genome.fa.s4.2.7.7.80.10.50.1000.99.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  99  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)
30851524--30851583	22	2.7	22	77	10	68	36	23	20	20	1.95
30851972--30852999	27	38.2	27	86	2	1289	26	19	17	36	1.94
30852955--30853215	80	3.2	81	82	3	242	27	8	22	41	1.81
30852958--30853215	27	9.7	26	88	2	282	27	7	22	42	1.81
30852957--30853222	107	2.5	107	83	3	311	28	7	22	41	1.81
30854946--30855036	27	3.6	27	67	24	81	29	9	12	48	1.73
30854929--30855052	47	2.7	46	91	5	196	28	8	12	51	1.67
30865227--30865361	57	2.4	57	91	0	207	44	8	16	30	1.78
30867056--30867273	40	5.5	40	90	2	316	24	22	27	25	2.00
30874141--30874202	31	2.0	31	96	0	115	53	11	16	19	1.72
30878030--30878142	42	2.6	44	80	8	135	32	23	18	24	1.97
30882745--30882792	15	3.3	15	73	5	53	43	25	0	31	1.55
30884450--30884494	14	3.3	14	78	6	56	35	0	15	48	1.45
30885478--30885525	15	3.3	15	73	5	53	43	27	0	29	1.55
30885747--30885794	13	3.6	13	80	5	60	81	4	4	10	0.97
30885758--30885794	15	2.5	15	95	0	65	83	2	2	10	0.84
30885770--30885807	19	2.0	19	89	0	58	78	2	5	13	1.02
30885770--30885807	17	2.1	18	90	9	60	78	2	5	13	1.02
30890099--30890158	29	2.1	29	90	0	93	41	28	0	30	1.56
30890105--30890152	15	3.3	15	73	5	53	43	27	0	29	1.55
30892595--30892714	24	4.9	23	70	22	84	3	18	3	75	1.09
30892618--30892657	14	2.9	14	85	7	55	0	17	5	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30892595--30892717	19	6.7	18	72	20	71	3	17	3	75	1.07
30892675--30892748	12	6.2	11	72	18	51	4	20	1	74	1.06
30892595--30892717	25	5.0	24	70	20	96	3	17	3	75	1.07
30892595--30892717	6	20.3	6	70	20	71	3	17	3	75	1.07
30892703--30892753	25	2.1	24	85	10	68	7	23	1	66	1.28
30899330--30899405	39	1.9	39	97	0	143	32	10	11	44	1.75
30902432--30902458	10	2.7	10	100	0	54	40	29	11	18	1.85
30902432--30902480	10	4.8	10	85	5	53	36	32	8	22	1.84
30906222--30906344	65	1.9	65	94	0	219	40	17	15	26	1.89
30906347--30906403	26	2.2	26	81	9	62	28	19	17	35	1.94
30907660--30907702	13	3.3	12	78	15	50	69	0	27	2	1.00
30912006--30912054	6	8.3	6	78	13	57	79	2	16	2	0.92
30916223--30916446	39	5.7	40	83	7	237	25	22	27	25	2.00
30916223--30916429	79	2.6	80	83	6	260	25	22	27	24	2.00
30924440--30924661	40	5.7	40	81	6	224	25	22	27	24	1.99
30939266--30939310	18	2.6	18	85	3	56	17	26	35	20	1.95
30964461--30964520	27	2.3	26	85	2	75	36	21	18	23	1.95
30967897--30967929	17	1.9	17	93	0	57	48	0	15	36	1.45
30974092--30974263	93	1.8	93	92	2	292	29	29	20	21	1.98
30974085--30974260	46	3.8	47	78	12	202	30	28	19	21	1.98
30974136--30974279	46	3.1	44	74	15	132	29	27	20	22	1.98
30974678--30974738	30	2.0	30	83	0	77	31	19	6	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30981668--30981839	93	1.8	93	93	0	299	29	29	20	20	1.98
30981661--30981836	46	3.8	46	77	12	198	30	29	19	20	1.97
30981710--30981848	47	3.0	46	74	16	135	30	28	18	22	1.97
30984698--30984775	29	2.7	28	84	11	104	25	15	30	28	1.96
30984728--30985229	174	2.9	174	95	0	914	29	14	24	31	1.94
30992990--30993066	29	2.7	28	86	10	111	25	14	31	28	1.95
30994173--30994251	29	2.7	30	82	13	110	29	30	15	25	1.96
31002261--31002337	27	2.7	29	82	13	106	27	31	15	25	1.96
31002239--31002335	27	3.5	27	78	15	101	27	29	15	26	1.96
31021828--31021973	40	3.7	40	84	3	170	25	24	22	27	2.00
31021844--31021973	40	3.2	40	85	2	172	26	23	22	26	2.00
31024734--31024812	24	3.2	24	64	30	58	32	30	12	24	1.92
31024665--31024947	50	5.7	50	83	5	315	30	27	16	24	1.97
31028634--31028728	27	3.4	28	89	2	129	26	12	28	32	1.93
31028659--31028742	27	3.0	27	87	5	96	29	11	25	33	1.91
31034606--31034829	49	4.5	49	83	2	259	25	18	26	29	1.98
31034606--31034829	99	2.2	100	84	2	272	25	18	26	29	1.98
31037449--31037908	40	11.6	39	87	6	501	25	27	22	25	2.00
31037449--31037909	79	5.8	80	93	2	695	25	27	22	24	2.00
31037449--31037909	119	3.9	119	91	4	693	25	27	22	24	2.00
31045843--31046269	79	5.5	79	90	4	593	25	27	21	25	1.99
31045852--31046269	119	3.6	119	90	4	604	25	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31045852--31046269	40	10.7	40	89	6	585	25	27	21	25	1.99
31048176--31048370	50	3.9	50	80	1	212	25	17	27	28	1.98
31049607--31049731	47	2.7	48	82	8	134	26	18	29	25	1.98
31057452--31058343	47	18.6	47	91	4	1390	33	8	28	29	1.86
31057452--31058343	96	9.3	95	93	2	1391	33	8	28	29	1.86
31058462--31058599	37	3.7	37	96	0	240	25	18	30	25	1.98
31082355--31082458	44	2.4	42	98	0	145	27	21	22	28	1.99
31096100--31096330	41	5.7	41	83	2	250	30	25	17	26	1.97
31107266--31107307	11	3.7	12	81	18	54	78	0	2	19	0.86
31107278--31107309	17	1.9	16	93	6	55	81	0	0	18	0.70
31108861--31108989	46	2.8	46	96	0	231	20	21	28	29	1.98
31109315--31109358	22	2.0	22	100	0	88	27	22	9	40	1.84
31115470--31115621	27	5.6	27	90	2	223	30	28	14	26	1.95
31115470--31115621	55	2.8	54	88	2	223	30	28	14	26	1.95
31115470--31115621	82	1.9	82	90	0	241	30	28	14	26	1.95
31133423--31133452	13	2.3	13	100	0	60	40	13	13	33	1.83
31133436--31133496	31	2.0	31	96	0	113	45	16	9	27	1.79
31133595--31133786	27	7.1	27	90	0	276	26	21	18	33	1.97
31136086--31136250	43	3.9	42	79	9	154	32	23	18	25	1.97
31141901--31141938	7	5.4	7	81	12	51	57	28	2	10	1.45
31144555--31144778	46	4.8	49	72	15	163	27	19	29	23	1.98
31144647--31144775	50	2.7	48	79	9	147	27	18	29	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31150045--31150077	6	5.5	6	92	0	57	81	0	3	15	0.80
31152261--31152303	22	1.9	23	90	4	70	53	4	0	41	1.21
31153596--31153673	34	2.3	35	77	6	88	32	23	20	24	1.98
31155847--31155872	13	2.0	13	100	0	52	15	38	30	15	1.88
31168470--31168530	29	2.1	29	87	3	88	29	13	27	29	1.94
31168478--31168588	29	3.8	29	83	2	98	27	15	26	30	1.96
31168515--31168593	29	2.7	29	88	0	113	30	16	24	29	1.96
31170900--31171023	28	4.4	28	92	1	185	33	27	12	26	1.93
31174370--31174418	21	2.5	19	83	12	55	20	28	36	14	1.92
31177049--31177231	40	4.6	40	80	6	203	25	21	27	25	1.99
31177100--31177264	79	2.1	79	82	6	192	26	20	27	25	1.99
31184533--31184839	40	7.7	40	96	0	553	22	28	20	28	1.98
31184533--31184839	119	2.6	120	97	1	580	22	28	20	28	1.98
31197381--31197741	40	9.1	40	92	1	564	25	27	22	24	2.00
31197795--31197869	38	2.0	38	86	5	107	24	26	18	30	1.98
31200327--31200448	22	5.3	22	62	21	61	25	29	11	33	1.91
31200299--31200648	47	7.3	48	92	3	505	27	30	10	32	1.89
31204319--31204361	16	2.7	16	85	0	50	53	16	18	11	1.72
31204615--31204689	29	2.7	29	84	12	102	32	14	25	28	1.95
31209525--31209669	47	3.1	47	81	2	177	32	11	28	27	1.91
31209628--31209774	50	3.0	50	92	3	235	38	8	23	29	1.84
31209924--31210032	37	2.9	37	94	0	182	22	18	31	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31212959--31213353	47	8.3	47	94	1	628	29	29	8	32	1.87
31216839--31217195	40	8.9	40	89	0	516	25	27	21	25	1.99
31217253--31217327	38	2.0	38	86	5	107	24	26	18	30	1.98
31219463--31219917	47	9.6	47	90	2	685	29	28	8	33	1.87
31219463--31219917	96	4.8	94	90	2	685	29	28	8	33	1.87
31219463--31219917	143	3.2	142	92	1	714	29	28	8	33	1.87
31219728--31219803	22	3.3	22	64	10	62	28	27	10	32	1.90
31226565--31226708	37	3.9	37	92	1	236	25	30	18	25	1.98
31226565--31226708	73	2.0	74	91	1	236	25	30	18	25	1.98
31226919--31227355	47	9.1	47	83	7	509	27	30	12	30	1.93

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