.fa.s17.2.7.7.80.10.50.1000.47.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  47  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)
13204076--13204135	18	3.3	19	80	15	74	55	6	0	38	1.27
13204075--13204195	62	1.9	63	81	5	147	56	3	0	39	1.22
13204179--13204211	16	2.0	17	94	5	59	57	0	0	42	0.98
13205695--13205739	3	14.7	3	95	4	81	33	0	0	66	0.92
13219641--13219672	17	1.9	17	93	6	57	40	3	0	56	1.15
13220090--13220120	15	2.1	15	93	0	53	29	6	22	41	1.78
13222060--13222142	30	2.7	30	83	10	98	36	9	13	40	1.77
13224496--13224524	3	9.7	3	100	0	58	34	0	0	65	0.93
13233116--13233147	15	2.1	15	94	0	55	68	9	6	15	1.36
13238473--13238511	16	2.5	15	83	4	51	43	0	12	43	1.42
13238673--13238751	35	2.3	35	95	0	149	39	24	10	26	1.87
13240279--13240340	27	2.4	24	74	25	56	38	0	3	58	1.15
13240279--13240339	28	2.2	28	80	19	74	39	0	3	57	1.15
13252656--13252777	44	2.8	43	81	9	113	27	18	25	27	1.98
13252700--13253426	44	16.6	43	68	13	310	31	18	20	29	1.96
13252700--13253426	175	4.2	175	94	0	1267	31	18	20	29	1.96
13253356--13253460	46	2.3	46	88	0	129	30	20	19	30	1.96
13255384--13255446	20	2.8	22	79	18	60	38	0	3	58	1.14
13262872--13262923	21	2.5	21	83	0	68	50	5	30	13	1.65
13266675--13266752	39	2.0	39	94	0	138	37	24	12	25	1.91
13267695--13267771	23	3.3	23	87	3	102	40	23	11	24	1.88
13271123--13271147	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13287309--13287384	36	2.1	36	80	11	84	51	1	9	38	1.42
13287919--13287976	22	2.6	22	81	7	64	41	17	5	36	1.72
13289061--13289163	44	2.3	44	81	0	125	27	26	17	29	1.98
13289274--13290442	45	26.0	45	85	0	1424	30	20	16	32	1.95
13291672--13291714	9	4.8	9	94	5	70	11	2	6	79	1.02
13294223--13294268	11	4.4	11	76	17	53	45	0	2	52	1.13
13294223--13294268	16	3.0	15	87	12	67	45	0	2	52	1.13
13297996--13298034	3	13.0	3	100	0	78	66	0	0	33	0.92
13298193--13298351	68	2.4	67	82	10	182	59	1	5	32	1.31
13298339--13298414	36	2.1	36	80	11	84	51	1	9	38	1.42
13298945--13299002	22	2.6	22	81	7	64	41	17	5	36	1.72
13298981--13299035	21	2.7	21	94	5	96	36	14	10	38	1.81
13299374--13299407	18	1.9	17	88	5	50	73	2	11	11	1.20
13306388--13306418	16	1.9	16	100	0	62	29	6	0	64	1.18
13308508--13308558	23	2.2	24	82	3	59	41	9	1	47	1.48
13321287--13321435	44	3.4	44	70	7	131	31	20	20	26	1.98
13321808--13321965	53	3.1	53	80	14	224	35	14	8	41	1.76
13328533--13328631	41	2.4	42	81	6	121	15	31	11	42	1.81
13328618--13328645	12	2.3	12	100	0	56	7	42	10	39	1.67
13331870--13331937	35	1.9	35	90	0	109	41	23	10	25	1.86
13333496--13333546	23	2.2	24	82	3	59	41	7	1	49	1.43
13338494--13338568	39	1.9	39	88	0	114	16	32	18	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13344383--13344492	39	2.8	39	83	5	141	17	30	18	33	1.94
13347526--13347576	23	2.2	23	86	6	68	41	17	9	31	1.82
13352811--13352881	36	2.0	36	91	0	115	32	7	19	40	1.79
13353241--13353280	21	1.9	21	85	10	55	60	25	2	12	1.45
13355353--13355390	7	5.6	7	93	6	69	44	0	0	55	0.99
13355353--13355390	13	2.8	14	92	8	69	44	0	0	55	0.99
13366988--13367026	2	20.0	2	84	5	53	48	0	51	0	1.00
13373877--13373906	13	2.2	14	94	5	53	0	16	3	80	0.85
13374257--13374296	19	2.2	17	86	8	53	50	0	0	50	1.00
13376798--13377186	195	2.0	195	94	0	688	26	11	28	32	1.91
13380796--13380834	18	2.2	17	86	13	53	33	0	20	46	1.51
13380839--13380986	75	2.0	75	100	0	296	37	8	21	33	1.83
13381135--13381232	23	4.3	23	90	2	162	20	21	26	31	1.98
13381137--13381225	45	2.0	45	95	0	160	19	22	26	31	1.97
13386350--13386388	18	2.2	17	86	13	53	33	0	20	46	1.51
13386614--13386711	23	4.3	23	88	2	153	20	21	25	32	1.97
13386616--13386704	45	2.0	45	93	0	151	19	22	25	32	1.97
13403701--13403793	45	2.1	45	86	6	127	37	23	2	36	1.67
13404692--13404759	24	2.8	24	79	0	64	44	13	17	25	1.85
13407166--13407289	57	2.2	57	92	0	203	27	21	14	36	1.93
13413099--13413174	24	3.2	23	76	9	73	48	0	1	50	1.09
13413113--13413156	12	3.7	11	80	14	52	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13413136--13413173	14	2.4	17	87	12	55	47	0	0	52	1.00
13413393--13413424	17	2.0	17	88	11	50	62	15	21	0	1.32
13414277--13414446	43	4.0	43	83	5	202	31	30	15	22	1.95
13419287--13419350	14	4.5	14	71	11	58	34	42	0	23	1.55
13419277--13419372	22	4.4	22	77	5	79	35	39	0	25	1.56
13419564--13419596	16	2.1	16	88	11	50	57	0	0	42	0.98
13419957--13420130	73	2.4	73	94	1	296	24	29	20	25	1.99
13420030--13420241	111	1.9	113	88	2	320	24	27	22	25	1.99
13420144--13420386	73	3.4	73	89	2	350	25	27	20	26	1.99
13420286--13420500	114	1.9	114	89	0	331	26	28	20	25	1.99
13420214--13420579	186	2.0	186	91	1	599	25	29	19	25	1.99
13420400--13420652	73	3.5	73	86	1	382	23	26	20	28	1.99
13419957--13420832	259	3.4	259	90	2	1370	24	27	20	27	1.99
13420548--13420759	114	1.9	114	88	4	320	23	25	21	28	1.99
13420662--13420832	73	2.3	73	81	7	195	23	24	19	31	1.98
13420491--13420834	187	1.8	186	86	3	503	23	25	20	29	1.99
13421036--13421099	27	2.5	27	80	12	73	39	0	26	34	1.57
13452318--13452430	25	4.6	25	78	9	101	38	17	25	17	1.92
13453715--13453759	23	2.0	23	82	8	56	33	4	11	51	1.58
13453803--13453838	2	18.5	2	94	5	65	0	0	47	52	1.00
13454350--13454574	42	5.4	42	85	5	280	30	19	22	27	1.98
13459621--13459669	18	3.1	15	78	18	55	67	2	4	26	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13459621--13459658	18	2.1	18	90	0	58	68	0	5	26	1.11
13473765--13474542	217	3.6	217	90	1	1141	28	23	20	28	1.99
13473817--13474521	44	16.3	43	70	12	351	27	23	20	28	1.99
13492257--13492367	36	3.1	34	73	14	125	30	11	14	43	1.81
13492256--13492398	72	2.0	72	91	0	232	29	11	15	44	1.81
13492263--13492382	36	3.3	35	70	10	107	30	10	15	43	1.81
13500022--13500082	30	2.0	30	100	0	122	26	6	19	47	1.74
13500391--13500539	76	2.0	76	91	0	244	33	14	24	27	1.94
13501471--13501524	25	2.1	26	82	3	65	42	3	9	44	1.54
13504031--13504241	72	3.0	70	81	12	250	28	25	12	32	1.93
13504176--13504294	51	2.4	51	85	4	161	29	24	13	32	1.93
13504257--13504541	50	5.7	50	79	3	331	27	19	20	32	1.97
13504230--13504546	100	3.2	100	91	1	503	26	20	19	33	1.97
13505790--13505845	18	3.1	18	79	7	69	1	19	0	78	0.84
13505792--13505832	21	1.9	22	90	5	66	0	21	0	78	0.76
13505788--13505835	21	2.3	20	83	13	62	0	22	0	77	0.78
13505789--13505850	7	8.7	7	76	13	56	3	17	0	79	0.87
13511021--13511162	71	2.0	71	90	0	221	35	17	17	28	1.93
13511617--13511670	25	2.1	26	82	3	65	42	3	9	44	1.54
13511798--13511842	23	1.9	24	90	4	74	31	2	24	42	1.67
13517093--13517133	14	2.9	14	85	0	55	26	2	19	51	1.59
13520482--13520663	39	4.7	39	80	1	168	42	22	4	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13525399--13525472	26	2.9	26	83	2	78	36	20	6	36	1.79
13525560--13525633	36	2.1	36	100	0	148	37	18	2	40	1.65
13526862--13526916	19	2.9	19	91	2	85	69	20	5	5	1.29
13539479--13539528	20	2.5	20	86	0	82	38	18	30	14	1.89
13551921--13551996	11	6.8	11	70	24	52	55	2	1	40	1.22
13551921--13551996	37	2.1	36	85	11	102	55	2	1	40	1.22
13552409--13552448	19	2.1	19	86	9	55	32	2	7	57	1.40
13553429--13553506	40	2.0	40	87	2	113	39	15	23	21	1.91
13553538--13553862	41	7.9	41	82	4	307	20	20	27	31	1.98
13553541--13553862	82	3.9	81	81	2	358	21	20	27	31	1.98

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