genome.fa.s4.2.7.7.80.10.50.1000.154.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  154  of  255  ( 30512 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)
50142392--50142655	134	2.0	133	86	3	370	29	15	14	41	1.86
50146606--50146652	24	1.9	25	83	12	62	42	2	8	46	1.46
50149382--50149440	30	2.0	30	82	0	73	33	15	23	27	1.95
50149784--50150000	46	4.7	45	77	14	183	26	17	30	24	1.98
50158565--50158628	30	2.2	29	91	2	101	28	17	21	32	1.96
50172368--50172422	25	2.1	26	86	6	76	27	7	12	52	1.65
50172836--50172950	49	2.3	48	82	5	131	27	14	16	40	1.88
50175764--50175973	39	5.3	39	92	2	316	24	27	22	25	2.00
50175764--50176021	118	2.2	119	82	10	316	24	26	22	26	2.00
50183788--50184009	39	5.7	40	84	8	239	24	27	22	26	2.00
50183788--50183957	79	2.2	79	85	7	222	25	27	21	25	2.00
50186313--50186358	24	1.9	24	100	0	92	36	13	15	34	1.86
50188628--50188754	48	2.8	45	81	13	161	25	28	18	27	1.98
50198817--50198943	66	1.9	66	82	3	157	25	22	19	33	1.97
50201888--50202031	49	2.9	49	83	4	191	27	27	20	24	1.99
50201891--50202031	51	2.8	49	82	4	176	27	27	21	23	1.99
50209766--50209790	13	1.9	13	100	0	50	0	32	28	40	1.57
50210831--50210993	46	3.5	46	79	9	147	23	29	19	28	1.98
50214372--50214498	49	2.6	49	86	3	166	22	27	21	28	1.99
50214561--50214696	48	2.9	48	77	10	154	25	30	16	27	1.96
50218152--50218289	40	3.5	40	88	4	174	24	23	28	23	2.00
50226132--50226309	40	4.5	40	92	3	272	23	24	28	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50233677--50233899	49	4.7	49	72	10	151	24	26	21	26	2.00
50237885--50237913	14	2.1	14	100	0	58	13	13	13	58	1.63
50247068--50247126	30	1.9	31	86	3	84	27	20	3	49	1.65
50247068--50247136	30	2.3	31	82	7	79	27	18	5	47	1.71
50248517--50248723	53	3.8	53	73	9	168	38	16	23	21	1.93
50257228--50257404	40	4.4	40	78	4	180	25	20	25	27	1.99
50257233--50257404	80	2.2	79	84	5	213	26	20	25	28	1.99
50259439--50259670	40	5.8	40	89	2	290	24	21	27	26	1.99
50261698--50261853	27	5.7	27	84	4	197	30	28	14	26	1.95
50261680--50261854	55	3.2	55	83	6	223	30	28	14	26	1.95
50261698--50261853	82	1.9	81	89	3	242	30	28	14	26	1.95
50269647--50269824	27	6.6	27	80	5	153	29	28	16	25	1.97
50271659--50271696	6	6.3	6	88	11	60	50	15	15	18	1.79
50271673--50271776	31	3.4	31	78	5	93	50	13	16	20	1.78
50271921--50271981	27	2.3	26	88	2	86	37	16	22	22	1.93
50272686--50273311	27	23.4	27	83	3	746	25	21	17	35	1.95
50273303--50273540	54	4.4	54	83	7	184	31	9	20	38	1.84
50273357--50273696	27	12.6	27	83	3	299	30	9	20	39	1.84
50274627--50274688	30	2.1	30	93	0	106	27	33	3	35	1.73
50275688--50275823	6	21.8	6	66	20	57	49	15	16	18	1.80
50275711--50275815	31	3.4	30	93	2	165	50	16	15	18	1.78
50275960--50276054	27	3.5	26	80	5	73	36	18	22	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50275986--50276061	27	2.9	27	82	5	75	36	22	21	19	1.95
50276220--50276284	22	3.0	22	73	8	69	35	21	21	21	1.96
50276715--50277520	27	29.9	27	86	2	974	24	20	17	36	1.94
50277567--50277884	80	4.0	79	79	12	335	33	8	17	40	1.81
50277567--50277928	81	4.5	81	82	7	371	32	8	19	40	1.82
50277566--50277928	27	13.5	27	83	2	327	31	8	19	39	1.82
50278855--50278916	30	2.1	30	100	0	124	27	37	3	32	1.73
50279930--50280047	6	19.0	6	70	16	62	47	16	16	19	1.83
50279936--50280047	31	3.6	31	86	6	145	47	16	16	19	1.83
50280183--50280284	27	3.8	26	85	5	123	38	21	22	17	1.93
50280443--50280506	22	2.9	22	77	9	67	35	21	21	20	1.96
50280938--50281579	27	23.8	27	85	2	788	24	21	17	36	1.95
50281625--50281992	81	4.5	82	84	6	360	31	9	19	39	1.83
50281625--50281992	27	13.7	27	84	3	307	31	9	19	39	1.83
50288346--50288657	47	6.7	46	73	10	226	21	28	21	27	1.99
50288346--50288657	140	2.2	138	82	7	353	21	28	21	27	1.99
50288449--50288660	94	2.3	92	87	4	291	21	29	21	27	1.98
50288770--50288801	17	2.0	17	88	11	50	46	18	3	31	1.65
50292372--50292431	30	2.0	30	87	6	86	38	8	26	26	1.85
50298047--50298079	13	2.6	13	90	4	50	48	12	0	39	1.40
50302365--50302480	37	3.1	37	94	0	196	25	32	18	22	1.97
50302599--50302849	47	5.3	47	92	1	403	27	30	9	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50306219--50306441	80	2.8	80	84	2	234	25	27	22	24	2.00
50306219--50306441	120	1.9	120	81	5	272	25	27	22	24	2.00
50306219--50306403	40	4.6	40	89	2	246	25	27	21	25	2.00
50306751--50306829	29	2.7	29	86	5	106	27	32	15	24	1.95
50306811--50306913	43	2.4	43	100	0	206	26	35	15	22	1.94
50312841--50313105	27	9.8	27	80	9	299	26	20	10	43	1.83
50312834--50313100	54	4.9	54	87	2	369	27	20	9	42	1.83
50312841--50313105	81	3.3	81	83	5	347	26	20	10	43	1.83
50313110--50313324	27	8.0	27	85	2	254	35	18	19	26	1.95
50313531--50313613	27	3.1	26	87	5	112	19	21	21	37	1.94
50313701--50313759	22	2.7	22	81	0	64	20	25	22	32	1.98
50313924--50313997	27	2.8	27	83	6	80	18	24	20	36	1.95
50314115--50314216	6	16.8	6	74	17	86	19	17	13	49	1.80
50314115--50314216	30	3.4	30	85	6	143	19	17	13	49	1.80
50319698--50319812	50	2.4	49	84	5	146	26	22	14	35	1.93
50323362--50323566	40	5.2	40	95	0	342	22	23	26	26	2.00
50328103--50328152	13	3.7	14	78	7	59	6	30	0	64	1.18
50329812--50329875	6	11.2	6	81	6	53	14	7	1	76	1.07
50329812--50329869	17	3.4	17	76	6	55	13	6	1	77	1.05
50329812--50329875	11	5.6	11	75	18	60	14	7	1	76	1.07
50329839--50329875	17	2.2	17	90	0	56	13	2	2	81	0.92
50336769--50336834	33	2.0	33	100	0	132	36	21	15	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50343832--50343918	44	2.0	44	90	4	140	31	6	19	42	1.77
50345727--50346057	48	6.9	48	78	5	294	28	16	28	25	1.97
50345727--50345994	144	1.9	144	84	3	369	29	15	28	26	1.96
50345731--50346057	144	2.3	144	80	4	356	28	17	28	25	1.97
50347594--50347670	26	3.0	26	86	0	109	40	22	18	19	1.92
50348258--50348312	27	2.0	27	85	0	74	25	23	16	34	1.95
50355043--50355114	26	2.8	26	84	0	81	40	23	18	18	1.91
50378864--50379012	27	5.5	27	80	5	151	26	15	28	28	1.96
50378864--50379012	82	1.8	80	84	5	201	26	15	28	28	1.96
50378864--50379012	55	2.8	54	82	4	176	26	15	28	28	1.96
50382155--50382386	40	5.8	40	89	1	288	24	21	27	26	1.99
50385487--50385704	40	5.5	40	90	2	316	25	27	23	24	2.00
50393508--50393724	40	5.5	40	89	3	307	25	26	23	23	2.00
50393508--50393724	79	2.7	79	87	4	305	25	26	23	23	2.00
50404594--50404761	40	4.2	40	83	3	205	23	21	26	27	1.99
50404998--50405039	22	1.9	22	85	9	59	33	9	14	42	1.78
50407288--50407357	25	2.8	25	91	0	104	27	21	24	27	1.99
50407563--50407723	27	6.0	27	85	0	187	25	19	19	36	1.95
50407580--50407730	27	5.6	27	86	0	203	25	17	19	37	1.94
50407563--50407722	54	3.0	54	93	0	257	25	18	19	36	1.95
50407589--50407760	81	2.1	81	79	2	184	28	15	19	36	1.92
50407715--50408029	108	2.9	107	82	6	284	31	9	20	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50407769--50408107	161	2.1	160	86	6	470	30	9	20	39	1.85
50407750--50408107	27	13.3	27	83	4	332	30	9	20	39	1.85
50408146--50408230	27	3.2	26	88	3	116	43	9	20	27	1.82
50413608--50413654	24	2.0	24	86	0	67	34	23	14	27	1.94
50413766--50413836	24	2.8	25	83	12	76	25	22	23	28	2.00
50414031--50414093	30	2.1	31	84	3	83	38	12	23	25	1.90
50418014--50418102	43	2.1	43	100	0	178	42	15	13	28	1.85
50418918--50419266	43	8.1	43	95	0	599	30	32	25	11	1.91
50423690--50423861	93	1.8	93	94	0	308	27	29	20	21	1.98
50423683--50423858	46	3.8	46	78	14	200	28	29	20	21	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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255